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Sample records for planctomycete rhodopirellula baltica

  1. Diversity of Rhodopirellula and related planctomycetes in a North Sea coastal sediment employing carB as molecular marker.

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    Žure, M; Munn, CB; Harder, J.

    2015-01-01

    Rhodopirellula is an abundant marine member of the bacterial phylum Planctomycetes. Cultivation studies revealed the presence of several closely related Rhodopirellula species in European coastal sediments. Because the 16S rRNA gene does not provide the desired taxonomic resolution to differentiate Rhodopirellula species, we performed a comparison of the genomes of nine Rhodopirellula strains and six related planctomycetes and identified carB, coding for the large subunit of carbamoylphosphat...

  2. Diversity of Rhodopirellula and related planctomycetes in a North Sea coastal sediment employing carB as molecular marker.

    Science.gov (United States)

    Žure, Marina; Munn, Colin B; Harder, Jens

    2015-09-01

    Rhodopirellula is an abundant marine member of the bacterial phylum Planctomycetes. Cultivation studies revealed the presence of several closely related Rhodopirellula species in European coastal sediments. Because the 16S rRNA gene does not provide the desired taxonomic resolution to differentiate Rhodopirellula species, we performed a comparison of the genomes of nine Rhodopirellula strains and six related planctomycetes and identified carB, coding for the large subunit of carbamoylphosphate synthetase, as a suitable molecular marker. In this study, we investigated the diversity of Rhodopirellula in coastal intertidal surface sediments of Sylt island, North Sea, using the 16S rRNA and carB genes as molecular markers. The carB clone and pyrosequencing libraries revealed the presence of 12 species of Rhodopirellula and of 66 species in closely related undescribed genera, a diversity that was not detected with a 16S rRNA gene library. This study demonstrates that the carB gene is a powerful molecular marker for detecting Rhodopirellula species in the environment and may be used for the taxonomic evaluation of new strains. © FEMS 2015. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

  3. Determination of the diversity of Rhodopirellula isolates from European seas by multilocus sequence analysis.

    Science.gov (United States)

    Winkelmann, Nadine; Jaekel, Ulrike; Meyer, Carolin; Serrano, Wilbert; Rachel, Reinhard; Rosselló-Mora, Ramon; Harder, Jens

    2010-02-01

    In the biogeography of microorganisms, the habitat size of an attached-living bacterium has never been investigated. We approached this theme with a multilocus sequence analysis (MLSA) study of new strains of Rhodopirellula sp., an attached-living planctomycete. The development of an MLSA for Rhodopirellula baltica enabled the characterization of the genetic diversity at the species level, beyond the resolution of the 16S rRNA gene. The alleles of the nine housekeeping genes acsA, guaA, trpE, purH, glpF, fumC, icd, glyA, and mdh indicated the presence of 13 genetically defined operational taxonomic units (OTUs) in our culture collection. The MLSA-based OTUs coincided with the taxonomic units defined by DNA-DNA hybridization experiments. BOX-PCR supported the MLSA-based differentiation of two closely related OTUs. This study established a taxon-area relationship of cultivable Rhodopirellula species. In European seas, three closely related species covered the Baltic Sea and the eastern North Sea, the North Atlantic region, and the southern North Sea to the Mediterranean. The last had regional genotypes, as revealed by BOX-PCR. This suggests a limited habitat size of attached-living Rhodopirellula species.

  4. Rhodopirellula rosea sp. nov., a novel bacterium isolated from an ark clam Scapharca broughtonii.

    Science.gov (United States)

    Roh, Seong Woon; Lee, Hae-Won; Yim, Kyung June; Shin, Na-Ri; Lee, Jina; Whon, Tae Woong; Lim, Na-Lae; Kim, Daekyung; Bae, Jin-Woo

    2013-06-01

    A novel Gram-negative, motile, and ovoid-shaped strain, LHWP3(T), which belonged to the family Planctomycetaceae in the phylum Planctomycetes, was isolated from a dead ark clam Scapharca broughtonii collected during a mass mortality event on the south coast of Korea. Phylogenetic analysis based on the 16S rRNA gene sequences indicated that the isolate was most closely related to the type strain of Rhodopirellula baltica, with a shared 16S rRNA gene sequence similarity of 94.8%. The isolate grew optimally at 30°C in 4-6% (w/v) NaCl, and at pH 7. The major isoprenoid quinone was menaquinone-6 (MK-6). The dominant polar lipids were phosphatidylcholine, phosphatidylglycerol, phosphatidylethanolamine, and unidentified polar lipids. The predominant cellular fatty acids were C16:0, C18:1 ω9c, and C18:0. The genomic DNA G+C content of strain LHWP3(T) was 53.0 mol%. Based on polyphasic taxonomic analyses, strain LHWP3(T) should be classified as a novel species in the genus Rhodopirellula in the family Planctomycetaceae, for which the name Rhodopirellula rosea sp. nov. is proposed. The type strain is LHWP3(T) (=KACC 15560(T) =JCM 17759(T)).

  5. Planctomycetes as novel source of bioactive molecules

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    Ana Patrícia Graça

    2016-08-01

    . Bioactivity was observed in strains from Rhodopirellula lusitana, R. rubra, R. baltica, Roseimaritima ulvae and Planctomyces brasiliensis.This study confirms the bioactive capacity of Planctomycetes to produce antimicrobial compounds and encourages further studies envisaging molecule isolation and characterization for the possible discovery of new drugs.

  6. Diversity of Planctomycetes in iron-hydroxide deposits from the Arctic Mid Ocean Ridge (AMOR) and description of Bythopirellula goksoyri gen. nov., sp. nov., a novel Planctomycete from deep sea iron-hydroxide deposits.

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    Storesund, Julia E; Øvreås, Lise

    2013-10-01

    Planctomycetes form a deep branching and distinct phylum of the domain Bacteria, and represent a fascinating group due to their unusual features such as intracellular compartmentalization and lack of peptidoglycan in their cell walls. The phylum Planctomycetes was described already in 1924, but still the diversity of this phylum represents an enigma and unexploited resource. In this study the diversity of the phylum Planctomycetes in low temperature iron-hydroxide deposits at the Mohns Ridge, a part of the Arctic Mid Ocean Ridge (AMOR), was characterised by descriptive analysis of 16S rRNA gene sequences in combination with isolation of planctomycetes strains. The 16S rRNA gene sequences were affiliated with three order within the phylum Planctomycetes namely the (i)Planctomycetales, (ii) "Candidatus Brocadiales" and (iii) Phycisphaerae in addition to sequences affiliating to hitherto unknown Planctomycetes. The majority of the sequences were affiliated with the CCM11a group (Phycisphaerae), and with the Pir4 group (Planctomycetaceae). Two strains from the order Planctomycetales were isolated. One strain (Plm2) showed high similarity to the previously isolated Planctomyces maris (99 % 16S rRNA sequence identity). The other strain (Pr1d) belonged to the Pir4 group, and showed highest identity with Rhodopirellula baltica (86 %), Blastopirellula marina (86 %) and Pirellula staleyi (85 %). Based on its physiological and biochemical properties, strain Pr1d(T) is considered to represent a new genus of the order Planctomycetales. We propose to classify the novel planctomycete in a new genus and species, Bythoypirellula goksoyri gen. nov., sp. nov., the type strain being Pr1d(T).

  7. Bringing Planctomycetes into pure culture

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    Olga Maria Lage

    2012-12-01

    Full Text Available Planctomycetes have been known since the description of Planctomyces bekefii by Gimesi at the beginning of the twentieth century (1924, although the first axenic cultures were only obtained in the 1970s. Since then, eleven genera with fourteen species have been validly named and five candidatus genera belonging to the anaerobic ammonium oxidation, anammox bacteria have also been discovered. However, Planctomycetes diversity is much broader than these numbers indicate, as shown by environmental molecular studies. In recent years the authors have attempted to isolate and cultivate additional strains of Planctomycetes. This paper provides a summary of the isolation work that was carried out to obtain in pure culture Planctomycetes from several environmental sources. The following strains and planctomycetes have been successfully isolated: two freshwater strains from the sediments of an aquarium, which were described as a new genus and species, Aquisphaera giovannonii; several Rhodopirellula strains from the sediments of a water treatment recycling tank of a marine fish farm; and more than 140 planctomycetes from the biofilm community of macroalgae. This collection comprises several novel taxa that are being characterized and described. Improvements in the isolation methodology were made in order to optimize and enlarge the number of Planctomycetes isolated from the macroalgae. The existence of an intimate and an important relationship between planctomycetes and macroalgae reported before by molecular studies is therefore supported by culture dependent methods.

  8. Developing techniques for the utilization of Planctomycetes as producers of bioactive molecules

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    Olga Jeske

    2016-08-01

    Full Text Available Planctomycetes are conspicuous, ubiquitous, environmentally important bacteria. They can attach to various surfaces in aquatic habitats and form biofilms. Their unique FtsZ-independent budding cell division mechanism is associated with slow growth and doubling times from six hours up to one month. Despite this putative disadvantage in the struggle to colonize surfaces, Planctomycetes are frequently associated with aquatic phototrophic organisms such as diatoms, cyanobacteria or kelp, whereby Planctomycetes can account for up to 50 % of the biofilm-forming bacterial population. Consequently, Planctomycetes were postulated to play an important role in carbon utilization, for example as scavengers after phototrophic blooms. However, given their observed slow growth, such findings are surprising since other faster- growing heterotrophs tend to colonize similar ecological niches. Accordingly, Planctomycetes were suspected to produce antibiotics for habitat protection in response to the attachment on phototrophs. Recently, we demonstrated their genomic potential to produce nonribosomal peptides, polyketides, bacteriocins, and terpenoids that might have antibiotic activities. In this study, we describe the development of a pipeline that consists of tools and procedures to cultivate Planctomycetes for the production of antimicrobial compounds in a chemically- defined medium and a procedure to chemically mimic their interaction with bacteria such as for example Cyanobacteria. We evaluated and adjusted screening assays to allow the hunt for planctomycetal antibiotics. As proof of principle, we demonstrate antimicrobial activities of planctomycetal extracts from Planctopirus limnophila DSM 3776, Rhodopirellula baltica DSM 10527, and the recently isolated strain Pan216. By combining UV/Vis and high resolution mass spectrometry data from High-Performance Liquid Chromatography fractionations with growth inhibition of indicator strains, we were able to assign

  9. Roseimaritima ulvae gen. nov., sp. nov. and Rubripirellula obstinata gen. nov., sp. nov. two novel planctomycetes isolated from the epiphytic community of macroalgae.

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    Bondoso, Joana; Albuquerque, Luciana; Nobre, M Fernanda; Lobo-da-Cunha, Alexandre; da Costa, Milton S; Lage, Olga Maria

    2015-02-01

    Four isolates, belonging to the deep-branching phylum Planctomycetes, were recovered from the biofilm of two marine macroalgae, Ulva sp. and Laminaria sp., from the Northern coast of Portugal. These strains were light pink- or red-pigmented; the cells were variable in shape and usually organized in rosettes. They had a dimorphic cell cycle with budding reproduction. The organisms were chemoheterotrophic, strictly aerobic and mesophilic. The 16S rRNA gene sequence analysis showed that the strains belong to the family Planctomycetaceae with Rhodopirellula as the closest genus. The isolates form two separate branches (strain LF1(T) forms one branch and the strains UC8(T), UF3 and UF42 form a second branch) clearly separated from Rhodopirellula baltica with 94.2% and 93.8% 16S rRNA gene sequence similarity, respectively. Based on differential characteristics that distinguish the novel genera from R. baltica, such as cell size and shape, ultrastructure, enzymatic activities, substrate utilization pattern, fatty acid composition, phospholipid profiles and phylogeny we propose that the isolates represent two novel genera of the order Planctomycetales, Roseimaritima ulvae gen. nov., sp. nov. (type strain is UC8(T)=DSM 25454(T)=LMG 27778(T)) and Rubripirellula obstinata gen. nov., sp. nov. (type strain is LF1(T)=LMG 27779(T)=CECT 8602(T)).

  10. Planctomycetes and macroalgae, a striking association

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    Olga Maria Lage

    2014-06-01

    Full Text Available Planctomycetes are part of the complex microbial biofilm community of a wide range of macroalgae. Recently, some studies began to unveil the great diversity of Planctomycetes present in this microenvironment and the interactions between the two organisms. Culture dependent and independent methods revealed the existence of a great number of species but, so far, only less than ten species have been isolated. Planctomycetes comprise the genera Rhodopirellula, Blastopirellula and Planctomyces, Phycisphaera and the uncultured class OM190 and some other taxa have only been found in this association.Several factors favour the colonization of macroalgal surfaces by planctomycetes. Many species possess holdfasts for attachment. The macroalgae secrete various sulphated polysaccharides that are the substrate for the abundant sulfatases produced by planctomycetes. Specificity between planctomycetes and macroalgae seem to exist which may be related to the chemical nature of the polysaccharides produced by each macroalga. Furthermore, the peptidoglycan-free cell wall of planctomycetes allows them to resist the action of several antimicrobial compounds produced by the macroalgae or other bacteria in the biofilm community that are effective against biofouling by other microorganisms.Despite the increase in our knowledge on the successful planctomycetes-macroalgae association, a great effort to fully understand this interaction is needed.

  11. Genome Analysis of Planctomycetes Inhabiting Blades of the Red Alga Porphyra umbilicalis.

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    Jay W Kim

    Full Text Available Porphyra is a macrophytic red alga of the Bangiales that is important ecologically and economically. We describe the genomes of three bacteria in the phylum Planctomycetes (designated P1, P2 and P3 that were isolated from blades of Porphyra umbilicalis (P.um.1. These three Operational Taxonomic Units (OTUs belong to distinct genera; P2 belongs to the genus Rhodopirellula, while P1 and P3 represent undescribed genera within the Planctomycetes. Comparative analyses of the P1, P2 and P3 genomes show large expansions of distinct gene families, which can be widespread throughout the Planctomycetes (e.g., protein kinases, sensors/response regulators and may relate to specific habitat (e.g., sulfatase gene expansions in marine Planctomycetes or phylogenetic position. Notably, there are major differences among the Planctomycetes in the numbers and sub-functional diversity of enzymes (e.g., sulfatases, glycoside hydrolases, polysaccharide lyases that allow these bacteria to access a range of sulfated polysaccharides in macroalgal cell walls. These differences suggest that the microbes have varied capacities for feeding on fixed carbon in the cell walls of P.um.1 and other macrophytic algae, although the activities among the various bacteria might be functionally complementary in situ. Additionally, phylogenetic analyses indicate augmentation of gene functions through expansions arising from gene duplications and horizontal gene transfers; examples include genes involved in cell wall degradation (e.g., κ-carrageenase, alginate lyase, fucosidase and stress responses (e.g., efflux pump, amino acid transporter. Finally P1 and P2 contain various genes encoding selenoproteins, many of which are enzymes that ameliorate the impact of environmental stresses that occur in the intertidal habitat.

  12. Genome Analysis of Planctomycetes Inhabiting Blades of the Red Alga Porphyra umbilicalis.

    Science.gov (United States)

    Kim, Jay W; Brawley, Susan H; Prochnik, Simon; Chovatia, Mansi; Grimwood, Jane; Jenkins, Jerry; LaButti, Kurt; Mavromatis, Konstantinos; Nolan, Matt; Zane, Matthew; Schmutz, Jeremy; Stiller, John W; Grossman, Arthur R

    2016-01-01

    Porphyra is a macrophytic red alga of the Bangiales that is important ecologically and economically. We describe the genomes of three bacteria in the phylum Planctomycetes (designated P1, P2 and P3) that were isolated from blades of Porphyra umbilicalis (P.um.1). These three Operational Taxonomic Units (OTUs) belong to distinct genera; P2 belongs to the genus Rhodopirellula, while P1 and P3 represent undescribed genera within the Planctomycetes. Comparative analyses of the P1, P2 and P3 genomes show large expansions of distinct gene families, which can be widespread throughout the Planctomycetes (e.g., protein kinases, sensors/response regulators) and may relate to specific habitat (e.g., sulfatase gene expansions in marine Planctomycetes) or phylogenetic position. Notably, there are major differences among the Planctomycetes in the numbers and sub-functional diversity of enzymes (e.g., sulfatases, glycoside hydrolases, polysaccharide lyases) that allow these bacteria to access a range of sulfated polysaccharides in macroalgal cell walls. These differences suggest that the microbes have varied capacities for feeding on fixed carbon in the cell walls of P.um.1 and other macrophytic algae, although the activities among the various bacteria might be functionally complementary in situ. Additionally, phylogenetic analyses indicate augmentation of gene functions through expansions arising from gene duplications and horizontal gene transfers; examples include genes involved in cell wall degradation (e.g., κ-carrageenase, alginate lyase, fucosidase) and stress responses (e.g., efflux pump, amino acid transporter). Finally P1 and P2 contain various genes encoding selenoproteins, many of which are enzymes that ameliorate the impact of environmental stresses that occur in the intertidal habitat.

  13. Gidon Kremer ja Kremerata Baltica

    Index Scriptorium Estoniae

    2001-01-01

    G. Kremer ja Kremerata Baltica esitamas Tshaikovski, shostakovitshi ja Desjatnikovi loomingut pühapäeval, 16. detsembril kl.19 Vanemuise Kontserdimajas ja esmaspäeval, 17. detsembril kl.19 Estonia kontserdisaalis

  14. Personal interests hinder Rail Baltica

    Index Scriptorium Estoniae

    2011-01-01

    Läti seimi liige Janis Reirs leiab, et Rail Baltica ehitus on Moskva ja Riia vahelise raudtee ehitusest prioriteetsem, kuna esimest võib potentsiaalselt finantseerida Euroopa Liit. Transpordiminister Uldis Augulis kohtub oma Venemaa kolleegi Igor Levitiniga 7. aprillil. Peaminister Valdis Dombrovskise sõnul vajavad mõlemad projektid majandusanalüüsi

  15. Ars Baltica-verkoston puheenjohtajuus Suomeen Risto Ruohoselle

    Index Scriptorium Estoniae

    1999-01-01

    1990. a. loodud võrgustiku Ars Baltica sekretariaat (Ars Baltica Contact Point & Communication Center) tuleb Kielist Tallinnasse Eesti kultuuriministeeriumi kuni aastani 2002 (Suur-Karja 23). Ars Baltica (ühendus)

  16. Ars Baltica-verkoston puheenjohtajuus Suomeen Risto Ruohoselle

    Index Scriptorium Estoniae

    1999-01-01

    1990. a. loodud võrgustiku Ars Baltica sekretariaat (Ars Baltica Contact Point & Communication Center) tuleb Kielist Tallinnasse Eesti kultuuriministeeriumi kuni aastani 2002 (Suur-Karja 23). Ars Baltica (ühendus)

  17. a New Ediacaran Pole from Easternmost Baltica

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    Meert, J. G.; Levashova, N. M.; Kuznetsov, N. B.; Sergeeva, N. D.; Golovanova, I. V.; Danukalov, K. N.; Bazhenov, M. L.

    2011-12-01

    Ediacaran paleogeography is notoriously messy due to equally confusing paleomagnetic data from both Laurentia and Baltica. Ediacaran (~Vendian) rocks have been studied from several localities from Baltica, but the so far published poles can be used to place the Baltic craton at nearly any latitude and orientation [Meert et al., 2007]. At the same time, it is challenging to understand the paleogeography of the Ediacaran world given all the biologic, climatic and tectonic changes during the time interval from 635-542 Ma. We present preliminary paleomagnetic and geochronological data from (late?) Ediacaran sediments from the deformed (low metamorphic grade) peri-Uralian margin of Baltica. We successfully isolated a dual-polarity high-temperature component from eleven sites; the primary origin of this remanence is strongly supported by a positive reversal test (class B). The corresponding paleomagnetic pole is in close agreement with the coeval results from the Winter Coast of northern Baltica [Popov et al., 2002; 2005; Iglesia Llanos et al., 2005], despite a ~1600 km separation between two study areas. These data jointly indicate a very low (<10 degrees N or S) paleolatitude for eastern Baltica in Ediacaran time. Paleogeographic implications of these new data will be discussed in the context of Ediacaran-Cambrian tectonic models. This study is supported by RFBR grant 11-05-00037 and NSF grant EAR11-19038.

  18. Planctomycetes in lakes: poor or strong competitors for phosphorus?

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    Pollet, Thomas; Humbert, Jean-François; Tadonléké, Rémy D

    2014-02-01

    Experiments were conducted with water samples from two perialpine lakes with differing eutrophication status in order to examine the effects of inorganic-nutrient amendments (nitrogen as NO3(-) or NH4(+) and phosphorus as PO4(3-)) on the dynamics, structure, and composition of Planctomycetes and to test the hypothesis that the community structure of Planctomycetes members and that of the other bacteria (without Planctomycetes, here referred to as bacteria-wP, the most represented groups within the community) would be similarly impacted by nutrient additions. Initial samples were characterized by high total nitrogen-to-total phosphorus ratios (range, 39 to 55), suggesting P rather than N was the limiting nutrient for microbial communities. Consistent with this, P additions stimulated phytoplankton growth and affected the community structure of bacteria-wP but, surprisingly, not that of Planctomycetes. N additions did not significantly affect the community structures of bacteria-wP and Planctomycetes or the Planctomycetes phylotype composition. The estimated generation time of Planctomycetes was 123 h. These findings could suggest that the generally well-accepted statement that bacteria (as a whole) are superior to phytoplankton in the ability to obtain phosphorus under P limitation might actually not hold for Planctomycetes. Planctomycetes might be poor competitors for P that do not respond quickly to the nutrient supply, which may help explain why their abundance is low in aquatic systems. The alternative view that Planctomycetes could be strong competitors for P (storing it) is also discussed. Our findings highlight the need for further studies examining Planctomycetes-phosphorus relationships in aquatic ecosystems.

  19. BALTICA IV. Plant maintenance for managing life and performance

    Energy Technology Data Exchange (ETDEWEB)

    Hietanen, S.; Auerkari, P. [eds.] [VTT Manufacturing Technology, Espoo (Finland). Operational Reliability

    1998-12-31

    BALTICA IV International Conference on Plant Maintenance Managing Life and performance held on September 7-9, 1998 on board M/S Silja Symphony on its cruise between Helsinki-Stockholm and at Aavaranta in Kirkkonummi. The BALTICA IV conference provides a forum for the transfer of technology from applied research to practice. This is one of the two volumes of the proceedings of the BALTICA IV International Conference on Plant Maintenance Managing Life and Performance. The BALTICA IV conference focuses on new technology, recent experience and applications of condition and life management, and on improvements in maintenance strategies for safe and economical operation of power plants. (orig.)

  20. BALTICA IV. Plant maintenance for managing life and performance

    Energy Technology Data Exchange (ETDEWEB)

    Hietanen, S.; Auerkari, P. [eds.] [VTT Manufacturing Technology, Espoo (Finland). Operational Reliability

    1998-12-31

    BALTICA IV International Conference on Plant Maintenance Managing Life and performance held on September 7-9, 1998 on board M/S Silja Symphony on its cruise between Helsinki-Stockholm and at Aavaranta in Kirkkonummi. The BALTICA IV conference provides a forum for the transfer of technology from applied research to practice. This is one of the two volumes of the proceedings of the BALTICA IV International Conference on Plant Maintenance Managing Life and Performance. The BALTICA IV conference focuses on new technology, recent experience and applications of condition and life management, and on improvements in maintenance strategies for safe and economical operation of power plants. (orig.)

  1. Tartu ihkab Rail Baltica kiirraudteed endale / Madis Aesma

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    Aesma, Madis

    2005-01-01

    2005. aasta sügisel alustatakse uuringuid, et välja selgitada, millisest Eesti linnast - Tartust, Pärnust või Viljandist - peaks tulevikus läbi minema kiirraudtee Rail Baltica, mis viib kuue tunniga Tallinnast Varssavisse. Kaart: Kiirraudtee Rail Baltica kolm võimalikku suunda. Kommenteerib Andrus Ansip

  2. Tartu ihkab Rail Baltica kiirraudteed endale / Madis Aesma

    Index Scriptorium Estoniae

    Aesma, Madis

    2005-01-01

    2005. aasta sügisel alustatakse uuringuid, et välja selgitada, millisest Eesti linnast - Tartust, Pärnust või Viljandist - peaks tulevikus läbi minema kiirraudtee Rail Baltica, mis viib kuue tunniga Tallinnast Varssavisse. Kaart: Kiirraudtee Rail Baltica kolm võimalikku suunda. Kommenteerib Andrus Ansip

  3. The pre-Caledonian margin of Baltica

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    Andersen, Torgeir B.; Jørgen Kjøll, Hans; Jakob, Johannes; Corfu, Fernando; Tegner, Christian

    2017-04-01

    It is well-documented that the pre-Caledonian margin of Baltica constituted a several hundred-km wide and more than 2000 km long passive margin. Its vestiges occur at low- to intermediate structural levels in the mountain belt, and are variably overprinted by the early- to end-Caledonian orogenic deformation and extension. Attempts to reconstruct the Caledonian margin of Baltica must be based on detailed maps integrated with studies of the rock-complexes that originally constituted the passive margin. The proximal parts of pre-Caledonian margin of Baltica are dominated by continental rift basins with coarse to fine-grained sediments deposited in the late Proterozoic through the Ediacaran and into the Lower Palaeozoic. The youngest dated clastic zircons probably record magmatism associated with initial contraction near or in the distal margin. The 'margin nappes' also comprise Baltican basement slivers and coarse to fine-grained sedimentary units as well as deep-marine basin deposits. A major change in the architecture of the passive margin units takes place across a transvers zone, which is sub-parallel to the present-day Gudbrandsdalen of South Norway. The transition is roughly parallel to the major basement lineament of the Sveconorwegian orogenic front in south Norway. The most important change across this transverse lineament is that the NE segment is magma-rich, characterized by abundant basaltic magmatism. The SW segment is magma-poor, and characterised by numerous (>100) solitary meta-peridotites, mostly meta-dunites and meta-harzburgites as well as a number of detrital serpentinites and soapstones. These are interpreted as fragments of exhumed mantle and their erosion products, respectively. The meta-peridotites emplaced structurally, and covered by dominantly deep-basin sediments, but also by coarser sedimentary breccias and conglomerates, as part of the rifted margin development. This mixed unit (mélange) was locally intruded by Late Cambrian to Early

  4. Assessment of planctomycetes cell viability after pollutants exposure.

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    Flores, Carlos; Catita, José A M; Lage, Olga Maria

    2014-08-01

    In this study, the growth of six different planctomycetes, a particular ubiquitous bacterial phylum, was assessed after exposure to pollutants. In addition and for comparative purposes, Pseudomonas putida, Escherichia coli and Vibrio anguillarum were tested. Each microorganism was exposed to several concentrations of 21 different pollutants. After exposure, bacteria were cultivated using the drop plate method. In general, the strains exhibited a great variation of sensitivity to pollutants in the order: V. anguillarum > planctomycetes > P. putida > E. coli. E. coli showed resistance to all pollutants tested, with the exception of phenol and sodium azide. Copper, Ridomil® (fungicide), hydrazine and phenol were the most toxic pollutants. Planctomycetes were resistant to extremely high concentrations of nitrate, nitrite and ammonium but they were the only bacteria sensitive to Previcur N® (fungicide). Sodium azide affected the growth on plates of E. coli, P. putida and V. anguillarum, but not of planctomycetes. However, this compound affected planctomycetes cell respiration but with less impact than in the aforementioned bacteria. Our results provide evidence for a diverse response of bacteria towards pollutants, which may influence the structuring of microbial communities in ecosystems under stress, and provide new insights on the ecophysiology of planctomycetes.

  5. Fosmids of novel marine Planctomycetes from the Namibian and Oregon coast upwelling systems and their cross-comparison with planctomycete genomes.

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    Woebken, Dagmar; Teeling, Hanno; Wecker, Patricia; Dumitriu, Alexandra; Kostadinov, Ivaylo; Delong, Edward F; Amann, Rudolf; Glöckner, Frank O

    2007-09-01

    Planctomycetes are widely distributed in marine environments, where they supposedly play a role in carbon recycling. To deepen our understanding about the ecology of this sparsely studied phylum six planctomycete fosmids from two marine upwelling systems were investigated and compared with all available planctomycete genomic sequences including the as yet unpublished near-complete genomes of Blastopirellula marina DSM 3645(T) and Planctomyces maris DSM 8797(T). High numbers of sulfatase genes (41-109) were found on all marine planctomycete genomes and on two fosmids (2). Furthermore, C1 metabolism genes otherwise only known from methanogenic Archaea and methylotrophic Proteobacteria were found on two fosmids and all planctomycete genomes, except for 'Candidatus Kuenenia stuttgartiensis'. Codon usage analysis indicated high expression levels for some of these genes. In addition, novel large families of planctomycete-specific paralogs with as yet unknown functions were identified, which are notably absent from the genome of 'Candidatus Kuenenia stuttgartiensis'. The high numbers of sulfatases in marine planctomycetes characterizes them as specialists for the initial breakdown of sulfatated heteropolysaccharides and indicate their importance for recycling carbon from these compounds. The almost ubiquitous presence of C1 metabolism genes among Planctomycetes together with codon usage analysis and information from the genomes suggest a general importance of these genes for Planctomycetes other than formaldehyde detoxification. The notable absence of these genes in Candidatus K. stuttgartiensis plus the surprising lack of almost any planctomycete-specific gene within this organism reveals an unexpected distinctiveness of anammox bacteria from all other Planctomycetes.

  6. Should Czech Republic and Slovakia Have Rail Baltica Strategy?

    Directory of Open Access Journals (Sweden)

    Olli-Pekka Hilmola

    2011-10-01

    Full Text Available Export led economies of Slovakia and Czech Republic have shown impressive performance on activity regarding to Rail Baltica corridor countries (trade vol. incr. by 200-300 % in decade time. However, long-term plans in transportation logistics are tied upon corridors (road and rail ending to Polish sea port, Gdansk. Road transport is also favoured in large-scale in both countries in export activity. However, new environmental demands (sign. lower emissions and scarcity of oil are on the way of changing the current modus operandi. As trade of Rail Baltica countries accounts for one third of these two countries, and is constantly growing with surplus (except for Russia, Slovakia and Czech Republic are clearly in need of developing own strategy for Rail Baltica.

  7. Rail Baltica keerab Raplale selja? / Toivo Räägel

    Index Scriptorium Estoniae

    Räägel, Toivo, 1956-

    2007-01-01

    Rapla juhte üllatas kiirraudtee Rail Baltica suunamine Rapla ja Pärnu suunalt Valga peale, majandus- ja kommunikatsiooniministeerium toob valiku põhjenduseks sealse parema infrastruktuuri, kuid kinnitab samas, et 10 aasta pärast peaks ka Pärnu suunal valmima kiirraudtee

  8. Rail Baltica keerab Raplale selja? / Toivo Räägel

    Index Scriptorium Estoniae

    Räägel, Toivo, 1956-

    2007-01-01

    Rapla juhte üllatas kiirraudtee Rail Baltica suunamine Rapla ja Pärnu suunalt Valga peale, majandus- ja kommunikatsiooniministeerium toob valiku põhjenduseks sealse parema infrastruktuuri, kuid kinnitab samas, et 10 aasta pärast peaks ka Pärnu suunal valmima kiirraudtee

  9. Via Baltica : Eesti tee Hansaliidust Euroopa Liitu? = Via Baltica : Viron tie Hansaliitosta Euroopan Unioniin? / Hannu Eerikäinen

    Index Scriptorium Estoniae

    Eerikäinen, Hannu

    2004-01-01

    Via Baltica moodustab Läänemere regioonis tähtsaima arengutelje, mis avab Põhja-Euroopale tee EL-ist väljaspool olevatesse riikidesse. Tallinnast saab taas tähtis vahendaja Põhja- ja Kesk-Euroopa vahel

  10. Via Baltica : Eesti tee Hansaliidust Euroopa Liitu? = Via Baltica : Viron tie Hansaliitosta Euroopan Unioniin? / Hannu Eerikäinen

    Index Scriptorium Estoniae

    Eerikäinen, Hannu

    2004-01-01

    Via Baltica moodustab Läänemere regioonis tähtsaima arengutelje, mis avab Põhja-Euroopale tee EL-ist väljaspool olevatesse riikidesse. Tallinnast saab taas tähtis vahendaja Põhja- ja Kesk-Euroopa vahel

  11. Isolation and Purification of Planctomycetes associated with Harbor and Lagoon Seagrasses of the Red Sea

    KAUST Repository

    Bream, Holly

    2012-07-01

    Planctomycetes are members of a unique superphylum along with Verrucomicrobia and Chlamydia, situated in the domain Bacteria. They have distinct structural and morphological features, and discoveries made through phylogenetic analysis indicate their important role in nutrient cycling. Their known relationships with marine photosynthetic organisms led to the formation of this study\\'s hypothesis, namely, that Planctomycetes can be isolated from the biofilm of seagrass species of the Red Sea using cultivation techniques adapted for these organisms. Preparation of solid and liquid media using M13 with both agar and gellan, and 2216 Difco Marine Broth full-­ strength, 1/10-­strength, and with antibiotics, resulted in the successful isolation of Planctomycetes as confirmed by morphological examination and transmission electron microscopy. The work performed in this study provides a solid foundation for further studies to elucidate the metabolic pathways and ecological significance of Planctomycetes.

  12. Via Baltica ei hakka läbi Harku metsa jooksma / Urmas Seaver

    Index Scriptorium Estoniae

    Seaver, Urmas, 1973-

    2005-01-01

    Tallinna linnavalitsus loobus plaanist ehitada magistraaltee Via Baltica läbi Harku metsa, kuna selle vastu on keskkonnaministeerium, kogutud on ka 1650 protestiallkirja. Kaart: Magistraaltee läbi rabametsa

  13. Phylum Verrucomicrobia representatives share a compartmentalized cell plan with members of bacterial phylum Planctomycetes

    Directory of Open Access Journals (Sweden)

    Romeo Tony

    2009-01-01

    Full Text Available Abstract Background The phylum Verrucomicrobia is a divergent phylum within domain Bacteria including members of the microbial communities of soil and fresh and marine waters; recently extremely acidophilic members from hot springs have been found to oxidize methane. At least one genus, Prosthecobacter, includes species with genes homologous to those encoding eukaryotic tubulins. A significant superphylum relationship of Verrucomicrobia with members of phylum Planctomycetes possessing a unique compartmentalized cell plan, and members of the phylum Chlamydiae including human pathogens with a complex intracellular life cycle, has been proposed. Based on the postulated superphylum relationship, we hypothesized that members of the two separate phyla Planctomycetes and Verrucomicrobia might share a similar ultrastructure plan differing from classical prokaryote organization. Results The ultrastructure of cells of four members of phylum Verrucomicrobia – Verrucomicrobium spinosum, Prosthecobacter dejongeii, Chthoniobacter flavus, and strain Ellin514 – was examined using electron microscopy incorporating high-pressure freezing and cryosubstitution. These four members of phylum Verrucomicrobia, representing 3 class-level subdivisions within the phylum, were found to possess a compartmentalized cell plan analogous to that found in phylum Planctomycetes. Like all planctomycetes investigated, they possess a major pirellulosome compartment containing a condensed nucleoid and ribosomes surrounded by an intracytoplasmic membrane (ICM, as well as a ribosome-free paryphoplasm compartment between the ICM and cytoplasmic membrane. Conclusion A unique compartmentalized cell plan so far found among Domain Bacteria only within phylum Planctomycetes, and challenging our concept of prokaryote cell plans, has now been found in a second phylum of the Domain Bacteria, in members of phylum Verrucomicrobia. The planctomycete cell plan thus occurs in at least two

  14. Genomic analysis indicates the presence of an asymmetric bilayer outer membrane in Planctomycetes and Verrucomicrobia

    Directory of Open Access Journals (Sweden)

    Daan R Speth

    2012-08-01

    Full Text Available Bacteria of the phylum Planctomycetes are of special interest for the study of compartmental cellular organization. Members of this phylum share a very unusual prokaryotic cell plan, featuring several membrane-bound compartments. Recently, it was shown that this cellular organization might extend to certain members of the phylum Verrucomicrobia. The Planctomycete cell plan has been defined as featuring a proteinaceous cell wall, a cytoplasmic membrane surrounding the paryphoplasm and an intracytoplasmic membrane defining the riboplasm. So far it was presumed that Planctomycetes did not have an asymmetric bilayer outer membrane as observed in Gram-negative bacteria. However, recent work on outer membrane biogenesis has provided several marker genes in the outer membrane protein (OMP assembly and the lipopolysaccharide (LPS insertion complexes. Additionally, advances in computational prediction of OMPs provided new tools to perform more accurate genomic screening for such proteins.Here we searched all 22 Planctomycetes and Verrucomicrobia genomes available in Genbank, plus the recently published genome of ‘Candidatus Scalindua profunda’, for markers of outer membrane biogenesis and OMPs. We were able to identify the key components of LPS insertion, OMP assembly and at least eight OMPs in all genomes tested. Additionally, we have analyzed the transcriptome and proteome data of the Planctomycetes ‘Candidatus Kuenenia stuttgartiensis’ and ‘Ca. S. profunda’ and could confirm high expression of several predicted OMPs, including the biomarkers of outer membrane biogenesis.

  15. Quorum sensing signals affect spoilage of refrigerated large yellow croaker (Pseudosciaena crocea) by Shewanella baltica.

    Science.gov (United States)

    Zhu, Junli; Zhao, Aifei; Feng, Lifang; Gao, Haichun

    2016-01-18

    In this work we investigated the specific spoilage organism (SSO) of large yellow croaker (Pseudosciaena crocea) stored at 4°C and role of quorum sensing (QS) system of SSO isolated from the spoiled fish. According to microbial count and 16S rRNA gene of the isolated pure strains, Shewanella, mainly Shewanella baltica and Shewanella putrefaciens, was predominant genera at the end of shelf-life of P. crocea. Among Shewanella isolates, S.baltica02 was demonstrated as SSO in spoilage potential characteristics by inoculation into sterile fish juice using sensory and chemical analyses. Autoinducer 2 and two cyclic dipeptides (DKPs) including cyclo-(l-Pro-l-Leu) and cyclo-(l-Pro-l-Phe), no any AHLs, were detected in cell-free S. baltica culture. Interestingly, S.baltica02 had the highest QS activity among three spoilers of S. baltica. The production of biofilm, trimethylamines (TMA) and putrescine in these spoilers significantly increased in the presence of cyclo-(l-Pro-l-Leu), rather than cyclo-(l-Pro-l-Phe) and 4,5-dihydroxy-2,3-pentanedione (the AI-2 precursor, DPD). In accordance with the effect of signal molecules on the spoilage phenotype, exposure to exogenous cyclo-(l-Pro-l-Leu) was also showed to up-regulate the transcription levels of luxR, torA and ODC, and no effect of luxS indicated that S. baltica could sense cyclo-(l-Pro-l-Leu). In the fish homogenate, exogenous cyclo-(l-Pro-l-Leu) shortened lag phase durations and enhanced growth rates of the dominant bacteria, H2S producing bacteria, under refrigerated storage, while exogenous DPD retarded growth of competing bacteria, such as Enterobacteriaceae. Meanwhile, cyclo-(l-Pro-l-Leu) also promoted the accumulation of metabolites on the spoilage process of homogenate. S.baltica02 luxS mutant preliminarily proved that AI-2 might not play a signaling role in the spoilage. The present study suggested that the spoilage potential of S. baltica in P. crocea might be regulated by DKP-based quorum sensing.

  16. Riik hakkab Via Baltica maanteed neljarealiseks joonistama / Eno-Gerrit Link

    Index Scriptorium Estoniae

    Link, Eno-Gerrit

    2008-01-01

    Ilmunud ka: Postimees : na russkom jazõke 25. sept. lk. 2. Pärnu maavalitsuse ja maanteeameti eestvedamisel alustatakse Tallinnast Iklani kulgeva Via Baltica liiklussoone teemaplaneeringut, mille järgi tuleb Pärnumaal leida lahendused Are ja Pärnu ümbersõidule ning Nurme õgvendusele. Arvamust avaldab Are vallavanem Jaanus Männik

  17. Via Baltica Pärnu ümbersõidu trassivalik kulges vaevaliselt / Ester Vilgats

    Index Scriptorium Estoniae

    Vilgats, Ester

    2008-01-01

    Via Baltica Pärnu ümbersõidu trassivaliku probleeme käsitlevast kohtumisest võtsid osa majandusministeeriumi transpordi asekantsler Eero Pärgmäe, rahandusministri nõunik Riho Sõrmus ja sama ameti europrogrammide osakonna juhataja Urmas Konsap

  18. Rail Baltica uus tee viiks rongid nelja tunniga Varssavisse / Tiina Rekand

    Index Scriptorium Estoniae

    Rekand, Tiina, 1985-

    2011-01-01

    Rail Baltica tasuvusuuringus on välja töötatud neli optimaalsemat marsruuti. Aecom Ltd Balti regiooni direktor Arnis Kakulis peab parimaks kiireimat ja lühimat teed, mis kulgeks Tallinnast Varssavisse Pärnu, Riia ja Kaunase kaudu

  19. Siim Kallas: Rail Baltica edeneb, aga veel pole mõtet kiirrongi oodata / Urmas Jaagant

    Index Scriptorium Estoniae

    Jaagant, Urmas

    2010-01-01

    Euroopa Komisjoni voliniku Siim Kallase sõnul pole mingit põhjust, miks Eestis ei võiks sõita 200 km/h liikuvad kiirrongid, vajaliku raudtee ehitamine võib olla isegi odavam kui uus maantee. Kuid oluline on küsimus, kuidas tekitada erasektoris piisavalt suur kindlustunne, et Rail Baltica projekt ära tasub

  20. MCDA and Risk Analysis in Transport Infrastructure Appraisals: the Rail Baltica Case

    DEFF Research Database (Denmark)

    Ambrasaite, Inga; Barfod, Michael Bruhn; Salling, Kim Bang

    2011-01-01

    This paper sets out a decision support system (DSS), COSIMA, involving the combination of cost-benefit analysis and multicriteria decision analysis (MCDA) for transport infrastructure appraisals embracing both economic and strategic impacts. However, some shortcomings appear in the methodology...... for the construction of the Rail Baltica railway line through the Baltic countries and Poland....

  1. Aeg on otsustada : Rail Baltica : rahvusvaheline raudtee toob Eestile kasu / Vilja Savisaar-Toomast

    Index Scriptorium Estoniae

    Savisaar-Toomast, Vilja, 1962-

    2011-01-01

    Vilja Savisaar-Toomast on kindel, et Rail Baltica projekt tuleb esitada Euroopa Liidu finantsperioodiks 2014-2020 ning eelistab marsruuti Tallinn-Pärnu-Riia-Kaunas. Tõenäoliselt on võimalik saada projektile Euroopa Liidult ka maksimumtoetus ehk määraga 60-70%

  2. Aeg on otsustada : Rail Baltica : rahvusvaheline raudtee toob Eestile kasu / Vilja Savisaar-Toomast

    Index Scriptorium Estoniae

    Savisaar-Toomast, Vilja, 1962-

    2011-01-01

    Vilja Savisaar-Toomast on kindel, et Rail Baltica projekt tuleb esitada Euroopa Liidu finantsperioodiks 2014-2020 ning eelistab marsruuti Tallinn-Pärnu-Riia-Kaunas. Tõenäoliselt on võimalik saada projektile Euroopa Liidult ka maksimumtoetus ehk määraga 60-70%

  3. Telmatocola sphagniphila gen. nov., sp. nov., a novel dendriform planctomycete from northern wetlands

    Directory of Open Access Journals (Sweden)

    Irina S. Kulichevskaya

    2012-04-01

    Full Text Available Members of the phylum Planctomycetes are common inhabitants of northern wetlands. We used barcoded pyrosequencing to survey bacterial diversity in an acidic (pH 4.0 Sphagnum peat sampled from the peat bog Obukhovskoye, European North Russia. A total of 21189 bacterial 16S rRNA gene sequences were obtained, of which 1081 reads (5.1% belonged to the Planctomycetes. Two-thirds of these sequences affiliated with planctomycete groups for which characterized representatives have not yet been available. Here, we describe two organisms from one of these previously uncultivated planctomycete groups. One isolate, strain OB3, was obtained from the peat sample used in our molecular study, while another strain, SP2T (=DSM 23888T = VKM B-2710T, was isolated from the peat bog Staroselskiy moss. Both isolates are represented by aerobic, budding, pink-pigmented, non-motile, spherical cells that are arranged in unusual, dendriform-like structures during growth on solid media. These bacteria are moderately acidophilic and mesophilic, capable of growth at pH 4.0-7.0 (optimum pH 5.0-5.5 and at 6-30ºC (optimum 20-26ºC. The preferred growth substrates are various heteropolysaccharides and sugars, the latter being utilized only if provided in low concentrations (≤ 0.025%. In contrast to other described planctomycetes, strains SP2T and OB3 possess weak cellulolytic potential. The major fatty acids are C16:1ω5c, C18:1ω5c, C16:0 and C18:0. Characteristic lipids are the n-C31 polyunsaturated alkene (9-10 double bonds and C30:1/C32:1 (ω-1 hydroxy fatty acids. The G+C content of the DNA is 58.5-59.0 mol%. Strains SP2T and OB3 share identical 16S rRNA gene sequences, which exhibit only 86 and 87% similarity to those of Gemmata obscuriglobus and Zavarzinella formosa. Based on the characteristics reported here, we propose to classify these novel planctomycetes as representatives of a novel genus and species, Telmatocola sphagniphila gen. nov., sp. nov.

  4. The compartmentalized bacteria of the planctomycetes-verrucomicrobia-chlamydiae superphylum have membrane coat-like proteins.

    Directory of Open Access Journals (Sweden)

    Rachel Santarella-Mellwig

    2010-01-01

    Full Text Available The development of the endomembrane system was a major step in eukaryotic evolution. Membrane coats, which exhibit a unique arrangement of beta-propeller and alpha-helical repeat domains, play key roles in shaping eukaryotic membranes. Such proteins are likely to have been present in the ancestral eukaryote but cannot be detected in prokaryotes using sequence-only searches. We have used a structure-based detection protocol to search all proteomes for proteins with this domain architecture. Apart from the eukaryotes, we identified this protein architecture only in the Planctomycetes-Verrucomicrobia-Chlamydiae (PVC bacterial superphylum, many members of which share a compartmentalized cell plan. We determined that one such protein is partly localized at the membranes of vesicles formed inside the cells in the planctomycete Gemmata obscuriglobus. Our results demonstrate similarities between bacterial and eukaryotic compartmentalization machinery, suggesting that the bacterial PVC superphylum contributed significantly to eukaryogenesis.

  5. The compartmentalized bacteria of the planctomycetes-verrucomicrobia-chlamydiae superphylum have membrane coat-like proteins.

    Science.gov (United States)

    Santarella-Mellwig, Rachel; Franke, Josef; Jaedicke, Andreas; Gorjanacz, Matyas; Bauer, Ulrike; Budd, Aidan; Mattaj, Iain W; Devos, Damien P

    2010-01-19

    The development of the endomembrane system was a major step in eukaryotic evolution. Membrane coats, which exhibit a unique arrangement of beta-propeller and alpha-helical repeat domains, play key roles in shaping eukaryotic membranes. Such proteins are likely to have been present in the ancestral eukaryote but cannot be detected in prokaryotes using sequence-only searches. We have used a structure-based detection protocol to search all proteomes for proteins with this domain architecture. Apart from the eukaryotes, we identified this protein architecture only in the Planctomycetes-Verrucomicrobia-Chlamydiae (PVC) bacterial superphylum, many members of which share a compartmentalized cell plan. We determined that one such protein is partly localized at the membranes of vesicles formed inside the cells in the planctomycete Gemmata obscuriglobus. Our results demonstrate similarities between bacterial and eukaryotic compartmentalization machinery, suggesting that the bacterial PVC superphylum contributed significantly to eukaryogenesis.

  6. The cell cycle of the planctomycete Gemmata obscuriglobus with respect to cell compartmentalization

    Directory of Open Access Journals (Sweden)

    Fuerst John A

    2009-01-01

    Full Text Available Abstract Background Gemmata obscuriglobus is a distinctive member of the divergent phylum Planctomycetes, all known members of which are peptidoglycan-less bacteria with a shared compartmentalized cell structure and divide by a budding process. G. obscuriglobus in addition shares the unique feature that its nucleoid DNA is surrounded by an envelope consisting of two membranes forming an analogous structure to the membrane-bounded nucleoid of eukaryotes and therefore G. obscuriglobus forms a special model for cell biology. Draft genome data for G. obscuriglobus as well as complete genome sequences available so far for other planctomycetes indicate that the key bacterial cell division protein FtsZ is not present in these planctomycetes, so the cell division process in planctomycetes is of special comparative interest. The membrane-bounded nature of the nucleoid in G. obscuriglobus also suggests that special mechanisms for the distribution of this nuclear body to the bud and for distribution of chromosomal DNA might exist during division. It was therefore of interest to examine the cell division cycle in G. obscuriglobus and the process of nucleoid distribution and nuclear body formation during division in this planctomycete bacterium via light and electron microscopy. Results Using phase contrast and fluorescence light microscopy, and transmission electron microscopy, the cell division cycle of G. obscuriglobus was determined. During the budding process, the bud was formed and developed in size from one point of the mother cell perimeter until separation. The matured daughter cell acted as a new mother cell and started its own budding cycle while the mother cell can itself initiate budding repeatedly. Fluorescence microscopy of DAPI-stained cells of G. obscuriglobus suggested that translocation of the nucleoid and formation of the bud did not occur at the same time. Confocal laser scanning light microscopy applied to cells stained for membranes as

  7. Durinskia baltica (Dinophyceae), a newly recorded species and genus from China, and its systematics

    Institute of Scientific and Technical Information of China (English)

    Qi ZHANG; Guo-Xiang LIU; Zheng-Yu HU

    2011-01-01

    A freshwater dinoflagellate was identified as Durinskia baltica (Levander) Carty & Cox by morphological characteristics,with the plate formula:Po,x,4',2a,6'',5c,4s,5''',2''''.Durinskia was a newly recorded dinoflagellate genus for China with two anterior intercalary plates and six characteristic precingular plates.Partial sequences of the small and large subunit ribosomal DNA and internal transcribed spacer sequences for the dinoflagellate cells were obtained from field samples.Molecular phylogenetic results indicated Durinskia species could cluster into a monophyletic group,which were distinct from Peridinium species.According to morphological and molecular evidence,it was agreed that the genus Durinskia was separated from the genus Peridinium,which could be a polyphyletic group.In addition,D.baltica was an infrequent diatom-harboring dinoflagellate which was known to possess an endosymbiotic diatom or diatom-like alga.The phylogenetic analyses indicated that D.baltica had a close affinity with Peridiniopsis penardii and P.niei,common freshwater bloom-forming species in China.

  8. Bioerosion of Inorganic Hard Substrates in the Ordovician of Estonia (Baltica.

    Directory of Open Access Journals (Sweden)

    Olev Vinn

    Full Text Available The earliest bioeroded inorganic hard substrates in the Ordovician of Estonia appear in the Dapingian. Hardgrounds are also known from the Sandbian and Katian. Most of the bioerosion of inorganic hard substrates occurs as the boring Trypanites Mägdefrau, 1932 along with some possible Gastrochaenolites borings. North American hardground borings are more diverse than those in Baltica. In contrast to a worldwide trend of increasing boring intensity, the Estonian record seems to show no increase in boring intensities during the Middle and Late Ordovician. Hardgrounds seem to be more common during the temperate climate interval of the Ordovician calcite sea in Estonia (seven hardgrounds during 15 my than in the part with a tropical climate (four hardgrounds during 12 my. Bioerosion is mostly associated with carbonate hardgrounds, but cobbles and pebbles broken from the hardgrounds are also often penetrated by Trypanites borings. The general diversity of boring ichnotaxa in Baltica increased from one ichnospecies in the Cambrian to seven by the end of Ordovician, showing the effect of the GOBE on bioeroding ichnotaxa. The diversity of inorganic hard substrate borers increased by only two times. This difference can be explained by the wider environmental distribution of organic as compared to inorganic substrates in the Ordovician seas of Baltica, and their more continuous temporal availability, which may have caused increased specialization of several borers. The inorganic substrates may have been bioreroded only by the generalists among boring organisms.

  9. Evolutionary Cell Biology of Division Mode in the Bacterial Planctomycetes-Verrucomicrobia- Chlamydiae Superphylum

    Science.gov (United States)

    Rivas-Marín, Elena; Canosa, Inés; Devos, Damien P.

    2016-01-01

    Bacteria from the Planctomycetes, Verrucomicrobia, and Chlamydiae (PVC) superphylum are exceptions to the otherwise dominant mode of division by binary fission, which is based on the interaction between the FtsZ protein and the peptidoglycan (PG) biosynthesis machinery. Some PVC bacteria are deprived of the FtsZ protein and were also thought to lack PG. How these bacteria divide is still one of the major mysteries of microbiology. The presence of PG has recently been revealed in Planctomycetes and Chlamydiae, and proteins related to PG synthesis have been shown to be implicated in the division process in Chlamydiae, providing important insights into PVC mechanisms of division. Here, we review the historical lack of observation of PG in PVC bacteria, its recent detection in two phyla and its involvement in chlamydial cell division. Based on the detection of PG-related proteins in PVC proteomes, we consider the possible evolution of the diverse division mechanisms in these bacteria. We conclude by summarizing what is known and what remains to be understood about the evolutionary cell biology of PVC division modes. PMID:28018303

  10. Evolutionary cell biology of division mode in the bacterial Planctomycetes-Verrucomicrobia-Chlamydiae superphylum

    Directory of Open Access Journals (Sweden)

    Elena Rivas-Marín

    2016-12-01

    Full Text Available Bacteria from the Planctomycetes, Verrucomicrobia and Chlamydiae (PVC superphylum are exceptions to the otherwise dominant mode of division by binary fission, which is based on the interaction between the FtsZ protein and the peptidoglycan (PG biosynthesis machinery. Some PVC bacteria are deprived of the FtsZ protein and were also thought to lack PG. How these bacteria divide is still one of the major mysteries of microbiology. The presence of PG has recently been revealed in Planctomycetes and Chlamydiae, and proteins related to PG synthesis have been shown to be implicated in the division process in Chlamydiae, providing important insights into PVC mechanisms of division. Here, we review the historical lack of observation of PG in PVC bacteria, its recent detection in two phyla and its involvement in chlamydial cell division. Based on the detection of PG-related proteins in PVC proteomes, we consider the possible evolution of the diverse division mechanisms in these bacteria. We conclude by summarizing what is known and what remains to be understood about the evolutionary cell biology of PVC division modes.

  11. Provenance shift in Cambrian mid-Baltica: detrital zircon chronology of Ediacaran–Cambrian sandstones in Estonia

    Directory of Open Access Journals (Sweden)

    Yukio Isozaki

    2014-12-01

    Full Text Available In order to clarify the tectono-sedimentary history of Paleozoic Baltica, age spectra of detrital zircon grains from the Ediacaran (Kotlin Regional Stage and Lower Cambrian sandstones (lowermost Lontova and Lükati formations in western Estonia in central Baltica were analyzed by LA-ICPMS. The abundant occurrence of Archean to Mesoproterozoic (2800–1000 Ma zircon grains was confirmed in all samples. The new data provided the following information on the provenance of siliciclastic material as well as a major change in the sedimentary regime of the Paleo-Baltic basin during the Early Cambrian: (1 the Ediacaran–Lower Cambrian Paleo-Baltic basin received abundant terrigenous clastics from the core of Baltica underlain by the Archean–Mesoproterozoic crystalline crust, (2 the exposed surface area of the 1600 Ma Rapakivi granites apparently was more extensive during the Ediacaran–Early Cambrian than at present, (3 a major re-organization of the basin geometry occurred in the middle Early Cambrian (ca 530–515 Ma in central Baltica, inducing a change in the sediment supply system, (4 in contrast to the total absence of Neoproterozoic detrital zircon grains before the middle Early Cambrian, their sudden appearance at this time, together with consistent occurrence at least until the mid-Devonian, suggests a significant uplift event located in southeast Baltica and/or in a more easterly land domain (e.g., in Sarmatia, (5 possible sources for the Neoproterozoic zircon grains include the peripheral mobile belts with pan-African signatures around Baltica, e.g., the so-called Gondwanan fragments along the Tornquist margin to the southwest and the Timanian belt along the northeastern margin.

  12. ESR dating of Lymnaea baltica and Cerastoderma glaucum from low Ancylus level and transgressive Litorina Sea deposits

    Energy Technology Data Exchange (ETDEWEB)

    Molodkov, Anatoly [AN Ehstonskoj SSR, Tallin (Estonia). Inst. Geologii

    1996-11-01

    Freshwater gastropod (Lymnaea baltica) and brackish-water bivalve (Cerastoderma glaucum) shell samples from Ancylus Lake and Litorina Sea deposits on Hiiuma Island (north-west Estonia) were subjected to ESR measurements. All L. baltica shells studied were composed of calcite and displayed typical multicomponent ESR spectra. C. Glaucum shells normally show ESR spectra typical of aragonite with five radiation-induced lines. In the present work a C. glaucum with calcite-like spectra was encountered for the first time. The problem connected with accumulated palaeodose determination in shell fossils with unusual ESR spectra is highlighted. (author).

  13. Palaeomagnetism of Middle Ordovician Carbonate Sequence, Vaivara Sinimäed Area, Northeast Estonia, Baltica

    Science.gov (United States)

    Plado, Jüri; Preeden, Ulla; JÕeleht, Argo; Pesonen, Lauri J.; Mertanen, Satu

    2016-10-01

    The hill range of Vaivara Sinimäed in northeast Estonia consists of several narrow east- to northeast-trending glaciotectonic fold structures. The folds include tilted (dips 4-75°) Middle Ordovician (early Darriwilian) layered carbonate strata that were studied by mineralogical, palaeomagnetic, and rock magnetic methods in order to specify the postsedimentational history of the area and to obtain a better control over the palaeogeographic position of Baltica during the Ordovician. Mineralogical studies revealed that (titano)magnetite, hematite, and goethite are carriers of magnetization. Based on data from 5 sites that positively passed a DC tilt test, a south-easterly downward directed component A ( D ref = 154.6°± 15.3°, I ref = 60.9°± 9.7°) was identified. The component is carried by (titano)magnetite, dates to the Middle Ordovician ( Plat = 17.9°, Plon = 47.3°, K = 46.7, A95 = 11.3°), and places Baltica at mid-southerly latitudes. Observations suggest that in sites that do not pass the tilt test, the glaciotectonic event has caused some rotation of blocks around their vertical axis.

  14. Uudised : Kremerata Baltica solistid Tallinnas. Jaani Kiriku Oreli Fondis. Edison Classical Music Award 2000 / Heili Vaus-Tamm

    Index Scriptorium Estoniae

    Vaus-Tamm, Heili, 1961-

    2000-01-01

    8. apr. esinevad Kremerata Baltica kuus liiget kavaga "Gulliver Madriidis". Kontserdikava tutvustus. 13. apr. tuleb kokku Tallinna Jaani Kiriku Oreli Fondi nõukogu, et otsustada, millise firmaga sõlmitakse leping oreli taastamiseks. 4. apr. anti Amsterdamis kätte tänavused Edisoni klassikalise muusika auhinnad parimate plaadistuste eest, s.h. T. Kaljustele

  15. Uudised : Kremerata Baltica solistid Tallinnas. Jaani Kiriku Oreli Fondis. Edison Classical Music Award 2000 / Heili Vaus-Tamm

    Index Scriptorium Estoniae

    Vaus-Tamm, Heili, 1961-

    2000-01-01

    8. apr. esinevad Kremerata Baltica kuus liiget kavaga "Gulliver Madriidis". Kontserdikava tutvustus. 13. apr. tuleb kokku Tallinna Jaani Kiriku Oreli Fondi nõukogu, et otsustada, millise firmaga sõlmitakse leping oreli taastamiseks. 4. apr. anti Amsterdamis kätte tänavused Edisoni klassikalise muusika auhinnad parimate plaadistuste eest, s.h. T. Kaljustele

  16. The complete plastid genomes of the two 'dinotoms' Durinskia baltica and Kryptoperidinium foliaceum.

    Directory of Open Access Journals (Sweden)

    Behzad Imanian

    Full Text Available BACKGROUND: In one small group of dinoflagellates, photosynthesis is carried out by a tertiary endosymbiont derived from a diatom, giving rise to a complex cell that we collectively refer to as a 'dinotom'. The endosymbiont is separated from its host by a single membrane and retains plastids, mitochondria, a large nucleus, and many other eukaryotic organelles and structures, a level of complexity suggesting an early stage of integration. Although the evolution of these endosymbionts has attracted considerable interest, the plastid genome has not been examined in detail, and indeed no tertiary plastid genome has yet been sequenced. METHODOLOGY/PRINCIPAL FINDINGS: Here we describe the complete plastid genomes of two closely related dinotoms, Durinskia baltica and Kryptoperidinium foliaceum. The D. baltica (116470 bp and K. foliaceum (140426 bp plastid genomes map as circular molecules featuring two large inverted repeats that separate distinct single copy regions. The organization and gene content of the D. baltica plastid closely resemble those of the pennate diatom Phaeodactylum tricornutum. The K. foliaceum plastid genome is much larger, has undergone more reorganization, and encodes a putative tyrosine recombinase (tyrC also found in the plastid genome of the heterokont Heterosigma akashiwo, and two putative serine recombinases (serC1 and serC2 homologous to recombinases encoded by plasmids pCf1 and pCf2 in another pennate diatom, Cylindrotheca fusiformis. The K. foliaceum plastid genome also contains an additional copy of serC1, two degenerate copies of another plasmid-encoded ORF, and two non-coding regions whose sequences closely resemble portions of the pCf1 and pCf2 plasmids. CONCLUSIONS/SIGNIFICANCE: These results suggest that while the plastid genomes of two dinotoms share very similar gene content and genome organization with that of the free-living pennate diatom P. tricornutum, the K. folicaeum plastid genome has absorbed two

  17. The Marinoan 17O depletion (MOSD) event: New data from northern Baltica

    Science.gov (United States)

    Rice, A. Hugh N.; Bao, Huiming; Pen, Yongbo

    2017-04-01

    The occurrence of sedimentary barite crystal fans during the aftermath of Marinoan glaciation at 635 million years ago (Ma) has been recognized as a global phenomenon. They have been found so far in South China, West Africa, Laurentia, and Central Australia. Their uniqueness is not only reflected in their morphological features, which appear to have occurred only once in the entire Earth's sedimentary record, but also their non-mass-dependently 17O-depleted oxygen isotope compositions that have provided the strongest support to an ultra-high pCO2 post-Marinoan atmosphere and therefore the Snowball Earth theory. The proposed formation model for the barite fans is that they formed in shallow oceans relatively close to the continent where sulfate influx from oxidative weathering was a significant component and where deep water upwelling brought Ba2+. Here we present an example from East Finnmark, in N. Norway, that also supports this formation model, but with a set of distinctive paleogeographic, sedimentary, and stable isotope features. While growing on or inside cavities of a horizontally deposited cap carbonates in most other sites, barite fans grew either directly on a very uneven end-Cryogenian glaciated crystalline Archean basement surface or on a few centimeters of post-glacial Nyborg Formation sediments in northern Baltica block in today's East Finnmark. The fans have been found occurring only in the Ruossoaivi-Lappaluokoaivi area, immediately west of Varangerfjord; they have not been found at any other outcrops of the Smalfjord or Nyborg formations. Deposition was likely in a tidal or very shallow marine environment. Fans are generally less than 2 cm thick, lie within a dominantly carbonate matrix and are, in some cases, overlain by sandstones. No direct relationships between the barite fans and the cap dolostone have been found. Analysis of 10 samples gave Δ17O values ranging from -0.36‰ to - 1.08‰. The northern Baltica barite fans are probably the

  18. An Extended Paleozoic Apparent Polar Wander Path for Baltica: new Permo-Carboniferous Paleopoles From the Donbas Region (Ukraine)

    Science.gov (United States)

    Hamers, M. F.; Meijers, M. J.; van Hinsbergen, D. J.; van der Meer, D. G.; Langereis, C. G.; Stephenson, R. A.

    2007-12-01

    An improved Paleozoic apparent polar wander (APW) path for Baltica is presented here on the basis of six new paleopoles that have been determined from samples collected in the Donbas region in the Dniepr-Donets basin in south-eastern Ukraine. Constructing APW paths allows improving paleogeographic reconstructions that reach further back in time than 200 Ma, where the use of oceanic isochrons and hotspot track has limited applicability. The absence of penetrative regional deformation and the subparallel trending bedding attitudes across the basin suggest that our sites did not suffer from local rotations and their results are interpreted as representative for Baltica. The data presented here improve the paleogeographic reconstruction of Baltica within the collage of the supercontinent Pangea. The six new paleopoles cover a time span from earliest Carboniferous (~356 Ma) to early Permian (~295 Ma). In our reconstruction, Baltica was located at a constant latitude of ~5°N during a major part of the Carboniferous, while at ~310 Ma it started to move gradually northward, reaching a paleolatitude of ~13°N at 295 Ma. From ~355 Ma to 295 Ma Baltica experienced a net ~20° clockwise rotation. Our new data differ with the APW path from Torsvik et al. (submitted) in the time span from ~320-300 Ma, wherein they propose a northward movement from more southerly latitudes. From 300 Ma onwards, our path fits the reference path from Torsvik et al. A possible Permian remagnetization of our sites is not likely, considering the rotational differences in the various time spans, and rockmagnetic analyses that have been performed. We also discuss the usage of the TK03 model (Tauxe and Kent (2004), Geoph. Mon. 145, pp 101-116) that allows for the correction of inclination error caused by compaction during burial, which is insignificant for most sites. This suggest that the NRM has been acquired after compaction.

  19. The dinoflagellates Durinskia baltica and Kryptoperidinium foliaceum retain functionally overlapping mitochondria from two evolutionarily distinct lineages

    Directory of Open Access Journals (Sweden)

    Keeling Patrick J

    2007-09-01

    Full Text Available Abtract Background The dinoflagellates Durinskia baltica and Kryptoperidinium foliaceum are distinguished by the presence of a tertiary plastid derived from a diatom endosymbiont. The diatom is fully integrated with the host cell cycle and is so altered in structure as to be difficult to recognize it as a diatom, and yet it retains a number of features normally lost in tertiary and secondary endosymbionts, most notably mitochondria. The dinoflagellate host is also reported to retain mitochondrion-like structures, making these cells unique in retaining two evolutionarily distinct mitochondria. This redundancy raises the question of whether the organelles share any functions in common or have distributed functions between them. Results We show that both host and endosymbiont mitochondrial genomes encode genes for electron transport proteins. We have characterized cytochrome c oxidase 1 (cox1, cytochrome oxidase 2 (cox2, cytochrome oxidase 3 (cox3, cytochrome b (cob, and large subunit of ribosomal RNA (LSUrRNA of endosymbiont mitochondrial ancestry, and cox1 and cob of host mitochondrial ancestry. We show that all genes are transcribed and that those ascribed to the host mitochondrial genome are extensively edited at the RNA level, as expected for a dinoflagellate mitochondrion-encoded gene. We also found evidence for extensive recombination in the host mitochondrial genes and that recombination products are also transcribed, as expected for a dinoflagellate. Conclusion Durinskia baltica and K. foliaceum retain two mitochondria from evolutionarily distinct lineages, and the functions of these organelles are at least partially overlapping, since both express genes for proteins in electron transport.

  20. Characterization of a planctomycete associated with the marine dinoflagellate Prorocentrum micans Her.

    Science.gov (United States)

    Lage, Olga Maria

    2013-10-01

    During attempts to obtain axenic the cultures of the marine dinoflagellate Prorocentrum micans, a microorganism with peculiar features was isolated. This contaminant resisted the physical and antibiotic treatments performed. Subsequent characterization showed that in agar plates this microorganism develops round granular pink colonies. It is a salt-dependent mesophilic and chemoheterotrophic Gram negative bacterium with a rod to ovoid shape, presenting cell motility in young cultures. Cell division occurs by cell budding. The bacterium forms aggregates with a variable number of cells that are stacked by fibrillar glycoproteic material, the holdfast. A tuft of numerous short glycoproteic fimbriae emerges from one pole of the cell. Preeminent granular inclusions, also of glycoproteic nature, are present in the cytoplasm. Several structural and compositional aspects of the cell envelope and cytoplasm are provided. The production of fibrillar material and the existence of the polar appendages suggest that this microorganism should occur in aquatic environments bound to substrates and could be associated with P. micans in natural marine habitats. Based on the characteristics displayed, this microorganism is a member of the Planctomycetes, order Planctomycetales.

  1. The Life History of Flabellula baltica Smirnov (Gymnamoebae, Rhizopoda): Adaptations to a Spatially and Temporally Heterogeneous Environment

    DEFF Research Database (Denmark)

    Fenchel, Tom

    2010-01-01

    The polymorphic life history of the marine naked amoeba Flabellula baltica was studied. It can be interpreted in terms of adaptations to an environment that is patchy in time and space and it represents trade-off between longevity during starvation and the ability to initiate multiplication soon...... after food resource become available. The life history also represents bet hedging in that different cells within a clonal culture may respond in different ways when food is depleted....

  2. Physiological plasticity is key to the presence of the isopod Idotea baltica (Pallas) in the Baltic Sea

    Science.gov (United States)

    Wood, Hannah L.; Nylund, Göran; Eriksson, Susanne P.

    2014-01-01

    The low salinity of the Baltic Sea presents a physiological challenge to marine species. The marine isopod Idotea baltica is notably dominant among the shallow sublittoral of the Baltic Sea in association with Fucus vesiculosus, with permanent populations documented in salinities as low as 3 psu. To investigate the role of physiological plasticity in the successful colonisation of the Baltic by I. baltica three populations from the Swedish coast were here studied, one from the Kattegat (Malmö) and two from the Baltic Sea (Kalmar and Öregrund). These three sites cover the geographic range of this species within the Baltic Sea on the Swedish coast, and also the salinity range of this species within the Baltic Sea (10-5 psu). Individuals from these populations were exposed in the laboratory to a fully crossed experiment with the factors salinity and food source, to test for differences in the physiology of these populations under different conditions that may indicate local adaptation, or no differences that indicate physiological plasticity to differing salinity and food source. Metabolic rate, growth and thermal tolerance responses did not differ between the three populations across salinity treatments after a 12 week exposure. The results of this study indicate that the physiology of adult I. baltica is highly plastic with regard to salinity; this plasticity is likely to have facilitated their colonisation of the Baltic Sea.

  3. Inhibition of biofilm development and spoilage potential of Shewanella baltica by quorum sensing signal in cell-free supernatant from Pseudomonas fluorescens.

    Science.gov (United States)

    Zhao, Aifei; Zhu, Junli; Ye, Xiaofeng; Ge, Yangyang; Li, Jianrong

    2016-08-02

    The objective of this study was to in vitro evaluate the effect of a cell-free supernatant (CFS) containing quorum sensing (QS) signal of Pseudomonas fluorescens on the growth, biofilm development and spoilage potential of Shewanella baltica, and preliminarily assess the interactive influences of various chemically synthesized autoinducers on spoilage phenotypes of S. baltica. PF01 strain isolated from spoiled Pseudosciaen crocea was identified P. fluorescens. The addition of 25% and 50% CFS to S. baltica culture had no effect on the growth rate during the lag and exponential phase, however, caused cell decline during the stationary phase. The presence of CFS from P. fluorescens significantly inhibited biofilm development, and greatly decreased the production of trimethylamine (TMA) and biogenic amino in S. baltica. Various signal molecules of QS in the CFS of P. fluorescens culture were detected, including seven N-acyl-l-homoserine lactones (AHLs), autoinducer-2 (AI-2) and two diketopiperazines (DKPs). Exogenous supplement of synthesized seven AHLs containing in the CFS decreased biofilm formation and TMA production in S. baltica, while exposure to exogenous cyclo-(l-Pro-l-Leu) was showed to promote spoilage potential, which revealed that S. baltica also sense the two QS molecules. Furthermore, the stimulating effect of cyclo-(l-Pro-l-Leu) was affected when AHL was simultaneously added, suggesting that the inhibitory activity of spoilage phenotypes in S. baltica might be attributed to a competitive effect of these QS compounds in the CFS of P. fluorescens. The present studies provide a good basis for future research on the role of QS in the regulation of spoilage microbial flora.

  4. Magma-poor and magma-rich segments along the hyperextended, pre-Caledonian passive margin of Baltica

    Science.gov (United States)

    Andersen, Torgeir B.; Alsaif, Manar; Corfu, Fernando; Jakob, Johannes; Planke, Sverre; Tegner, Christian

    2015-04-01

    The Scandinavian Caledonides constitute a more than 1850 km long 'Himalayan-type' orogen, formed by collision between Baltica-Avalonia and Laurentia. Subduction-related magmatism in the Iapetus ended at ~430 Ma and continental convergence continued for ~30 Myr until ~400 Ma. The collision produced a thick orogenic wedge comprising the stacked remnants of the rifted to hyperextended passive Baltican margin (Andersen et al. 2012), as well as suspect, composite and outboard terranes, which were successively emplaced as large-scale nappe complexes onto Baltica during the Scandian collision (see Corfu et al. 2014 for a recent review). Large parts (~800 km) of the mountain-belt in central Scandinavia, particularly in the Särv and Seve Nappes and their counterparts in Troms, are characterised by spectacular dyke complexes emplaced into continental sediments (e.g. Svenningsen 2001, Hollocher et al. 2007). These constitute a magma-rich segment formed along the margin of Baltica or within hyperextended continental slivers outboard of Baltica. The intensity of the pre-Caledonian magmatism is comparable to that of the present NE-Atlantic and other volcanic passive margins. The volumes and available U-Pb ages of 610-597 Ma (Baird et al. 2014 and refs therein) suggest that the magmatism was short lived, intense and therefore compatible with a large igneous province (LIP). By analogy with present-day margins this LIP may have been associated with continental break-up and onset of sea-floor spreading. The remnants of the passive margin both north and south of the magma-rich segment have different architectures, and are almost devoid of rift/drift related magmatic rocks. Instead, these magma-poor segments are dominated by heterogeneous sediment-filled basins characterised by the abundant presence of solitary bodies of variably altered mantle peridotites, also commonly present as detrital serpentinites. These basins are interpreted to have formed by hyperextension. We suggest that

  5. A new tectonic model for the Laurentia-Avalonia-Baltica sutures in the North Sea: A case study along MONA LISA profile 3

    Science.gov (United States)

    Lyngsie, S. B.; Thybo, H.

    2007-01-01

    We present a new model for the lithospheric structure of the transitions between Laurentia, Avalonia and Baltica in the North Sea, northwestern Europe based on 2¾D potential field modelling of MONA LISA profile 3 across the Central Graben, with constraints from seismic P-wave velocity models and the crustal normal incidence reflection section along the profile. The model shows evidence for the presence of upper-and lower Palaeozoic sedimentary rocks as well as differences in crustal structure between the palaeo-continents Laurentia, Avalonia and Baltica. Our new model, together with previous results from transformations of the gravity and magnetic fields, demonstrates correlation between crustal magnetic domains along the profile and the terrane affinity of the crust. This integrated interpretation indicates that a 150 km wide zone, characterized by low-grade metamorphosis and oblique thrusting of Avalonia crust over Baltica lower crust, is characteristic for the central North Sea area. The magnetic susceptibility and the density across the Coffee Soil Fault range from almost zero and 2715 kg/m 3 in Avalonia crust to 0.05 SI and 2775 kg/m 3 in Baltica crust. The model of MONA LISA profile 3 indicates that the transition between Avalonia and Baltica is located beneath the Central Graben with a ramp-flat-ramp geometry. Our results indicate that the initial rifting of the Central Graben and the Viking Graben was controlled by the location of the Caledonian collisional suture, located at the Coffee Soil Fault, and that the deep crustal part of Baltica extends further to the west than hitherto believed.

  6. A sparsely encrusted hardground with abundant Trypanites borings from the Llandovery of the Velise River, western Estonia (Baltica

    Directory of Open Access Journals (Sweden)

    Olev Vinn

    2016-02-01

    Full Text Available The Päärdu hardground from the Telychian (Rumba Formation of western Estonia is sparsely encrusted (0.4% of the studied surface by possible tabulate corals, sheet-like bryozoans and discoidal echinoderm holdfasts. Both the upper and cryptic sides of the hardground are intensely bioeroded by Trypanites borings. The taxonomic composition of the Päärdu hardground association is rather different from the characteristic Silurian association in being dominated by tabulate corals, while bryozoans and echinoderms played a minor role in the association. The Päärdu hardground is more sparsely encrusted than common for the Late Ordovician and Silurian hardgrounds, but this may be a characteristic feature of the hardgrounds of Baltica. The Päärdu hardground is important among the Silurian hardgrounds because it has unusually low encrustation combined with high bioerosion.

  7. Anaerobic ammonium oxidation by marine and freshwater planctomycete-like bacteria RID B-8834-2011 RID B-5428-2008 RID C-3269-2011 RID D-1875-2009

    DEFF Research Database (Denmark)

    Jetten, MSM; Sliekers, O.; Kuypers, M.

    2003-01-01

    Recently, two fresh water species, 'Candidatus Brocadia anammoxidans' and 'Candidatus Kuenenia stuttgartiensis', and one marine species, 'Candidatus Scalindua sorokinii', of planctomycete anammox bacteria have been identified. 'Candidatus Scalindua sorokinii' was discovered in the Black Sea...

  8. New paleomagnetic data from 1.80-1.75 Ga mafic intrusions of Fennoscandia and Sarmatia: implications for the late Paleoproterozoic paleogeography of Baltica and Laurentia

    Science.gov (United States)

    Pisarevsky, Sergei; Lubnina, Natalia; Sokolov, Svetoslav; Bogdanova, Svetlana

    2016-04-01

    A series of recently dated 1.78-1.75 Ga lamprophyre and shoshonite intrusions are exposed north of Ladoga Lake in southern Karelia (Fennoscandia). We carried out a paleomagnetic study of these intrusions and an additional study of the coeval gabbro-dolerite Ropruchey sill near the Onega Lake. All studied rocks carry a stable primary remanence supported by positive contact tests. We also studied 14 mafic dykes and 1 mafic sill from Ukrainian shield (Sarmatia). Most of these intrusions have been dated or re-dated recently by U-Pb (baddeleyite) method at 1.80-1.75 Ga. Ukrainian dykes also carry a consistent stable bipolar remanence. Two positive contact tests suggest that this remanence is primary. A comparison of new and previously published paleomagnetic data shows a significant difference between Fennoscandian and Sarmatian 1.80-1.75 Ga paleopoles. This implies that the final assemble of Baltica by docking of Volgo-Sarmatia and Fennoscandia occurred after 1.75 Ga. Consequently these two parts of Baltica should be considered as independent blocks in pre-1.75 Ga paleogeographic reconstructions. Using late Paleoproterozoic paleomagnetic data from Laurentia together with geological constraints we have built a new kinematic paleogeographic model for Laurentia and Baltica in the Statherian.

  9. Head sensory organs of Dactylopodola baltica (Macrodasyida, Gastrotricha): a combination of transmission electron microscopical and immunocytochemical techniques.

    Science.gov (United States)

    Liesenjohann, Thilo; Neuhaus, Birger; Schmidt-Rhaesa, Andreas

    2006-08-01

    The anterior and posterior head sensory organs of Dactylopodola baltica (Macrodasyida, Gastrotricha) were investigated by transmission electron microscopy (TEM). In addition, whole individuals were labeled with phalloidin to mark F-actin and with anti-alpha-tubulin antibodies to mark microtubuli and studied with confocal laser scanning microscopy. Immunocytochemistry reveals that the large number of ciliary processes in the anterior head sensory organ contain F-actin; no signal could be detected for alpha-tubulin. Labeling with anti-alpha-tubulin antibodies revealed that the anterior and posterior head sensory organs are innervated by a common stem of nerves from the lateral nerve cords just anterior of the dorsal brain commissure. TEM studies showed that the anterior head sensory organ is composed of one sheath cell and one sensory cell with a single branching cilium that possesses a basal inflated part and regularly arranged ciliary processes. Each ciliary process contains one central microtubule. The posterior head sensory organ consists of at least one pigmented sheath cell and several probably monociliary sensory cells. Each cilium branches into irregularly arranged ciliary processes. These characters are assumed to belong to the ground pattern of the Gastrotricha.

  10. The Teisseyre-Tornquist Zone - early Palaeozoic strike-slip plate boundary or Ediacaran rifted margin of Baltica?

    Science.gov (United States)

    Mazur, Stanislaw; Krzywiec, Piotr; Malinowski, Michal; Lewandowski, Marek; Buffenmeyer, Vinton; Green, Christopher

    2016-04-01

    The Teisseyre-Tornquist Zone (TTZ) is the longest European tectonic and geophysical lineament extending from the Baltic Sea in the northwest to the Black Sea in the southeast. This tectonic feature defines a transition between the thick crust of the East European Craton (EEC) and the thinner crust of the Palaeozoic Platform to the southwest. Being a profound zone of crustal and lithospheric thickness perturbation, the TTZ has usually been considered a Caledonian tectonic suture formed due to the closure of the Tornquist Ocean. The suture was hypothesised to originate from the collision between Baltica and Avalonia or large-scale strike-slip displacement along strike of the Caledonian Orogen. However, some minority views postulated the continuation of Baltica crystalline basement farther to the southwest up to the Elbe Lineament and the margin of the Variscan Belt. We studied the ION Geophysical PolandSPAN survey that consists of 10 regional, seismic depth profiles covering the SW margin of the EEC and the TTZ in Poland. Since the PolandSPAN profiles image to ~30 km depth their interpretation was integrated with the potential fields data and earlier results of refraction sounding to better image the deep structure of the TTZ. Our data show that the NW and central sections of the TTZ correspond, at the Moho level, to a relatively narrow crustal keel and a significant Moho step at the transition from the EEC to the Palaeozoic Platform. However, top of basement above the TTZ is smooth and moderately sloping towards the southwest. In the central part of the TTZ, top of Precambrian is covered by undisturbed lower Palaeozoic sediments. In contrast, the lower Palaeozoic sediments are involved in a latest Silurian, thin-skinned fold-and-thrust belt along the NW section of the TTZ, where the sharply defined Caledonian Deformation Front adjoins a rigid basement buttress above the TTZ. Finally, the crustal keel is mostly missing from the SE section of the TTZ. Instead, this

  11. Rail Baltica tuleb : reisiterminalide arhitektuurivõistlused Tallinnas ja Pärnus = Rail Baltic is coming : Arhitecture competitions for passenger rail terminals in Tallinn and Pärnu / Andres Lindemann

    Index Scriptorium Estoniae

    Lindemann, Andres

    2015-01-01

    2014.a. lõpus lõppesid arhitektuurivõistlused Tallinnas Ülemistele ja Pärnus Papiniidu piirkonda plaanitavatele Rail Baltica reisiterminalidele. Artiklis on antud põgus ülevaade võitnud töödest

  12. Rail Baltica tuleb : reisiterminalide arhitektuurivõistlused Tallinnas ja Pärnus = Rail Baltic is coming : Arhitecture competitions for passenger rail terminals in Tallinn and Pärnu / Andres Lindemann

    Index Scriptorium Estoniae

    Lindemann, Andres

    2015-01-01

    2014.a. lõpus lõppesid arhitektuurivõistlused Tallinnas Ülemistele ja Pärnus Papiniidu piirkonda plaanitavatele Rail Baltica reisiterminalidele. Artiklis on antud põgus ülevaade võitnud töödest

  13. 浮霉菌门严格厌氧产氢细菌(Thermopirellula anaerolimosa)的分离及其生理特性%Isolation and characterization of Thermopirellula anaerolimosa gen.nov., sp.nov., an obligate anaerobic hydrogen-producing bacterium of the phylum Planctomycetes

    Institute of Scientific and Technical Information of China (English)

    刘冬英; 刘奕; 门学慧; 郭群群; 郭荣波; 邱艳玲

    2012-01-01

    [Objective] To cultivate various yet-to-be cultured heterotrophs from anaerobic granule sludge, we used a selective culture medium with low concentrations of substrates supplemented a variety of antibiotics.[Methods] An obligate anaerobic, thermophilic, hydrogen-producing bacterium, strainVM20-7 , was isolated from an upflow anaerobic sludge blanket ( UASB ) reactor treating high-strength organic wastewater from isomerized sugar production processes.[Results] Cells of strain VM20-7T are non-motile, spherical, pear or teardrop shaped, occurring singly°r as aggregates (0.7 -2.0 μm×0.7 -2.0 μm).Spore formation was not observed.Growth temperature ranges from 35 - 50℃ ( optimum 45℃ ), pH ranges from 6.0 - 8.3 ( optimum 7.0 - 7.5 ) , NaCl tolerant concentration ranges from 0% -0.5% ( w/v, optimum 0% ).Nitrate, sulfate, thiosulfate, sulfite, elemental sulfur and Fe (Ⅲ) -NTA were not used as terminal electron acceptors.Strain VM20-7 utilizes a wide range of carbohydrates, including glucose, maltose, ribose, xylose, sucrose, galactose, mannose, raffinose, pectin, yeast extract and xylan.Acetate and H2 are the main end products of glucose fermentation.The G + C content of the genomic DNA was 60.9 mol% .16S rRNA gene sequence analysis revealed that it is related to the Pirellula-Rhodopirellula-Blastopirellula (PRB) clade within the order Planctomycetales (82.7 -84.3% similarity with 16S rRNA genes of other known related species).[Conclusion] The first obligate anaerobic bacterium within the phylum Planctomycetes was isolated with low concentration of carbohydrates and antibiotics.On the basis of the physiological and phylogenetic data, the name Thermopirellula anaerolimosa gen.nov., sp.nov.is proposed for strain VM20-7T( =CGMCC 1.5169T = JCM 17478T = DSM24165T).%[目的]厌氧颗粒污泥中含有大量未知微生物资源,利用低浓度底物及添加抗生素的培养基进行厌氧发酵细菌的筛选,并对分离菌株进行生理生化特性研究.[方法]

  14. Identification of Shewanella baltica as the most important H2S-producing species during iced storage of danish marine fish

    DEFF Research Database (Denmark)

    Vogel, Birte Fonnesbech; Venkateswaran, K.; Satomi, M.

    2005-01-01

    Shewanella putrefaciens has been considered the main spoilage bacteria of low-temperature stored marine seafood. However, psychrotropic Shewanella have been reclassified during recent years, and the purpose of the present study was to determine whether any of the new Shewanella species...... are important in fish spoilage. More than 500 H2S-producing strains were isolated from iced stored marine fish (cod, plaice, and flounder) caught in the Baltic Sea during winter or summer time. All strains were identified as Shewanella species by phenotypic tests. Different Shewanella species were present...... on newly caught fish. During the warm summer months the mesophilic human pathogenic S. algae dominated the H2S-producing bacterial population. After iced storage, a shift in the Shewanella species was found, and most of the H2S-producing strains were identified as S. baltica. The 16S rRNA gene sequence...

  15. Inhibition of Biofilm Development and Spoilage Potential in Shewanella baltica by Epigallocatechin Gallate%EGCG抑制波罗的海希瓦氏菌生物被膜和腐败活性的研究

    Institute of Scientific and Technical Information of China (English)

    叶晓锋; 张芳; 朱军莉; 张蕾; 谢杜梅

    2016-01-01

    The anti-biofilm activity of catechin monomers from tea polyphenols against S. baltica, as the specific spoilage organism in marine product, was investigated. Effects of catechin monomer with the highest inhibitory activity on biofilm formation and spoilage potential of S. baltica were further assessed. The results showed that all five monomer of catechins significantly repressed biofilm formation of S. baltica, in which epigallocatechin gallate (EGCG) exhibited the highest activity. The minimum inhibitory concentration (MIC) of EGCG against S. baltica was 40 μg·mL-1, and EGCG at the sub-inhibitory concentration of 10-30 μg·mL-1 had no effect on its growth. EGCG at 30 μg·mL-1 inhibited significantly the activity of quorum sensing (QS) autoinducers, AI-2, cyclo-(L-Pro-L-Leu) and cyclo-(L-Pro-L-Phe) (P<0.05), with reduction by 63.95%, 27.43% and 21.94% respectively. The biofilm development, swimming motility and protease activity also decreased considerably after incubation with sub-MIC of EGCG, and exhibited a dose dependent effect, which presented the reduction by 55.18%, 66.71% and 46.67% in the presence of 30 μg·mL-1 EGCG. Hence, our results indicated that the sub-MIC of EGCG could interfere with S. baltica QS system, and inhibit the biofilm formation and spoilage potential of S. baltica. The present study suggested the potential of EGCG as QS inhibitor in controlling food spoilage bacterial.%以海产品腐败菌波罗的海希瓦氏菌(Shewanella baltica)为对象,评价了儿茶素单体抑制生物被膜的效果,并分析效果最佳的单体对该菌生物被膜和腐败活性的影响.结果表明,5种儿茶素单体均能抑制S.baltica生物被膜形成,其中表没食子儿茶素没食子酸酯(Epigallocatechin gallate,EGCG)抑制率最高,其最小抑菌质量浓度为40μg·mL-1,亚抑菌质量浓度10~30μg·mL-1的EGCG对细菌生长无显著影响.在30μg·mL-1 EGCG作用下,群体感应(Quorum sensing,QS)信号分

  16. Comparative Genomics of Four Isosphaeraceae Planctomycetes: A Common Pool of Plasmids and Glycoside Hydrolase Genes Shared by Paludisphaera borealis PX4T, Isosphaera pallida IS1BT, Singulisphaera acidiphila DSM 18658T, and Strain SH-PL62

    Science.gov (United States)

    Ivanova, Anastasia A.; Naumoff, Daniil G.; Miroshnikov, Kirill K.; Liesack, Werner; Dedysh, Svetlana N.

    2017-01-01

    The family Isosphaeraceae accommodates stalk-free planctomycetes with spherical cells, which can be assembled in short chains, long filaments, or aggregates. These bacteria inhabit a wide variety of terrestrial environments, among those the recently described Paludisphaera borealis PX4T that was isolated from acidic boreal wetlands. Here, we analyzed its finished genome in comparison to those of three other members of the Isosphaeraceae: Isosphaera pallida IS1BT, Singulisphaera acidiphila DSM 18658T, and the uncharacterized planctomycete strain SH-PL62. The complete genome of P. borealis PX4T consists of a 7.5 Mb chromosome and two plasmids, 112 and 43 kb in size. Annotation of the genome sequence revealed 5802 potential protein-coding genes of which 2775 could be functionally assigned. The genes encoding metabolic pathways common for chemo-organotrophic bacteria, such as glycolysis, citrate cycle, pentose-phosphate pathway, and oxidative phosphorylation were identified. Several genes involved in the synthesis of peptidoglycan as well as N-methylated ornithine lipids were present in the genome of P. borealis PX4T. A total of 26 giant genes with a size >5 kb were detected. The genome encodes a wide repertoire of carbohydrate-active enzymes (CAZymes) including 44 glycoside hydrolases (GH) and 83 glycosyltransferases (GT) affiliated with 21 and 13 CAZy families, respectively. The most-represented families are GH5, GH13, GH57, GT2, GT4, and GT83. The experimentally determined carbohydrate utilization pattern agrees well with the genome-predicted capabilities. The CAZyme repertoire in P. borealis PX4T is highly similar to that in the uncharacterized planctomycete SH-PL62 and S. acidiphila DSM 18658T, but different to that in the thermophile I. pallida IS1BT. The latter strain has a strongly reduced CAZyme content. In P. borealis PX4T, many of its CAZyme genes are organized in clusters. Contrary to most other members of the order Planctomycetales, all four analyzed

  17. Comparative Genomics of Four Isosphaeraceae Planctomycetes: A Common Pool of Plasmids and Glycoside Hydrolase Genes Shared by Paludisphaera borealis PX4(T), Isosphaera pallida IS1B(T), Singulisphaera acidiphila DSM 18658(T), and Strain SH-PL62.

    Science.gov (United States)

    Ivanova, Anastasia A; Naumoff, Daniil G; Miroshnikov, Kirill K; Liesack, Werner; Dedysh, Svetlana N

    2017-01-01

    The family Isosphaeraceae accommodates stalk-free planctomycetes with spherical cells, which can be assembled in short chains, long filaments, or aggregates. These bacteria inhabit a wide variety of terrestrial environments, among those the recently described Paludisphaera borealis PX4(T) that was isolated from acidic boreal wetlands. Here, we analyzed its finished genome in comparison to those of three other members of the Isosphaeraceae: Isosphaera pallida IS1B(T), Singulisphaera acidiphila DSM 18658(T), and the uncharacterized planctomycete strain SH-PL62. The complete genome of P. borealis PX4(T) consists of a 7.5 Mb chromosome and two plasmids, 112 and 43 kb in size. Annotation of the genome sequence revealed 5802 potential protein-coding genes of which 2775 could be functionally assigned. The genes encoding metabolic pathways common for chemo-organotrophic bacteria, such as glycolysis, citrate cycle, pentose-phosphate pathway, and oxidative phosphorylation were identified. Several genes involved in the synthesis of peptidoglycan as well as N-methylated ornithine lipids were present in the genome of P. borealis PX4(T). A total of 26 giant genes with a size >5 kb were detected. The genome encodes a wide repertoire of carbohydrate-active enzymes (CAZymes) including 44 glycoside hydrolases (GH) and 83 glycosyltransferases (GT) affiliated with 21 and 13 CAZy families, respectively. The most-represented families are GH5, GH13, GH57, GT2, GT4, and GT83. The experimentally determined carbohydrate utilization pattern agrees well with the genome-predicted capabilities. The CAZyme repertoire in P. borealis PX4(T) is highly similar to that in the uncharacterized planctomycete SH-PL62 and S. acidiphila DSM 18658(T), but different to that in the thermophile I. pallida IS1B(T). The latter strain has a strongly reduced CAZyme content. In P. borealis PX4(T), many of its CAZyme genes are organized in clusters. Contrary to most other members of the order Planctomycetales, all

  18. Quantitative evaluation of microplankton palaeobiogeography in the Ordovician-Early Silurian of the northern Trans European Suture Zone: implications for the timing of the Avalonia-Baltica collision.

    Science.gov (United States)

    Vecoli, M; Samuelsson, J

    2001-05-01

    Quantitative analysis of assemblage similarity among chitinozoan and acritarch associations recovered from various sedimentary sequences across the Trans European Suture Zone (TESZ; southern Baltic Sea and northern Germany region), permits evaluation of changes in microplankton palaeobiogeography during the Ordovician in the study area. The present data confirm strong palaeobiogeographic differences between the lower Ordovician of the Rügen area, and the coeval domains of the East European Platform (EEP), corroborating the idea that the subsurface of Rügen should be considered palaeogeographically as the eastern extension of Avalonia.Cluster analysis of chitinozoan assemblages from numerous wells in the Rügen area, and one well from the southern margin of the EEP indicates that chitinozoan bioprovincialism reached its maximum during the Llanvirn; during this period, the Rügen microplankton communities were clearly Gondwanan in character. Calculations using the coefficient of similarity support the conclusion of a high similarity between Llanvirn acritarch assemblages from the Rügen subsurface and from coeval Perigondwana localities (e.g. Tunisia). Since the early Caradoc, this Gondwanan affinity of the Rügen microfossils starts to lessen, and becomes negligible during the late Caradoc. During latest Caradoc-early Ashgill through Llandovery times the chitinozoan assemblages from either side of the TESZ are undistinguishable. If palaeobiogeographical differentiation is primarily related to palaeolatitudinal distance, then the present data support closure of the Tornquist Ocean during late Caradoc-Ashgill times. The presence of reworked Llanvirn acritarchs of Perigondwanan affinity in middle Ashgill sedimentary sequences at the southern margin of the EEP, clearly shows that by this time erosion of an uplifted area was taking place. Accordingly, the closure of the Tornquist Ocean, and consequent Avalonia-Baltica collision must have taken place during the time

  19. Kinetics of biofilm formation and desiccation survival of Listeria monocytogenes in single and dual species biofilms with Pseudomonas fluorescens, Serratia proteamaculans or Shewanella baltica on food-grade stainless steel surfaces.

    Science.gov (United States)

    Daneshvar Alavi, Hessam Edin; Truelstrup Hansen, Lisbeth

    2013-01-01

    This study investigated the dynamics of static biofilm formation (100% RH, 15 °C, 48-72 h) and desiccation survival (43% RH, 15 °C, 21 days) of Listeria monocytogenes, in dual species biofilms with the common spoilage bacteria, Pseudomonas fluorescens, Serratia proteamaculans and Shewanella baltica, on the surface of food grade stainless steel. The Gram-negative bacteria reduced the maximum biofilm population of L. monocytogenes in dual species biofilms and increased its inactivation during desiccation. However, due to the higher desiccation resistance of Listeria relative to P. fluorescens and S. baltica, the pathogen survived in greater final numbers. In contrast, S. proteamaculans outcompeted the pathogen during the biofilm formation and exhibited similar desiccation survival, causing the N21 days of Serratia to be ca 3 Log10(CFU cm(-2)) greater than that of Listeria in the dual species biofilm. Microscopy revealed biofilm morphologies with variable amounts of exopolymeric substance and the presence of separate microcolonies. Under these simulated food plant conditions, the fate of L. monocytogenes during formation of mixed biofilms and desiccation depended on the implicit characteristics of the co-cultured bacterium.

  20. Eesti transiidiplatvorm - Viva Via Baltica / Andres Tint

    Index Scriptorium Estoniae

    Tint, Andres

    2005-01-01

    Ilmunud ka: Delovõje Vedomosti 31. aug. lk. 16. Majandus- ja kommunikatsiooniministeeriumi asekantsleri ettekanne Eesti transiidiplatvormist 19.-20. maini 2005 Tallinnas toimunud rahvusvahelise maanteetranspordi organisatsiooni IRU üleeuroopalisel maanteetranspordi konverentsil "TransEuro". Kaart

  1. Eesti transiidiplatvorm - Viva Via Baltica / Andres Tint

    Index Scriptorium Estoniae

    Tint, Andres

    2005-01-01

    Ilmunud ka: Delovõje Vedomosti 31. aug. lk. 16. Majandus- ja kommunikatsiooniministeeriumi asekantsleri ettekanne Eesti transiidiplatvormist 19.-20. maini 2005 Tallinnas toimunud rahvusvahelise maanteetranspordi organisatsiooni IRU üleeuroopalisel maanteetranspordi konverentsil "TransEuro". Kaart

  2. Regina Baltica runs aground, none injured

    Index Scriptorium Estoniae

    2005-01-01

    Tallinki laev sõitis 27. septembri õhtul Kapellskäri lähedal madalikule, kust pääses omal jõul poole kahe paiku liikuma, reisijad kannatada ei saanud. Õnnetuse põhjuseks oli elektrihäire, mille tõttu muutus laev juhitamatuks

  3. [Pax Baltica : Сборник материалов Первого международного Дня культуры стран Балтии

    Index Scriptorium Estoniae

    2015-01-01

    Tutvustus: Pax Baltica : Сборник материалов Первого международного Дня культуры стран Балтии. 5 марта 2015 года. Москва, 2015

  4. Harmful soil organisms in coastal foredunes involved in degeneration of Ammophila arenaria and Calammophila baltica

    NARCIS (Netherlands)

    Van der Putten, W.H.; Troelstra, S.R.

    1990-01-01

    The presence of harmful soil organisms in the root zone of Ammophila arenaria (marram grass) was examined by biotesting. For this investigation three locations along the sandy shoreline of The Netherlands were chosen: Voorne, Texel, and Schouwen. At all three locations harmful organisms were detecte

  5. "Baltica und Seltene Drucke" in der Akademischen Bibliothek der Universität Tallinn / Helje Kannik

    Index Scriptorium Estoniae

    Kannik, Helje-Laine

    2010-01-01

    Tallinna Ülikooli Akadeemilise Raamatukogu Baltika ja haruldaste raamatute osakonna kogust, eesti retrospektiivse rahvusbibliograafia koostamisest, eesti vanaraamatu kohta ilmunud bibliograafiatest ja kajastumisest andmebaasides

  6. SHORT COMMUNICATION: Sparsely encrusted hardground in the Darriwilian calcareous sandstone of Cape Pakri, NW Estonia (Baltica

    Directory of Open Access Journals (Sweden)

    Olev Vinn

    2015-08-01

    Full Text Available The occurrence of echinoderm and ptilodictyid bryozoan holdfasts on the surface of Darriwilian calcareous sandstone in northwestern Estonia indicates that it was lithified before encrustation. Pelmatozoans outnumber the bryozoans and cover a larger area of the hardground although both are very sparse. The hardground is very sparsely encrusted (0.37% of the total area studied and lacks signs of bioerosion.

  7. Diverse Bacterial Groups Contribute to the Alkane Degradation Potential of Chronically Polluted Subantarctic Coastal Sediments

    Energy Technology Data Exchange (ETDEWEB)

    Guibert, Lilian M.; Loviso, Claudia L.; Borglin, Sharon; Jansson, Janet K.; Dionisi, Hebe M.; Lozada, Mariana

    2015-11-07

    We aimed to gain insight into the alkane degradation potential of microbial communities from chronically polluted sediments of a subantarctic coastal environment using a combination of metagenomic approaches. A total of 6178 sequences annotated as alkane-1-monooxygenases (EC 1.14.15.3) were retrieved from a shotgun metagenomic dataset that included two sites analyzed in triplicate. The majority of the sequences binned with AlkB described in Bacteroidetes (32 ± 13 %) or Proteobacteria (29 ± 7 %), although a large proportion remained unclassified at the phylum level. Operational taxonomic unit (OTU)-based analyses showed small differences in AlkB distribution among samples that could be correlated with alkane concentrations, as well as with site-specific variations in pH and salinity. A number of low-abundance OTUs, mostly affiliated with Actinobacterial sequences, were found to be only present in the most contaminated samples. On the other hand, the molecular screening of a large-insert metagenomic library of intertidal sediments from one of the sampling sites identified two genomic fragments containing novel alkB gene sequences, as well as various contiguous genes related to lipid metabolism. Both genomic fragments were affiliated with the phylum Planctomycetes, and one could be further assigned to the genus Rhodopirellula due to the presence of a partial sequence of the 23S ribosomal RNA (rRNA) gene. This work highlights the diversity of bacterial groups contributing to the alkane degradation potential and reveals patterns of functional diversity in relation with environmental stressors in a chronically polluted, high-latitude coastal environment. In addition, alkane biodegradation genes are described for the first time in members of Planctomycetes.

  8. Diverse Bacterial Groups Contribute to the Alkane Degradation Potential of Chronically Polluted Subantarctic Coastal Sediments.

    Science.gov (United States)

    Guibert, Lilian M; Loviso, Claudia L; Borglin, Sharon; Jansson, Janet K; Dionisi, Hebe M; Lozada, Mariana

    2016-01-01

    We aimed to gain insight into the alkane degradation potential of microbial communities from chronically polluted sediments of a subantarctic coastal environment using a combination of metagenomic approaches. A total of 6178 sequences annotated as alkane-1-monooxygenases (EC 1.14.15.3) were retrieved from a shotgun metagenomic dataset that included two sites analyzed in triplicate. The majority of the sequences binned with AlkB described in Bacteroidetes (32 ± 13 %) or Proteobacteria (29 ± 7 %), although a large proportion remained unclassified at the phylum level. Operational taxonomic unit (OTU)-based analyses showed small differences in AlkB distribution among samples that could be correlated with alkane concentrations, as well as with site-specific variations in pH and salinity. A number of low-abundance OTUs, mostly affiliated with Actinobacterial sequences, were found to be only present in the most contaminated samples. On the other hand, the molecular screening of a large-insert metagenomic library of intertidal sediments from one of the sampling sites identified two genomic fragments containing novel alkB gene sequences, as well as various contiguous genes related to lipid metabolism. Both genomic fragments were affiliated with the phylum Planctomycetes, and one could be further assigned to the genus Rhodopirellula due to the presence of a partial sequence of the 23S ribosomal RNA (rRNA) gene. This work highlights the diversity of bacterial groups contributing to the alkane degradation potential and reveals patterns of functional diversity in relation with environmental stressors in a chronically polluted, high-latitude coastal environment. In addition, alkane biodegradation genes are described for the first time in members of Planctomycetes.

  9. Ordovician sponges (Porifera and other silicifications from Baltica in Neogene and Pleistocene fluvial deposits of the Netherlands and northern Germany

    Directory of Open Access Journals (Sweden)

    Rhebergen, Freek

    2009-03-01

    Full Text Available Fluvial deposits of Miocene to Early Pleistocene age in Germany and the Netherlands were laid down in the delta of the Eridanos River System, but the exact provenance of this material continues to be a subject of discussion. The aim of the present study is twofold. Firstly, a comparison of Ordovician sponges in these deposits with those from northern Estonia and the St Petersburg region (Russia demonstrates that these erratics originated from the drainage area of the Pra Neva, a tributary of the Eridanos. Secondly, the importance of Late Ordovician silicified boulders, which yield forms of preservation that are unknown in comparable fossils, preserved in situ, is outlined. Some recommendations for future studies are made.

  10. Chitinozoan biostratigraphy and carbon isotope stratigraphy from the Upper Ordovician Skogerholmen Formation in the Oslo Region. A new perspective for the Hirnantian lower boundary in Baltica

    DEFF Research Database (Denmark)

    Amberg, Chloé E. A.; Vandenbroucke, Thijs R. A.; Nielsen, Arne Thorshøj

    2017-01-01

    The end-Ordovician has received wide attention because it hosts major global events including mass extinctions, glaciations, significant sea-level fluctuations, and large-scale perturbations of the Earth's carbon cycle. Knowing the order and timing of these events and their components is crucial ...

  11. NCBI nr-aa BLAST: CBRC-ACAR-01-0970 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-ACAR-01-0970 ref|ZP_01433876.1| NADH [Shewanella baltica OS195] ref|YP_0010493...19.1| NADH:ubiquinone oxidoreductase, subunit B [Shewanella baltica OS155] ref|ZP_01841447.1| NADH:ubiquinon...e oxidoreductase, subunit B [Shewanella baltica OS223] gb|EAU28006.1| NADH [Shewanella baltica OS195] gb|ABN...60450.1| NADH:ubiquinone oxidoreductase, subunit B [Shewanella baltica OS155] gb|...EDK50875.1| NADH:ubiquinone oxidoreductase, subunit B [Shewanella baltica OS223] ZP_01433876.1 0.52 33% ...

  12. Doroga do jevroporoga / Mihhail Tuzhikov

    Index Scriptorium Estoniae

    Tuzhikov, Mihhail

    2003-01-01

    Ülevaade investeeringutest maanteede remonti Eestis, Lätis, Leedus, samuti projektidest Via Baltica ja Via-Hanseatica. Tabel: Võrdlevad andmed Baltimaade ja Soome teedest. Diagrammid: Investeeringute jagunemine Baltimaades projektis Via Baltica 1996-2006

  13. Timetable set for new transport development / Michael West

    Index Scriptorium Estoniae

    West, Michael

    2003-01-01

    Kuna Rail Baltica ja Via Baltica projektid on stagneerunud, oodatakse uuelt, multimodaalselt transpordikoridorilt (maanteed, raudteed, sadamad) mitmekülgsemaid võimalusi ühendamaks Baltimaid Poola ja Euroopa Liidu liikmesriikidega

  14. Timetable set for new transport development / Michael West

    Index Scriptorium Estoniae

    West, Michael

    2003-01-01

    Kuna Rail Baltica ja Via Baltica projektid on stagneerunud, oodatakse uuelt, multimodaalselt transpordikoridorilt (maanteed, raudteed, sadamad) mitmekülgsemaid võimalusi ühendamaks Baltimaid Poola ja Euroopa Liidu liikmesriikidega

  15. President Ilves kohtus Euroopa Komisjoni asepresidendiga / Kristel Peterson

    Index Scriptorium Estoniae

    Peterson, Kristel

    2007-01-01

    President Toomas Hendrik Ilves kohtus Euroopa Komisjoni asepresidendi, transpordivolinik Jacques Barrot'ga. Kõne all oli liiklusohutus, Venemaa tolli põhjustatud veokijärjekorrad Eesti-Vene piiril, Via Baltica ja Rail Baltica tulevik

  16. Taanlased pidasid Pärnut läbivat Rail Balticat kalleimaks / Raavo Raadik

    Index Scriptorium Estoniae

    Raadik, Raavo

    2007-01-01

    Taani konsultatsioonifirma COWI tutvustas uuringut, milles analüüsiti Balti riike Euroopaga ühendava raudtee Rail Baltica majanduslikku tasuvust ning selle loomiseks vajalike investeeringute mahtu. Kaart: Rail Baltica võimalik teekond Eestis

  17. Taanlased pidasid Pärnut läbivat Rail Balticat kalleimaks / Raavo Raadik

    Index Scriptorium Estoniae

    Raadik, Raavo

    2007-01-01

    Taani konsultatsioonifirma COWI tutvustas uuringut, milles analüüsiti Balti riike Euroopaga ühendava raudtee Rail Baltica majanduslikku tasuvust ning selle loomiseks vajalike investeeringute mahtu. Kaart: Rail Baltica võimalik teekond Eestis

  18. Президенты стран Балтии одобрили Rail Baltica

    Index Scriptorium Estoniae

    2011-01-01

    1.-2. detsembril 2011 kohtusid Vihula mõisas president Toomas Hendrik Ilves, Läti president Andris Bērziņš, Leedu president Dalia Grybauskaitė ja Poola president Bronisław Komorowski. Euroopa Komisjoni transpordivolinik Siim Kallas tutvustas riigijuhtidele Baltimaid ülejäänud Euroopaga ühendava Rail Balticu projekti

  19. Herderi instituudist Marburgis, eesti kunstiajaloost ja "Eesti kunsti ajaloost" / Krista Kodres

    Index Scriptorium Estoniae

    Kodres, Krista, 1957-

    2001-01-01

    Herderi instituudist, mida sealt leiab Eesti uurija (Baltica-kogu, pildiarhiiv, fotokogud, kaardikogu). Eesti kunstiteaduse olukorrast, perspektiivist, akadeemiliste kohtade vähesusest, probleemidest "Eesti kunsti ajaloo" kirjutamisel.

  20. Jutustada tähtsaid asju / Rainer Vilumaa

    Index Scriptorium Estoniae

    Vilumaa, Rainer

    2004-01-01

    Läänemeremaade kunstnike III "Ars Baltica" fototriennaal Tallinna Kunstihoones ja Kunstihoone galeriis kuni 13. VIII. Kuraatorid Dorothee Bienert, Lars Grambye, Lolita Jablonskiene. Eestit esindab Eve Kask

  1. Jutustada tähtsaid asju / Rainer Vilumaa

    Index Scriptorium Estoniae

    Vilumaa, Rainer

    2004-01-01

    Läänemeremaade kunstnike III "Ars Baltica" fototriennaal Tallinna Kunstihoones ja Kunstihoone galeriis kuni 13. VIII. Kuraatorid Dorothee Bienert, Lars Grambye, Lolita Jablonskiene. Eestit esindab Eve Kask

  2. Interrogation of distributional data for the End Ordovician crisis interval

    DEFF Research Database (Denmark)

    Mac Ørum Rasmussen, Christian; Harper, David Alexander Taylor

    2011-01-01

    on the peri-Laurentian terranes, in the Laurentian epicratonic seas and on the margins of the Ægir Ocean. Refuges during the survival interval were probably located in the shallow-water zones of especially Baltica, but also Gondwana, the peri-Laurentian terranes and the Kazakh Terranes. Except for Baltica......) probably as a consequence of the progressively narrowing Iapetus Ocean...

  3. NCBI nr-aa BLAST: CBRC-AGAM-07-0010 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-AGAM-07-0010 ref|ZP_01842482.1| amino acid permease-associated region [Shewanella... baltica OS223] gb|EDK49834.1| amino acid permease-associated region [Shewanella baltica OS223] ZP_01842482.1 1e-127 91% ...

  4. NCBI nr-aa BLAST: CBRC-DYAK-04-0065 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-DYAK-04-0065 ref|ZP_01432766.1| Lysine exporter protein (LYSE/YGGA) [Shewanella... baltica OS195] gb|EAU28847.1| Lysine exporter protein (LYSE/YGGA) [Shewanella baltica OS195] ZP_01432766.1 9.7 26% ...

  5. NCBI nr-aa BLAST: CBRC-XTRO-01-1829 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-XTRO-01-1829 ref|ZP_01436506.1| Drug resistance transporter Bcr/CflA subfamily [Shewanella... baltica OS195] gb|EAU25409.1| Drug resistance transporter Bcr/CflA subfamily [Shewanella baltica OS195] ZP_01436506.1 1.3 29% ...

  6. NCBI nr-aa BLAST: CBRC-XTRO-01-1829 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-XTRO-01-1829 ref|YP_001049307.1| cytochrome d ubiquinol oxidase, subunit II [Shewanella... baltica OS155] gb|ABN60438.1| cytochrome d ubiquinol oxidase, subunit II [Shewanella baltica OS155] YP_001049307.1 1.0 27% ...

  7. NCBI nr-aa BLAST: CBRC-DYAK-04-0065 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-DYAK-04-0065 ref|YP_001364889.1| Lysine exporter protein (LYSE/YGGA) [Shewanella... baltica OS185] gb|ABS06826.1| Lysine exporter protein (LYSE/YGGA) [Shewanella baltica OS185] YP_001364889.1 9.7 26% ...

  8. NCBI nr-aa BLAST: CBRC-XTRO-01-1829 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-XTRO-01-1829 ref|YP_001366405.1| drug resistance transporter, Bcr/CflA subfamily [Shewanella... baltica OS185] gb|ABS08342.1| drug resistance transporter, Bcr/CflA subfamily [Shewanella baltica OS185] YP_001366405.1 1.3 29% ...

  9. NCBI nr-aa BLAST: CBRC-ETEL-01-0618 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-ETEL-01-0618 ref|YP_001050349.1| type III secretion protein SpaR/YscT/HrcT [Shewanella... baltica OS155] gb|ABN61480.1| type III secretion protein SpaR/YscT/HrcT [Shewanella baltica OS155] YP_001050349.1 3.6 32% ...

  10. NCBI nr-aa BLAST: CBRC-PVAM-01-0962 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-PVAM-01-0962 ref|YP_001051235.1| hypothetical protein Sbal_2883 [Shewanella ba...ltica OS155] gb|ABN62366.1| hypothetical protein Sbal_2883 [Shewanella baltica OS155] YP_001051235.1 0.38 31% ...

  11. Transport "guru" Augulis speaks before thinking

    Index Scriptorium Estoniae

    2011-01-01

    Rail Baltica projekti kõrvale on Lätis kerkinud Riia-Moskva vahelise kiirema rongiliini ehitamise projekt. Euroopa Komisjoni transpordivoliniku Siim Kallase sõnul on Rail Baltica ühendus tähtsam ning Moskva liini arendamine ei saa Euroopa Liidult rahastust

  12. NCBI nr-aa BLAST: CBRC-CPOR-01-1801 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-CPOR-01-1801 ref|ZP_01042677.1| Cyclopropane-fatty-acyl-phospholipid synthase [Idioma...rina baltica OS145] gb|EAQ32421.1| Cyclopropane-fatty-acyl-phospholipid synthase [Idiomarina baltica OS145] ZP_01042677.1 9.9 34% ...

  13. NCBI nr-aa BLAST: CBRC-DYAK-06-0063 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-DYAK-06-0063 ref|ZP_01042102.1| flagellar M-ring protein [Idiomarina baltica O...S145] gb|EAQ32893.1| flagellar M-ring protein [Idiomarina baltica OS145] ZP_01042102.1 2.6 23% ...

  14. Complete genome sequence of Planctomyces brasiliensis type strain (DSM 5305(T)), phylogenomic analysis and reclassification of Planctomycetes including the descriptions of Gimesia gen. nov., Planctopirus gen. nov. and Rubinisphaera gen. nov. and emended descriptions of the order Planctomycetales and the family Planctomycetaceae.

    Science.gov (United States)

    Scheuner, Carmen; Tindall, Brian J; Lu, Megan; Nolan, Matt; Lapidus, Alla; Cheng, Jan-Fang; Goodwin, Lynne; Pitluck, Sam; Huntemann, Marcel; Liolios, Konstantinos; Pagani, Ioanna; Mavromatis, Konstantinos; Ivanova, Natalia; Pati, Amrita; Chen, Amy; Palaniappan, Krishna; Jeffries, Cynthia D; Hauser, Loren; Land, Miriam; Mwirichia, Romano; Rohde, Manfred; Abt, Birte; Detter, John C; Woyke, Tanja; Eisen, Jonathan A; Markowitz, Victor; Hugenholtz, Philip; Göker, Markus; Kyrpides, Nikos C; Klenk, Hans-Peter

    2014-01-01

    Planctomyces brasiliensis Schlesner 1990 belongs to the order Planctomycetales, which differs from other bacterial taxa by several distinctive features such as internal cell compartmentalization, multiplication by forming buds directly from the spherical, ovoid or pear-shaped mother cell and a cell wall consisting of a proteinaceous layer rather than a peptidoglycan layer. The first strains of P. brasiliensis, including the type strain IFAM 1448(T), were isolated from a water sample of Lagoa Vermelha, a salt pit near Rio de Janeiro, Brasil. This is the second completed genome sequence of a type strain of the genus Planctomyces to be published and the sixth type strain genome sequence from the family Planctomycetaceae. The 6,006,602 bp long genome with its 4,811 protein-coding and 54 RNA genes is a part of the G enomic E ncyclopedia of Bacteria and Archaea project. Phylogenomic analyses indicate that the classification within the Planctomycetaceae is partially in conflict with its evolutionary history, as the positioning of Schlesneria renders the genus Planctomyces paraphyletic. A re-analysis of published fatty-acid measurements also does not support the current arrangement of the two genera. A quantitative comparison of phylogenetic and phenotypic aspects indicates that the three Planctomyces species with type strains available in public culture collections should be placed in separate genera. Thus the genera Gimesia, Planctopirus and Rubinisphaera are proposed to accommodate P. maris, P. limnophilus and P. brasiliensis, respectively. Pronounced differences between the reported G + C content of Gemmata obscuriglobus, Singulisphaera acidiphila and Zavarzinella formosa and G + C content calculated from their genome sequences call for emendation of their species descriptions. In addition to other features, the range of G + C values reported for the genera within the Planctomycetaceae indicates that the descriptions of the family and the order should be emended.

  15. NCBI nr-aa BLAST: CBRC-AGAM-03-0021 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-AGAM-03-0021 ref|YP_331887.1| Planctomycete extracellular domain protein [Burkholder...ia pseudomallei 1710b] gb|ABA51048.1| Planctomycete extracellular domain protein [Burkholderia pseudomallei 1710b] YP_331887.1 0.005 31% ...

  16. Gija Kantscheli Projekte und Events zum 70. Geburtstag 2005

    Index Scriptorium Estoniae

    2005-01-01

    Artiklis mainitud gruusia helilooja Gija Kantscheli teose "Werk für gemischten Chor und Saxophonquartett" esiettekandest mais 2006 Madalmaade Kammerkoori esituses ja Tõnu Kaljuste dirigeerimisel ning teose "Twilight" esiettekandest 27. jaan. 2005 Salzburgis kammerorkestri Kremerata Baltica esituses

  17. [Darius Staliūnas. Making Russians : meaning and practice of russification in Lithuania and Belarus after 1863

    Index Scriptorium Estoniae

    Woodworth, Bradley D., 1963-

    2011-01-01

    Arvustus: Darius Staliūnas. Making Russians. Meaning and practice of russification in Lithuania and Belarus after 1863. On the boundary of two worlds: identity, freedom, and moral imagination in the Baltica, 11. (Amsterdam : Rodopi, 2007)

  18. Tallinna-Berliini raudteeprojekt valmimas / Toivo Tänavsuu

    Index Scriptorium Estoniae

    Tänavsuu, Toivo

    2002-01-01

    Saksa konsultatsioonifirmas PLANCO Consulting GmbH on valmimas Tallinna-Berliini kiirraudteeprojekti Rail Baltica eeluuring. Majandus- ja kommunikatsiooniministeeriumi peaspetsialisti Rein Lõokese kommentaare. Kaart. Poole ööpäevaga Berliini

  19. Muusika hiilgus ja pahupool Grammy peegelduses / Immo Mihkelson

    Index Scriptorium Estoniae

    Mihkelson, Immo, 1959-

    2002-01-01

    Los Angeleses toimunud 44. Grammyde jagamisest 101 kategoorias. Parema kammeransambli esituse kategoorias pärjati võitjaks Gido Kremer ja Kremerata Baltica uus plaat "After Mozart". Muusikaauhindade valikloetelu

  20. Concerts & Opera

    Index Scriptorium Estoniae

    2006-01-01

    Kammerorkestri Kremerata Baltica kontserdid: 19. apr. Londonis LSO St Lukesis, 21. apr. Oxfordis Sheldonian Theatre'is, 17. apr. Aldeburghis, 20. apr. Manchesteris Bridgewater Hallis, 23. apr. Wales Millennium Centre'is, 22. apr. Edinburghis Usher Hallis

  1. Juhan Parts : "Ma ei tea, kas Pärnu linnale on vaja "munspaad"" / Juhan Parts ; interv. Kalev Vilgats

    Index Scriptorium Estoniae

    Parts, Juhan, 1966-

    2007-01-01

    Majandus- ja kommunikatsiooniminister Juhan Parts vastab oma visiidil Pärnusse nii Pärnu ettevõtlust, linna eduvalemit, kohalikku transpordiühendust, Rail Baltica projekti ning Pärnu lennujaama puudutavatele küsimustele. Lisa: CV

  2. Arte näitab filmi Anu Talist / Immo Mihkelson

    Index Scriptorium Estoniae

    Mihkelson, Immo, 1959-

    2008-01-01

    24. veebruaril esilinastub telekanalil Arte Saksa portreefilm Eesti dirigendist "Maestra Baltica: Anu Tali dirigiert baltische Musik" (režissöörid Daniel Finkernagel, Alexander Lück). Lisatud info kultuurikanali Arte kohta

  3. New Releases

    Index Scriptorium Estoniae

    2005-01-01

    Heliplaatidest: Giya Kancheli "In l'istesso tempo" (plaadil ka Kremerata Baltica), Various Cpsrs "Op. arias" (laulab Miliza Korjus), Various Cpsrs "Ob con Forca" (dirigeerib Arvo Volmer), "Anu Tali. Rahmaninov. Sibelius. Tüür"

  4. Gidon Kremer ja Tatjana Grindenko : vana arm ei roosteta! / Tatjana Grindenko ; interv. Aleksandra Moorast

    Index Scriptorium Estoniae

    Grindenko, Tatjana

    2007-01-01

    Viiuldajatest Gidon Kremerist ja Tatjana Grindenkost. Kontserdist Tallinna Polütehnilise Instituudi aulas 30 aasta eest. Kontserdist "Jubilate: Gidon Kremer 60 ja Kremerata Baltica 10" 11. veebr. Estonia kontserdisaalis

  5. [Darius Staliūnas. Making Russians : meaning and practice of russification in Lithuania and Belarus after 1863

    Index Scriptorium Estoniae

    Woodworth, Bradley D., 1963-

    2011-01-01

    Arvustus: Darius Staliūnas. Making Russians. Meaning and practice of russification in Lithuania and Belarus after 1863. On the boundary of two worlds: identity, freedom, and moral imagination in the Baltica, 11. (Amsterdam : Rodopi, 2007)

  6. Mark Raidpere portreefotod Kielis

    Index Scriptorium Estoniae

    1999-01-01

    Kieli Linnagaleriis avatud 2. Ars Baltica fototriennaalil 'Can You Hear Me?' esindab Eestit Mark Raidpere seeriaga 'Portreed 1998'. Näituse Eesti-poolne kuraator Anu Liivak, kataloogiteksti kirjutas Anders Härm. Tuntumaid osalejaid triennaalil Wolfgang Tillmans

  7. New Releases

    Index Scriptorium Estoniae

    2005-01-01

    Heliplaatidest: Giya Kancheli "In l'istesso tempo" (plaadil ka Kremerata Baltica), Various Cpsrs "Op. arias" (laulab Miliza Korjus), Various Cpsrs "Ob con Forca" (dirigeerib Arvo Volmer), "Anu Tali. Rahmaninov. Sibelius. Tüür"

  8. Neuheiten

    Index Scriptorium Estoniae

    2007-01-01

    Heliplaadil "Bach Vibrations. Andrei Pushkarev" kaastegev kammerorkester Kremerata Baltica, heliplaate "Jean Sibelius "Sinfonische Dichtungen" ja "Kapp Artur-Eugen-Villem/Orchestral Works/BBC Philharmonic" dirigeerib Neeme Järvi, heliplaadil "Mikrokosmos" ka Veljo Tormise muusika

  9. Tallinna-Berliini raudteeprojekt valmimas / Toivo Tänavsuu

    Index Scriptorium Estoniae

    Tänavsuu, Toivo

    2002-01-01

    Saksa konsultatsioonifirmas PLANCO Consulting GmbH on valmimas Tallinna-Berliini kiirraudteeprojekti Rail Baltica eeluuring. Majandus- ja kommunikatsiooniministeeriumi peaspetsialisti Rein Lõokese kommentaare. Kaart. Poole ööpäevaga Berliini

  10. Arte näitab filmi Anu Talist / Immo Mihkelson

    Index Scriptorium Estoniae

    Mihkelson, Immo, 1959-

    2008-01-01

    24. veebruaril esilinastub telekanalil Arte Saksa portreefilm Eesti dirigendist "Maestra Baltica: Anu Tali dirigiert baltische Musik" (režissöörid Daniel Finkernagel, Alexander Lück). Lisatud info kultuurikanali Arte kohta

  11. Kontserdipeegel : "Fuugakunst" kahes stiilis. Gulliver Madridis, Kremerata Tallinnas / Lembi Mets

    Index Scriptorium Estoniae

    Mets, Lembi

    2000-01-01

    Kontsertidest : 4. apr. Estonia kontserdisaali kammerlaval I. Maidre ja H. K. Sveen J. S. Bachi tsükliga "Fuugakunst". 8. apr. Tallinna raekojas Kremerata Baltica 6-liikmeline koosseis kavaga "Gulliver Madridis"

  12. Foto, druzhba, Hugo Boss / Julia Rodina

    Index Scriptorium Estoniae

    Rodina, Julia

    2007-01-01

    Ars Baltica fototriennalist "Don't Worry - Be Curious" Kumu Kunstimuuseumis. Oma töid esitavad 20 kunstnikku Skandinaaviast ja Baltimaadest. Pikemalt Katrin Teesi, lätlase Kaspars Goba ja soomlase Anu Pennaneni töödest

  13. Fotoiskusstvo v sovremennom mire / Dmitri Babitshenko

    Index Scriptorium Estoniae

    Babitshenko, Dmitri

    2007-01-01

    Neljas Ars Baltica fotokunstitriennaal "Donþt Worry - be Curious!" Kumu Kunstimuuseumis 11. augustist 30. septembrini. Näitus esitab fotosid, videosid ja installatsioone Läänemere regiooni 20 kunstnikult. Osalejad loetletud. Eestit esindab Katrin Tees

  14. Multimeediakunst EXPO-l

    Index Scriptorium Estoniae

    2000-01-01

    Hannoveri EXPO Saksa paviljonis 12.-13. aug. "Ars Baltica" raames toimunud Läänemeremaade multimeedia ja netikunstnike grupiprojektist "inside:inside". Eestit esindas Raivo Kelomees CD-Rom-projektiga "tokyocity.ee". Kuraator Mindaugas Gapsevicius

  15. Juhan Parts : "Ma ei tea, kas Pärnu linnale on vaja "munspaad"" / Juhan Parts ; interv. Kalev Vilgats

    Index Scriptorium Estoniae

    Parts, Juhan, 1966-

    2007-01-01

    Majandus- ja kommunikatsiooniminister Juhan Parts vastab oma visiidil Pärnusse nii Pärnu ettevõtlust, linna eduvalemit, kohalikku transpordiühendust, Rail Baltica projekti ning Pärnu lennujaama puudutavatele küsimustele. Lisa: CV

  16. Muusika hiilgus ja pahupool Grammy peegelduses / Immo Mihkelson

    Index Scriptorium Estoniae

    Mihkelson, Immo, 1959-

    2002-01-01

    Los Angeleses toimunud 44. Grammyde jagamisest 101 kategoorias. Parema kammeransambli esituse kategoorias pärjati võitjaks Gido Kremer ja Kremerata Baltica uus plaat "After Mozart". Muusikaauhindade valikloetelu

  17. Concerts & Opera

    Index Scriptorium Estoniae

    2006-01-01

    Kammerorkestri Kremerata Baltica kontserdid: 19. apr. Londonis LSO St Lukesis, 21. apr. Oxfordis Sheldonian Theatre'is, 17. apr. Aldeburghis, 20. apr. Manchesteris Bridgewater Hallis, 23. apr. Wales Millennium Centre'is, 22. apr. Edinburghis Usher Hallis

  18. Foto, druzhba, Hugo Boss / Julia Rodina

    Index Scriptorium Estoniae

    Rodina, Julia

    2007-01-01

    Ars Baltica fototriennalist "Don't Worry - Be Curious" Kumu Kunstimuuseumis. Oma töid esitavad 20 kunstnikku Skandinaaviast ja Baltimaadest. Pikemalt Katrin Teesi, lätlase Kaspars Goba ja soomlase Anu Pennaneni töödest

  19. Fassaadi viimistlusvead kinni nii teadmatuses kui ka hoolimatuses / Eneken Laasme

    Index Scriptorium Estoniae

    Laasme, Eneken

    2006-01-01

    Viimistlusvigade tagajärjeks on hoone konstruktiivse osa lagunemine ning sise- ja välisseinte hallitus. Kommenteerivad SIA Caparol Baltica Eesti filiaali juhataja Jaan Vikat ja Heiki Tuisk OÜ Värvikeskuste Grupist

  20. Influence of algal diet on feeding and egg-production of the calanoid copepod Acartia tonsa Dana

    DEFF Research Database (Denmark)

    Støttrup, Josianne; Jensen, Johanne

    1990-01-01

    Threshold concentration, retention efficiency and egg-production in the calanoid copepod Acartia tonsa Dana were examined using the algal species Isochrysis galbana clone T-iso, Dunalietta tertiolecta Butcher, Rhodomonas baltica Karsten, Ditylum brightwellii Grunow and Thalassiosira weissflogii...

  1. Rootsi rangus kimbutab Tallinkit lisanõuetega / Lauri Linnamäe

    Index Scriptorium Estoniae

    Linnamäe, Lauri

    2007-01-01

    Rootsi mereinspektorid leidsid puudusi veekindlate uste elektrisüsteemides Tallinki laevadel Regina Baltica ja Vana Tallinn ning Viking Line'i Mariellal, kirjutab Rootsi meedia. Vt. samas: Galaxy vahetab lippu

  2. Uudised : Kremerile Dresdenist Saeculum. Plink Plonk 2007

    Index Scriptorium Estoniae

    2007-01-01

    Viiuldaja Gidon Kremer pälvis Dresdeni muusikafestivali tänavuse elutööpreemia Saeculum (25 000 eurot) oma interpreeditegevuse ja kammerorkestri Kremerata Baltica rajamise eest. Kremerata Baltica kontserdil Semperoperis pidas pidukõne näitleja Bruno Ganz. Preemia on seni saanud dirigent Kurt Masur, koreograaf John Neumeier ja ooperilavastaja Joachim Herz. Muusikafestivalist Plink Plonk 21. juulil Tartu laululava muruplatsil

  3. Uudised : Kremerile Dresdenist Saeculum. Plink Plonk 2007

    Index Scriptorium Estoniae

    2007-01-01

    Viiuldaja Gidon Kremer pälvis Dresdeni muusikafestivali tänavuse elutööpreemia Saeculum (25 000 eurot) oma interpreeditegevuse ja kammerorkestri Kremerata Baltica rajamise eest. Kremerata Baltica kontserdil Semperoperis pidas pidukõne näitleja Bruno Ganz. Preemia on seni saanud dirigent Kurt Masur, koreograaf John Neumeier ja ooperilavastaja Joachim Herz. Muusikafestivalist Plink Plonk 21. juulil Tartu laululava muruplatsil

  4. Cruziana traces from the Late Silurian (Pridoli carbonate shelf of Saaremaa, Estonia

    Directory of Open Access Journals (Sweden)

    Olev Vinn

    2014-05-01

    Full Text Available Late Pridoli Cruziana traces have recently been found in carbonate shelf sediments of the Ohesaare Formation on Saaremaa Island, Estonia. Cruziana isp. is interpreted here as a locomotory trace (repichnia of an arthropod, possibly a trilobite. Cruziana traces previously known from the Silurian of Baltica differ from Cruziana isp., indicating that the diversity of Cruziana traces in the late Silurian of Baltica was higher than previously thought.

  5. Endocytosis-like protein uptake in the bacterium Gemmata obscuriglobus

    OpenAIRE

    Lonhienne, Thierry G. A.; Sagulenko, Evgeny; Webb, Richard I.; Lee, Kuo-Chang; Franke, Josef; Damien P Devos; Nouwens, Amanda; Bernard J. Carroll; Fuerst, John A.

    2010-01-01

    Endocytosis is a process by which extracellular material such as macromolecules can be incorporated into cells via a membrane-trafficking system. Although universal among eukaryotes, endocytosis has not been identified in Bacteria or Archaea. However, intracellular membranes are known to compartmentalize cells of bacteria in the phylum Planctomycetes, suggesting the potential for endocytosis and membrane trafficking in members of this phylum. Here we show that cells of the planctomycete Gemma...

  6. Closure of the Tornquist sea: Constraints from MONA LISA deep seismic reflection data

    Science.gov (United States)

    Mona LISA Working Group

    1997-12-01

    Deep seismic reflection profiles west of Denmark across the suture between Baltica and Eastern Avalonia reveal weak, southward-dipping reflectors within the crystalline basement. These reflectors are interpreted as thrusts resulting from emplacement of Eastern Avalonia onto the southern edge of Baltica. North of these reflectors are the remains of a dissected Silurian foredeep. The presence of this foredeep and the 440 Ma age of metamorphism in rocks recovered from boreholes into Eastern Avalonian rocks suggest that closure of the Tornquist sea occurred in the Late Ordovician, which is consistent with paleobiogeographic data and paleomagnetic apparent polar wander paths for Eastern Avalonia and Baltica. The similarity between these reflection data and the BABEL AC profile permits correlation of reflectors beneath Denmark into the southern North Sea.

  7. Cecembia lonarensis gen. nov., sp. nov., a haloalkalitolerant bacterium of the family Cyclobacteriaceae, isolated from a haloalkaline lake and emended descriptions of the genera Indibacter, Nitritalea and Belliella

    Digital Repository Service at National Institute of Oceanography (India)

    AnilKumar, P.; Srinivas, T.N.R.; Madhu, S.; Sravan, R.; Singh, S.; Naqvi, S.W.A.; Mayilraj, S.; Shivaji, S.

    new centrifuge tube. The absorption spectrum was measured at 300–800 nm on a Lambda 35 spectrometer (Perkin Elmer) using ethanol as a blank. For cellular fatty acid analysis, strain LW9T, I. alkaliphilus LW1T, A. balticum DSM 16537T, B. baltica DSM...-dried cells of strain LW9T and the four reference strains. DNAs of strain LW9T, I. alkaliphilus LW1T, A. balticum DSM 16537T, N. halalkaliphila LW7T and B. baltica DSM 15883T were isolated according to the pro- cedure of Marmur (1961) and the G+C content...

  8. Study of anaerobic ammonium oxidation bacterial community in the aged refuse bioreactor with 16S rRNA gene library technique.

    Science.gov (United States)

    Wang, Chao; Xie, Bing; Han, Lu; Xu, Xiaofan

    2013-10-01

    In order to investigate the anaerobic ammonium-oxidation (Anammox) nitrogen removal pathway of the aged refuse bioreactor treating landfill leachate, a lab-scale bioreactor was established and run for 35 weeks, the performance of the bioreactor and its bacterial community structure of Planctomycetes were analyzed. The results showed that the average TN removal rate of landfill leachate could be reached to 89%. 16S rRNA gene library of Planctomycetes revealed that Anammox sequences accounted for 28.3% of the total Planctomycetes sequences in the bioreactor, and previously recognized Anammox bacterium Candidatus Kuenenia stuttgartiensis was the only detected Anammox species in the reactor. It was also found that Anammox bacteria distributed at different sites of the bioreactor while mostly concentrated in the middle and low-middle part. Results above confirmed that Anammox process could happen in aged refuse bioreactor treating landfill leachate and provided an alternative nitrogen removal pathway in practical landfills.

  9. The PVC superphylum: exceptions to the bacterial definition?

    Science.gov (United States)

    Fuerst, John A

    2013-10-01

    The PVC superphylum is a grouping of distinct phyla of the domain bacteria proposed initially on the basis of 16S rRNA gene sequence analysis. It consists of a core of phyla Planctomycetes, Verrucomicrobia and Chlamydiae, but several other phyla have been considered to be members, including phylum Lentisphaerae and several other phyla consisting only of yet-to-be cultured members. The genomics-based links between Planctomycetes, Verrucomicrobia and Chlamydiae have been recently strengthened, but there appear to be other features which may confirm the relationship at least of Planctomycetes, Verrucomicrobia and Lentisphaerae. Remarkably these include the unique planctomycetal compartmentalized cell plan differing from the cell organization typical for bacteria. Such a shared cell plan suggests that the common ancestor of the PVC superphylum members may also have been compartmentalized, suggesting this is an evolutionarily homologous feature at least within the superphylum. Both the PVC endomembranes and the eukaryote-homologous membrane-coating MC proteins linked to endocytosis ability in Gemmata obscuriglobus and shared by PVC members suggest such homology may extend beyond the bacteria to the Eukarya. If so, either our definition of bacteria may have to change or PVC members admitted to be exceptions. The cases for and against considering the PVC superphylum members as exceptions to the bacteria are discussed, and arguments for them as exceptions presented. Recent critical analysis has favoured convergence and analogy for explaining eukaryote-like features in planctomycetes and other PVC organisms. The case is made for constructing hypotheses leaving the possibility of homology and evolutionary links to eukaryote features open. As the case of discovery of endocytosis-like protein uptake in planctomycetes has suggested, this may prove a strong basis for the immediate future of experimental research programs in the PVC scientific community.

  10. Estonija mozhet ostatsja bez uzkoi kolei / Jelizaveta Gavrilova

    Index Scriptorium Estoniae

    Gavrilova, Jelizaveta

    2005-01-01

    Poola-Leedu-Läti-Eesti raudteeprojekt Rail Baltica on lülitatud Euroopa Komisjoni transpordi prioriteetide hulka. Eesti probleemiks on kujunenud madal koostöövõime infrastruktuuride valduse küsimuses riigi ja erafirma Eesti Raudtee vahel

  11. Baltimaad 1900-1914 / Jaanus Arukaevu

    Index Scriptorium Estoniae

    Arukaevu, Jaanus

    1992-01-01

    Rets.: The Baltic Countries 1900-1914 : proceedings from the 9th conference on baltic studies in Scandinavia, Stockholm, June 3-6, 1987. Ed. Aleksander Loit. (Acta Universitatis Stockholmiensis. Studia Baltica Stockholmiensia 5:1-2). Uppsala, 1990Red terror in Estonia 1918-1919 : sources and major problems. Lk. 96

  12. [Stat-kyrka-samhälle : Den stormaktstida samhällsordningen i Sverige och Östersjöpinserna] / Enn Küng

    Index Scriptorium Estoniae

    Küng, Enn, 1963-

    2002-01-01

    Arvustus: Stat-kyrka-samhälle : Den stormaktstida samhällsordningen i Sverige och Östersjöpinserna. (Acta Universitatis Stockholmiensis Studia Baltica Stockholmiensa, 21). Stockholm, 2000. Stockholmi Ülikooli Balti Uuringute Keskuse teaduslik väljaanne "Riik-kirik-ühiskond" Rootsi suurriigi provintsipoliitikast Eesti- ja Liivimaal 16.-17. sajandil

  13. European festivals. The best events worldwide

    Index Scriptorium Estoniae

    2007-01-01

    Eesti Filharmoonia Kammerkoor esinemas 23. maist 5. juunini toimuval Bergeni rahvusvahelisel festivalil. Paavo Järvi dirigeerimas 23. ja 24. juunil ning kammerorkester Kremerata Baltica esinemas 24. juulil Rheingau muusikafestivalil. Eesti Filharmoonia Kammerkoor esinemas 3. mail Oxfordi Sheldonian Theatre's (esitusel ka Arvo Pärdi muusika)

  14. Influence of algal diet on feeding and egg-production of the calanoid copepod Acartia tonsa Dana

    DEFF Research Database (Denmark)

    Støttrup, Josianne; Jensen, Johanne

    1990-01-01

    is similar in size to R. baltica but contained only trace amounts of fatty acids higher than C-18 fatty acids. The diatoms D. brightwellii and T. fluviatilis were retained with maximal efficiency but daily egg-production and gross growth efficiency was lower for these species than for I. galbana and R...

  15. Dicty_cDB: Contig-U06431-1 [Dicty_cDB

    Lifescience Database Archive (English)

    Full Text Available 63 7e-09 AJ421798_9( AJ421798 |pid:none) Streptomyces cattleya thienamycin ... 62 1e-08 CT573213_2482( CT573...baltica SH 1 comp... 59 1e-07 AJ421798_19( AJ421798 |pid:none) Streptomyces cattleya thienamycin... 57 4e-07

  16. Anu Tali : enda elust filmi vaadata ei ole väga lihtne / Jaanus Kulli

    Index Scriptorium Estoniae

    Kulli, Jaanus, 1955-

    2008-01-01

    Dirigent Anu Tali elust ja tööst rääkivat filmi "Maestra Baltica : Anu Tali dirigiert baltische Musik" (režissöörid Daniel Finkernagel ja Alexander Lück) näitab telekanal Arte. Noor dirigent kommenteerib

  17. From Umm al Qab to Biban al Muluk: The orientation of Royal Tombs in Ancient Egypt

    OpenAIRE

    Belmonte, Juan Antonio; González-García, A. César; Shaltout, Mosalam; Fekri, Magdi; Miranda, Noemi

    2008-01-01

    The volumen title is ASTRONOMY AND COSMOLOGY IN FOLK TRADITIONS AND CULTURAL HERITAGE Edited by Jonas Vaigkunas. Archaeologia Baltica volume 10 was prepared by Klaipėda University Institute of Baltic Sea Region History and Archaeology and Museum of Molėtai district. Published with a grant from the Ministry of Education and Science of The Republic of Lithuania.

  18. Root zone of a continental rift: the Neoproterozoic Kebnekaise Intrusive Complex, northern Swedish Caledonides

    DEFF Research Database (Denmark)

    Kirsch, Moritz; Svenningsen, Olaf

    2016-01-01

    Mafic magmatic rocks formed between ca. 615 and 560 Ma along the Neoproterozoic margins of Baltica and Laurentia are classically attributed to continental rifting heralding the opening of the Iapetus Ocean. We report new data for the Kebnekaise Intrusive Complex (KIC) exposed in the Seve Nappes i...

  19. Anu Tali : enda elust filmi vaadata ei ole väga lihtne / Jaanus Kulli

    Index Scriptorium Estoniae

    Kulli, Jaanus, 1955-

    2008-01-01

    Dirigent Anu Tali elust ja tööst rääkivat filmi "Maestra Baltica : Anu Tali dirigiert baltische Musik" (režissöörid Daniel Finkernagel ja Alexander Lück) näitab telekanal Arte. Noor dirigent kommenteerib

  20. Vastuvõtt Stuttgardis - välismaal toimuvate juubeliürituste avaakord / Meeli Bagger ; fotod: Meeli Bagger

    Index Scriptorium Estoniae

    Bagger, Meeli, 1958-

    2008-01-01

    Eesti, Läti ja Leedu 90. juubeliaastale pühendatult organiseerib Baden-Württembergi Liidumaa valitsus koos kolme riigi Saksamaa saatkondadega 14. jaanuarist 21. juunini kestva festivali "Essentia Baltica 2008", milles Eestiga seonduv kannab nimetust "E nagu Eesti"

  1. Summer festivals 2008 : European Festivals

    Index Scriptorium Estoniae

    2008-01-01

    Bergeni Rahvusvahelisest Festivalist võtab 3. ja 4. juunil osa ka Eesti Rahvusmeeskoor (vt. www.fib.no). Rheingau Muusikafestivalil 28. ja 29. mail dirigeerib Paavo Järvi, 23. aug. esineb kammerorkester Kremerata Baltica (vt. www.rheingau-musik-festival.de), Verbier Festivalil (18. juuli- 3. aug) dirigeerib Paavo Järvi (vt. verbierfestival.com)

  2. Summer festivals 2008 : European Festivals

    Index Scriptorium Estoniae

    2008-01-01

    Bergeni Rahvusvahelisest Festivalist võtab 3. ja 4. juunil osa ka Eesti Rahvusmeeskoor (vt. www.fib.no). Rheingau Muusikafestivalil 28. ja 29. mail dirigeerib Paavo Järvi, 23. aug. esineb kammerorkester Kremerata Baltica (vt. www.rheingau-musik-festival.de), Verbier Festivalil (18. juuli- 3. aug) dirigeerib Paavo Järvi (vt. verbierfestival.com)

  3. Fotonäitus kompab vastuvõtuvõime piire / Anu Aaremäe

    Index Scriptorium Estoniae

    Aaremäe, Anu

    2007-01-01

    Näitus "Don't Worry - be Curious!" ja 4. Ars Baltica fototriennaal Kumu Kunstimuuseumis. Pikemalt soome kunstniku Tellervo Kalleineni videoinstallatsioonist "Kaebuste koor" ja lätlase Kaspars Goba tööst. Eestit esindas Katrin Tees fotoseeriaga "Risustaja käsiraamat edasijõudnutele"

  4. Veselo i legko o problemah rasshirjajushtsheisja Evropõ / Ksenia Repson

    Index Scriptorium Estoniae

    Repson, Ksenia

    2007-01-01

    Neljas Ars Baltica foto- ja videokunstitriennaal "Don't Worry - be Curious!" Kumu Kunstimuuseumis. Näitus esitab fotosid, videosid ja installatsioone Läänemere regiooni kunstnikelt. Osalejad loetletud. Eestit esindab Katrin Tees. Kuraatorid Dorothee Bienert, Kati Kivinen ja Enrico Lunghi

  5. Augustis on Tallinna galeriides võimust võtnud soomlased / Anne Vetik

    Index Scriptorium Estoniae

    Vetik, Anne

    2007-01-01

    Krista Launoneni maalinäitus "Kasvun paika/Time to Grow Up" Draakoni galeriis. Panu Ruotsalo, Matti Reivi ja Roy Hopiavuori näitus "The Baltic Sea Delegation" ArtDepoos. Ars Baltica fotokunsti triennaal "Don't Worry, Ge Curious!" Kumu Kunstimuuseumis

  6. Jagatud kriisid / Anu Allas

    Index Scriptorium Estoniae

    Allas, Anu, 1977-

    2007-01-01

    IV "Ars Baltica" fotokunstitriennaal "Don't Worry - Be Curious" Kumus kuni 30. IX. Kuraatorid Dorothee Bienert, Kati Kivinen, Enrico Lunghi. Pikemalt Tellervo Kalleineni ja Oliver Kochta-Kalleineni projektist "Kaebuste koorid", Arturas Valiauga fotoseeriast "Kallaste vahel", Olga Tshernõsheva videost "Pidulik unenägu", Talleiv Taro Manumi (sünd. 1968 Jaapanis, elab Norras) fotoseeriast "Tervitused Ringnesist", Alexander Vaindorfi installatsioonist

  7. Dicty_cDB: Contig-U04868-1 [Dicty_cDB

    Lifescience Database Archive (English)

    Full Text Available Ectromelia virus strain Moscow, ... 33 6.3 CP001252_266( CP001252 |pid:none) Shewanella baltica OS223, compl...U962945_1( EU962945 |pid:none) Zea mays clone 246772 unknown mRNA. 33 6.3 AF012825_168( AF012825 |pid:none)

  8. European festivals. The best events worldwide

    Index Scriptorium Estoniae

    2007-01-01

    Eesti Filharmoonia Kammerkoor esinemas 23. maist 5. juunini toimuval Bergeni rahvusvahelisel festivalil. Paavo Järvi dirigeerimas 23. ja 24. juunil ning kammerorkester Kremerata Baltica esinemas 24. juulil Rheingau muusikafestivalil. Eesti Filharmoonia Kammerkoor esinemas 3. mail Oxfordi Sheldonian Theatre's (esitusel ka Arvo Pärdi muusika)

  9. Iz Berlina v Tampere za neskolko tshasov? / Helga Balode

    Index Scriptorium Estoniae

    Balode, Helga

    2002-01-01

    Rail Baltica raudtee, mis hakkab reisi- ja kaubaronge teenindama marsruudil Tallinn-Varssavi, läheb maksma miljardeid kroone. Kommenteerivad Soome transpordi- ja kommunikatsiooniministeeriumi nõunik Kai-Peter Mattson, Läti sideministeeriumi raudteeosakonnajuhataja Janis Veidmanis ja Eesti raudteeameti peadirektor Oleg Epner

  10. Eraülikoolide omavaheline vaen jätab sajad tudengid diplomita / Piret Jaaks

    Index Scriptorium Estoniae

    Jaaks, Piret, 1980-

    2003-01-01

    MTÜ Concordia Akadeemilise Ühisuse ja Audentes AS loodud International University Baltica probleemidest. Concordia Ülikooli endine rektor Mart Susi soovib ülikooli Akadeemia Nordi alluvusse minekut. Vt. samas lühiintervjuud Sten Krameriga: Concordia üliõpilane süüdistab segadustes rektor Mart Susi

  11. Eesti võimalused Soome lahe kasvukolmnurgas / Aare-Maldus Uustalu

    Index Scriptorium Estoniae

    Uustalu, Aare-Maldus, 1935-

    2005-01-01

    Euroopa Komisjoni ekspert logistika, transpordi ja regionaalökonoomika alal, TTÜ Tallinna Kolledzhi dotsent 2002. aasta alguses käivitatud Soome lahe kasvukolmnurga projektist, Eesti majanduse arenguperspektiivist projekti raames ning Eesti riigiametnike ükskõiksusest projekti suhtes. Via Baltica lisakoridoride projekti Via Islands ideest

  12. [Stat-kyrka-samhälle : Den stormaktstida samhällsordningen i Sverige och Östersjöpinserna] / Enn Küng

    Index Scriptorium Estoniae

    Küng, Enn, 1963-

    2002-01-01

    Arvustus: Stat-kyrka-samhälle : Den stormaktstida samhällsordningen i Sverige och Östersjöpinserna. (Acta Universitatis Stockholmiensis Studia Baltica Stockholmiensa, 21). Stockholm, 2000. Stockholmi Ülikooli Balti Uuringute Keskuse teaduslik väljaanne "Riik-kirik-ühiskond" Rootsi suurriigi provintsipoliitikast Eesti- ja Liivimaal 16.-17. sajandil

  13. Paleomagnetism of the Neoproterozoic Blekinge-Dalarna Dolerites in Western Sweden and Implications of the Sveconorwegian Loop(s)

    Science.gov (United States)

    Gong, Z.; Evans, D. A.; Elming, S. A.

    2016-12-01

    Laurentia and Baltica are regarded to be juxtaposed at the core of the supercontinent Rodinia during Early Neoproterozoic. This contention is supported by the similar apparent polar wander paths (APWPs) of Laurentia and Baltica, known as the Grenville and the Sveconorwegian loops, respectively. Despite the debates of the age and shape of the Grenville loop, the Sveconorwegian loop has uncertainties as well. Paleomagnetic studies from Baltica show two distinct remanence directions at ca. 950 Ma: one is steep and upwards (A-type) and another is shallow and bipolar (B-type). The fidelity of B-type remanence is supported by the new key-pole from the 935 ± 5 Ma Blekinge-Dalarna dolerites (BDD) in western Sweden. But A-type remanence, less common, is also observed in the BDD dykes. Some studies attribute A-type remanence to remagnetization without clear evidence. If A-type remanence is primary, this would suggest a large APWP excursion of Baltica within a very short duration, analogous to the mid-Ediacaran situation of Laurentia that has been explained by different hypotheses such as true polar wander, unusual geomagnetic configuration or rapid plate motions. Therefore, we conducted a more detailed paleomagnetic study of the BDD dykes that cover an area of 10,000 km2. We propose a combined geochemical and magnetic fabric study to compare BDD dykes' signatures with published results to aid field identification. Thermal demagnetization is conducted and the fidelity of the remanence is examined by rigorous baked contact tests in different host rocks. Dykes with primary remanence will be radiometrically dated to constrain the age of the remanence. This study should have wide implications, in particular the configuration of Sveconorwegian loop(s) in Early Neoproterozoic time, the paleogeographic connection between Laurentia and Baltica in Rodinia, as well as the geodynamics in Earth's deep interior.

  14. Growth and metabolism of Anammox Bacteria

    NARCIS (Netherlands)

    Van der Star, W.R.L.

    2008-01-01

    The anoxic ammonium oxidation (anammox) process is the conversion of nitrite and ammonium under anoxic conditions- to form dinitrogen gas. The process is performed by deep-branching Planctomycetes. The startup of the first full-scale anammox reactor in the world is described in Chapter 2. The desc

  15. Present and past contribution of anaerobic ammonium oxidation to nitrogen cycling as revealed by ladderane lipids

    NARCIS (Netherlands)

    Jaeschke, A.

    2009-01-01

    Anammox, the anaerobic oxidation of ammonium to dinitrogen gas with nitrite as the electron acceptor, constitutes a novel route to convert biologically available (fixed) nitrogen to gaseous N2. This process is mediated by specific bacteria belonging to the Planctomycetes that were initially discover

  16. Present and past contribution of anaerobic ammonium oxidation to nitrogen cycling as revealed by ladderane lipids

    NARCIS (Netherlands)

    Jaeschke, Andrea

    2009-01-01

    Abstract Anammox, the anaerobic oxidation of ammonium to dinitrogen gas with nitrite as the electron acceptor, constitutes a novel route to convert biologically available (fixed) nitrogen to gaseous N2. This process is mediated by specific bacteria belonging to the Planctomycetes that were initially

  17. The fate of lipids during development and cold-storage of eggs in the laboratory-reared calanoid copepod, Acartia tonsa Dana, and in response to different algal diets

    DEFF Research Database (Denmark)

    Støttrup, Josianne; Bell, J.G.; Sargent, J.R.

    1999-01-01

    : the cryptophyte Rhodomonas baltica, the haptophyte Isochrysis galbana clone T- iso, the diatom Thalassiosira weissflogii and the dinoflagellate Heterocapsa triquetra. Further, the effect of cold storage of eggs on the lipid composition of the newly hatched nauplii was examined. During development, the fatty acid...... composition changes from a tendency towards high levels of long-chain polyunsaturated fatty acids in the early developmental stages towards a tendency to accumulate more saturated and monounsaturated fatty acids in the later developmental stages. However, the content and composition of polyunsaturated fatty...... acids can be influenced by the dietary input. The highest ratio of 22:6n - 3/20:5n - 3 was achieved using H, triquetra or I. galbana. Higher levels of 20:5n - 3 were achieved by feeding with R. baltica or T. weissflogii. I. galbana and T. weissflogii were particularly suitable for increasing levels...

  18. Shewanella hafniensis sp. nov. and Shewanella morhuae sp. nov., isolated from marine fish of the Baltic Sea

    DEFF Research Database (Denmark)

    Satomi, M.; Vogel, Birte Fonnesbech; Gram, Lone

    2006-01-01

    within the genus Shewanella. Group 1 strains showed greatest sequence similarity to Shewanella putrefaciens ATCC 8071T (99{middle dot}0 %) and with S. baltica NCTC 10375T (98{middle dot}3 %). However, gyrB gene sequence analysis showed these isolates to share only 90{middle dot}0 % sequence similarity......Two novel species belonging to the genus Shewanella are described on the basis of their phenotypic characteristics, phylogenetic analyses of 16S rRNA and gyrB gene sequences and levels of DNA-DNA hybridization. A total of 47 strains belonging to two novel Gram-negative, psychrotolerant, H2S......-producing bacterial species were isolated from marine fish (cod and flounder) caught from the Baltic Sea off Denmark. The phenotypic characteristics of strains belonging to group 1 (14 strains) indicated that these represented a non-sucrose-assimilating variant of Shewanella baltica with a DNA G+C content of 47...

  19. The oldest ascocerid cephalopod from the Silurian of Estonia and notes on the biogeography of the order Ascocerida (class Cephalopoda

    Directory of Open Access Journals (Sweden)

    Martina Aubrechtova

    2016-05-01

    Full Text Available The early Palaeozoic order Ascocerida is a group of morphologically unique and rare cephalopods known from the Ordovician and Silurian rocks of Avalonia, Baltica, Laurentia and Perunica. The limited Estonian record of Silurian ascocerids is complemented with a specimen from the Pähkla locality (Island of Saaremaa; Paadla Regional Stage, Ludlow Series representing the stratigraphically oldest known occurrence of ascocerids in the Silurian of Estonia. The strata that were formerly exposed in Pähkla are likely correlated to the Hemse Group of the Island of Gotland (Sweden having a remarkable record of ascocerids. The appearance of Silurian ascocerids in Estonia is confined to a time interval when the group had the highest species diversity and the widest geographic dispersion, reaching also outside Baltica for the first time.

  20. Kohastumus eluks vee ääres / Laura Kuusk

    Index Scriptorium Estoniae

    Kuusk, Laura, 1982-

    2007-01-01

    4. "Ars Baltica" fototriennaal Kumu Kunstimuuseumis kuni 30. IX. Tellervo Kalleineni ja Oliver Kochta-Kalleineni, Alexander Vaindorfi, Coloneli (Thierry Geoffroy) ja Khaled D. Ramadani, Kaspars Goba, Tanja Nellemann Poulseni, Katrin Teesi, Anu Pennaneni, Petra Baueri, Talleiv Taro Manumi (sünd. 1968 Jaapanis, elab Norras), Olga Tshernõsheva, Kristina Inciuraite, Julita Wojciki, Sven Johne, Anna Baumgarti, Arturas Valiauga ja duo J&K (Janne Schäfer, Kristine Agergaard) töödest

  1. Rong viib autod ohutult rööbastel Euroopasse / Mirko Ojakivi

    Index Scriptorium Estoniae

    Ojakivi, Mirko

    2007-01-01

    Helsingi-Rovaniemi reisirongi külge on haagitud autotreiler reisijate autodega. Edelaraudtee juhi Kalvi Pukka väitel on selline idee liikvel olnud ka Edelaraudtees, kuid niisugune teenus õigustab end, kui linnadevaheline kaugus on umbes 600 km. Rail Baltica valmimisel on mõeldav, et rongiga Lätti või Leetu sõites saab kaasa võtta ka auto. Lisa: Rongi autotreilerid

  2. Two new families (Acari: Alicorhagiidae and Platyhelminthes: Prorhynchidae reported for the Hungarian fauna From leaf litter in the Bükk Mountains

    Directory of Open Access Journals (Sweden)

    Pfliegler, W.

    2016-06-01

    Full Text Available Two new members of the Hungarian fauna are reported, both of them were collected in beech forest leaf litter in the Bükk Mountains, North-East Hungary: Alicorhagia fragilis Berlese, 1910 (Arthropoda: Arachnida: Acari: Sarcoptiformes: Endeostigmata: Alicorhagiidae and Geocentrophora baltica (Kennel, 1883 (Platyhelminthes: Rhabditophora: Trepaxonemata: Amplimatricata: 'Lecithoepitheliata': Prorhynchida: Prorhynchidae. The families Alicorhagiidae and Prorhynchidae both represent new taxa in the fauna of the country.

  3. Rong viib autod ohutult rööbastel Euroopasse / Mirko Ojakivi

    Index Scriptorium Estoniae

    Ojakivi, Mirko

    2007-01-01

    Helsingi-Rovaniemi reisirongi külge on haagitud autotreiler reisijate autodega. Edelaraudtee juhi Kalvi Pukka väitel on selline idee liikvel olnud ka Edelaraudtees, kuid niisugune teenus õigustab end, kui linnadevaheline kaugus on umbes 600 km. Rail Baltica valmimisel on mõeldav, et rongiga Lätti või Leetu sõites saab kaasa võtta ka auto. Lisa: Rongi autotreilerid

  4. Kohastumus eluks vee ääres / Laura Kuusk

    Index Scriptorium Estoniae

    Kuusk, Laura, 1982-

    2007-01-01

    4. "Ars Baltica" fototriennaal Kumu Kunstimuuseumis kuni 30. IX. Tellervo Kalleineni ja Oliver Kochta-Kalleineni, Alexander Vaindorfi, Coloneli (Thierry Geoffroy) ja Khaled D. Ramadani, Kaspars Goba, Tanja Nellemann Poulseni, Katrin Teesi, Anu Pennaneni, Petra Baueri, Talleiv Taro Manumi (sünd. 1968 Jaapanis, elab Norras), Olga Tshernõsheva, Kristina Inciuraite, Julita Wojciki, Sven Johne, Anna Baumgarti, Arturas Valiauga ja duo J&K (Janne Schäfer, Kristine Agergaard) töödest

  5. Crustal velocity structure across the Tornquist and Iapetus Suture Zones — a comparison based on MONA LISA and VARNET data

    Science.gov (United States)

    Abramovitz, Tanni; Landes, Michael; Thybo, Hans; Jacob, A. W. Brian; Prodehl, Claus

    1999-12-01

    The Tornquist and Iapetus Suture Zones result from amalgamation of three plates (Laurentia, Baltica and Eastern Avalonia) during the Early Paleozoic Caledonian orogeny (∼440 Ma). We present a comparison of the velocity structure of the contrasting Proterozoic and Paleozoic lithosphere across the margins of Eastern Avalonia based on two deep seismic experiments, MONA LISA and VARNET in the SE North Sea and SW Ireland, respectively. Both velocity models show three different crustal types: (a) a high-velocity, three-layered shield type Proterozoic crust (in Baltica and Laurentia) to the north; (b) a transitional crust in the central part across the suture zones; and (c) Eastern Avalonian crust to the south. However, the sub-Moho velocities are ∼7.8 km/s under the ∼34-km-thick Baltica crust and ∼8.2 km/s under the 26-km-thick Eastern Avalonian crust on the MONA LISA-1 profile, in contrast to ∼7.8 km/s under the ∼31-km-thick Eastern Avalonian crust and ∼8.1 km/s under the ∼33 km thick Laurentian crust on the VARNET profile. These differences in the sub-Moho velocity structure are interpreted to be related to a change in subduction polarity between the Tornquist Sea and the Iapetus Ocean or in the direction of shearing in the mantle during collision tectonics.

  6. Endocytosis-like protein uptake in the bacterium Gemmata obscuriglobus.

    Science.gov (United States)

    Lonhienne, Thierry G A; Sagulenko, Evgeny; Webb, Richard I; Lee, Kuo-Chang; Franke, Josef; Devos, Damien P; Nouwens, Amanda; Carroll, Bernard J; Fuerst, John A

    2010-07-20

    Endocytosis is a process by which extracellular material such as macromolecules can be incorporated into cells via a membrane-trafficking system. Although universal among eukaryotes, endocytosis has not been identified in Bacteria or Archaea. However, intracellular membranes are known to compartmentalize cells of bacteria in the phylum Planctomycetes, suggesting the potential for endocytosis and membrane trafficking in members of this phylum. Here we show that cells of the planctomycete Gemmata obscuriglobus have the ability to uptake proteins present in the external milieu in an energy-dependent process analogous to eukaryotic endocytosis, and that internalized proteins are associated with vesicle membranes. Occurrence of such ability in a bacterium is consistent with autogenous evolution of endocytosis and the endomembrane system in an ancestral noneukaryote cell.

  7. Short-and long-term effects of ammonia and nitrite on the anammox process

    Energy Technology Data Exchange (ETDEWEB)

    Fernandez, I.; Campos, J. L.; Mosquera-Corral, A.; Mendez, R.

    2009-07-01

    Auto trophic anaerobic ammonium oxidation (Anammox) process is a feasible alternative to treat industrial wastewater with high ammonia concentration but low content of organic matter. In this process ammonium and nitrite are used by Planctomycete-type bacteria under anoxic conditions to generate nitrogen gas. Both substrates can exert inhibitory effects on the process, causing the decrease of the specific activity of the biomass and the loss of the performance and stability of reactors. (Author)

  8. Seismic images of Caledonian, lithosphere-scale collision structures in the southeastern North Sea along Mona Lisa Profile 2

    Science.gov (United States)

    Abramovitz, Tanni; Thybo, Hans

    2000-02-01

    The unexposed suture between Baltica and Eastern Avalonia is imaged by coincident normal-incidence reflection and wide-angle reflection/refraction seismic data of the MONA LISA project. We present new results of the upper lithospheric, seismic structure from the N-S-striking profile 2 across the Caledonian Deformation Front, which represents the crustal collision suture between Baltica and Eastern Avalonia that formed after closure of the Tornquist Sea during the Caledonian orogeny in Late Ordovician times. Three different crustal types are identified with great similarities to the nearby profile 1: (1) a three-layered crust typical of shields to the north; (2) a transitional crust (suture zone) in the central part; and (3) a two-layered crust of Caledonian origin to the south characterized by very low velocities throughout the crust. The crustal thickness varies from 38-35 km under the northern margin of the Ringkøbing-Fyn High (Baltica crust) to 28-27 km beneath the North German Basin in the Caledonian crust to the south. The suture zone is imaged by S-dipping crustal reflections from 1.9 to 10.6 s two-way travel time (twt) over a horizontal distance of ˜70 km within the transitional crust. The reflection suture zone terminates in a ˜60 km wide reflective lens with velocities of 6.6-6.8 km/s in the lowermost crust. The reflective lens may be interpreted as a remnant of oceanic or island-arc crust that was accreted to the leading edge of Baltica during closure of the Tornquist Sea. Alternatively, the reflective lens may represent an indentor of Baltica crust into the Avalonian terrane. The change in lower crustal reflectivity and the abrupt transition from a three- to a two-layered crust further south suggest that the Trans-European Fault and the Elbe Lineament continue into the North Sea. The upper mantle reflectivity is dominated by bands of strong-amplitude, S-dipping reflections from 13.5 to 21.8 s twt, and a weaker band of N-dipping reflections from 12 to

  9. Subduction or obduction of continental crust in the northern Norwegian Caledonides? An example from the Nordmannvik Nappe

    Science.gov (United States)

    Faber, Carly; Stünitz, Holger; Jeřábek, Petr; Gasser, Deta; Konopásek, Jiří; Kraus, Katrin

    2017-04-01

    The debate about how and why continental crust is subducted is ongoing (Ingalls et al., 2016). This work uses the tectonmetamorphic history of a the Nordmannvik nappe in the northern Scandinavian Caledonides to discuss mid- to lower-crustal processes involved in the subduction of continental crust during the Caledonian Orogeny. The Nordmannvik Nappe, together with the underlying Kåfjord and Vaddas nappes, constitutes the Reisa Nappe Complex (RNC). The RNC overlies continental rocks of the Kalak Nappe Complex (KNC), and a clear oceanic suture between Baltican basement, the KNC and the RNC is missing. The RNC consists mainly of paragneisses of mostly unknown depositional age. Rare fossils in the Vaddas Nappe indicate that it at least partly consists of Ordovician-Silurian (>460 Ma) metasediments (Binns and Gayer, 1980). Both the Nordmannvik and Vaddas Nappes were intruded by gabbroic melt around 439 Ma at 9 kbar (c. 30 km) (Getsinger et al., 2013). Therefore, the host and intrusive rocks were already buried to positions far deeper than oceanic crust prior to nappe stacking. Nordmannvik nappe rocks show at least two distinct metamorphic fabrics; 1) an early high-grade kyanite-present migmatitic fabric and 2) a pervasive mylonitic fabric. Based on microstructural observations and pseudosection modeling these two fabrics are estimated to have formed at 770-800 °C and 9.4-11 kbar and 580-630 °C and 8-9.8 kbar, respectively. The presence of sillimanite in garnet cores (confirmed by Raman spectra) and garnet core compositions also suggest that an earlier, less well constrained, history exists with metamorphism around 815 °C and 8.7 kbar, similar to that recognized in the KNC, where it is dated to be pre-Caledonian. The lack of ocean floor rocks between the Nordmannvik Nappe and the Baltica basement suggests that the Nordmannvik Nappe and nappe units below were fairly proximal to Baltica prior to the Caledonian Orogeny. Their position below the Lyngen Nappe (Iapetus

  10. The Microbiota of Freshwater Fish and Freshwater Niches Contain Omega-3 Fatty Acid-Producing Shewanella Species.

    Science.gov (United States)

    Dailey, Frank E; McGraw, Joseph E; Jensen, Brittany J; Bishop, Sydney S; Lokken, James P; Dorff, Kellen J; Ripley, Michael P; Munro, James B

    2015-10-23

    Approximately 30 years ago, it was discovered that free-living bacteria isolated from cold ocean depths could produce polyunsaturated fatty acids (PUFA) such as eicosapentaenoic acid (EPA) (20:5n-3) or docosahexaenoic acid (DHA) (22:6n-3), two PUFA essential for human health. Numerous laboratories have also discovered that EPA- and/or DHA-producing bacteria, many of them members of the Shewanella genus, could be isolated from the intestinal tracts of omega-3 fatty acid-rich marine fish. If bacteria contribute omega-3 fatty acids to the host fish in general or if they assist some bacterial species in adaptation to cold, then cold freshwater fish or habitats should also harbor these producers. Thus, we undertook a study to see if these niches also contained omega-3 fatty acid producers. We were successful in isolating and characterizing unique EPA-producing strains of Shewanella from three strictly freshwater native fish species, i.e., lake whitefish (Coregonus clupeaformis), lean lake trout (Salvelinus namaycush), and walleye (Sander vitreus), and from two other freshwater nonnative fish, i.e., coho salmon (Oncorhynchus kisutch) and seeforellen brown trout (Salmo trutta). We were also able to isolate four unique free-living strains of EPA-producing Shewanella from freshwater habitats. Phylogenetic and phenotypic analyses suggest that one producer is clearly a member of the Shewanella morhuae species and another is sister to members of the marine PUFA-producing Shewanella baltica species. However, the remaining isolates have more ambiguous relationships, sharing a common ancestor with non-PUFA-producing Shewanella putrefaciens isolates rather than marine S. baltica isolates despite having a phenotype more consistent with S. baltica strains. Copyright © 2015, American Society for Microbiology. All Rights Reserved.

  11. Permian Paleomagnetism of Eastern Kazakhstan: Implications Concerning the Amalgamation of Eurasia

    Science.gov (United States)

    Collins, A. Q.; Levashova, N. M.; Degtyarev, K. E.; Bazhenov, M. L.; Van der Voo, R.

    2001-12-01

    Kazakhstan is the central and most complex region of the Ural-Mongol belt of Eurasia. This region is bounded by the Baltica platform to the west, the Siberian platform to the northeast, and Tarim to the south. Many geologists think that the major tectonic units of Kazakhstan had amalgamated by the Silurian, with the possibility of relatively small motions through the middle-late Paleozoic, whereas others have postponed the welding of Kazakhstan until the Late Carboniferous. Furthermore, some authors have suggested that the Siberian block and the adjacent regions of the Ural-Mongol belt were displaced with respect to Baltica, westward and northwestward (in present day co-ordinates) during the Late Permian along strike slip faults by some 1500km. We studied Upper Permian volcanics from eastern Kazakhstan (47.5N, 80.5E). A univectorial characteristic remanent magnetization (ChRM) component was isolated from most samples after the removal of a weak, low-temperature remanence. The fold test (McFadden and Jones, 1981) is positive. The observed pole (PLat: 43, Plong: 172, a95: 3.6) falls close to the Baltica APWP and nearly coincides with the mean pole for middle Permian time (261-275 Ma; PLat: 46, Plong: 166, a95: 3.8). The overall agreement of the European and Siberian APWP's is rather good for the Permian, and Late Permian paleolatitudes from Tarim also agree with the European grid. Thus we conclude that our study area had already been attached to the European, Siberian, and Tarim blocks during the Late Permian. This interpretation disagrees with models that suggest large-scale displacement between the European and Siberian platforms during the final stages of Ural-Mongol fold belt evolution.

  12. Fecal pellets: role in sedimentation of pelagic diatoms.

    Science.gov (United States)

    Schrader, H J

    1971-10-01

    Membrane-enclosed fecal pellets of planktonic herbivores were sampled at several depths in the Baltic Sea (459 meters deep) and off Portugal (4000 meters deep) by means of a Simonsen multinet. Pellets contained mainly empty shells of planktonic diatoms and silicoflagellates. Two kinds of fecal pellets were found, those with the remains of one species (for example, Thalassiosira baltica) and those with the remains of several species (for example, Chaetoceros, Achnanthes, and Thalassiosira). Siliceous skeletons were protected from dissolution during settling by a membrane around the pellet.

  13. Igor Stromajer / Igor Stromajer ; interv. Tilman Baumgärtel

    Index Scriptorium Estoniae

    Stromajer, Igor

    2006-01-01

    Sloveeni kunstnikust Igor Stromajerist (sünd. 1967) ja tema loomingust. I. Stromajer võitis 1997. a. Hamburgi Kunstihalle korraldatud võrgukunsti võistluse "Extension" tööga "0.html". Tema domeeni www.intima.org ülespandud tööd kuuluvad parima disainiga võrgukunsti näidete hulka. I. Stromajer on loonud WAP-kunsti mobiiltelefonidele, lavastanud Interneti-performance'eid. I. Stromajer 1999. a. tehtud meiliintervjuus oma töödest, pikemalt võrguprojektist "b.ALT.ica", võrgukunsti tulevikust

  14. Burrowing and avoidance behaviour in marine organisms exposed to pesticide-contaminated sediment

    DEFF Research Database (Denmark)

    Møhlenberg, Flemming; Kiørboe, Thomas

    1983-01-01

    Behavioural effects of marine sediment contaminated with pesticides (6000 ppm parathion, 200 ppm methyl parathion, 200 ppm malathion) were studied in a number of marine organisms in laboratory tests and in situ. The burrowing behaviour in Macoma baltica, Cerastoderma edule, Abra alba, Nereis...... for Crangon crangon and Solea solea, but not for Carcinus meanas and Pomatoschistus minutus. The validity of both behavioural tests was supported by in situ observations and investigations on the distribution of the species. It is concluded that both tests are useful tools in the assessment of the impact...

  15. From a collage of microplates to stable continental crust - an example from Precambrian Europe

    Science.gov (United States)

    Korja, Annakaisa

    2013-04-01

    Svecofennian orogen (2.0-1.7 Ga) comprises the oldest undispersed orogenic belt on Baltica and Eurasian plate. Svecofennian orogenic belt evolved from a series of short-lived terrane accretions around Baltica's Archean nucleus during the formation of the Precambrian Nuna supercontinent. Geological and geophysical datasets indicate W-SW growth of Baltica with NE-ward dipping subduction zones. The data suggest a long-lived retreating subduction system in the southwestern parts whereas in the northern and central parts the northeasterly transport of continental fragments or microplates towards the continental nucleus is also documented. The geotectonic environment resembles that of the early stages of the Alpine-Himalayan or Indonesian orogenic system, in which dispersed continental fragments, arcs and microplates have been attached to the Eurasian plate margin. Thus the Svecofennian orogeny can be viewed as proxy for the initial stages of an internal orogenic system. Svecofennian orogeny is a Paleoproterozoic analogue of an evolved orogenic system where terrane accretion is followed by lateral spreading or collapse induced by change in the plate architecture. The exposed parts are composed of granitoid intrusions as well as highly deformed supracrustal units. Supracrustal rocks have been metamorphosed in LP-HT conditions in either paleo-lower-upper crust or paleo-upper-middle crust. Large scale seismic reflection profiles (BABEL and FIRE) across Baltica image the crust as a collage of terranes suggesting that the bedrock has been formed and thickened in sequential accretions. The profiles also image three fold layering of the thickened crust (>55 km) to transect old terrane boundaries, suggesting that the over-thickened bedrock structures have been rearranged in post-collisional spreading and/or collapse processes. The middle crust displays typical large scale flow structures: herringbone and anticlinal ramps, rooted onto large scale listric surfaces also suggestive

  16. Igor Stromajer / Igor Stromajer ; interv. Tilman Baumgärtel

    Index Scriptorium Estoniae

    Stromajer, Igor

    2006-01-01

    Sloveeni kunstnikust Igor Stromajerist (sünd. 1967) ja tema loomingust. I. Stromajer võitis 1997. a. Hamburgi Kunstihalle korraldatud võrgukunsti võistluse "Extension" tööga "0.html". Tema domeeni www.intima.org ülespandud tööd kuuluvad parima disainiga võrgukunsti näidete hulka. I. Stromajer on loonud WAP-kunsti mobiiltelefonidele, lavastanud Interneti-performance'eid. I. Stromajer 1999. a. tehtud meiliintervjuus oma töödest, pikemalt võrguprojektist "b.ALT.ica", võrgukunsti tulevikust

  17. Die Frage der Menschenrechte in Estland, Lettland und Litauen / V. Stanley Vardys

    Index Scriptorium Estoniae

    Vardys, Vytas Stanley, 1924-1993

    1984-01-01

    Varem avaldatud: Acta Baltica : liber annalis Instituti Baltici. Vol. 22. - Königstein im Taunus, 1982, lk. 181-209, korrigeeritud ja täiendatud lk. 162-164. - Lisa: Der baltische Appell von 1979 (Balti apell - Eest, Läti ja Leedu kodanike märgukiri, mis sisaldas nõuet avalikustada Molotovi-Ribbentropi pakt koos oma salaprotokollidega, kuulutada pakt kehtetuks selle allakirjutamise momendist peale ja taastada Balti riikide iseseisvus, avalikustati 23. aug. 1979) ; Offener Brief aus der Estnischen SSR (Avalik kiri Eest NSV-st, nn. 40 kiri, 28. okt. 1980)

  18. Die Frage der Menschenrechte in Estland, Lettland und Litauen / V. Stanley Vardys

    Index Scriptorium Estoniae

    Vardys, Vytas Stanley, 1924-1993

    1984-01-01

    Varem avaldatud: Acta Baltica : liber annalis Instituti Baltici. Vol. 22. - Königstein im Taunus, 1982, lk. 181-209, korrigeeritud ja täiendatud lk. 162-164. - Lisa: Der baltische Appell von 1979 (Balti apell - Eest, Läti ja Leedu kodanike märgukiri, mis sisaldas nõuet avalikustada Molotovi-Ribbentropi pakt koos oma salaprotokollidega, kuulutada pakt kehtetuks selle allakirjutamise momendist peale ja taastada Balti riikide iseseisvus, avalikustati 23. aug. 1979) ; Offener Brief aus der Estnischen SSR (Avalik kiri Eest NSV-st, nn. 40 kiri, 28. okt. 1980)

  19. Discovery of the chitinozoans Belonechitina capitata from the Shiala Formation of northeastern Garhwal-Kumaon Tethys Himalaya, Pithoragarh District, Uttrakhand, India

    Institute of Scientific and Technical Information of China (English)

    H.N. Sinha; Jacques Verniers

    2016-01-01

    Belonechitina capitata, a typically middle to late Ordovician chitinozoan index taxon was for the first time recovered from the northeastern Kumaon region, a part of Garhwal-Kumaon Tethys basin of the Himalaya, India. This species is of great biostratigraphic importance and has already been reported from Avalonia, Baltica and northern Gondwana. The study area was during Ordovician, part of a low-palaeolatitudinal Gondwana region. The vesicles of recovered forms are black and fragmentary. This is principally attributed to intense tectonic activity during the Himalayan orogenic movement which resulted into high thermal alteration. The chitinozoans are found along with melanosclerites.

  20. Epiphytic bacterial communities of the alga Fucus vesiculosus in oil-contaminated water areas of the Barents Sea.

    Science.gov (United States)

    Pugovkin, D V; Liaimer, A; Jensen, J B

    2016-11-01

    Taxonomic compositions of epiphytic bacterial communities in water areas differing in levels of oil pollution were revealed. In total, 82 bacterial genera belonging to 16 classes and 11 phyla were detected. All detected representatives of epiphytic bacterial communities belonged to the phyla Actinobacteria, Bacteroidetes, Planctomycetes, Proteobacteria, Verrucomicrobia, Acidobacteria, Cyanobacteria, Firmicutes, and Fusobacteria and candidate division TM7. The ratio of the phyla in the communities varied depending on the levels of oil pollution. New data on taxonomic composition of uncultivated epiphytic bacterial communities of Fucus vesiculosus were obtained.

  1. Short-term variation of nutritive and metabolic parameters in Temora longicornis females (Crustacea, Copepoda) as a response to diet shift and starvation

    Science.gov (United States)

    Kreibich, Tobias; Saborowski, Reinhard; Hagen, Wilhelm; Niehoff, Barbara

    2008-09-01

    Changes in fatty acid patterns, digestive and metabolic enzyme activities and egg production rates (EPR) were studied in the small calanoid copepod Temora longicornis. Female copepods were collected in spring 2005 off Helgoland (North Sea). In the laboratory one group of copepods was fed with the cryptophycean Rhodomonas baltica for a period of 3 days. Another group of copepods was maintained without food. According to the fatty acid patterns, animals from the field were feeding on a more detrital, animal-based and to a minor extent to a diatom-based diet. Under laboratory conditions, females rapidly accumulated fatty acids such as 18:4 (n-3), 18:3 (n-3) and 18:2 (n-6) which are specific of R. baltica. Diatom-specific fatty acids such as 16:1 (n-7) were strongly reduced. In fed animals the activities of digestive and metabolic enzymes remained constant and egg production rates were highest on day 2. Starving animals, in contrast, showed significantly reduced faecal pellet production and EPR. Proteolytic enzyme activity decreased rapidly within 24 h and remained at a low level until the end of the experiment. Citrate synthase decreased continuously as well. T. longicornis rapidly reacts to dietary changes and food depletion. It has limited energy stores and, thus, strongly depends on continuous food supply.

  2. Toxic effects of decomposing red algae on littoral organisms

    Science.gov (United States)

    Eklund, Britta; Svensson, Andreas P.; Jonsson, Conny; Malm, Torleif

    2005-03-01

    Large masses of filamentous red algae of the genera Polysiphonia, Rhodomela, and Ceramium are regularly washed up on beaches of the central Baltic Sea. As the algal masses start to decay, red coloured effluents leak into the water, and this tinge may be traced several hundred meters off shore. In this study, possible toxic effects of these effluents were tested on littoral organisms from different trophic levels. Effects on fertilisation, germination and juvenile survival of the brown seaweed Fucus vesiculosus were investigated, and mortality tests were performed on the crustaceans Artemia salina and Idotea baltica, as well as on larvae and adults of the fish Pomatoschistus microps. Fucus vesiculosus was the most sensitive species of the tested organisms to the red algal extract. The survival of F. vesiculosus recruits was reduced with 50% (LC50) when exposed to a concentration corresponding to 1.7 g l -1 dw red algae. The lethal concentration for I. baltica, A. salina and P. microps were approximately ten times higher. The toxicity to A. salina was reduced if the algal extract was left to decompose during two weeks but the decline in toxicity was not affected by different light or temperature conditions. This study indicates that the filamentous red algae in the central Baltic Sea may produce and release compounds with negative effects on the littoral ecosystem. The effects may be particularly serious for the key species F. vesiculosus, which reproduce in autumn when filamentous red algal blooms are most severe.

  3. New Paleomagnetic Justification for the Plate Tectonic Reconstruction of the Arctic

    Science.gov (United States)

    Metelkin, D. V.; Vernikovskiy, V. A.; Matushkin, N. Y.; Zhdanova, A.; Mikhaltsov, N. E.; Abashev, V. V.; Kulakov, E.

    2015-12-01

    We report paleomagnetic and geologic data that support a new plate tectonic reconstruction for the Arctic from the Neoproterozoic to Mesozoic. We propose a new outlook on the history of the Arctida paleocontinent, which combined sialic blocks of the present Eurasian shelf of the Arctic Ocean. Our model implies two Arctidas at that time. The earlier Arctida-I was located near equator and connected the continental margins of Laurentia, Baltica and Siberia within the supercontinent of Rodinia. The Arcrtida-I disintegration was caused by a breakup of Rodinia. As a result, small plates like on Svalbard, Kara, New Siberia Island (NSI) terrane and others were formed. We have reconstructed the main stages of later remobilization and global drift of these plates before Pangea assemblage. In contrast to traditional interpretation of the NSI as a part of the Chukchi-Alaska terrane, our observation suggest a linkage between the NSI and Kolyma-Omolon terrane that framed Siberia. As a result of Pangea assembly at Paleozoic-Mesozoic boundary the second recovery of Arctida took place. We assume that Arctida-II also connected Laurentia, Baltica, and Siberia but constituted the Pangean periphery in the temperate latitudes. The later Arctida-II disintegrated during the Mesozoic during the opening of Arctic Ocean.

  4. Platystrophia (Orthida and new related Ordovician and Early Silurian brachiopod genera

    Directory of Open Access Journals (Sweden)

    Harper, David A. T.

    2007-03-01

    Full Text Available More than 150 Ordovician and Early Silurian brachiopod species have been assigned to the genus Platystrophia King, 1850 mainly on the basis of their Spirifer-like shell exteriors. King’s concept of the genus was based on Platystrophia biforata King, which is not conspecific with Terebratulites biforatus Schlotheim, traditionally regarded as the type species of Platystrophia. Porambonites costatus Pander, 1830 is formally proposed as the type species of the genus to replace P. biforata; the latter is considered to be a nomen dubium. In our revised diagnosis, Platystrophia is restricted to a group of Arenig to upper Caradoc species from Baltica and Avalonia, whereas the Ashgill and lower Silurian taxa of these regions, hitherto assigned to Platystrophia, are placed in the new genus Neoplatystrophia. Platystrophia ponderosa Foerste, 1909 from the Upper Ordovician of North America is proposed as the type species of a new genus Vinlandostrophia. Two new species, Platystrophia baltica and Platystrophia pogrebovi from the Llanvirn–Caradoc of the East Baltic are also described.

  5. Early Cambrian wave-formed shoreline deposits: the Hardeberga Formation, Bornholm, Denmark

    Science.gov (United States)

    Clemmensen, Lars B.; Glad, Aslaug C.; Pedersen, Gunver K.

    2017-09-01

    During the early Cambrian, the Danish island Bornholm was situated on the northern edge of the continent Baltica with palaeolatitudes of about 35°S. An early Cambrian (Terreneuvian) transgression inundated large areas of Baltica including Bornholm creating shallow marine and coastline environments. During this period, wave-formed shoreline sediments (the Vik Member, Hardeberga Formation) were deposited on Bornholm and are presently exposed at Strøby quarry. The sediments consist of fine- and medium-grained quartz-cemented arenites in association with a few silt-rich mudstones. The presence of well-preserved subaqueous dunes and wave ripples indicates deposition in a wave-dominated upper shoreface (littoral zone) environment, and the presence of interference ripples indicates that the littoral zone environment experienced water level fluctuations due to tides and/or changing meteorological conditions. Discoidal structures (medusoids) are present in the quarry, but due to the relative poor preservation of their fine-scale structures it is difficult to determine if the discoids represent true medusae imprints or inorganic structures. The preservation of the shallow-water bedforms as well as the possible medusae imprints is related to either the formation of thin mud layers, formed during a period of calm water when winds blew offshore for a longer period, or to the growth of bacterial mats. The orientation of the wave-formed bedforms indicates a local palaeoshoreline trending NE-SW and facing a large ocean to the north.

  6. Mycorrhizal interactions of orchids colonizing Estonian mine tailings hills.

    Science.gov (United States)

    Shefferson, Richard P; Kull, Tiiu; Tali, Kadri

    2008-02-01

    Northeastern Estonia is home to extensive oil shale mines. Associated with these are desolate and environmentally damaging hills of ash and semicoke tailings. Interestingly, some of the first plants to colonize these hills are rare orchids. Here, we assess the identities of the mycorrhizal fungi associated with these orchids, in particular Epipactis atrorubens, Orchis militaris, and Dactylorhiza baltica, and compare them with mycorrhizal fungi from orchids from pristine habitat. Epipactis atrorubens associated with the widest breadth of fungi, including unnamed members of the basidiomycete family Tulasnellaceae and the potentially ectomycorrhizal ascomycetes Trichophaea woolhopeia and Geopora cooperi. Orchis militaris also associated with unnamed members of the Tulasnellaceae. Dactylorhiza baltica associated with Ceratobasidium albasitensis. In Epipactis and Orchis, the same fungi associated with plants in the pristine habitat as with those on ash hills. The tulasnelloid and ceratobasidioid fungi mycorrhizal with these orchids appear closely related to common orchid mycorrhizal fungi, while one of the ascomycetes mycorrhizal with E. atrorubens is closely related to a mycorrhizal fungus with E. microphylla. Our results suggest that these orchids and their fungi are not limited to pristine habitats and that environmentally polluted sites may present novel habitats that may be exploited for endangered plant conservation.

  7. Grazing preferences of marine isopods and amphipods on three prominent algal species of the Baltic Sea [rapid communication

    Science.gov (United States)

    Goecker, Margene E.; Kåll, Sara E.

    2003-12-01

    Preference tests were performed over a two-week period in September 2001 in which isopods ( Idotea baltica) and amphipods ( Gammarus oceanicus) were offered choices of three common species of algae from the Baltic Sea: Enteromorpha intestinalis, Cladophora spp., and Fucus vesiculosus. After a 48-hour starvation period, 20 individuals of each grazer species were placed in aquaria containing approximately 1.0 g of each algal species. Fifteen trials for each grazer species were run for 20 hours. We found that G. oceanicus ate significantly more Cladophora spp. and E. intestinalis than F. vesiculosus (p E. intestinalis> F. vesiculosus. Similarly, I. baltica ate significantly more of both the filamentous green algae than F. vesiculosus (p Cladophora spp.> F. vesiculosus. Given the preference of isopods and amphipods for filamentous green algae, we might expect these algae to be maintained at low biomass levels. However, this is clearly not the case in the Baltic Sea. Nutrient enrichment (bottom-up effects) is the accepted dominant reason for the non-controlling impact of algal grazers, but other reasons may include cascading trophic effects resulting from the removal of large piscivorous fish (top-down effects).

  8. Early Cambrian wave-formed shoreline deposits: the Hardeberga Formation, Bornholm, Denmark

    Science.gov (United States)

    Clemmensen, Lars B.; Glad, Aslaug C.; Pedersen, Gunver K.

    2016-09-01

    During the early Cambrian, the Danish island Bornholm was situated on the northern edge of the continent Baltica with palaeolatitudes of about 35°S. An early Cambrian (Terreneuvian) transgression inundated large areas of Baltica including Bornholm creating shallow marine and coastline environments. During this period, wave-formed shoreline sediments (the Vik Member, Hardeberga Formation) were deposited on Bornholm and are presently exposed at Strøby quarry. The sediments consist of fine- and medium-grained quartz-cemented arenites in association with a few silt-rich mudstones. The presence of well-preserved subaqueous dunes and wave ripples indicates deposition in a wave-dominated upper shoreface (littoral zone) environment, and the presence of interference ripples indicates that the littoral zone environment experienced water level fluctuations due to tides and/or changing meteorological conditions. Discoidal structures (medusoids) are present in the quarry, but due to the relative poor preservation of their fine-scale structures it is difficult to determine if the discoids represent true medusae imprints or inorganic structures. The preservation of the shallow-water bedforms as well as the possible medusae imprints is related to either the formation of thin mud layers, formed during a period of calm water when winds blew offshore for a longer period, or to the growth of bacterial mats. The orientation of the wave-formed bedforms indicates a local palaeoshoreline trending NE-SW and facing a large ocean to the north.

  9. [Investigation of the microbial diversity and structure of biological activated carbon from different sources in drinking water treatment process].

    Science.gov (United States)

    Du, Er-Deng; Zheng, Lu; Feng, Xin-Xin; Gao, Nai-Yun

    2014-11-01

    Restriction fragment length polymorphism (RFLP) technology was used to investigate the microbial diversity and structure of biological activated carbon (BAC) from different sources in drinking water advanced treatment process. Diversity indices of samples A, B and C, with relatively high tannic acid and humic acid adsorption capacity, were close to each other, which meant higher microbial diversity. However, samples D and E had relatively lower diversity indices with the low tannic acid and humic acid adsorption capacity. There were five species including β-Proteobacteria, α-Proteobacteria, Planctomycetes, γ-Proteobacteria, Bacteroidetes in the phylogenetic tree of BAC samples. Among them, β-Proteobacteria and α-Proteobacteria were the dominant microbial species in these BAC samples, which played an important role in organic matter removal. Planctomycetes, γ-Proteobacteria, and Bacteroidetes were the non-dominant microbial species. Bacteroidetes only existed in samples A, B, C and D, while did not occur in sample E. The BAC samples with the higher tannic acid and humic acid adsorption capacity had higher microbial diversity. This research should deepen the understanding of microbial community in BAC, and provide a theoretical basis for the safety of drinking water.

  10. Analysis of long-term performance and microbial community structure in bio-cathode microbial desalination cells.

    Science.gov (United States)

    Zhang, Huichao; Wen, Qinxue; An, Zhongyi; Chen, Zhiqiang; Nan, Jun

    2016-03-01

    A microbial desalination cell (MDC) could desalinate salt water without energy consumption and simultaneously generate bioenergy. Compared with an abiotic cathode MDC, an aerobic bio-cathode MDC is more sustainable and is less expensive to operate. In this study, the long-term operation (5500 h) performance of a bio-cathode MDC was investigated in which the power density, Coulombic efficiency, and salt removal rate were decreased by 71, 44, and 27 %, respectively. The primary reason for the system performance decrease was biofouling on the membranes, which increased internal resistance and reduced the ionic transfer and energy conversion efficiency. Changing membranes was an effective method to recover the MDC performance. The microbial community diversity in the MDC anode was low compared with that of the reported microbial fuel cell (MFC), while the abundance of Proteobacteria was 30 % higher. The content of Planctomycetes in the cathode biofilm sample was much higher than that in biofouling on the cation exchange membrane (CEM), indicating that Planctomycetes were relevant to cathode oxygen reduction.

  11. Nuclear Pore-Like Structures in a Compartmentalized Bacterium

    Science.gov (United States)

    Sagulenko, Evgeny; Green, Kathryn; Yee, Benjamin; Morgan, Garry; Leis, Andrew; Lee, Kuo-Chang; Butler, Margaret K.; Chia, Nicholas; Pham, Uyen Thi Phuong; Lindgreen, Stinus; Catchpole, Ryan; Poole, Anthony M.; Fuerst, John A.

    2017-01-01

    Planctomycetes are distinguished from other Bacteria by compartmentalization of cells via internal membranes, interpretation of which has been subject to recent debate regarding potential relations to Gram-negative cell structure. In our interpretation of the available data, the planctomycete Gemmata obscuriglobus contains a nuclear body compartment, and thus possesses a type of cell organization with parallels to the eukaryote nucleus. Here we show that pore-like structures occur in internal membranes of G.obscuriglobus and that they have elements structurally similar to eukaryote nuclear pores, including a basket, ring-spoke structure, and eight-fold rotational symmetry. Bioinformatic analysis of proteomic data reveals that some of the G. obscuriglobus proteins associated with pore-containing membranes possess structural domains found in eukaryote nuclear pore complexes. Moreover, immunogold labelling demonstrates localization of one such protein, containing a β-propeller domain, specifically to the G. obscuriglobus pore-like structures. Finding bacterial pores within internal cell membranes and with structural similarities to eukaryote nuclear pore complexes raises the dual possibilities of either hitherto undetected homology or stunning evolutionary convergence. PMID:28146565

  12. Analysis of genome content evolution in pvc bacterial super-phylum: assessment of candidate genes associated with cellular organization and lifestyle.

    Science.gov (United States)

    Kamneva, Olga K; Knight, Stormy J; Liberles, David A; Ward, Naomi L

    2012-01-01

    The Planctomycetes, Verrucomicrobia, Chlamydiae (PVC) super-phylum contains bacteria with either complex cellular organization or simple cell structure; it also includes organisms of different lifestyles (pathogens, mutualists, commensal, and free-living). Genome content evolution of this group has not been studied in a systematic fashion, which would reveal genes underlying the emergence of PVC-specific phenotypes. Here, we analyzed the evolutionary dynamics of 26 PVC genomes and several outgroup species. We inferred HGT, duplications, and losses by reconciliation of 27,123 gene trees with the species phylogeny. We showed that genome expansion and contraction have driven evolution within Planctomycetes and Chlamydiae, respectively, and balanced each other in Verrucomicrobia and Lentisphaerae. We also found that for a large number of genes in PVC genomes the most similar sequences are present in Acidobacteria, suggesting past and/or current ecological interaction between organisms from these groups. We also found evidence of shared ancestry between carbohydrate degradation genes in the mucin-degrading human intestinal commensal Akkermansia muciniphila and sequences from Acidobacteria and Bacteroidetes, suggesting that glycoside hydrolases are transferred laterally between gut microbes and that the process of carbohydrate degradation is crucial for microbial survival within the human digestive system. Further, we identified a highly conserved genetic module preferentially present in compartmentalized PVC species and possibly associated with the complex cell plan in these organisms. This conserved machinery is likely to be membrane targeted and involved in electron transport, although its exact function is unknown. These genes represent good candidates for future functional studies.

  13. Role of primary substrate composition on microbial community structure and function and trace organic chemical attenuation in managed aquifer recharge systems

    KAUST Repository

    Li, Dong

    2014-03-26

    This study was performed to reveal the microbial community characteristics in simulated managed aquifer recharge (MAR), a natural water treatment system, under different concentrations and compositions of biodegradable dissolved organic carbon (BDOC) and further link these to the biotransformation of emerging trace organic chemicals (TOrCs). Two pairs of soil-column setups were established in the laboratory receiving synthetic feed solutions composed of different peptone/humic acid ratios and concentrations. Higher BDOC concentration resulted in lower microbial community diversity and higher relative abundance of Betaproteobacteria. Decreasing the peptone/humic acid ratio resulted in higher diversity of the community and higher relative abundances of Firmicutes, Planctomycetes, and Actinobacteria. The metabolic capabilities of microbiome involved in xenobiotics biodegradation were significantly promoted under lower BDOC concentration and higher humic acid content. Cytochrome P450 genes were also more abundant under these primary substrate conditions. Lower peptone/humic acid ratios also promoted the attenuation of most TOrCs. These results suggest that the primary substrate characterized by a more refractory character could increase the relative abundances of Firmicutes, Planctomycetes, and Actinobacteria, as well as associated cytochrome P450 genes, all of which should play important roles in the biotransformation of TOrCs in this natural treatment system. © 2014 Springer-Verlag.

  14. New Paleomagnetic Constraints on the Proterozoic Supercontinent Evolution: A view from the South

    Science.gov (United States)

    Trindade, R. I.

    2013-05-01

    The assembly and disruption of supercontinents is thought to have impacted the long-term evolution of different envelopes of the Earth throughout Precambrian times, from mantle convection dynamics to feedback mechanisms leading to the stepwise change in atmospheric oxygenation. But the timing, duration, the size and the paleogeographic configuration of Precambrian supercontinents is still a matter of discussion. Large South American cratonic units (>30,000 km2) such as the Amazon, Rio de la Plata and São Francisco are usually represented as key pieces of different supercontinental assemblies but their paleomagnetic database is still scarce. The most important advances in the Precambrian paleomagnetic database concerns the Amazon Craton. Recent paleomagnetic studies allows one to track the participation of the Amazon Craton in several supercontinent assemblies from 2.0 Ga up to the end of the Proterozoic era. Amazonia was definitely part of the Columbia Supercontinent as attested by 1.78-1.79 Ga key poles. This supercontinent also comprised Laurentia, Baltica, North China, and Amazonia, forming a long and continuous landmass, linked by Paleo- to Mesoproterozoic mobile belts. Paleomagnetic data for Amazonia support a long-lived connection between Laurentia and Baltica at least until 1.26 Ga ago. However, new paleomagnetic poles from the same craton suggest that Columbia was in fact ephemerous, indicating a changing configuration between Amazonia and Baltica between 1.78 and 1.44 Ma. At the end of the Mesoproterozoic, the Amazon craton is part of Rodinia based on its record of Grenvillian events with overlapping ages with similar orogenic belts in eastern Laurentia. But its relative position in that supercontinent is still intensively debated. Presently only four poles for the Amazonian craton are available for the 1,200-900 Ma interval. Based on these results a dynamic model for the Amazonian craton was envisaged, which considers its oblique collision with southern

  15. Seismic structure across the Caledonian Deformation Front along MONA LISA profile 1 in the southeastern North Sea

    Science.gov (United States)

    Abramovitz, Tanni; Thybo, Hans; MONA LISA Working Group

    1998-03-01

    Seismic data from the MONA LISA (Marine and Onshore North Sea Acquisition for Lithospheric Seismic Analysis) project in the southeastern North Sea image the Caledonian Deformation Front (CDF), which is the collisional suture between Baltica to the north and east and Avalonia to the south and west. The NS-trending MONA LISA normal-incidence reflection profile 1 was recorded to 26 s twt. Coincident wide-angle data were acquired on nine ocean bottom hydrophones and several onshore mobile seismographs along and off the profile. The model of compressional seismic velocity shows three different crustal types: (a) a typical three-layered shield-type crust below the Ringkøbing Fyn High to the north: (b) a highly complex transitional crust in the central part; and (c) a two-layered crust of Caledonian origin to the south. Sharp and strong normal-incidence and wide-angle reflections from Moho were recorded south of the Caledonian Deformation Front in contrast to less distinct reflections further north. S-dipping crustal reflections from 4 to 11 s twt over ˜70 km horizontal distance terminate at Moho and coincide with a change in the seismic velocity structure. This indicates northward obduction of Avalonian crust. Non-migrated normal-incidence seismic sections show crossing weak N-dipping and stronger S-dipping reflections to 20 s twt from the uppermost mantle. We propose a tectonic model where the closure of the Tornquist Sea took place along a N-dipping subduction zone which was later overprinted by a late-or post-Caledonian S-dipping shear zone. Sub-Moho velocities are 7.8-7.9 km/s under 34-35-km-thick Baltica crust and 8.1-8.3 km/s under 25-26-km-thick Caledonian crust. The sub-horizontal Moho across the Caledonian collision zone implies late- or post-Caledonian re-equilibration of the seismological Moho. We interpret the low-velocity upper mantle (7.8-8.1 km/s) to the north as former Baltica lower crust in eclogite facies after pressure-induced metamorphism as a

  16. 冰鲜鸭加工车间的菌相变化分析%Microflora changes of chilled duck at processing plants

    Institute of Scientific and Technical Information of China (English)

    王华伟; 刘芳; 王道营; 诸永志; 徐幸莲; 徐为民

    2013-01-01

    应用传统微生物培养和聚合酶链反应-变性梯度凝胶电泳(PCR-DGGE)技术,综合分析冰鲜鸭加工中主要工序点的菌相变化.同时对车间环境包括车间空气、工人手面、案板、胴体表面以及预冷水进行污染调查,并通过PCR-DGGE研究车间环境菌种的多样性.结果表明:影响冰鲜鸭产品微生物污染状况的主要来源为净膛间,主要菌种有Aeromonas veronii、Macrococcus caseolyticus、Acinetobacter lwoffii、Shewanella baltica、Enhydrobacter aerosaccus、Rothia mucilaginosa以及Staphylococcus 属;直接来源为二阶预冷水,主要菌种为Aeromonas veronii、Enhydrobacter aerosaccus、Pseudomonas fluorescens、Shewanella baltica 和Acinetobacter lwoffii,与产品菌种组成相同.前区与后区的隔离对降低后区微生物污染起到关键作用,净膛工序和预冷工序是影响产品微生物指标的关键.%Assisted with traditional microbial culture and polymerase chain reaction-denaturing gradient gel electrophoresis ( PCR-DGGE) technology,the microflora changes of chilled duck at major processing steps were detected. The microbiological contamination of air, workers' hands, table, carcass surface and pre-chilling water was assayed with conventional culture method and the diversity of microbes was analyzed with PCR-DGGE technology. Taken together.it showed that the main contamination source of the product was eviscerating plant,with the major strains being Aeromonas veronii,Macrococcus caseolyticus,Acinetobacter lwoffii,Shewanella baltica, Enhydrobacter aerosaccus ,Rothia mucilaginosa and Staphylococcus, and the direct contamination source was the second stage pre-chilling water,with the major strains being Aeromonas veronii,Enhydrobacter aerosaccus,Pseudomonas fluorescens,Shewanella baltica and Acinetobacter Iwqffii, which were identical with the strain composition of the products. The separation of products between front area and back area had a critical effect on

  17. Crustal structure of the Trans-European suture zone region along POLONAISE'97 seismic profile P4

    Science.gov (United States)

    Grad, Marek; Jensen, Susanne L.; Keller, G. Randy; Guterch, Aleksander; Thybo, Hans; Janik, Tomasz; Tiira, Timo; Yliniemi, Jukka; Luosto, Urmas; Motuza, Gediminas; Nasedkin, Viktor; Czuba, Wojciech; GaczyńSki, Edward; ŚRoda, Piotr; Miller, Kate C.; Wilde-Piórko, Monika; Komminaho, Kari; Jacyna, Juozas; Korabliova, Larisa

    2003-11-01

    The large-scale POLONAISE'97 seismic experiment investigated the velocity structure of the crust and upper mantle in the Trans-European suture zone (TESZ) region between the Precambrian east European craton (EEC) and Paleozoic platform that comprises terranes added during the Caledonian and Variscan orogenies (530-370 and 370-225 Ma, respectively). This experiment included 64 shots recorded by 613 seismic stations during two deployments. Very good quality data were recorded along five profiles, and the longest and most important one (P4) is the focus of this paper. Clear first arrivals and later phases of waves reflected/refracted in the crust and Moho were interpreted using two-dimensional (2-D) tomographic inversion and ray-tracing techniques. The crustal thickness along the profile varies from 30-35 km in the Paleozoic platform area to ˜40 km below and due northeast of the TESZ, to ˜43 km in the Polish part of the EEC, and to ˜50 km in Lithuania. The Paleozoic platform and EEC are divided by the Polish basin, so the upper crustal structure varies considerably. In the area of the Polish basin, the P wave velocity is very low (VP < 6.1 km/s) down to depths of 15-20 km, indicating that a very thick sedimentary sequence is present. We suggest two possible tectonic interpretations of the velocity models: (1) Baltica indented Avalonia, obducting its upper crust and underthrusting its lower crust in a tectonic flake structure and (2) a rifted margin of Baltica underlies the Polish basin. This model is similar to other interpretations of seismic profiles recorded in the Baltic Sea. The second model implies that the Paleozoic platform solely consists of Avalonian lithosphere and the EEC of Baltica lithosphere. It offers a simple explanation of the difference in crustal thickness of the two platforms. It also implies that the Caledonian and Variscan orogenies in this area were relatively "soft" collisions that left this continental margin largely intact.

  18. 顺5孔的磁性地层学和早松山世的北京海侵

    Institute of Scientific and Technical Information of China (English)

    安芷生

    1979-01-01

    Vertically oriented samples collected from the care S-5 in the county of Shunyi,Beijing Plain, were measured on an astatic magnetometer, after demagnetized with a peak value of 150 or 200 Oe. The results have shown that the loose sediments up to a thickness of 640 m have recorded the Brunhes-Matuyama boundary at the depth of 160m, the Matuyama-Gauss boundary at the. depth of 468 m, and the short events corresponding to the polarity events during each epoch. 28 species of foraminiferal fossils were isolated from the sample at the depth of 428 m, 31% of this fauna is composed of planktonic foraminifera. Such an assemblage in dicates the warm, shallow-water, open-sea palaeoecological environments.According to the ages of magnetostratigraphic sequences, this marina bed composed of silts and sands with foraminiferal fossils marked by classical HyaliNea baltica,has been dated to be about 2.26 re.y, B.P., approximating the age of FAD of Hyalinea baltica in the section at Santa Maria in Italy (about 2.1 m.y.B. P). Its equivalent is also found in the other coree from the Beijing Plain. From these facts, it is postulatsd that during the early Matuyama epoch, an extensive transgression took place on the Beijing Plain. A new datum level of benthonic and planktonic foraminifera marked by the appearance of Hyalinea baltica has been found in Early Matuyama strata in the Beijing Plain. The first appearance of cold forms in the Vrica Section in Italy has been dated to be about 2:4 m.y.B.P. Based upon the up-to-date reports on calcareous nannoplankton, the interval of 2.3--1.6 m.y. is a distinet alternating stage in their evolution history. The climate in the Northern Hemisphere began to become obviously colder at about 2.5 m.y. ago. From the foregoing discussion, it is reasonable to set the Pliocene-Pleistoecne boundary in the Beijing Plain at the basal limit of the Matuyama epoch (2.43 m.y.).

  19. IDENTIFIKASI BAKTERI DARI IKAN TONGKOL (Euthynnus affinis YANG DIPERDAGANGKAN DI PASAR IKAN KEDONGANAN BALI

    Directory of Open Access Journals (Sweden)

    Gusti Ayu Dianti Violentina

    2016-06-01

    Full Text Available Ikan tongkol (Euthynnus affinis merupakan ikan konsumsi yang disukai masyarakat.Pengetahuan tentang bakteri yang ditemukan pada tubuh ikan ini sangat penting untuk tujuan kesehatan masyarakat dan kajian biologi ikan.  Penelitian ini bertujuan untuk mengidentifikasi bakteri yang berasosiasi dengan ikan tersebut.Bakteri dari usus ikan diambil secara aseptis dan ditumbuhkan pada Blood Agar dan Nutrient Broth. DNA total dari kultur agar cair diisolasi dengan chelax, gen 16S RNA diamplifikasi dengan PCR menggunakan primer universal dengan produk sekitar 1300 bp. Produk PCR dirunut dengan metode Big-Dye termination. Hasilnya disepadankan dan dianalisis dengan MEGA 6.0. Pada penelitian ini, 14 spesies bakteri yang memiliki > 99% kesamaan dengan data GenBankteridentifikasi, yaitu Photobacterium leiognathi, Uruburuella testudinis, Aeromonas molluscorum, Psychrobacter celer, Psychrobacer faecalis, Acinetobacter johnsonii, Vibrio gallicus, Bacillus megaterium, Vagococcus fessus, Shewanella baltica, Shewanella algae, Rothia nasimurium, Myroides phaeus dan Yersinia ruckeri. Peran bakteribakteri tersebut dalam biologi ikan dan kesehatan masyarakat perlu dikaji lebih lanjut.

  20. Asymmetrical magnetic fabrics in the Egersund doleritic dike swarm (SW Norway) reveal sinistral oblique rifting before the opening of the Iapetus

    Science.gov (United States)

    Montalbano, Salvatrice; Diot, Hervé; Bolle, Olivier

    2016-04-01

    The 616 ± 3 Ma (Ediacaran) Egersund doleritic dike swarm cuts across the Rogaland anorthosite province and its granulitic country rocks, in SW Norway. The structure of eight out of eleven main dikes of the swarm was investigated using the anisotropy of magnetic susceptibility (AMS) technique. Thermomagnetic data and values of the bulk magnetic susceptibility reveal a magnetic mineralogy dominated by Ti-poor titanomagnetite. Magnetic fabric and global petrofabric are coaxial, except in sites strongly affected by hydrothermal alteration, as demonstrated through image analysis. Asymmetrical dispositions of the magnetic foliation and lineation support the existence of a syn-emplacement, sinistral strike-slip shearing resolved on dike walls. Such asymmetrical fabrics are attributed to a transtension tectonic regime, in a context of oblique extension during the continental rifting phase which preceded the opening of the Iapetus Ocean along the SW margin (present-day orientation) of Baltica.

  1. TINTINNID CILIATES FROM QINGDAO (PROTOZOA, CILIOPHORA, TINTINNIDA)%青岛沿海砂壳纤毛虫(原生动物,纤毛门,砂纤目)

    Institute of Scientific and Technical Information of China (English)

    徐大鹏; 宋微波

    2005-01-01

    对采自青岛沿海的9属26种砂壳纤毛虫进行了形态学描述,其中11种为中国新纪录种:简单薄铃虫Leprotintinnus simplex Schmidt,1901,波特薄铃虫Leprotintinnus bottnicus(Nordqvist,1890)Jorgensen,1912,波罗的拟铃虫Tintinnopsis baltica Brandt,1896,长形拟铃虫Tintinnopsis elongata Daday,1887,盾形拟铃虫Tintinnopsis urnula Meunier,1910,弯叶拟铃虫Tintinnopsis lobiancoi Daday,1887,管状拟铃虫Tintinnopsis tubulosoides Meunier,1910,小拟铃虫Tintinnopsis minuta Wailes,1925,塔拉卡拟铃虫Favella taraikaensis Hada,1932,太平洋领细壳虫Stenosemella pacifica Kofoid et Campbell,1929和贪婪铃壳虫Codonella rapa Kofoid et Campbell,1929.

  2. Evaluation of 20 years of environmental monitoring data around Swedish nuclear installations.

    Science.gov (United States)

    Wallberg, Petra; Moberg, Leif

    2002-01-01

    Twenty years of environmental monitoring data around the Swedish nuclear power plants and the Studsvik research facilities have been evaluated. In the marine environment, Fucus vesiculosus generally has high activity concentrations and the presence of a large variety of radionuclides in comparison with other bioindicators. However, for single nuclides the detection frequency was higher for 110mAg in Littorina spp and for 152Eu in Macoma baltica in comparison with other bioindicators. Close to the discharge point the activity concentration of 60Co in F. vesiculosus and in the discharge water were correlated. In the terrestrial environment, few radionuclides were detected and the activity concentrations were generally low. Of the terrestrial indicators, mosses had the highest activity concentrations and also comprised the largest variety of radionuclides. The radiation doses to humans based on measurements of released activity were small. Based on the results from the evaluation, alternative sampling strategies for the monitoring program are discussed.

  3. Studies on woloszynskioid dinoflagellates IV: the genus Biecheleria gen. nov

    DEFF Research Database (Denmark)

    Moestrup, Øjvind; Lindberg, Karin; Daugbjerg, Niels

    2009-01-01

    The well known freshwater dinoflagellate Woloszynskia pseudopalustris is transferred to the new genus Biecheleria, based on the very unusual structure of the eyespot (comprising a stack of cisternae), the apical apparatus of a single elongate amphiesma vesicle, the structure of the resting cyst....... A new family, the Borghiellaceae, is proposed for the sister group to the Suessiaceae, based on eyespot structure (Type B of Moestrup and Daugbjerg), the morphology of the apical apparatus (if present), and molecular data. It presently comprises the genera Baldinia and Borghiella. Cells of Biecheleria...... pseudopalustris and B. baltica contain a microtubular strand (msp) associated with vesicles containing opaque material. Such structures are known in other dinoflagellates to serve as a peduncle, indicating that the two species may be mixotrophic....

  4. Muusika : Kremer tuleb üllatama. Bartokiga Pariisis. Raimo Kangro CD kiitvad arvustused. Festivalikorraldajad ühendavad jõud. EOÜ kolmas tegevusaasta. Jüri Pärg 50 aastat laval. Harri Vasar 75. Ernesaksa nimelised stipendiumid / Heili Vaus-Tamm

    Index Scriptorium Estoniae

    Vaus-Tamm, Heili, 1961-

    2001-01-01

    Tartus ja Tallinnas annab kontserte Gidon Kremer ja tema orkester Kremerata Baltica. 30.XI toimus Pariisis Liszti saalis HonEst Quintette debüütkontsert, kus kanti ette Bela Bartoki kammerloomingut. Saksa muusikaajakirjad Fono Forum ning Piano News arvustavad Raimo Kangro hiljuti välja antud CDd. 11.XII kohtusid kultuuriministeeriumis süvamuusikafestivalide korraldajad. 7.XII tuli EMA orelisaalis kokku Eesti Orelisõprade Ühingu aastakoosolek, juhatuse esimees A.-P. Lattik. Jüri Pärg märkis soolokontserdiga 25.XII Estonia talveaias oma 70. sünnipäeva ja 50 lava-aastat. Estonia talveaias meenutatukse Harri Vasarat, kes saanuks 75. aastaseks. 15.XII antakse TÜ aulas traditsioonilisel jõulukontserdil üle tänavused Gustav Ernesaksa nimelised stipendiumid.

  5. Dicty_cDB: Contig-U09690-1 [Dicty_cDB

    Lifescience Database Archive (English)

    Full Text Available :none) Burkholderia multivorans ATCC 1... 150 7e-44 CP000614_2259( CP000614 |pid:none) Burkholderia vietnam...:none) Burkholderia vietnamiensis G4 c... 111 4e-27 CP000926_2527( CP000926 |pid:none) Pseudomonas putida GB-1, co...:none) Shewanella frigidimarina NCIMB ... 127 3e-40 CP000753_848( CP000753 |pid:none) Shewanella baltica OS185, co...0 5e-34 AL939117_255( AL939117 |pid:none) Streptomyces coelicolor A3(2) co... 121...27 CP000438_2670( CP000438 |pid:none) Pseudomonas aeruginosa UCBPP-PA... 110 2e-27 CP000614_1053( CP000614 |pid

  6. About a peri-Gondwanan-North African enlarged acceptance of the Caledonian Orogeny

    Directory of Open Access Journals (Sweden)

    Ioan Balintoni

    2011-04-01

    Full Text Available The notion of “Caledonian Orogeny” is restricted by most authors to the Ordovician-Devonian thermotectonic events associated with the Laurentia-Baltica- Avalonia suturing. However, some views consider an orogeny as the sum of tectonic, metamorphic and magmatic events accompanying an entire supercontinent assembly or Wilson cycle. Following this line of thinking, the Caledonian and Variscan orogenies successively assembled Pangea. During the Ordovician Period, rifting, collision, deformation, metamorphism and magmatism took place within the Gondwana margin. All these events are known today in the basement of the Cadomian terranes from Iberia through the Alps up to the Romanian Carpathians and Balkans. We plead here for an enlargement of the “Caledonian Orogeny” terminology to these events and places, under the name of the “Caledonian North African orogenic event" or "Caledonian North African orogeny"

  7. Bioaccumulation of 51Cr, 63Ni and 14C in Baltic Sea benthos.

    Science.gov (United States)

    Kumblad, L; Bradshaw, C; Gilek, M

    2005-03-01

    The Baltic Sea is a species-poor, semi-enclosed, brackish sea, whose sediments contain a wide range of contaminants, including sediment-associated metals and radionuclides. In this study, we have examined and compared bioaccumulation kinetics and assimilation efficiencies of sediment-associated (51)Cr, (63)Ni and (14)C in three key benthic invertebrates (the deposit-feeding Monoporeia affinis, the facultative deposit-feeding Macoma baltica, and the omnivorous Halicryptus spinulosus). Our results demonstrate that (i) all radionuclides were accumulated, (ii) the different radionuclides were accumulated to various extents, (iii) small changes in organic carbon concentration can influence the accumulation, and (iv) the degree of accumulation differed only slightly between species. These processes, together with sediment resuspension and bioturbation, may remobilise trace metals from the sediment to the water and to higher trophic levels, and therefore should be taken into account in exposure models and ERAs.

  8. An autochthonous Avalonian basement source for the latest Ordovician Brenton Pluton in the Meguma terrane of Nova Scotia: U-Pb-Hf isotopic constraints and paleogeographic implications

    Science.gov (United States)

    Duncan Keppie, J.; Gregory Shellnutt, J.; Dostal, Jaroslav; Fraser Keppie, D.

    2017-06-01

    The Ediacaran-Ordovician Meguma Supergroup was thrust over Avalonia basement prior to the intrusion of post-Acadian, ca. 370 Ma, S-type granitic batholiths. This has led to two main hypotheses regarding the original location of the Meguma terrane, a continental rise prism bordering either NW Africa or Avalonia. On the other hand, the pre-Acadian, ca. 440 Ma Brenton pluton has yielded the following U/Pb LA-ICP-MS zircon data: (1) 448 ± 3 Ma population peak inferred to be the intrusive age and (2) ca. 550 and 700 Ma inherited ages common to both Avalonia and NW Africa. In contrast, Hf isotopic analyses of zircon yielded model ages ranging from 814 to 1127 Ma with most between 940 and 1040 Ma: such ages are typical of Avalonia and not NW Africa. The ages of the inherited zircons found within the Brenton pluton suggest that it was probably derived by partial melting of sub-Meguma, mid-crustal Avalonian rocks, upon which the Meguma Supergroup was deposited. Although Avalonia is commonly included in the peri-Gondwanan terranes off NW Africa or Amazonia, paleomagnetic data, faunal provinciality, and Hf data suggest that, during the Ediacaran-Early Cambrian, it was an island chain lying near the tropics (ca. 20-30 °S) and was possibly a continuation of the Bolshezemel volcanic arc accreted to northern Baltica during the Ediacaran Timanide orogenesis. This is consistent with the similar derital zircon population in the Ediacaran-Cambrian Meguma Supergroup and the Dividal Group in northeastern Baltica.

  9. Comparing the relative importance of water-borne cues and direct grazing for the induction of defenses in the brown seaweed Fucus vesiculosus.

    Science.gov (United States)

    Flöthe, Carla R; John, Uwe; Molis, Markus

    2014-01-01

    Some seaweed species have been shown to release water-borne cues after herbivore attack, for example, to attract natural enemies of the herbivore. These cues may also be sensed by neighboring seaweeds and used to adjust their defenses in anticipation of a possible herbivore attack. Several studies indicated information transfer between seaweed individuals in the past, including the brown seaweed Fucus vesiculosus. Previous work showed induction of defenses in F. vesiculosus in response to water-borne cues released by isopod-grazed conspecifics. In contrast, another study on induced responses after exposure to cues from isopod-grazed neighbors using the same seaweed species yielded contradictory results. This study reassessed the ability of F. vesiculosus individuals to sense water-borne cues released by isopod-grazed neighbors in a series of experiments that monitored F. vesiculosus palatability in response to direct grazing by Idotea baltica and water-borne cues from isopod-grazed neighbors relative to unmanipulated seaweed pieces. Two-choice feeding assays were conducted with both fresh and reconstituted seaweed pieces. Direct grazing by I. baltica induced a chemical defense in F. vesiculosus, confirming results of previous studies. In contrast, evidence for increased herbivore resistance in seaweed pieces that were located downstream of isopod-grazed F. vesiculosus could not be provided. The lack of defense induction in response to grazing of conspecific neighbors may be explained by the environmental conditions and the scattered distribution of F. vesiculosus individuals in the intertidal zone of Helgoland, which may render resource investment in the emission and/or response to water-borne cues at this site unprofitable.

  10. Comparing the relative importance of water-borne cues and direct grazing for the induction of defenses in the brown seaweed Fucus vesiculosus.

    Directory of Open Access Journals (Sweden)

    Carla R Flöthe

    Full Text Available Some seaweed species have been shown to release water-borne cues after herbivore attack, for example, to attract natural enemies of the herbivore. These cues may also be sensed by neighboring seaweeds and used to adjust their defenses in anticipation of a possible herbivore attack. Several studies indicated information transfer between seaweed individuals in the past, including the brown seaweed Fucus vesiculosus. Previous work showed induction of defenses in F. vesiculosus in response to water-borne cues released by isopod-grazed conspecifics. In contrast, another study on induced responses after exposure to cues from isopod-grazed neighbors using the same seaweed species yielded contradictory results. This study reassessed the ability of F. vesiculosus individuals to sense water-borne cues released by isopod-grazed neighbors in a series of experiments that monitored F. vesiculosus palatability in response to direct grazing by Idotea baltica and water-borne cues from isopod-grazed neighbors relative to unmanipulated seaweed pieces. Two-choice feeding assays were conducted with both fresh and reconstituted seaweed pieces. Direct grazing by I. baltica induced a chemical defense in F. vesiculosus, confirming results of previous studies. In contrast, evidence for increased herbivore resistance in seaweed pieces that were located downstream of isopod-grazed F. vesiculosus could not be provided. The lack of defense induction in response to grazing of conspecific neighbors may be explained by the environmental conditions and the scattered distribution of F. vesiculosus individuals in the intertidal zone of Helgoland, which may render resource investment in the emission and/or response to water-borne cues at this site unprofitable.

  11. Pre-Zechstein structures around the MONA LISA deep seismic lies in the southern Horn Graben area

    Energy Technology Data Exchange (ETDEWEB)

    Abramovitz, T.; Thybo, H. [Univ. of Copenhagen, Geol. Inst. (Denmark)

    1999-07-01

    Seismic reflection data from the Horn Graben area in the southeastern part of the North Sea, off-shore Denmark, have been interpreted to illustrate the upper crustal structures around the MONA LISA deep seismic lines. The study area comprises the southern Horn Graben area and the eastern part of East North Sea High, where the Caledonian collision suture between Baltica and Eastern Avalonia bends such that the strike direction changes from ESE in the south to NNW in the north. Integrated interpretation of normal-incidence reflection data and wide-angle refraction data reveals substantial occurrences of lower and upper Palaeozoic strata in the area, thickest below the Horn Graben. This may indicate that Horn Graben developed as a Graben structure during late Palaeozoic in the former Caledonian foredeep. On the northern and eastern parts of the MONA LISA deep seismic reflection lines 1 and 3, the main E- dipping boundary fault of the southern Horn Graben segment appears to be listric at depth with a sub-horizontal detachment at the top of the reflective lower crust. We have mapped the lateral extent of the lower Permian, volcanic Rotliegend reflector in the study area on the basis of seismic lines from the RTD-81 survey. Dipping reflections observed in the sedimentary strata below the Rotliegend reflector are interpreted as Caledonian structures generated by folding and deformation in Lower Palaeozoic Baltica shelf sediments in the Caledonian foreland basin. A sequence of S- and W-dipping reflections above 4 s twt are interpreted as preserved Caledonian thrusts in the upper crustal frontal part of the S W-dipping Caledonian Deformation Front. (au)

  12. Spatial pattern of occurrence of epiphytic lichens on oaks in a heterogeneous landscape

    Science.gov (United States)

    Westerberg, Lars M.; Muhammadi, Usman Haider; Bergman, Karl-Olof; Milberg, Per

    2017-10-01

    Quercus robur (oaks) provides an important substrate for many epiphytic lichens, and with increasing age the bark becomes suitable for some rare species. These species may respond to environmental and landscape factors differently, and at different spatial scales. We tested the effect of factors related to the individual tree and the surrounding landscape on the occurrence and richness patterns of lichens species. The study system consisted of 213 oaks selected in a grid system within a 400 km2 heterogeneous oak-rich area in south-eastern Sweden. Oaks had been selected to be relatively uniform in size (circumference 3.1-4.1 m), and as uniformly distributed as possible in the study area. Landscape factors were calculated for various spatial scales (circles with radius ranging from 28 to 1225 m from a studied oak). One of the landscape factors stands out as of general importance - oak density in the surrounding - while the others (amount of forest, water, houses and arable field) had no effects, or weak effects on only some species. Among the tree specific variables, circumference was consistently important (despite ranging from only 3.1-4.1 m) while inconsistent effects were seen by sun exposure of oak trunk (Chaenotheca phaeocephala, Ramalina baltica) and density of shrubs and trees near the tree (Ch. phaeocephala). The occurrence patterns of Cliostomum corrugatum, Ch. phaeocephala, R. baltica and richness (number of eleven target lichens) were best explained by the density of oaks within radii of 401, 199, 199 and 303 m, respectively. In conclusion, our study highlighted the importance of spatial scale for understanding the occurrence of epiphytic lichens and suggests spatial scales and oak densities that could be targeted for landscape and conservation planning.

  13. A true polar wander model for Neoproterozoic plate motions

    Energy Technology Data Exchange (ETDEWEB)

    Ripperdan, R.L. (Weizmann Inst. of Science, Rehovot (Israel))

    1992-01-01

    Recent paleogeographic reconstructions for the interval 750--500 Ma (Neoproterozoic to Late Cambrian) require rapid rates of plate motion and/or rotation around an equatorial Euler pole to accommodate reconstructions for the Early Paleozoic. Motions of this magnitude appear to be very uncommon during the Phanerozoic. A model for plate motions based on the hypothesis that discrete intervals of rapid true polar wander (RTPW) occurred during the Neoproterozoic can account for the paleogeographic changes with minimum amounts of plate motion. The model uses the paleogeographic reconstructions of Hoffman (1991). The following constraints were applied during derivation of the model: (1) relative motions between major continental units were restricted to be combinations of great circle or small circle translations with Euler poles of rotation = spin axis; (2) maximum rates of relative translational plate motion were 0.2 m/yr. Based on these constraints, two separate sets of synthetic plate motion trajectories were determined. The sequence of events in both can be summarized as: (1) A rapid true polar wander event of ca 90[degree] rafting a supercontinent to the spin axis; (2) breakup of the polar supercontinent into two fragments, one with the Congo, West Africa, Amazonia, and Baltica cratons, the other with the Laurentia, East Gondwana, and Kalahari cratons; (3) great circle motion of the blocks towards the equator; (4) small circle motion leading to amalgamation of Gondwana and separation of Laurentia and Baltica. In alternative 1, rifting initiates between East Antarctica and Laurentia and one episode of RTPW is required. Alternative 2 requires two episodes of RTPW; and that rifting occurred first along the eastern margin and later along the western margin of Laurentia. Synthetic plate motion trajectories are compared to existing paleomagnetic and geological data, and implications of the model for paleoclimatic changes during the Neoproterozoic are discussed.

  14. Age, distribution and style of deformation in Alaska north of 60°N: Implications for assembly of Alaska

    Science.gov (United States)

    Moore, Thomas E.; Box, Stephen E.

    2016-11-01

    The structural architecture of Alaska is the product of a complex history of deformation along both the Cordilleran and Arctic margins of North America involving oceanic plates, subduction zones and strike-slip faults and with continental elements of Laurentia, Baltica, and Siberia. We use geological constraints to assign regions of deformation to 14 time intervals and to map their distributions in Alaska. Alaska can be divided into three domains with differing deformational histories. Each domain includes a crustal fragment that originated near Early Paleozoic Baltica. The Northern domain experienced the Early Cretaceous Brookian orogeny, an oceanic arc-continent collision, followed by mid-Cretaceous extension. Early Cretaceous opening of the oceanic Canada Basin rifted the orogen from the Canadian Arctic margin, producing the bent trends of the orogen. The second (Southern) domain consists of Neoproterozoic and younger crust of the amalgamated Peninsular-Wrangellia-Alexander arc terrane and its paired Mesozoic accretionary prism facing the Pacific Ocean basin. The third (Interior) domain, situated between the first two domains and roughly bounded by the Cenozoic dextral Denali and Tintina faults, includes the large continental Yukon Composite and Farewell terranes having different Permian deformational episodes. Although a shared deformation that might mark their juxtaposition by collisional processes is unrecognized, sedimentary linkage between the two terranes and depositional overlap of the boundary with the Northern domain occurred by early Late Cretaceous. Late Late Cretaceous deformation is the first deformation shared by all three domains and correlates temporally with emplacement of the Southern domain against the remainder of Alaska. Early Cenozoic shortening is mild across interior Alaska but is significant in the Brooks Range, and correlates in time with dextral faulting, ridge subduction and counter-clockwise rotation of southern Alaska. Late Cenozoic

  15. A novel acidophile community populating waste ore deposits at an acid mine drainage site

    Institute of Scientific and Technical Information of China (English)

    HAO Chun-bo; ZHANG Hong-xun; BAI Zhi-hui; HU Qing; ZHANG Bao-guo

    2007-01-01

    Waste ore samples (pH 3.0) were collected at an acid mine drainage site in Anhui, China. The present acidophilic microbial community in the waste ore was studied with 16S rRNA gene clone library and denaturing gradient gel electrophoresis (DGGE). Eighteen different clones were identified and affiliated with Actinobacteria, low G + C Gram-positives, Thermomicrobia, Acidobacteria, Proteobacteria, Candidate division TM7, and Planctomycetes. Phylogenetic analysis of 16S rRNA gene sequences revealed a diversity of acidophiles in the samples that were mostly novel. It is unexpected that the moderately thermophilic acidophiles were abundant in the acidic ecosystem and may play a great role in the generation of AMD. The result of DGGE was consistent with that of clone library analysis. These findings help in the better understanding of the generation mechanism of AMD and in developing a more efficient method to control AMD.

  16. Pyrosequencing based profiling of the bacterial community in the Chilika Lake, the largest lagoon of India

    Directory of Open Access Journals (Sweden)

    Arnab Pramanik

    2015-06-01

    Full Text Available Brackish water lake is the most extraordinary reservoir for bacterial community with an adaptability of tolerance to saline stress. In the present study, metagenomic approach was implemented utilising 454-pyrosequencing platform to gain deeper insights into the bacterial diversity profile of the soil sediment of Chilika Lake, Odisha, India. Metagenome contained 68,150 sequences with 31,896,430 bp and 56.79% G+C content. Metagenome sequences data are now available at NCBI under the Sequence Read Archive (SRA database with accession no. SRX753382. Bacterial community metagenome sequences were analysed by MG-RAST server representing the presence of 16,212 species belonging to 45 different phyla. The dominating phyla were Proteobacteria, Chloroflexi, Firmicutes, Acidobacteria, Actinobacteria, Bacteroidetes and Planctomycetes. The analysis of bacterial community datasets obtained from two different saline soil sediments revealed significant differences in bacterial community composition and diversity value providing better understanding of the ecosystem dynamics of Chilika Lake.

  17. Temporal Patterns in Bacterioplankton Community Composition in Three Reservoirs of Similar Trophic Status in Shenzhen, China

    Directory of Open Access Journals (Sweden)

    Jiancheng Li

    2016-06-01

    Full Text Available The bacterioplankton community composition’s (BCC spatial and temporal variation patterns in three reservoirs (Shiyan, Xikeng, and LuoTian Reservoir of similar trophic status in Bao’an District, Shenzhen (China, were investigated using PCR amplification of the 16S rDNA gene and the denaturing gradient gel electrophoresis (DGGE techniques. Water samples were collected monthly in each reservoir during 12 consecutive months. Distinct differences were detected in band number, pattern, and density of DGGE at different sampling sites and time points. Analysis of the DGGE fingerprints showed that changes in the bacterial community structure mainly varied with seasons, and the patterns of change indicated that seasonal forces might have a more significant impact on the BCC than eutrophic status in the reservoirs, despite the similar Shannon-Weiner index among the three reservoirs. The sequences obtained from excised bands were affiliated with Cyanobacteria, Firmicutes, Bacteriodetes, Acidobacteria, Actinobacteria, Planctomycetes, and Proteobacteria.

  18. Application of a new purification method of West-Kazakhstan chestnut soil microbiota DNA for metagenomic analysis

    Science.gov (United States)

    Sergaliev, N. Kh.; Kakishev, M. G.; Zhiengaliev, A. T.; Volodin, M. A.; Andronov, E. E.; Pinaev, A. G.

    2015-04-01

    A method for the extraction of soil microbial DNA has been tested on chestnut soils (Kastanozems) of the West Kazakhstan region. The taxonomic analysis of soil microbiome libraries has shown that the phyla Actinobacteria and Proteobacteria constitute the largest part of microbial communities in the analyzed soils. The Archaea form an appreciable part of the microbiome in the studied samples. In the underdeveloped dark chestnut soil, their portion is higher than 11%. This is of interest, as the proportion of Archaea in the soil communities of virgin lands usually does not exceed 5%. In addition to the phyla mentioned above, there are representatives of the phyla Acidobacteria, Bacteroidetes, Firmicutes, Gemmatimonadales, Planctomycetes, and Verrucomicrobia, which are all fairly common in soil communities.

  19. Bacterial diversity in the sediments collected from the Shikoku Basin

    Institute of Scientific and Technical Information of China (English)

    MU Chunhua; BAO Zhenmin; CHEN Gang; HU Jingjie; HAO Lujiang; QI Zizhong; LI Guangxue

    2005-01-01

    Diversity of bacteria was studied in deep-sea sediments from the Shikoku Basin in the Northwest Pacific Ocean by PCR, RFLP and sequence analysis of 16S rDNA and comparing with Genbank database. Based on the RFLP profile generated, 77 clones from the 16S rDNA library were divided into 27 types. Phylogenetic analysis showed that the 27 independent clones fell into four groups: Proteobacteria (62.96%), Chloroflexi (14.81%), Planctomycetes (14.81%) and Acidobacteria (7.41%). Among all sequenced clones, 6 were related to the sulfur or sulfate metabolism bacteria and the results also demonstrated that some bacteria in deep-sea sediments had relation to matter-energy circulation.

  20. Bacterial reduction of mercury in the high arctic

    DEFF Research Database (Denmark)

    Møller, Annette Klæstrup

    from three snow depths and freshwater only showed a scattered representation of the phyla and genera in comparison to strains identified by culture independent methods. The microbial composition of all arctic sample sites was significantly different, with the two uppermost snow layers being most......, Bacteroidetes, Actinobacteria and Planctomycetes in freshwater. The bacteria identified in this study both included phylotypes commonly found in cold environments as well as rare phylotypes. During the time of sampling atmospheric ozone measurements and total Hg measurements in the snow indicated...... suggested that this may be important in the deeper snow layers. This highlights the importance of microbial mercury transformation in the biogeochemical mercury cycling in the High Arctic. While bacterial Hg reduction by the mercuric reductase, MerA, is widespread in temperate environments, its distribution...

  1. Bacterial diversity in sediments of core MD05-2902 from the Xisha Trough, the South China Sea

    Institute of Scientific and Technical Information of China (English)

    LI Tao; WANG Peng

    2014-01-01

    A sediment core MD05-2902 was collected from the deep-sea basin of the Xisha Trough. The vertical dis-tribution and diversity of bacteria in the core was investigated through ten sub-sampling with an interval of 1 m using bacterial 16S rRNA gene as a phylogenetic bio-marker. Eighteen phylogenetic groups were identified from 16S rRNA gene clone libraries. The dominant bacterial groups were JS1, Planctomycetes and Chloroflexi, which accounted for 30.6%, 16.6%, and 15.6%of bacterial clones in the libraries, respectively. In order to reveal the relationship between biotic and abiotic data, a nonmetric multidimensional scaling analysis was performed. The result revealed that theδ15N,δ13C, total organic carbon and total organic ni-trogen possibly influenced the bacterial community structure. This study expanded our knowledge of the biogeochemical cycling in the Xisha Trough sediment.

  2. [Diversity and viability of prokaryotes in primitive soils of the larsemann oasis (East Antarctica)].

    Science.gov (United States)

    Kudinova, A G; Lysak, L V; Lapygina, E V; Soina, V S; Mergelov, N S

    2015-01-01

    The diversity and viability of prokaryotic communities in the primitive organomineral soils of East Antarctica have been studied; it has been shown that the total number of bacteria is smaller than and the viability of bacteria is similar to that in soils of the temperate zone. The prokaryotic communities are characterized by the occurrence of a major part of cells in filterable forms, which is higher than the analogous parameter for the temperate soils. The method of fluorescence in situ hybridization (FISH) revealed that the distribution of the main taxons is similar to that in the temperate soils: the portion of the domain Archaea is smaller than that of the domain Bacteria; the total content of Gram-negative bacteria (the phyla Proteobacteria, Acidobacteria, and Planctomycetes) is higher than that of Gram-positive bacteria (Actinobacteria). Within the phylum Proteobacteria, a significant variation of three proteobacterial classes has been noted along the profiles of the soils studied.

  3. Analysis of oxygen reduction and microbial community of air-diffusion biocathode in microbial fuel cells.

    Science.gov (United States)

    Wang, Zejie; Zheng, Yue; Xiao, Yong; Wu, Song; Wu, Yicheng; Yang, Zhaohui; Zhao, Feng

    2013-09-01

    Microbes play irreplaceable role in oxygen reduction reaction of biocathode in microbial fuel cells (MFCs). In this study, air-diffusion biocathode MFCs were set up for accelerating oxygen reduction and microbial community analysis. Linear sweep voltammetry and Tafel curve confirmed the function of cathode biofilm to catalyze oxygen reduction. Microbial community analysis revealed higher diversity and richness of community in plankton than in biofilm. Proteobacteria was the shared predominant phylum in both biofilm and plankton (39.9% and 49.8%) followed by Planctomycetes (29.9%) and Bacteroidetes (13.3%) in biofilm, while Bacteroidetes (28.2%) in plankton. Minor fraction (534, 16.4%) of the total operational taxonomic units (3252) was overlapped demonstrating the disproportionation of bacterial distribution in biofilm and plankton. Pseudomonadales, Rhizobiales and Sphingobacteriales were exoelectrogenic orders in the present study. The research obtained deep insight of microbial community and provided more comprehensive information on uncultured rare bacteria.

  4. Evolutionary gradient of predicted nuclear localization signals (NLS)-bearing proteins in genomes of family Planctomycetaceae.

    Science.gov (United States)

    Guo, Min; Yang, Ruifu; Huang, Chen; Liao, Qiwen; Fan, Guangyi; Sun, Chenghang; Lee, Simon Ming-Yuen

    2017-04-04

    The nuclear envelope is considered a key classification marker that distinguishes prokaryotes from eukaryotes. However, this marker does not apply to the family Planctomycetaceae, which has intracellular spaces divided by lipidic intracytoplasmic membranes (ICMs). Nuclear localization signal (NLS), a short stretch of amino acid sequence, destines to transport proteins from cytoplasm into nucleus, and is also associated with the development of nuclear envelope. We attempted to investigate the NLS motifs in Planctomycetaceae genomes to demonstrate the potential molecular transition in the development of intracellular membrane system. In this study, we identified NLS-like motifs that have the same amino acid compositions as experimentally identified NLSs in genomes of 11 representative species of family Planctomycetaceae. A total of 15 NLS types and 170 NLS-bearing proteins were detected in the 11 strains. To determine the molecular transformation, we compared NLS-bearing protein abundances in the 11 representative Planctomycetaceae genomes with them in genomes of 16 taxonomically varied microorganisms: nine bacteria, two archaea and five fungi. In the 27 strains, 29 NLS types and 1101 NLS-bearing proteins were identified, principal component analysis showed a significant transitional gradient from bacteria to Planctomycetaceae to fungi on their NLS-bearing protein abundance profiles. Then, we clustered the 993 non-redundant NLS-bearing proteins into 181 families and annotated their involved metabolic pathways. Afterwards, we aligned the ten types of NLS motifs from the 13 families containing NLS-bearing proteins among bacteria, Planctomycetaceae or fungi, considering their diversity, length and origin. A transition towards increased complexity from non-planctomycete bacteria to Planctomycetaceae to archaea and fungi was detected based on the complexity of the 10 types of NLS-like motifs in the 13 NLS-bearing proteins families. The results of this study reveal that

  5. Differences between the rhizosphere microbiome of Beta vulgaris ssp. maritima-ancestor of all beet crops-and modern sugar beets.

    Science.gov (United States)

    Zachow, Christin; Müller, Henry; Tilcher, Ralf; Berg, Gabriele

    2014-01-01

    The structure and function of the plant microbiome is driven by plant species and prevailing environmental conditions. Effectuated by breeding efforts, modern crops diverge genetically and phenotypically from their wild relatives but little is known about consequences for the associated microbiota. Therefore, we studied bacterial rhizosphere communities associated with the wild beet B. vulgaris ssp. maritima grown in their natural habitat soil from coastal drift lines (CS) and modern sugar beets (Beta vulgaris ssp. vulgaris) cultivated in CS and potting soil (PS) under greenhouse conditions. Analysis of 16S rRNA gene fingerprints and pyrosequencing-based amplicon libraries revealed plant genotype- and soil-specific microbiomes. Wild beet plants harbor distinct operational taxonomic units (OTUs) and a more diverse bacterial community than the domesticated sugar beet plants. Although the rhizospheres of both plant genotypes were dominated by Proteobacteria and Planctomycetes, 37.5% of dominant OTUs were additionally detected in the wild beet rhizosphere. Analysis of the cultivable fraction confirmed these plant genotype-specific differences at functional level. The proportion of isolates displayed in vitro activity against phytopathogens was lower for wild beet (≤45.8%) than for sugar beet (≤57.5%). Conversely, active isolates from the wild beet exhibited stronger ability to cope with abiotic stresses. From all samples, active isolates of Stenotrophomonas rhizophila were frequently identified. In addition, soil type-specific impacts on the composition of bacterial communities were found: Acidobacteria, Chloroflexi, and Planctomycetes were only detected in plants cultivated in CS; whereas Bacteroidetes and Proteobacteria dominated in PS. Overall, in comparison to modern sugar beets, wild beets were associated with taxonomically and functionally distinct microbiomes.

  6. Diverse, uncultivated bacteria and archaea underlying the cycling of dissolved protein in the ocean.

    Science.gov (United States)

    Orsi, William D; Smith, Jason M; Liu, Shuting; Liu, Zhanfei; Sakamoto, Carole M; Wilken, Susanne; Poirier, Camille; Richards, Thomas A; Keeling, Patrick J; Worden, Alexandra Z; Santoro, Alyson E

    2016-09-01

    Dissolved organic nitrogen (DON) supports a significant amount of heterotrophic production in the ocean. Yet, to date, the identity and diversity of microbial groups that transform DON are not well understood. To better understand the organisms responsible for transforming high molecular weight (HMW)-DON in the upper ocean, isotopically labeled protein extract from Micromonas pusilla, a eukaryotic member of the resident phytoplankton community, was added as substrate to euphotic zone water from the central California Current system. Carbon and nitrogen remineralization rates from the added proteins ranged from 0.002 to 0.35 μmol C l(-1) per day and 0.03 to 0.27 nmol N l(-1) per day. DNA stable-isotope probing (DNA-SIP) coupled with high-throughput sequencing of 16S rRNA genes linked the activity of 77 uncultivated free-living and particle-associated bacterial and archaeal taxa to the utilization of Micromonas protein extract. The high-throughput DNA-SIP method was sensitive in detecting isotopic assimilation by individual operational taxonomic units (OTUs), as substrate assimilation was observed after only 24 h. Many uncultivated free-living microbial taxa are newly implicated in the cycling of dissolved proteins affiliated with the Verrucomicrobia, Planctomycetes, Actinobacteria and Marine Group II (MGII) Euryarchaeota. In addition, a particle-associated community actively cycling DON was discovered, dominated by uncultivated organisms affiliated with MGII, Flavobacteria, Planctomycetes, Verrucomicrobia and Bdellovibrionaceae. The number of taxa assimilating protein correlated with genomic representation of TonB-dependent receptor (TBDR)-encoding genes, suggesting a possible role of TBDR in utilization of dissolved proteins by marine microbes. Our results significantly expand the known microbial diversity mediating the cycling of dissolved proteins in the ocean.

  7. Assessing biosynthetic potential of agricultural groundwater through metagenomic sequencing: A diverse anammox community dominates nitrate-rich groundwater

    Science.gov (United States)

    Applegate, Olin; Li, Xunde; Kliegman, Joseph I.; Langelier, Charles; Atwill, Edward R.; Harter, Thomas; DeRisi, Joseph L.

    2017-01-01

    Background Climate change produces extremes in both temperature and precipitation causing increased drought severity and increased reliance on groundwater resources. Agricultural practices, which rely on groundwater, are sensitive to but also sources of contaminants, including nitrate. How agricultural contamination drives groundwater geochemistry through microbial metabolism is poorly understood. Methods On an active cow dairy in the Central Valley of California, we sampled groundwater from three wells at depths of 4.3 m (two wells) and 100 m (one well) below ground surface (bgs) as well as an effluent surface water lagoon that fertilizes surrounding corn fields. We analyzed the samples for concentrations of solutes, heavy metals, and USDA pathogenic bacteria of the Escherichia coli and Enterococcus groups as part of a long term groundwater monitoring study. Whole metagenome shotgun sequencing and assembly revealed taxonomic composition and metabolic potential of the community. Results Elevated nitrate and dissolved organic carbon occurred at 4.3m but not at 100m bgs. Metagenomics confirmed chemical observations and revealed several Planctomycete genomes, including a new Brocadiaceae lineage and a likely Planctomycetes OM190, as well novel diversity and high abundance of nano-prokaryotes from the Candidate Phyla Radiation (CPR), the Diapherotrites, Parvarchaeota, Aenigmarchaeota, Nanoarchaeota, Nanohaloarchaea (DPANN) and the Thaumarchaeota, Aigarchaeota, Crenarchaeota, Korarchaeota (TACK) superphyla. Pathway analysis suggests community interactions based on complimentary primary metabolic pathways and abundant secondary metabolite operons encoding antimicrobials and quorum sensing systems. Conclusions The metagenomes show strong resemblance to activated sludge communities from a nitrogen removal reactor at a wastewater treatment plant, suggesting that natural bioremediation occurs through microbial metabolism. Elevated nitrate and rich secondary metabolite

  8. Differences between the rhizosphere microbiome of Beta vulgaris ssp. maritima - ancestor of all beet crops - and modern sugar beets

    Directory of Open Access Journals (Sweden)

    Christin eZachow

    2014-08-01

    Full Text Available The structure and function of the plant microbiome is driven by plant species and prevailing environmental conditions. Effectuated by breeding efforts, modern crops diverge genetically and phenotypically from their wild relatives but little is known about consequences for the associated microbiota. Therefore, we studied bacterial rhizosphere communities associated with the wild beet B. vulgaris ssp. maritima grown in their natural habitat soil from coastal drift lines (CS and modern sugar beets (Beta vulgaris ssp. vulgaris cultivated in CS and potting soil (PS under greenhouse conditions. Analysis of 16S rRNA gene fingerprints and pyrosequencing-based amplicon libraries revealed plant genotype- and soil-specific microbiomes. Wild beet plants harbor distinct operational taxonomic units (OTUs and a more diverse bacterial community than the domesticated sugar beet plants. Although the rhizospheres of both plant genotypes were dominated by Proteobacteria and Planctomycetes, 47.4% of dominant OTUs were additionally detected in the wild beet rhizosphere. Analysis of the cultivable fraction confirmed these plant genotype-specific differences at functional level. The proportion of isolates displayed in vitro activity against phytopathogens was lower for wild beet (≤45.8% than for sugar beet (≤57.5%. Conversely, active isolates from the wild beet exhibited stronger ability to cope with abiotic stresses. From all samples, active isolates of Stenotrophomonas rhizophila were frequently identified. In addition, soil type-specific impacts on the composition of bacterial communities were found: Acidobacteria, Chloroflexi, and Planctomycetes were only detected in plants cultivated in CS; whereas Bacteroidetes and Proteobacteria dominated in PS. Overall, in comparison to modern sugar beets, wild beets were associated with taxonomically and functionally distinct microbiomes.

  9. The S-Layer Protein of the Anammox Bacterium Kuenenia stuttgartiensis Is Heavily O-Glycosylated.

    Science.gov (United States)

    van Teeseling, Muriel C F; Maresch, Daniel; Rath, Cornelia B; Figl, Rudolf; Altmann, Friedrich; Jetten, Mike S M; Messner, Paul; Schäffer, Christina; van Niftrik, Laura

    2016-01-01

    Anaerobic ammonium oxidation (anammox) bacteria are a distinct group of Planctomycetes that are characterized by their unique ability to perform anammox with nitrite to dinitrogen gas in a specialized organelle. The cell of anammox bacteria comprises three membrane-bound compartments and is surrounded by a two-dimensional crystalline S-layer representing the direct interaction zone of anammox bacteria with the environment. Previous results from studies with the model anammox organism Kuenenia stuttgartiensis suggested that the protein monomers building the S-layer lattice are glycosylated. In the present study, we focussed on the characterization of the S-layer protein glycosylation in order to increase our knowledge on the cell surface characteristics of anammox bacteria. Mass spectrometry (MS) analysis showed an O-glycan attached to 13 sites distributed over the entire 1591-amino acid S-layer protein. This glycan is composed of six monosaccharide residues, of which five are N-acetylhexosamine (HexNAc) residues. Four of these HexNAc residues have been identified as GalNAc. The sixth monosaccharide in the glycan is a putative dimethylated deoxyhexose. Two of the HexNAc residues were also found to contain a methyl group, thereby leading to an extensive degree of methylation of the glycan. This study presents the first characterization of a glycoprotein in a planctomycete and shows that the S-layer protein Kustd1514 of K. stuttgartiensis is heavily glycosylated with an O-linked oligosaccharide which is additionally modified by methylation. S-layer glycosylation clearly contributes to the diversification of the K. stuttgartiensis cell surface and can be expected to influence the interaction of the bacterium with other cells or abiotic surfaces.

  10. Anammox bacteria and the anaerobic oxidation of ammonium in the oxygen minimum zone off northern Chile

    Science.gov (United States)

    Galán, Alexander; Molina, Verónica; Thamdrup, Bo; Woebken, Dagmar; Lavik, Gaute; Kuypers, Marcel M. M.; Ulloa, Osvaldo

    2009-07-01

    Anammox is the anaerobic oxidation of ammonium by nitrite or nitrate to yield N 2. This process, along with conventional denitrification, contributes to nitrogen loss in oxygen-deficient systems. Anammox is performed by a special group of bacteria belonging to the Planctomycetes phylum. However, information about the distribution, activity, and controlling factors of these anammox bacteria is still limited. Herein, we examine the phylogenetic diversity, vertical distribution, and activity of anammox bacteria in the coastal upwelling region and oxygen minimum zone off northern Chile. The phylogeny of anammox bacteria was studied using primers designed to specifically target 16S rRNA genes from Planctomycetes in samples taken during a cruise in 2004. Anammox bacteria-like sequences affiliated with Candidatus "Scalindua spp." dominated the 16S rRNA gene clone library. However, 62% of the sequences subgrouped separately within this cluster and together with a single sequence retrieved from the suboxic zone of the freshwater Lake Tanganyika. The vertical distribution and activity of anammox bacteria were explored through CARD-FISH (fluorescence in situ hybridization with catalyzed reporter deposition) and 15N labeling incubations, respectively, at two different open-ocean stations during a second cruise in 2005. Anammox bacterial CARD-FISH counts (up to 3000 cells ml -1) and activity (up to 5.75 nmol N 2 L -1 d -1) were only detected at the station subjected directly to the upwelling influence. Anammox cell abundance and activity were highest at 50 m depth, which is the upper part of the OMZ. In this layer, a high abundance of cyanobacteria and a marked nitrogen deficit were also observed. Thus, our results show the presence of a new subcluster within the marine anammox phylogeny and indicate high vertical variability in the abundance and activity of anammox bacteria that could be related to an intensification of carbon and nitrogen cycling in the upper part of the OMZ.

  11. Differences between the rhizosphere microbiome of Beta vulgaris ssp. maritima—ancestor of all beet crops—and modern sugar beets

    Science.gov (United States)

    Zachow, Christin; Müller, Henry; Tilcher, Ralf; Berg, Gabriele

    2014-01-01

    The structure and function of the plant microbiome is driven by plant species and prevailing environmental conditions. Effectuated by breeding efforts, modern crops diverge genetically and phenotypically from their wild relatives but little is known about consequences for the associated microbiota. Therefore, we studied bacterial rhizosphere communities associated with the wild beet B. vulgaris ssp. maritima grown in their natural habitat soil from coastal drift lines (CS) and modern sugar beets (Beta vulgaris ssp. vulgaris) cultivated in CS and potting soil (PS) under greenhouse conditions. Analysis of 16S rRNA gene fingerprints and pyrosequencing-based amplicon libraries revealed plant genotype- and soil-specific microbiomes. Wild beet plants harbor distinct operational taxonomic units (OTUs) and a more diverse bacterial community than the domesticated sugar beet plants. Although the rhizospheres of both plant genotypes were dominated by Proteobacteria and Planctomycetes, 37.5% of dominant OTUs were additionally detected in the wild beet rhizosphere. Analysis of the cultivable fraction confirmed these plant genotype-specific differences at functional level. The proportion of isolates displayed in vitro activity against phytopathogens was lower for wild beet (≤45.8%) than for sugar beet (≤57.5%). Conversely, active isolates from the wild beet exhibited stronger ability to cope with abiotic stresses. From all samples, active isolates of Stenotrophomonas rhizophila were frequently identified. In addition, soil type-specific impacts on the composition of bacterial communities were found: Acidobacteria, Chloroflexi, and Planctomycetes were only detected in plants cultivated in CS; whereas Bacteroidetes and Proteobacteria dominated in PS. Overall, in comparison to modern sugar beets, wild beets were associated with taxonomically and functionally distinct microbiomes. PMID:25206350

  12. Diversity and abundance of the bacterial community of the red Macroalga Porphyra umbilicalis: did bacterial farmers produce macroalgae?

    Directory of Open Access Journals (Sweden)

    Lilibeth N Miranda

    Full Text Available Macroalgae harbor microbial communities whose bacterial biodiversity remains largely uncharacterized. The goals of this study were 1 to examine the composition of the bacterial community associated with Porphyra umbilicalis Kützing from Schoodic Point, ME, 2 determine whether there are seasonal trends in species diversity but a core group of bacteria that are always present, and 3 to determine how the microbial community associated with a laboratory strain (P.um.1 established in the presence of antibiotics has changed. P. umbilicalis blades (n = 5, fall 2010; n = 5, winter 2011; n = 2, clonal P.um.1 were analyzed by pyrosequencing over two variable regions of the 16 S rDNA (V5-V6 and V8; 147,880 total reads. The bacterial taxa present were classified at an 80% confidence threshold into eight phyla (Bacteroidetes, Proteobacteria, Planctomycetes, Chloroflexi, Actinobacteria, Deinococcus-Thermus, Firmicutes, and the candidate division TM7. The Bacteroidetes comprised the majority of bacterial sequences on both field and lab blades, but the Proteobacteria (Alphaproteobacteria, Gammaproteobacteria were also abundant. Sphingobacteria (Bacteroidetes and Flavobacteria (Bacteroidetes had inverse abundances on natural versus P.um.1 blades. Bacterial communities were richer and more diverse on blades sampled in fall compared to winter. Significant differences were observed between microbial communities among all three groups of blades examined. Only two OTUs were found on all 12 blades, and only one of these, belonging to the Saprospiraceae (Bacteroidetes, was abundant. Lewinella (as 66 OTUs was found on all field blades and was the most abundant genus. Bacteria from the Bacteroidetes, Proteobacteria and Planctomycetes that are known to digest the galactan sulfates of red algal cell walls were well-represented. Some of these taxa likely provide essential morphogenetic and beneficial nutritive factors to P. umbilicalis and may have had

  13. Effects of nutritional input and diesel contamination on soil enzyme activities and microbial communities in Antarctic soils.

    Science.gov (United States)

    Han, Jiwon; Jung, Jaejoon; Hyun, Seunghun; Park, Hyun; Park, Woojun

    2012-12-01

    Pollution of Antarctic soils may be attributable to increased nutritional input and diesel contamination via anthropogenic activities. To investigate the effect of these environmental changes on the Antarctic terrestrial ecosystem, soil enzyme activities and microbial communities in 3 types of Antarctic soils were evaluated. The activities of alkaline phosphomonoesterase and dehydrogenase were dramatically increased, whereas the activities of β-glucosidase, urease, arylsulfatase, and fluorescein diacetate hydrolysis were negligible. Alkaline phosphomonoesterase and dehydrogenase activities in the 3 types of soils increased 3- to 10-fold in response to nutritional input, but did not increase in the presence of diesel contamination. Consistent with the enzymatic activity data, increased copy numbers of the phoA gene, encoding an alkaline phosphomonoesterase, and the 16S rRNA gene were verified using quantitative real-time polymerase chain reaction. Interestingly, dehydrogenase activity and 16S rRNA gene copy number increased slightly after 30 days, even under diesel contamination, probably because of adaptation of the bacterial population. Intact Antarctic soils showed a predominance of Actinobacteria phylum (mostly Pseudonorcarida species) and other phyla such as Proteobacteria, Chloroflexi, Planctomycetes, Firmicutes, and Verrucomicrobia were present in successively lower proportions. Nutrient addition might act as a selective pressure on the bacterial community, resulting in the prevalence of Actinobacteria phylum (mostly Arthrobacter species). Soils contaminated by diesel showed a predominance of Proteobacteria phylum (mostly Phyllobacterium species), and other phyla such as Actinobacteria, Bacteroidetes, Planctomycetes, and Gemmatimonadetes were present in successively lower proportions. Our data reveal that nutritional input has a dramatic impact on bacterial communities in Antarctic soils and that diesel contamination is likely toxic to enzymes in this

  14. Soil microbiome responses to the short-term effects of Amazonian deforestation.

    Science.gov (United States)

    Navarrete, Acacio A; Tsai, Siu M; Mendes, Lucas W; Faust, Karoline; de Hollander, Mattias; Cassman, Noriko A; Raes, Jeroen; van Veen, Johannes A; Kuramae, Eiko E

    2015-05-01

    Slash-and-burn clearing of forest typically results in increase in soil nutrient availability. However, the impact of these nutrients on the soil microbiome is not known. Using next generation sequencing of 16S rRNA gene and shotgun metagenomic DNA, we compared the structure and the potential functions of bacterial community in forest soils to deforested soils in the Amazon region and related the differences to soil chemical factors. Deforestation decreased soil organic matter content and factors linked to soil acidity and raised soil pH, base saturation and exchangeable bases. Concomitant to expected changes in soil chemical factors, we observed an increase in the alpha diversity of the bacterial microbiota and relative abundances of putative copiotrophic bacteria such as Actinomycetales and a decrease in the relative abundances of bacterial taxa such as Chlamydiae, Planctomycetes and Verrucomicrobia in the deforested soils. We did not observe an increase in genes related to microbial nutrient metabolism in deforested soils. However, we did observe changes in community functions such as increases in DNA repair, protein processing, modification, degradation and folding functions, and these functions might reflect adaptation to changes in soil characteristics due to forest clear-cutting and burning. In addition, there were changes in the composition of the bacterial groups associated with metabolism-related functions. Co-occurrence microbial network analysis identified distinct phylogenetic patterns for forest and deforested soils and suggested relationships between Planctomycetes and aluminium content, and Actinobacteria and nitrogen sources in Amazon soils. The results support taxonomic and functional adaptations in the soil bacterial community following deforestation. We hypothesize that these microbial adaptations may serve as a buffer to drastic changes in soil fertility after slash-and-burning deforestation in the Amazon region. © 2015 John Wiley & Sons Ltd.

  15. Formation, obduction and provenance of the Støren-Bymarka-Løkken ophiolite, Central Norwegian Caledonides; constraints from geochronology, geochemistry, Sm-Nd and Lu-Hf data

    Science.gov (United States)

    Slagstad, T.; Pin, C.; Roberts, D.; Kirkland, C. L.; Grenne, T.; Dunning, G.; Sauer, S.; Andersen, T.

    2012-04-01

    Suprasubduction-zone ophiolites are a characteristic feature of the Palaeozoic Caledonian-Appalachian orogenic belt, and mark the onset of convergence and closure of one or more oceans separating the Baltican, Laurentian and Avalonian continents, ending with continent-continent collision in the Mid Palaeozoic. The Bymarka-Løkken ophiolite in the Central Norwegian Caledonides is a variably tectonised ophiolite fragment, locally with an incomplete, but nevertheless well-preserved ophiolite pseudostratigraphy. Previous work has concluded that the ophiolite formed in an Early Ordovician suprasubduction-zone environment, most likely in an oceanic arc/back-arc basin system, but little is know about the evolution of the ophiolitic crust. There has also been some debate as to the whether obduction of the ophiolite upon the subjacent Gula Complex was onto Laurentia, Baltica, or a microcontinent of Baltican affinity. Here we present new, high-precision TIMS and SHRIMP zircon analyses from felsic rocks in the ophiolite. Combined with geochemical and Sm-Nd whole-rock and Lu-Hf zircon analyses from the same rocks, these data allow us to elucidate the timing of various stages in the evolution of the ophiolite. Plagiogranite bodies range in age from 493 to 480 Ma and have relatively juvenile isotopic compositions. Geochemical data suggest subduction-zone influence and we interpret this stage to represent formation of the ophiolite in an oceanic back-arc setting. At 480 Ma, a large granitoid body with an unradiogenic isotopic composition and strong subduction-zone geochemical signature intruded the ophiolite. We interpret this stage to reflect convergence in the back-arc basin and formation or migration of an oceanic arc. The unradiogenic isotopic composition probably reflects subduction of back-arc basin crust with sediments derived from the nearby continent or microcontinent. At 480-470 Ma, a greenstone-dominated conglomerate and an overlying volcaniclastic sequence was

  16. Controls of late Palaeozoic and Mesozoic extension in the British Isles: evidence from seismic reflection data in the Central North Sea

    Science.gov (United States)

    Smith, K.; Cameron, T. D. J.

    2009-04-01

    Controls of late Palaeozoic and Mesozoic extension in the British Isles: evidence from seismic reflection data in the Central North Sea. Kevin Smith (1) and Don Cameron (2) (1) British Geological Survey, Murchison House, West Mains Road, Edinburgh, EH9 3LA. (ksm@bgs.ac.uk). (2) British Geological Survey, 376 Gilmerton Road, Edinburgh, EH17 7QS. In the area of the British Isles during the late Devonian and early Carboniferous, the oblique convergence of Laurentia and Gondwana imposed a torque on the adjoining terranes of Baltica and Avalonia. Their resulting clockwise rotation was accommodated by widely distributed N-S extension in the intervening zones previously formed by Caledonian and Acadian convergence. South of Laurentia and Baltica, late Palaeozoic extension was focused (1) at terrane margins, (2) in areas of limited Caledonian-Acadian plutonism, and (3) in places where the western (Iapetus) and eastern (Tornquist) convergence zones intersect at a high angle. One of these latter areas lies in Central England immediately north of the Midland Microcraton (part of Eastern Avalonia), where thermal subsidence associated with early Carboniferous extension gave rise to the late Carboniferous Pennine Basin. Interpretation of an extensive set of 3D and 2D long-offset seismic reflection data suggests that a similar area of enhanced extension at a fold belt intersection lies to north of the Mid North Sea High in the middle of the Central North Sea. Variscan uplift and inversion of the late Palaeozoic basins began to predominate in mid-Carboniferous times as final amalgamation of all the different terranes to form Pangaea curtailed the initial episode of extension and thermal subsidence. This change in the tectonic regime was associated with the onset of tholeiitic volcanism within the convergence zones, and was followed by localised extension during the earliest Permian. Evidence obtained from seismic interpretation of the deep structure of the UK sector of the Central

  17. 乌江网箱养殖丁(魚歲)细菌的分离与分子鉴定%Isolation and Molecular Identification of Bacteria from Tinca tinca Linnaeus of Net Cage Culture in the Wujiang River

    Institute of Scientific and Technical Information of China (English)

    李顺; 王庆容

    2009-01-01

    利用微生物学常用的细菌分离、纯化方法从丁(魚歲)中分离出9株菌株,编号分别为Ⅰ、Ⅱ、Ⅲ、Ⅳ、Ⅴ、Ⅵ、Ⅶ、Ⅷ、Ⅸ.分别扩增出9株菌株的16S rRNA基因约600 bp的片段,并对其测序,将测序结果输入到NCBI(http://www.ncbi.nlm.nih.gov/)中,用BLAST工具对序列进行同源性比对分析,并利用MEGA4绘制系统进化树,结果表明:9株菌株的16S rRNA基因测序结果分别与不动杆菌(Acinetobacter)、嗜水气单胞菌(Aeromonas hydrophi-la)、希瓦氏菌(Shewanella baltica)、不动杆菌(Acinetobacter)、希瓦氏菌(Shewanella baltica)、霍乱弧菌(Vibriocholerae)、枯草芽孢杆菌(Bacillus subtilis)、杀鲑气单胞菌(Aeromonas salmonicida)、肺炎克雷伯氏菌(Klebsiellapneumoniae)的16S rRNA基因的核苷酸序列同源,同源性分别为96%,99%,99%,97%,98%,98%,99%,98%,98%.9株菌株的系统进化树明显分为3支,Ⅰ和Ⅳ聚为一支,Ⅶ独聚一支,Ⅱ、Ⅲ、Ⅴ、Ⅵ、Ⅷ、Ⅸ聚为一支,其中Ⅱ和Ⅷ相聚,Ⅲ和Ⅴ相聚后再与Ⅵ相聚,最后与Ⅸ相聚.%The present experiment was undertaken with the tranditional microbiology method to isolate the bacteria from Tinca tinca Linnaeus of net cage culture in Wujiang River and 9 strains were isolated. The numbers of 9 strains were Ⅰ, Ⅱ, Ⅲ, Ⅳ, Ⅴ, Ⅵ, Ⅶ, Ⅷ, Ⅸ respectively and the 600bp fragments of 16S rRNA gene of nine strains were amplificated by PCR methold. These 600bp sequences were successfully sequenced and were entered into the NCBI (http://www. ncbi. nlm. nih. gov/). Objective to analyse the homology, BLAST tool was used and the Phylogenetic tree of the nine strains was constructed by the soft-ware of MEGA4. The results indicated that: the sequencing results of 16S rRNA gene of 9 strains have homology with the 16S rRNA gene nucleotide sequence of Acinetobacter, Aeromonas hydrophila, Shewanella baltica, Acinetobacter, Shewanella bahica, Vibrio cholerae, Bacillus subtilis, Aeromonas

  18. Did Iapetus Closure Expose Clues to Massif-type Anorthosite Paragenesis?

    Science.gov (United States)

    Trzcienski, W. E.

    2004-05-01

    The closure of the Iapetus ocean in Early Paleozoic time thrust highly dismembered but symmetrically disposed nappes of ultramafic material upon the Precambrian Laurentia (Northern Appalachians) and Baltica (Norway) margins. On Laurentia and Baltica these ultramafic rocks occur outboard of numerous "Grenville-age" anorthosites. Although serpentinized to varying degrees, many of these ultramafic bodies retain vestiges of their igneous origin: layering, chromitite layers sandwiching anorthosite, and large anorthosite blocks floating in serpentine. In addition, associated with many of these ultramafites are high-grade assemblages (granulite and eclogite facies) suggesting a deep crustal origin. At Mt Albert in the Gaspe peninsula, Quebec, zircons extracted from an Fe-Ti-oxide-bearing orthopyroxenite yield SHRIMP II rim ages of 457 ± $10 Ma that are the same as Ar40/Ar39 metamorphic ages (454-459 Ma) for amphiboles and micas (Pincivy et al., 2003) in rocks below the Mt Albert nappe. Core ages of these zircons, in contrast, vary from about 990 to 1170 Ma and are similar in age to numerous Grenville anorthosites found on Quebec's north shore. Kober analyses of grains from this sample also give these ages. Similarly, Kober analyses of zircons extracted from an anorthosite block floating in serpentinite from southern Quebec yielded a number of ages in the 1000-1100 Ma interval; similar to Adirondack ages. Extending the Ashwal model (1993, p. 209) for anorthosite genesis leads to the following speculative scenario. With crustal weakening caused by the massive heat flux generated by the mantle-derived magmas, rifting begins. The buoyant anorthosites decouple from the bottom-dwelling ultramafics in their common magma chamber and rise into the crust. The ultramafic components rise also, not only because of the heat welt, but by being slowly dragged upwards and outwards into the margins of the ever thinning rift zone forming Iapetus. The overlying material still quite deep

  19. NEW PALEOMAGNETIC DATA ON THE SILURIAN AND DEVONIAN SEDIMENTARY ROCKS FROM PODOLIA, SW UKRAINE, AND KINEMATICS OF THE EAST EUROPEAN PLATFORM IN THE MIDDLE PALEOZOIC

    Directory of Open Access Journals (Sweden)

    V. G. Bakhmutov

    2015-09-01

    Full Text Available Paleomagnetic data are the priority source of information for global paleotectonic reconstructions representing horizontal movements of the crustal blocks. Upon receipt of new paleomagnetic data, kinematic models of the East European platform in the Paleozoic are regularly revised and improved. The article presents results of the paleomagnetic study of sedimentary gray-colored and red beds of the Silurian and Lower Devonian sequences located in the Dniester river basin, Podolia region, SW Ukraine. The study covered 17 outcrops that are stratigraphically correlated with the Wenlock, Ludlow, Pridoli states of the Sillurian and the Lochkovian stage of the Devon. Over 400 samples of grey limestone, argillite, dolomite, red limestone and sandstone were analyzed, and two components of natural remnant magnetization (NRM were revealed. The first component with SSW declination and negative inclination is revealed in the majority of the samples during AF- and T-magnetic cleaning. Its pole positions, that are calculated separately for each series, are trending to the Permian segment of the apparent polar wander path (APWP published by Torsvik et al. [2012] for Baltica / Stable Europe. Considering its chemical origin, this NRM component is related to formation of authigenic minerals due to rock remagnetization. The second component is revealed only in some samples taken from the red beds (during thermal demagnetization in the range of unblocking temperatures from 590 to 690 °С and in few samples of grey limestone (in AF fields from 30 to 70 mT or in the range of unblocking temperatures from 300 to 460 °С. This component has SW declination and positive inclination, goes to the origin of coordinates of the diagrams, and has all the indicators of primary magnetization of sediments. Calculated positions of the poles (0 ºS and 329 ºE for grey limestone of the Tiverskaya series, 2.3 °S and 338.4 °E for red beds of the Dniestrovskaya series, etc. are well

  20. Genetic and environmental variation in performance of a marine isopod: effects of eutrophication.

    Science.gov (United States)

    Hemmi, Anne; Jormalainen, Veijo

    2004-07-01

    Environmental variation in food resources modifies performance of herbivores, in addition to genetic variation and maternal effects. In marine benthic habitats, eutrophication may modify herbivores' diets by changing host species composition or nutritional quality of algae for herbivores. We studied experimentally the effects of diet breadth and nutrient availability for the host algae on fitness components of the herbivorous isopod Idotea baltica. We fed the adult isopods with the brown algae Fucus vesiculosus and Pilayella littoralis and juveniles with the green alga Cladophora glomerata. By using half-sib families, we were able to separate the genetic, environmental and maternal effects on intermolt duration and size of the juveniles. The mothers confined to the diet consisting of both Fucus and Pilayella grew better and produced larger egg mass than those having consumed Fucus alone. Nutrient enhancement of algae did not influence the performance of the adult herbivores. However, the juveniles achieved twice the weight as well as shorter intermolt duration when consuming nutrient-treated C. glomerata. Mother's nutrition, either nutrient enrichment of her food algae or diet breadth, did not affect juvenile survival or growth as such, but we found evidence that the broader diet consumed by the mother mediated offspring performance by further accelerating growth rate of the offspring that fed on nutrient-treated alga. Intermolt duration was a highly heritable trait, but size showed very low heritability. Instead, maternal effects on size were substantial, suggesting that differences among mothers in their egg-provisioning ability strongly affect weight gain of their offspring. A high amount of additive genetic variance in intermolt duration implies potential for quick evolutionary responses in the growth schedule in the face of changes in the selective environment. We conclude that eutrophication, in addition to improving growth and reproduction of I. baltica by

  1. Allelopathic effects of microcystin-LR on the germination, growth and metabolism of five charophyte species and a submerged angiosperm.

    Science.gov (United States)

    Rojo, Carmen; Segura, Matilde; Cortés, Francisco; Rodrigo, María A

    2013-11-15

    Microcystins (MCs) are produced by cyanobacteria in aquatic environments and adversely affect macrophytes at very high concentrations. However, the effects of MC on macrophytes at concentrations of environmental relevance are largely unknown. The main objective of this study was to analyze the allelopathic effects of MC-LR at natural concentrations (1, 8 and 16 μg MC-LR/L) on five charophyte species (Chara aspera, C. baltica, C. hispida, C. vulgaris and Nitella hyalina) and the angiosperm Myriophyllum spicatum. Macrophyte specimens were obtained from a restored area located in Albufera de València Natural Park, a protected coastal Mediterranean wetland. Two different experiments were conducted involving (i) the addition of MC-LR to natural sediment to evaluate its effects on seed germination and (ii) the addition of MC-LR to water cultures of macrophytes to evaluate its effects on growth and metabolic functions. In water, the MC-LR concentration decreased by 84% in two weeks; the loss was not significant in sediment. The first seedlings (all C. hispida) emerged from the wetland sediment following a delay of a few days in the presence of MC-LR. The germination rates in 8 and 16 μg MC-LR/L treatments were 44% and 11% of that occurring in the absence of MC, but these differences disappeared over time. The final density was 6-7 germlings/dm(3). Final germling length was unaffected by MC-LR. Rotifers (Lecane spp.) emerging from the natural sediment during the experiment were favored by MC-LR; the opposite pattern was observed in the cladoceran Daphnia magna. The growth rates of C. vulgaris, C. baltica and N. hyalina were unaffected by MC exposure, whereas those of C. hispida and C. aspera were reduced in the MC treatments relative to the control treatment. The concentration of chlorophyll-a and the in vivo net photosynthetic rate were lower in the presence of MC-LR, even at the lowest concentration, for all of the characeans tested. M. spicatum was sensitive to the

  2. Paleoposition of the northern margin of Armorica in Late Devonian times: Paleomagnetic and rock magnetic results from the Frankenstein Intrusive Complex (Mid-German Crystalline Rise)

    Science.gov (United States)

    Zwing, Alexander; Bachtadse, Valerian

    2000-09-01

    A detailed rockmagnetic and paleomagnetic study of the Frankenstein Intrusive Complex (FIC, 363±7 Ma in age), southwestern Germany, has been carried out in order to test whether the paleomagnetic declinations within the internal parts of the European Variscides follow a common trend controlled by the structural grain of the orogen or whether the distribution of declinations follows a random pattern. In addition, new paleomagnetic data will contribute to further refine the drift history of the Armorican Terrane Assemblage during late Paleozoic times. The unmetamorphosed Frankenstein Igneous Complex forms part of the Mid-German Crystalline Rise within the Armorican Terrane Assemblage, amalgamated to Avalonia and Baltica during the Variscan orogeny, Stepwise thermal and alternating field (AF) demagnetization experiments identify four components (A, B, Cn, and Cr) of magnetization. Component A is a recent viscous overprint that parallels the present-day geomagnetic field. The high unblocking temperatures of A in some samples can be explained by the presence of multidomain magnetite. Component B is carried by hematite and is considered to be a late Carboniferous remagnetization. Components Cr and Cn, found in 110 samples from 20 sites, are antiparallel and pass a class C reversal test. Their primary origin is further supported by a contact test. Cr and Cn have maximum unblocking temperatures of up to 580°C and occasionally above over 600°C, indicating magnetite and hematite to carry the characteristic remanent magnetization. Ore microscopy revealed that primary hematite lamellae in ilmenite carry Cr and Cn and that a secondary generation of hematite is the carrier of B. The overall site mean direction of Cr and Cn (20 sites) based on endpoints and remagnetization circle analysis of 198°/40° (declination/inclination) with a 95% confidence limit (α95) of 4.9° and a precision parameter (k) of 45.0 defines a paleopole at 15°S, 9°W. When comparing to the apparent

  3. The Arctic lithosphere: an overview

    Science.gov (United States)

    Drachev, S.; Pease, V.; Stephenson, R.

    2012-04-01

    The Arctic is comprised of three deepwater oceanic basins, the Norwegian-Greenland, Eurasia, and Amerasia basins, surrounded by continental masses of the Achaean to Early Proterozoic North American, Baltica and Siberian cratons and intervening Neoproterozoic and Phanerozoic fold belts. Though the tectonic history of the Arctic continental realm spans almost three billions of years, the formation of the Arctic began with the creation of Pangaea-II supercontinent at end of Permian epoch. Between 250 and 150 Ma the Proto-Arctic was represented by the Anyui Ocean, or Angayuchum Sea - a Paleo-Pacific embayment into Pangaea II. During the Mesozoic Pangaea II was destroyed and the Anyi Ocean was isolated from the Paleo-Pacific, finally leading to the separation of Arctic Alaska-Chukchi Microcontinent from the North American side of Laurasia; the collision of this microplate with the Siberian margin occurred at ca. 125 Ma in association with the opening of the Canada Basin. The final stage of the Arctic formation took place in the Cenozoic, and was related to the propagation of the divergent Atlantic lithospheric plate boundary between North America and Baltica with the separation of the Lomonosov continental sliver from the Eurasian margin and opening of the Eurasia oceanic basin between 56 and 0 Ma. The present-day Arctic, especially its shelves and oceanic basins, is one of the least studied places on the Earth. Though we know the geology of the surrounding continental masses, there are still many questions remaining about major lithospheric divides beneath the Arctic seas, such as: • Where are the plate boundaries associated with the Amerasia Basin? • How and when did the Canada Basin open? • What was the pre-drift setting of the Chukchi Borderland? • Which tectonic processes formed the East Siberian shelves? • How and when did the major ridges in the Amerasia Basin form? • Where are the Early Tertiary plate boundaries in the Arctic? • What is the

  4. Revision of Khawia spp. (Cestoda: Caryophyllidea), parasites of cyprinid fish, including a key to their identification and molecular phylogeny.

    Science.gov (United States)

    Scholz, Tomás; Brabec, Jan; Král'ová-Hromadová, Ivica; Oros, Mikulás; Bazsalovicsová, Eva; Ermolenko, Alexey; Hanzelová, Vladimíra

    2011-09-01

    Monozoic cestodes of the genus Khawia Hsü, 1935 (Caryophyllidea: Lytocestidae), parasites of cyprinid fish in Europe, Asia, Africa and North America, are revised on the basis of taxonomic evaluation of extensive materials, including recently collected specimens of most species. This evaluation has made it possible to critically assess the validity of all 17 nominal species of the genus and to provide redescriptions of the following seven species considered to be valid: Khawia sinensis Hsü, 1935 (type species); K. armeniaca (Cholodkovsky, 1915); K. baltica Szidat, 1941; K. japonensis (Yamaguti, 1934); K. parva (Zmeev, 1936); K. rossittensis (Szidat, 1937); and K. saurogobii Xi, Oros, Wang, Wu, Gao et Nie, 2009. Several new synonyms are proposed: Khawia barbi Rahemo et Mohammad, 2002 and K. lutei Al-Kalak et Rahemo, 2003 are synonymized with K. armeniaca; K. coregoni Kritscher, 1990 with Caryophyllaeus laticeps (Pallas, 1781) (family Caryophyllaeidae); K. cyprini Li, 1964 and K. iowensis Calentine et Ulmer, 1961 with K. japonensis; K. dubia (Szidat, 1937) (syn. Bothrioscolex dubius Szidat, 1937) with K. rossittensis; and Tsengia neimongkuensis Li, 1964 and T. xiamenensis Liu, Yang et Lin, 1995 with K. sinensis. Khawia prussica (Szidat, 1937) (syn. Bothrioscolex prussicus Szidat, 1937) is considered to be species incertae sedis, but its morphology indicates it may belong to Caryophyllaeus Gmelin, 1790 (Caryophyllaeidae). The molecular analysis of all seven valid species, based on comparison of sequences of two nuclear ribosomal and two mitochondrial genes, has shown that the species form three major groups clustered according to their fish hosts. Five species from common and crucian carp and goldfish were grouped together, whereas K. armeniaca from barbels (Barbinae) and K. baltica from tench (Tinca) formed separate clades. In contrast, geographical distribution does not seem to play a crucial role in grouping of individual taxa. A phylogenetic tree based on

  5. Neoproterozoic-Paleozoic Evolution of the Arctida Paleocontinent and Plate Reconstructions

    Science.gov (United States)

    Vernikovsky, V. A.; Metelkin, D. V.; Vernikovskaya, A. E.; Matushkin, N. Y.; Lobkovsky, L. I.; Shipilov, E. V.; Scientific Team of Arctida

    2011-12-01

    Available data on the existence of Precambrian metamorphic complexes among the main structures of the Arctic led to the suggestion that a large continental mass existed between Laurentia, Baltica and Siberia - an Arctic continent, more often called Arctida (Zonenshain, Natapov, 1987). It is inferred that as an independent continental mass Arctida was formed after the breakup of Rodinia, and in general it can have a pre-Grenvillian (including Grenvillian) basement age. The breakup of this mass and the collision of its fragments with adjacent cratons led to the formation of heterochronous collisional systems. Arctida probably included the Kara, Novosibirsk, Alaska-Chukotka blocks, the blocks of northern Alaska and the submerged Lomonosov Ridge, small fragments of the Inuit fold belt in the north of Greenland and the Canadian archipelago, the structures of the Svalbard and maybe the Timan-Pechora plates. However the inner structure of this paleocontinent, the mutual configuration of the blocks and its evolution in the Neoproterozoic-Paleozoic is still a matter of discussion. The most accurate way of solving these issues is by using paleomagnetic data, but those are nonexistent for most of the defined blocks. Reliable paleomagnetic determinations for the Neoproterozoic-Paleozoic time interval we are concerned with are available only for fragments of an island arc from Central Taimyr, which are 960 m.y. old (Vernikovsky et al., 2011) and for which the paleomagnetic pole is very close to the pole of Siberia from (Pavlov et al., 2002), and of the Kara microcontinent. This includes three paleomagnetic poles for 500, 450 and 420 Ma (Metelkin et al., 2000; Metelkin et al., 2005). It is those data that made up the basis of the presented paleotectonic reconstructions along with an extensive paleomagnetic database for the cratons of Laurentia, Baltica, Siberia and Gondwana. The paleogeographic position of the cratons is corrected (within the confidence levels for the

  6. The Neoproterozoic-Paleozoic Arctic Margins: early stages of geodynamic evolution and plate reconstructions

    Science.gov (United States)

    Vernikovsky, V. A.; Metelkin, D. V.; Vernikovskaya, A. E.; Matushkin, N. Yu.; Lobkovsky, L. I.; Shipilov, E. V.

    2012-04-01

    Available data on the existence of Precambrian metamorphic complexes among the main structures of the Arctic led to the suggestion that a large continental mass existed between Laurentia, Baltica and Siberia - an Arctic continent, more often called Arctida (Zonenshain, Natapov, 1987). It is inferred that as an independent continental mass Arctida was formed after the breakup of Rodinia, and in general it can have a pre-Grenvillian (including Grenvillian) basement age. The breakup of this mass and the collision of its fragments with adjacent cratons led to the formation of heterochronous collisional systems. Arctida probably included the Kara, Novosibirsk, Alaska-Chukotka blocks, the blocks of northern Alaska and the submerged Lomonosov Ridge, small fragments of the Inuit fold belt in the north of Greenland and the Canadian archipelago, the structures of the Svalbard and maybe the Timan-Pechora plates. However the inner structure of this paleocontinent, the mutual configuration of the blocks and its evolution in the Neoproterozoic-Paleozoic is still a matter of discussion. The most accurate way of solving these issues is by using paleomagnetic data, but those are nonexistent for most of the defined blocks. Reliable paleomagnetic determinations for the Neoproterozoic-Paleozoic time interval we are concerned with are available only for fragments of an island arc from Central Taimyr, which are 960 m.y. old (Vernikovsky et al., 2011) and for which the paleomagnetic pole is very close to the pole of Siberia from (Pavlov et al., 2002), and of the Kara microcontinent. This includes three paleomagnetic poles for 500, 450 and 420 Ma (Metelkin et al., 2000; Metelkin et al., 2005). It is those data that made up the basis of the presented paleotectonic reconstructions along with an extensive paleomagnetic database for the cratons of Laurentia, Baltica, Siberia and Gondwana. The paleogeographic position of the cratons is corrected (within the confidence levels for the

  7. Linking collisional and accretionary orogens during Rodinia assembly and breakup: Implications for models of supercontinent cycles

    Science.gov (United States)

    Cawood, Peter A.; Strachan, Robin A.; Pisarevsky, Sergei A.; Gladkochub, Dmitry P.; Murphy, J. Brendan

    2016-09-01

    Periodic assembly and dispersal of continental fragments has been a characteristic of the solid Earth for much of its history. Geodynamic drivers of this cyclic activity are inferred to be either top-down processes related to near surface lithospheric stresses at plate boundaries or bottom-up processes related to mantle convection and, in particular, mantle plumes, or some combination of the two. Analysis of the geological history of Rodinian crustal blocks suggests that internal rifting and breakup of the supercontinent were linked to the initiation of subduction and development of accretionary orogens around its periphery. Thus, breakup was a top-down instigated process. The locus of convergence was initially around north-eastern and northern Laurentia in the early Neoproterozoic before extending to outboard of Amazonia and Africa, including Avalonia-Cadomia, and arcs outboard of Siberia and eastern to northern Baltica in the mid-Neoproterozoic (∼760 Ma). The duration of subduction around the periphery of Rodinia coincides with the interval of lithospheric extension within the supercontinent, including the opening of the proto-Pacific at ca. 760 Ma and the commencement of rifting in east Laurentia. Final development of passive margin successions around Laurentia, Baltica and Siberia was not completed until the late Neoproterozoic to early Paleozoic (ca. 570-530 Ma), which corresponds with the termination of convergent plate interactions that gave rise to Gondwana and the consequent relocation of subduction zones to the periphery of this supercontinent. The temporal link between external subduction and internal extension suggests that breakup was initiated by a top-down process driven by accretionary tectonics along the periphery of the supercontinent. Plume-related magmatism may be present at specific times and in specific places during breakup but is not the prime driving force. Comparison of the Rodinia record of continental assembly and dispersal with that

  8. 镇江肴肉中腐败菌的初步分离鉴定%Preliminary Isolation and Identification of the Spoilaged Bacteria from the Zhenjiang Yao Meat

    Institute of Scientific and Technical Information of China (English)

    祝莹; 董英; 肖香

    2011-01-01

    分离镇江肴肉中腐败菌,并对主要菌株进行鉴定,为研究特定腐败菌的腐败原理,延长产品的保质期打下基础.利用纯培养的方法,根据细菌的菌落形态、菌落颜色、革兰氏染色等特征,从市售冷藏镇江水晶肴蹄中选取菌落形态差别比较明显的8株菌株,通过16S rDNA序列进行分类研究,确定各细菌所属种.试验结果表明:T-1为假单胞菌属的荧光假单胞菌(Pseudomonas fluorescens),T-2为希瓦氏菌属的渡罗的海希瓦氏菌(Shewanella baltica),T-3、P-1、P-2、V-1、V-2、V-3为拉乌尔菌属的解鸟氨酸拉鸟尔菌(Raoultella ornithi-nolytica)[从前的解鸟氨酸克雷伯氏茼(Klebsiella ornithinolytica)].%In order to study the spoilage principle of specific spoilage bacteria, thereby prolongate the shelf-life of product.The spoilage bacteria in Zhenjiang Yao meat were isolated and its main strains were identified.8 strains with obvious difference in sharp, color, gram staining and so on common characteristic were selected from commercial cold storage Yao meat by pure culture method, and the classified status of bacteria was determined by classification research of 16S rDNA sequences.The experimental results indicated that T-1 is Pseudomonas fluorescens; T-2 is Shewanella baltica; T-3、P-1、P-2、V-1、V-2、V-3 is Raoultella ornithinolytica (formerly Klebsiella ornithinolytica ).

  9. Analysis of soil bacterial community composition by 16S rDNA clone library sampling from transgenic carnation%16S rDNA克隆文库法探索转基因香石竹对土壤细菌群落的影响

    Institute of Scientific and Technical Information of China (English)

    白蓝; 赵明文; 贾军伟; 李鹏; 王金斌; 潘爱虎

    2012-01-01

    [目的]通过研究转基因香石竹对土壤细菌群落的影响,为转基因香石竹的环境安全性评价提供依据.[方法]通过构建16S rDNA克隆文库,分析种植转基因和非转基因香石竹的土壤中细菌的群落结构组成.[结果]转基因和非转基因香石竹土壤中,共有的菌群有变形菌门(Proteobacteria)、浮霉菌门(Planctomycetes)、酸杆菌门(Acidobacteria),其中α-变形菌门、β-变形菌门、浮霉菌门为优势菌群;而在放线菌门(Actinobacteria)、疣微菌门(Verrucomicrobia)及未培养菌(Uncultured bacterium clone)等菌群存在部分差异.[结论]通过16S rDNA克隆文库方法揭示了转基因香石竹的土壤中细菌多样性十分丰富,其栽培对土壤细菌群落结构影响有限.%[Objective] We did this research to analyze the impact on the soil bacterial population of the transgenic carnation, which laid the foundation for the safety assessment of GM carnation. [Methods] Bacterial 16S rDNA gene clone libraries of GM and non-GM carnations were constructed, and the soil bacterial populations of these carnations were compared. [Resultsl The results showed Alphaproteobacteria, Betaproteobacteria, Planctomycetes and Acidobacteria were shared with GM and non-GM carnation. Some differences were found in Actinobacteria, Verrucomicrobia and uncultured bacterium clone. [Conclusion] The results indicated that high bacterial diversity was found in these GM carnation soil bacterial libraries, and the cultivation of genetically modified carnation did not have a significant impact on the soil bacterial community structure.

  10. Pyrosequencing-based assessment of the bacteria diversity in surface and subsurface peat layers of a northern wetland, with focus on poorly studied phyla and candidate divisions.

    Directory of Open Access Journals (Sweden)

    Yulia M Serkebaeva

    Full Text Available Northern peatlands play a key role in the global carbon and water budget, but the bacterial diversity in these ecosystems remains poorly described. Here, we compared the bacterial community composition in the surface (0-5 cm depth and subsurface (45-50 cm peat layers of an acidic (pH 4.0 Sphagnum-dominated wetland, using pyrosequencing of 16S rRNA genes. The denoised sequences (37,229 reads, average length ∼430 bp were affiliated with 27 bacterial phyla and corresponded to 1,269 operational taxonomic units (OTUs determined at 97% sequence identity. Abundant OTUs were affiliated with the Acidobacteria (35.5±2.4% and 39.2±1.2% of all classified sequences in surface and subsurface peat, respectively, Alphaproteobacteria (15.9±1.7% and 25.8±1.4%, Actinobacteria (9.5±2.0% and 10.7±0.5%, Verrucomicrobia (8.5±1.4% and 0.6±0.2%, Planctomycetes (5.8±0.4% and 9.7±0.6%, Deltaproteobacteria (7.1±0.4% and 4.4%±0.3%, and Gammaproteobacteria (6.6±0.4% and 2.1±0.1%. The taxonomic patterns of the abundant OTUs were uniform across all the subsamples taken from each peat layer. In contrast, the taxonomic patterns of rare OTUs were different from those of the abundant OTUs and varied greatly among subsamples, in both surface and subsurface peat. In addition to the bacterial taxa listed above, rare OTUs represented the following groups: Armatimonadetes, Bacteroidetes, Chlamydia, Chloroflexi, Cyanobacteria, Elusimicrobia, Fibrobacteres, Firmicutes, Gemmatimonadetes, Spirochaetes, AD3, WS1, WS4, WS5, WYO, OD1, OP3, BRC1, TM6, TM7, WPS-2, and FCPU426. OTU richness was notably higher in the surface layer (882 OTUs than in the anoxic subsurface peat (483 OTUs, with only 96 OTUs common to both data sets. Most members of poorly studied phyla, such as the Acidobacteria, Verrucomicrobia, Planctomycetes and the candidate division TM6, showed a clear preference for growth in either oxic or anoxic conditions. Apparently, the bacterial communities in surface and

  11. Microbial community structure and productivity in the oxygen minimum zone of the eastern tropical North Pacific

    Science.gov (United States)

    Podlaska, Agnieszka; Wakeham, Stuart G.; Fanning, Kent A.; Taylor, Gordon T.

    2012-08-01

    Microbial abundances and activities (heterotrophic and chemoautotrophic) were profiled in the fall of 2007 along a transect of four stations in the upwelling region between the Tehuantepec Bowl, off the coast of southern Mexico, and the Costa Rica Dome. Heterotrophic potential varied with depth exhibiting relatively low maximum values of 4-8 nM leucine d-1, but varied among stations by a factor of 2. Generally, heterotrophic potential varied inversely with nitrate implying NO3- draw down by nitrate-reducing chemoorganotrophs. Dark dissolved inorganic carbon assimilation (≈chemoautotrophy) was also highly variable with depth and reached a maximum value of 6.4 μM C d-1 at one station, but only attained maxima of 0.02 and 0.2 μM C d-1 at other stations. Elevated values of chemoautotrophy corresponded with enrichments in nitrite concentrations suggesting nitrification as well as with depletions in nitrite and ammonium concentrations suggesting anammox processes. Additions of 30 μM NH4+ at selected depths stimulated chemoautotrophic activity up to 33-fold. Fluorescence in situ hybridization (FISH) analyses revealed elevated abundances of Crenarchaeota and β-proteobacteria (up to 1.0×107 and 10.0×107 cells L-1, respectively) associated with NH4+ minima and NO3- maxima. Nitrifying β-proteobacteria were most abundant in the upper oxycline (1.1-1.8×107 cells L-1) at three stations and exhibited a secondary peak of 0.3×107 cells L-1 in the lower oxycline at one station. Anammox bacterial (Planctomycetes) abundances were as high as 2.1×106 cells L-1, but accounted for less than 1% of total DAPI counts. The concentration of diploptene (a hopanoid biomarker found in bacteria) varied from 2 to 15 pg L-1 in the upper oxycline and from 51 to 160 pg L-1 in the lower oxycline. Delta 13C values of particulate organic carbon (POC) varied from -30 to -21‰ in the water column (avg. -25‰). Distributions of isotopically light POC coincided with enrichments in diploptene

  12. Dynamics of the bacterial community in rearing water from an intensive pond containing different stocking densities ofLitopenaeus vannamei%凡纳滨对虾不同养殖密度高位池水体细菌群落动态

    Institute of Scientific and Technical Information of China (English)

    陈琛; 闫茂仓; 张翔; 於俊琦; 柴雪良; 曾国权

    2016-01-01

    通过对养殖水体环境基因组DNA中细菌16S rRNA基因 V4–V5区的高通量测序和生物信息学分析,研究了两种养殖密度的凡纳滨对虾(Litopenaeus vannamei)高位池水体中细菌群落在养殖过程中的动态。结果显示,养殖过程中各菌群相对丰度变化明显,细菌多样性随时间逐渐提高,优势菌群为变形菌门(Proteobacteria)、蓝藻门(Cyanobacteria)、拟杆菌门(Bacteroidetes)、放线菌门(Actinobacteria)和浮霉菌门(Planctomycetes)。随着养殖时间增长,蓝藻丰度所占比例逐渐减少,而变形菌、拟杆菌和浮霉菌丰度逐渐增大,同时养殖前期高密度池浮霉菌丰度显著高于低密度池(P98% of all OTUs. The mean Shannon–Wiener diversity index for the high-density pond (4.36) was higher than that for the low-density pond (3.51), and bacterial diversity increased gradually over timein both rearing ponds. This result suggests that new dominant bacterial populations appeared fromthe high nutrient input during the later rearing period, leading to higher bacterial diversity at a higher nutrient level. The relative abundance of Planctomycetes was significantly higher in the high-density pond (P<0.01) during the initial rearing period than that in the low-density pond, which may have contributed to degradation of more residual feed in the high-density pond. The multidimensional scaling plot and cluster analysis demonstrated that all samples grouped into three clusters, indi-cating clear differences in the bacterial community structure between the high- and low-density ponds during the initial 50 days of rearing. However, the bacterial communities in the two ponds were more similarduringthe late stage compared with the marked differences during the initial stage, suggesting an initial stage (days 0–50) and a late stage (days 50–80), based on bacterial community structure. The effect of different stocking densities on the bacterial community decreased

  13. Grenvillian remnants in the Northern Andes: Rodinian and Phanerozoic paleogeographic perspectives

    Science.gov (United States)

    Cardona, A.; Chew, D.; Valencia, V. A.; Bayona, G.; Mišković, A.; Ibañez-Mejía, M.

    2010-01-01

    Grenvillian crust is encountered in several basement inliers in the northern Andes of Colombia, Ecuador and Peru and is also represented as a major detrital or inherited component within Neoproterozoic to Paleozoic sedimentary and magmatic rocks. This review of the tectonic and geochronological record of the Grenvillian belt in the northern Andes suggests that these crustal segments probably formed on an active continental margin in which associated arc and back-arc magmatism evolved from ca. 1.25 to 1.16 Ga, possibly extending to as young as 1.08 Ga. The lithostratigraphic and tectonic history of the Grenvillian belt in the northern Andes differs from that of the Sunsas belt on the southwest Amazonian Craton and from the Grenvillian belt of Eastern Laurentia. It is considered that this belt, along with similar terranes of Grenvillian age in Middle America and Mexico define a separate composite orogen which formed on the northwestern margin of the Amazonian Craton. Microcontinent accretion and interaction with the Sveconorwegian province on Baltica is a feasible tectonic scenario, in line with recent paleogeographic reconstructions of the Rodinian supercontinent. Although Phanerozoic tectonics may have redistributed some of these terranes, they are still viewed as para-autocthonous domains that remained in proximity to the margin of Amazonia. Paleogeographic data derived from Phanerozoic rocks suggest that some of the Colombian Grenvillian fragments were connected to northernmost Peru and Ecuador until the Mesozoic, whereas the Mexican terranes where attached to the Colombian margin until Pangea fragmentation in Late Triassic times.

  14. Exotic crustal components at the northern margin of the Bohemian Massif-Implications from Usbnd Thsbnd Pb and Hf isotopes of zircon from the Saxonian Granulite Massif

    Science.gov (United States)

    Sagawe, Anja; Gärtner, Andreas; Linnemann, Ulf; Hofmann, Mandy; Gerdes, Axel

    2016-06-01

    The Saxonian Granulite Massif is located at the northern margin of the Saxo-Thuringian Zone of the peri-Gondwana Bohemian Massif. Eight felsic and mafic granulites were studied with respect to their geochemistry and Usbnd Pb zircon geochronology. The felsic granulites are interpreted to be derived from continental crust of possible granitoid composition. An origin from depleted mantle sources with IAT to MORB composition can be assumed for the mafic granulites. The peak of metamorphism is thought to be timed at about 340 Ma, while several earlier metamorphic events are supposed to have occurred at about 355-360, 370-375, 405, and 450 Ma. They reveal a complex and polyphased geologic evolution of the Saxonian Granulite Massif. Protolith emplacement likely took place at c. 450 and 494 Ma. Hf isotopic data suggest Mesoproterozoic crustal ages at least for parts of the massif. As these crustal ages are exotic for the Bohemian Massif, their origin has to be searched elsewhere. Potential source areas could be Amazonia and Baltica, of which the latter is the one preferred. Furthermore, a composite architecture with at least two components-the felsic granulites with Mesoproterozoic crustal model ages, and the mafic granulites of potential island arc origin-is hypothesised. Their amalgamation to the recent appearance of the Saxonian Granulite Massif is likely bracketed between 375 and 340 Ma.

  15. Provenance of sandstones from Caledonian nappes in Finnmark, Norway: Implications for Neoproterozoic-Cambrian palaeogeography

    Science.gov (United States)

    Zhang, W.; Roberts, D.; Pease, V.

    2016-11-01

    U-Pb detrital zircon age spectra from four formations in the Laksefjord and Kalak nappe complexes, Finnmark Caledonides, northern Norway, show peaks ranging from Neoarchaean through Late Palaeoproterozoic to Late Mesoproterozoic. Together with an extensive database of palaeocurrent flow measurements indicating derivation of the sediments from source regions to the S-SE on the Fennoscandian Shield, the successions in the lower thrust sheets of the Kalak Nappe Complex and the entire Laksefjord Nappe Complex are inferred to be of Baltican origin. These results are contrary to a previous suggestion that the sandstone-dominated Middle Allochthon is exotic to Baltica. The lithostratigraphical successions in these two nappe complexes show a south to north progression from alluvial-fan conglomerates through extensive fluvial to shallow-marine facies into deeper-marine turbiditic sequences. This pattern reflects the palaeogeographic transition from the shallow platform to deep-basinal oceanic development recorded along the c. 2000 km pre-Timanian passive margin of the northeastern Fennoscandian Shield.

  16. Floating seaweed in the neustonic environment: A case study from Belgian coastal waters

    Science.gov (United States)

    Vandendriessche, Sofie; Vincx, Magda; Degraer, Steven

    2006-02-01

    Floating seaweeds form the most important natural component of all floating material found on the surface of oceans and seas. Notwithstanding the absence of natural rocky shores, ephemeral floating seaweed clumps are frequently encountered along the Belgian coast. From October 2002 to April 2003, seaweed samples and control samples (i.e. surface water samples from a seaweed-free area) were collected every other week. Multivariate analysis on neustonic macrofaunal abundances showed significant differences between seaweed and control samples in the fraction > 1 mm. Differences were less conspicuous in the 0.5-1 mm fraction. Seaweed samples were characterised by the presence of seaweed fauna e.g. Acari, Idotea baltica, Gammarus sp ., while control samples mainly contained Calanoida, Larvacea, Chaetognatha, and planktonic larvae of crustaceans and polychaetes. Seaweed samples (1 mm fraction) harboured considerably higher diversities (× 3), densities (× 18) and biomasses (× 49) compared to the surrounding water column (control samples). The impact of floating seaweeds on the neustonic environment was quantified by the calculation of the added values of seaweed samples considering biomass and density. These calculations resulted in mean added values of 311 ind m - 2 in density and 305 mg ADW m - 2 in biomass. The association degree per species was expressed as the mean percentage of individuals found in seaweed samples in proportion to the total density and biomass of that species (seaweed samples + control samples). Thirteen species showed an association percentage > 95%, and can therefore be considered members of the floating seaweed fauna.

  17. [Selective-differential nutrient medium "Shewanella IRHLS agar" for isolation of Shewanella genus bacteria].

    Science.gov (United States)

    Sivolodsky, E P

    2015-01-01

    Development of a selective-differential nutrient medium for isolation of Shewanella genus bacteria. 73 strains of Shewanella bacteria (S. algae--3, S. baltica--26, S. putrefaciens--44) and 80 strains of 22 other bacteria genera were used. Shewanella species were identified by methods and criteria proposed by Nozue H. et al., 1992; Khashe S. et al., 1998. Nutrient media "Shewanella IRHLS Agar" for shewanella isolation was developed. Medium selective factors: irgazan DP-300 (I). 0.14-0.2 g/l and rifampicin (R) 0.0005-0.001 g/l. Shevanella colonies were detected by the production of hydrogen sulfide (H), lipase presence (L), lack of sorbitol fermentation (S). The medium suppressed the growth of hydrogen sulfide producers (Salmonella, Proteus) and blocked hydrogen sulfide production by Citrobacter. Growth of Escherichia, Enterobacter, Klebsiella, Shigella, Staphylococcus, Bacillus was also suppressed, Analytical sensitivity of the medium was 1-2 CFU/ml for Shewanella and Stenotrophomonas, Aerombnas, Serratia genera bacteria. 72 strains of Shewanella were isolated from water of Neva river in this medium, 91.7 ± 3.2% of those produced H2S. 1 strain of S. algae was isolated from clinical material. The developed media allows to use it in a complex for Stenotrophomo- nas sp., Aeromonas sp., Serratia sp., Citrobactersp. and Shewanella bacteria isolation.

  18. Molecular characterization of Shewanella and Aeromonas isolates associated with spoilage of Common carp (Cyprinus carpio).

    Science.gov (United States)

    Beaz-Hidalgo, Roxana; Agüeria, Daniela; Latif-Eugenín, Fadua; Yeannes, Maria I; Figueras, Maria J

    2015-01-01

    Storage in ice is a common way of preserving commercial fish species but some microorganisms can still contaminate and participate in the spoilage of the product; therefore, identification of potential harmful microbes is important. Thirteen colonies were isolated from common carp (Cyprinus carpio) that had been stored in ice, whose phenotypic identification revealed that they belonged to the genera Aeromonas (n = 5) and Shewanella (n = 8). Molecular genotyping with ERIC-PCR showed clonality only among two of the five Aeromonas isolates and for two groups (n = 3; n = 2) of the eight Shewanella isolates. Sequencing the rpoD gene showed that four Aeromonas isolates belonged to the species Aeromonas salmonicida and one to A. sobria. Of the eight Shewanella, seven isolates cluster with Shewanella putrefaciens and one with Shewanella profunda in the 16S rRNA phylogenetic tree. However, analysis of the gyrB gene showed that these eight isolates could constitute a new species closely related to S. baltica. The Shewanella and A. salmonicida isolates produce off-odours and reduce trimethylamine oxide, indicating that they might contribute to the spoilage of the fish. © FEMS 2014. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

  19. Life-cycle, ultrastructure, and phylogeny of Parvilucifera corolla sp. nov. (Alveolata, Perkinsozoa), a parasitoid of dinoflagellates.

    Science.gov (United States)

    Reñé, Albert; Alacid, Elisabet; Figueroa, Rosa Isabel; Rodríguez, Francisco; Garcés, Esther

    2017-04-01

    Recent studies of marine protists have revealed parasites to be key components of marine communities. Here we describe a new species of the parasitoid genus Parvilucifera that was observed infecting the dinoflagellate Durinskia baltica in salt marshes of the Catalan coast (NW Mediterranean). In parallel, the same species was detected after the incubation of seawater from the Canary Islands (Lanzarote, NE Atlantic). The successful isolation of strains from both localities allowed description of the life cycle, ultrastructure, and phylogeny of the species. Its infection mechanism consists of a free-living zoospore that penetrates a dinoflagellate cell. The resulting trophont gradually degrades the dinoflagellate cytoplasm while growing in size. Once the host is consumed, schizogony of the parasitoid yields a sporocyte. After cytokinesis is complete, the newly formed zoospores are released into the environment and are ready to infect new host cells. A distinguishing feature of the species is the radial arrangement of its zoospores around the central area of the sporocyte during their formation. The species shows a close morphological similarity with other species of the genus, including P. infectans, P. sinerae, and P. rostrata. Copyright © 2016 Elsevier GmbH. All rights reserved.

  20. Investigation of mineral water springs of Miercurea Ciuc (Csíkszereda) region (Romania) with cultivation-dependent microbiological methods.

    Science.gov (United States)

    Máthé, I; Táncsics, A; György, Eva; Pohner, Zsuzsanna; Vladár, P; Székely, Anna J; Márialigeti, K

    2010-06-01

    Water samples of ten mineral water springs at Miercurea Ciuc (Csíkszereda) region (Romania) were examined during 2005-2006 using cultivation-dependent microbiological methods. The results of standard hygienic bacteriological tests showed that the Hargita Spring had perfect and five other springs had microbiologically acceptable water quality (Zsögöd-, Nagy-borvíz-, Taploca-, Szentegyháza- and Lobogó springs). The water of Borsáros Spring was exceptionable (high germ count, presence of Enterococcus spp.).Both standard bacteriological and molecular microbiological methods indicated that the microbiological water quality of the Szeltersz-, Nádasszék- and Délo springs was not acceptable. Bad water quality resulted from inadequate spring catchment and hygiene (low yield, lack of runoff, negligent usage of the springs, horse manure around the spring).The 16S rRNA gene-based identification of strains isolated on standard meat-peptone medium resulted in the detection of typical aquatic organisms such as Shewanella baltica, Aeromonas spp., Pseudomonas veronii, Psychrobacter sp,. Acinetobacter spp. and allochthonous microbes, like Nocardia, Streptomyces, Bacillus, Microbacterium , and Arthrobacter strains indicating the impact of soil. Other allochthonous microbes, such as Staphylococcus spp., Micrococcus sp., Lactococcus sp., Clostridium butyricum, Yersinia spp., Aerococcus sp., may have originated from animal/human sources.

  1. Study the symbiotic crude oil-degrading bacteria in the mussel Mactra stultorum collected from the Persian Gulf.

    Science.gov (United States)

    Bayat, Zeynab; Hassanshahian, Mehdi; Hesni, Majid Askari

    2016-04-15

    Symbiotic associations are complex partnerships that can lead to new metabolic capabilities and the establishment of novel organisms. The diversity of these associations is very broad and there are still many mysteries about the origin and the exact relationship between the organisms that are involved in a symbiosis. The aim of the present study is to find symbiotic crude-oil degrading bacteria in the mussels that collected from the Persian Gulf. Fifteen crude-oil degrading bacteria were isolated from Mactra stultorum mussel that collected from oil contaminated area at Persian Gulf. According to high growth rate on crude oil five strains were selected from 15 isolated strains for more study. Determination of the nucleotide sequence of the gene encoding 16S rRNA show that these isolated strains belong to: Alcanivorax dieselolei strain BHA25, Idiomarina baltica strain BHA28, A. dieselolei strain BHA30, Alcanivorax sp. strain BHA32 and Vibrio azureus strain BHA36. Analysis of remaining of crude oil by Gas Chromatography (GC) confirmed that these strains can degrade: 64%, 63%, 71%, 58% and 75% of crude oil respectively. Copyright © 2016 Elsevier Ltd. All rights reserved.

  2. PALEOMAGNETISM OF SILURIAN AND DEVONIAN VOLCANICS FROM THE CHINGIZ ISLAND ARC, KAZAKHSTAN, AND ITS BEARING ON TECTONIC EVOLUTION OF THE URAL-MONGOL BELT

    Directory of Open Access Journals (Sweden)

    Natalia M. Levashova

    2015-09-01

    Full Text Available The tectonic and paleogeographic evolution of the Ural-Mongol belt between the cratons of Baltica, Siberia, and Tarim is the key to the formation of the Eurasian supercontinent during Paleozoic time, but the views on this complicated process remain very disparate and sometimes controversial. Three volcanic formations of the Middle Silurian, LowertoMiddle Devonian and Middle Devonian age from the southwestern boundary of the Chingiz Range (NE Kazakhstan yields what are interpreted as primary paleomagnetic directions that help clarify the evolution of the belt. A singlepolarity characteristic component in midSilurian andesites yields a positive intraformational conglomerate test, whereas dualpolarity prefolding components are isolated from the two Devonian collections. These new data were evaluated together with previously published paleomagnetic results from Paleozoic rocks in the Chingiz Range, and allow us to establish with confidence the hemisphere in which the area was located at a given time. We conclude that NE Kazakhstan was steadily moving northward crossing the equator in Silurian time. These new paleomagnetic data from the Chingiz range also agree with and reinforce the hypothesis that the strongly curved volcanic belts of Kazakhstan underwent oroclinal bending between Middle Devonian and Late Carboniferous time. A comparison of the Chingiz paleolatitudes with those of Siberia shows similarities between the northward motion and rotational history of the Chingiz unit and those of Siberia, which imposes important constraints on the evolving paleogeography of the Ural-Mongol belt.

  3. Paleomagnetism of the Upper Carboniferous and Upper Permian sedimentary rocks from Novaya Zemlya Archipelago

    Science.gov (United States)

    Abashev, Victor V.; Mikhaltsov, Nikolay E.; Vernikovsky, Valery A.; Metelkin, Dmitry V.; Matushkin, Nikolay Yu.; Doubrovine, Pavel V.

    2016-04-01

    Here we present the first paleomagnetic directions and paleomagnetic poles for Upper Permian and Upper Carboniferous sedimentary rocks (sandstones and limestones) of the Novaya Zemlya Archipelago in the Russian High Arctic region. The paleomagnetic directions were obtained through detailed thermal and alternating field demagnetization experiments, using the principal component analysis of demagnetization data. A positive fold test and a positive reversal test indicate that the isolated paleomagnetic directions correspond to the primary magnetization components. Magnetic remanence carriers were characterized through rock-magnetic analyses, including measurements of temperature dependence of low-field magnetic susceptibility, magnetic hysteresis curves, and first-order reversal curves (FORC). We will describe the rock-magnetic properties of different lithological units and discuss their implications for the stability of natural remanent magnetization (NRM) and the veracity of paleomagnetic record. The tectonics implications of the new paleomagnetic data for the evolution of the Barents-Kara continental margin and the Novaya Zemlya Archipelago will be also discussed. The paleomagnetic poles differ slightly from the corresponding section of the APWP for Baltica, which is probably due to inclination shallowing effect or the tectonic features of the region. The study was supported by Russian Science Foundation grant 14-37-00030, the SIU project HNPla-2013/10049 (HEAT) and by Ministry of Education and Science of the Russian Federation grant 5.515.2014/K.

  4. Revealing the decline and expansion of orchids of NW European Russia

    Directory of Open Access Journals (Sweden)

    Petr G. Efimov

    2012-02-01

    Full Text Available A new approach to reveal the dynamics of taxa on incompletely investigated territories was developed. The decline/expansion rate of orchids in the North Western part of European Russia (Leningrad, Novgorod and Pskov Regions, an area approx. 195,000 km2 was estimated using this method. The method is based on comparison of numbers of grid cells where a certain species was recorded in various time intervals using specially designed software. More than 9000 records were used, however the territory remained insufficiently and unevenly studied both spatially and over time. The study revealed a statistically significant (p < 0.01 decrease for Coeloglossum viride, Corallorhiza trifida, Cypripedium calceolus, Gymnadenia conopsea, Herminium monorchis, Malaxis monophyllos, Neotinea ustulata and Orchis militaris and a significant increase for Dactylorhiza baltica, D. fuchsii and Platanthera chlorantha. In several taxa, the trend was changed over the time. Of them, Gymnadenia conopsea displayed significant decline only since the middle of XX century, and Orchis militaris and Epipactis atrorubens decreased significantly only in the end of XIX and the beginning of XX century. The reasons for these patterns of dynamics were discussed. Parallels between the dynamics of orchids and land use in different periods of time in Russia are provided.

  5. Paleobiogeographic affinities of emsian (late early devonian) gastropods from farewell terrane (west-central Alaska)

    Science.gov (United States)

    Fryda, J.; Blodgett, R.B.

    2008-01-01

    The vast majority of Emsian gastropods from Limestone Mountain, Medfra B-4 quadrangle, west-central Alaska (Farewell terrane) belong to species with lecithotrophic larval strategy. The present data show that there is no significant difference in the paleobiogeo-graphic distribution of Emsian gastropod genera with lecithotrophic and planktotrophic larval strategies. Numerical analysis of the faunal affinities of the Emsian gastropod fauna from the Farewell terrane reveals that this terrane has much stronger faunal connections to regions like Variscan Europe, eastern Australia, and the Alexander terrane of southeast Alaska than to cratonic North America (Laurentia). The Canadian Arctic Islands is the only region of cratonic North America (Laurentia) that shows significant faunal affinities to the Emsian gastropod faunas of the Farewell terrane. The analysis also indicates a close faunal link between the Farewell and Alexander terranes. Published paleontological and geological data suggest that the Farewell and Alexander terranes represents tectonic entities that have been rifted away from the Siberia, Baltica, or the paleo-Pacific margin of Australia. The results of the present numerical analysis are not in conflict with any of these possibilities. However, the principle of spatial continuity of the wandering path prefers Siberia as the most probable "parental" paleocontinent for the derivation of both the Farewell and Alexander terranes. ?? 2008 The Geological Society of America.

  6. Technetium-99 in biota samples collected along the Finnish coast in 1999

    Energy Technology Data Exchange (ETDEWEB)

    Ilus, E.; Vartti, V.-P.; Ikaeheimonen, T.K.; Mattila, J.; Klemola, S. [Radiation and Nuclear Safety Authority, Helsinki (Finland)

    2002-07-01

    The aim of the study was to develop a method for analysing {sup 99}Tc at STUK (Radiation and Nuclear Safety Authority in Finland), and to establish whether {sup 99}Tc can be detected in Finnish coastal waters. Samples of Fucus vesiculosus, Myriophyllum spp., Macoma baltica, Mytilus edulis, Saduria entomon and seawater were collected at more than 30 stations along the western and southern coasts of Finland for {sup 99}Tc analysis. Small amounts of {sup 99}Tc were observed in all the Fucus samples collected; the activity concentrations ranged from 1.6 to 11.6 Bq kg{sup -1} dry wt. The highest concentrations were found in two samples taken from the northernmost stations in the Quark, probably for biological reasons. Due to the low salinity of the water, Fucus vesiculosus is very slow-growing and small in this area, which is at the extreme limit of its permanent distribution range in the Baltic Sea. In seawater and in all the other biota samples, the concentration of {sup 99}Tc was below the detection limit, which supports the use of Fucus as an indicator organism for {sup 99}Tc in the marine environment. Global fallout from atmospheric nuclear weapons tests carried out in the 1950s and 1960s is certainly the most important source of {sup 99}Tc detected in Fucus on the Finnish coast. In addition, the samples were analysed for gamma- emitting radionuclides. (orig.)

  7. The 1590-1520 Ma Cachoeirinha magmatic arc and its tectonic implications for the Mesoproterozoic SW Amazonian craton crustal evolution

    Directory of Open Access Journals (Sweden)

    Ruiz Amarildo S.

    2004-01-01

    Full Text Available Isotopic and chemical data of rocks from the Cachoeirinha suite provide new insights on the Proterozoic evolution of the Rio Negro/Juruena Province in SW Amazonian craton. Six U-Pb and Sm-Nd analyses in granitoid rocks of the Cachoeirinha suite yielded ages of 1587-1522 Ma and T DM model ages of 1.88-1.75 Ga (EpsilonNd values of -0.8 to +1.0. In addition, three post-tectonic plutonic rocks yielded U-Pb ages from 1485-1389 Ma (T DM of 1.77-1.74 Ga and EpsilonNd values from -1.3 to +1.7. Variations in major and trace elements of the Cachoeirinha suite rocks indicate fractional crystallization process and magmatic arc geologic setting. These results suggest the following interpretations: (1 The interval of 1590-1520 Ma represents an important magmatic activity in SW Amazonian craton. (2 T DM and arc-related chemical affinity supportthe hypothesis that the rocks are genetically associated with an east-dipping subduction zone under the older (1.79-1.74 Ga continental margin. (3 The 1590-1520 Ma age of intrusive rocks adjacent to an older crust represents similar geological framework along the southern margin of Baltica, corroborating the hypothesis of tectonic relationship at that time.

  8. Structural and Functional Characterization of a Novel Family of Cyclophilins, the AquaCyps

    Science.gov (United States)

    Jakob, Roman P.; Schmidpeter, Philipp A. M.; Koch, Johanna R.; Schmid, Franz X.; Maier, Timm

    2016-01-01

    Cyclophilins are ubiquitous cis-trans-prolyl isomerases (PPIases) found in all kingdoms of life. Here, we identify a novel family of cyclophilins, termed AquaCyps, which specifically occurs in marine Alphaproteobacteria, but not in related terrestric species. In addition to a canonical PPIase domain, AquaCyps contain large extensions and insertions. The crystal structures of two representatives from Hirschia baltica, AquaCyp293 and AquaCyp300, reveal the formation of a compact domain, the NIC domain, by the N- and C-terminal extensions together with a central insertion. The NIC domain adopts a novel mixed alpha-helical, beta-sheet fold that is linked to the cyclophilin domain via a conserved disulfide bond. In its overall fold, AquaCyp293 resembles AquaCyp300, but the two proteins utilize distinct sets of active site residues, consistent with differences in their PPIase catalytic properties. While AquaCyp293 is a highly active general PPIase, AquaCyp300 is specific for hydrophobic substrate peptides and exhibits lower overall activity. PMID:27276069

  9. Ordovician rafinesquinine brachiopods from peri-Gondwana

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    Jorge Colmenar

    2016-06-01

    Full Text Available The study of the strophomenide brachiopods of the subfamily Rafinesquininae present in the main Upper Ordovician sections, representing the Mediterranean margin of Gondwana, has revealed an increase in diversity of the group at the region during that time. The studied collections are from the Moroccan Anti-Atlas, the Iberian and the Armorican massifs, the Iberian Chains, Pyrenees, Montagne Noire, Sardinia, and Bohemia. Two genera of the subfamily Rafinesquininae have been recorded. Of them, the cosmopolitan Rafinesquina is the only one previously reported from the region and Kjaerina is found for the first time outside Avalonia, Baltica, and Laurentia. Additionally, two new subgenera have been described, Kjaerina (Villasina and Rafinesquina (Mesogeina. Furthermore, the new species Rafinesquina (Mesogeina gabianensis, Rafinesquina (Mesogeina loredensis, Kjaerina (Kjaerina gondwanensis, Kjaerina (Villasina pedronaensis, Kjaerina (Villasina pyrenaica, and Kjaerina (Villasina meloui have been described. In addition, other species of these genera previously known from isolated localities in the region, such as Rafinesquina pseudoloricata, Rafinesquina pomoides, and Hedstroemina almadenensis are revised and their geographic range expanded. The adaptive radiation experienced by the rafinesquinines at the Mediterranean region during middle to late Katian, was probably related to changes in the regime of sedimentation and water temperature caused by the global warming Boda event.

  10. Trace element signature and U-Pb geochronology of eclogite-facies zircon, Bergen Arcs, Caledonides of W Norway

    Science.gov (United States)

    Bingen, Bernard; Austrheim, Håkon; Whitehouse, Martin J.; Davis, William J.

    Secondary-ion mass spectrometry (SIMS) U-Pb and trace element data are reported for zircon to address the controversial geochronology of eclogite-facies metamorphism in the Lindås nappe, Bergen Arcs, Caledonides of W Norway. Caledonian eclogite-facies overprint in the nappe was controlled by fracturing and introduction of fluid in the Proterozoic-Sveconorwegian-granulite-facies meta-anorthosite-norite protolith. Zircon grains in one massive eclogite display a core-rim structure. Sveconorwegian cores have trace element signatures identical with those of zircon in the granulite protolith, i.e. 0.31<=Th/U<=0.89, heavy rare earth element (HREE) enrichment, and negative Eu anomaly. Weakly-zoned to euhedral oscillatory-zoned Caledonian rims are characterized by Th/U<=0.13, low LREE content (minimum normalized abundance for Pr or Nd), variable enrichment in HREE, and no Eu anomaly. A decrease of REE towards the outermost rim, especially HREE, is documented. This signature reflects co-precipitation of zircon with garnet and clinozoisite in a feldspar-absent assemblage, and consequently links zircon to the eclogite-facies overprint. The rims provide a mean 206Pb/238U crystallization age of 423+/-4 Ma. This age reflects eclogite-forming reactions and fluid-rock interaction. This age indicates that eclogite-facies overprint in the Lindås nappe took place at the onset of the Scandian (Silurian) collision between Laurentia and Baltica.

  11. A mini-microbial fuel cell for voltage testing of exoelectrogenic bacteria

    Institute of Scientific and Technical Information of China (English)

    Xiaoxin CAO; Xia HUANG; Xiaoyuan ZHANG; Peng LIANG; Mingzbi FAN

    2009-01-01

    Current methods for testing the electricity generation capacity of isolates are time- and labor-consuming. This paper presents a rapid voltage testing system of exoelectrogenic bacteria called Quickscreen,which is based on a microliter microbial fuel cell(MFC).Geobacter sulfurreducens and Shewanella baltica were used as the model exoelectrogenic bacteria; Escherichia coli that cannot generate electricity was used as a negative control. It was found that the electricity generation capacity of the isolates could be determined within about five hours by using Quickscreen, and that its time was relatively rapid compared with the time needed by using larger MFCs. A parallel, stable, and low background voltage was achieved using titanium as a current collector in the blank run. The external resistance had little impact on the blank run during the initial period. The cathode with a five-hole configuration, used to hydrate the carbon cathode, gave higher cathode potential than that with a one-hole configuration. Steady discharge and current interrupt methods showed that the anode mostly con-tributed to the large internal resistance of the Quickscreen system. However, the addition of graphite felt decreased the resistance from 18 to 5 kΩ. This device was proved to be useful to rapidly evaluate the electricity generation capacity of different bacteria.

  12. The phylogenetic relationships of Caulobacter, Asticcacaulis and Brevundimonas species and their taxonomic implications.

    Science.gov (United States)

    Sly, L I; Cox, T L; Beckenham, T B

    1999-04-01

    The phylogenetic relationships among the species of Caulobacter, Asticcacaulis and Brevundimonas were studied by comparison of their 16S rDNA sequences. The analysis of almost complete sequences confirmed the early evolutionary divergence of the freshwater and marine species of Caulobacter reported previously [Stahl, D. A., Key, R., Flesher, B. & Smit, J. (1992). J Bacteriol 174, 2193-2198]. The freshwater species formed two distinct clusters. One cluster contained the species Caulobacter bacteroides, Caulobacter crescentus, Caulobacter fusiformis and Caulobacter henricii. C. bacteroides and C. fusiformis are very closely related (sequence identity 99.8%). The second cluster was not exclusive and contained the specis Caulobacter intermedius, Caulobacter subvibrioides and Caulobacter variabilis, as well as Brevundimonas diminuta and Brevundimonas vesicularis. The marine species Caulobacter halobacteroides and Caulobacter maris were very closely related, with a sequence identity of 99.7%. These two species were most closely but distantly related to the marine hyphal/budding bacteria Hyphomonas jannaschiana and Hirschia baltica, which formed a deep phylogenetic line with Rhodobacter sphaeroides and Rhodobacter capsulatus. Caulobacter leidyia is unrelated to the other species of Caulobacter and belongs to the alpha-4 subclass of the Proteobacteria, forming a distinct cluster with Asticcacaulis excentricus and Asticcacaulis biprosthecium. The taxonomic implications of the polyphyletic nature of the genus Caulobacter and the absence of a type culture for the type species of the genus Caulobacter vibrioides, are discussed.

  13. Marine environment status assessment based on macrophytobenthic plants as bio-indicators of heavy metals pollution.

    Science.gov (United States)

    Zalewska, Tamara; Danowska, Beata

    2017-05-15

    The main aim of study was to develop the environmental quality standards (EQSMP) for selected heavy metals: Pb, Cd, Hg and Ni bioaccumulated in the tissues of marine macrophytobenthic plants: Chara baltica, Cladophora spp., Coccotylus truncatus, Furcellaria lumbricalis, Polysiphonia fucoides, Stuckenia pectinata and Zanichellia palustris, collected in designated areas of the southern Baltic Sea in period 2008-2015. The calculated concentration ratios (CR), which attained very high values: 10(4)Lkg(-1) for lead, 10(3)Lkg(-1) for nickel and mercury and even 10(5)Lkg(-1) for cadmium formed the basis for the determination of EQSMP values. The EQSMP values were: 26mgkg(-1)d.w. for Pb, 33mgkg(-1)d.w. for Cd, 32mgkg(-1)d.w. for Ni and 0.4mgkg(-1)d.w. for Hg. The application of macrophytobenthic plants as bioindicators in marine environment status assessment of certain areas of the Baltic Sea is also described in the paper. Copyright © 2017 Elsevier Ltd. All rights reserved.

  14. The making and unmaking of a supercontinent: Rodinia revisited

    Science.gov (United States)

    Meert, Joseph G.; Torsvik, Trond H.

    2003-11-01

    During the Neoproterozoic, a supercontinent commonly referred to as Rodinia, supposedly formed at ca. 1100 Ma and broke apart at around 800-700 Ma. However, continental fits (e.g., Laurentia vs. Australia-Antarctica, Greater India vs. Australia-Antarctica, Amazonian craton [AC] vs. Laurentia, etc.) and the timing of break-up as postulated in a number of influential papers in the early-mid-1990s are at odds with palaeomagnetic data. The new data necessitate an entirely different fit of East Gondwana elements and western Gondwana and call into question the validity of SWEAT, AUSWUS models and other variants. At the same time, the geologic record indicates that Neoproterozoic and early Paleozoic rift margins surrounded Laurentia, while similar-aged collisional belts dissected Gondwana. Collectively, these geologic observations indicate the breakup of one supercontinent followed rapidly by the assembly of another smaller supercontinent (Gondwana). At issue, and what we outline in this paper, is the difficulty in determining the exact geometry of the earlier supercontinent. We discuss the various models that have been proposed and highlight key areas of contention. These include the relationships between the various 'external' Rodinian cratons to Laurentia (e.g., Baltica, Siberia and Amazonia), the notion of true polar wander (TPW), the lack of reliable paleomagnetic data and the enigmatic interpretations of the geologic data. Thus, we acknowledge the existence of a Rodinia supercontinent, but we can place only loose constraints on its exact disposition at any point in time.

  15. Carboniferous paleogeographic and paleoclimatic reconstructions

    Energy Technology Data Exchange (ETDEWEB)

    Scotese, C.R. (Univ. of Texas, Arlington, TX (United States). Dept. of Geology); Raymond, A. (Texas A and M Univ., College Station, TX (United States). Dept. Geology)

    1992-01-01

    The Carboniferous was an important transitional period in earth history. The Paleozoic oceans separating the continents of Gondwana, Laurentia, Baltica, Kazakhstan, and Siberia had closed by the late Carboniferous forming the late Paleozoic supercontinent of Pangea. Plate motions which appear to have been rapid during the Early Carboniferous (6--10 cm/yr), slowed to a temperature gradient increased as the Earth's climate changed from hot-house to ice-house conditions. Sea level, which stood high during the Early Carboniferous, fell as a result of continental collision and mountain-building, and then began to rise and fall rhythmically as the South Polar ice-cap waxed and waned. These environmental changes intersected important evolutionary events, namely, the explosive colonization of the emergent land areas by plants and the rise of terrestrial vertebrates. In this paper the authors present paleogeographic reconstructions for 6 intervals during the Carboniferous. These maps illustrate the latitudinal position of the continents deduced from paleomagnetic data and the distribution of climatically restricted lithofacies (coal, bauxite, evaporite, calcrete, and tillite), the inferred location of active plate boundaries, and the changing configuration of mountains, land, shallow seas, and deep ocean basins. For each of these paleogeographic maps a climatic simulation was run using the Parametric Climate Model. These simulations predict the distribution of high and low pressure cells, prevailing wind directions, pole-to-equator temperature gradient, relative wetness/dryness, as well as zones of coastal upwelling.

  16. Paleozoic terranes of eastern Australia and the drift history of Gondwana

    Science.gov (United States)

    McElhinny, Michael W.; Powell, Chris McA.; Pisarevsky, Sergei A.

    2003-02-01

    Critical assessment of Paleozoic paleomagnetic results from Australia shows that paleopoles from locations on the main craton and in the various terranes of the Tasman Fold Belt of eastern Australia follow the same path since 400 Ma for the Lachlan and Thomson superterranes, but not until 250 Ma or younger for the New England superterrane. Most of the paleopoles from the Tasman Fold Belt are derived from the Lolworth-Ravenswood terrane of the Thomson superterrane and the Molong-Monaro terrane of the Lachlan superterrane. Consideration of the paleomagnetic data and geological constraints suggests that these terranes were amalgamated with cratonic Australia by the late Early Devonian. The Lolworth-Ravenswood terrane is interpreted to have undergone a 90° clockwise rotation between 425 and 380 Ma. Although the Tamworth terrane of the western New England superterrane is thought to have amalgamated with the Lachlan superterrane by the Late Carboniferous, geological syntheses suggest that movements between these regions may have persisted until the Middle Triassic. This view is supported by the available paleomagnetic data. With these constraints, an apparent polar wander path for Gondwana during the Paleozoic has been constructed after review of the Gondwana paleomagnetic data. The drift history of Gondwana with respect to Laurentia and Baltica during the Paleozoic is shown in a series of paleogeographic maps.

  17. Il Teatro Shakespeariano di Danzica. L'Alato / Gdansk Shakespearian Theatre. The Winged

    Directory of Open Access Journals (Sweden)

    Renato Rizzi

    2014-05-01

    Full Text Available Il 23 aprile, giorno della nascita e della morte di William Shakespeare, è stato inaugurato il tetto apribile del nuovo Teatro Elisabettiano, che sarà inaugurato il prossimo settembre a Danzica. L'evento diventa l'occasione per celebrare allo stesso tempo le potenze plastiche del simbolo, che, disseminate nella metafisica dei luoghi (e della memoria, guidano le forze alla 'forma' e i valori e gli ideali che hanno sostenuto il tormentato processo storico della città baltica e della nazione polacca. / On 23 April, the date of the birth and death of William Shakespeare, the openable roof of the new Elizabethan Theatre in Gdańsk was inaugurated, with an official ceremony for the latter to come in September. The event became an opportunity to celebrate both the plastic powers of the symbol, which, scattered through the metaphysics of places (and memory, guide the forces to 'form' as well as the values and ideals that have sustained the tormented historical process of this Baltic city and the Polish nation as a whole.

  18. Composition and distribution of subtidal and intertidal crustacean assemblages in soft-bottoms of the Ria de Vigo (NW Spain

    Directory of Open Access Journals (Sweden)

    Eva Cacabelos

    2010-08-01

    Full Text Available The intertidal and subtidal soft-bottoms of the inner area of the Ria de Vigo (NW Spain were sampled in November and December 1999, and spatial distribution of crustacean species was examined. Environmental variables from water and sediment were measured at each sampling site. Amphipods and myocopids were the numerically dominant orders (49.9 and 26.9% dominance, amphipods accounting for more than 54% of identified taxa. The highest crustacean densities occurred with 55-41 species and 5953.6-4346.4 ind. m–2 in external areas, where the diversity index reached the maximum values. Multivariate techniques revealed that distribution of crustaceans in the inlet was highly dependent on depth. Ordination analysis determined three major assemblages: Intertidal bottoms colonized by seagrasses and subjected to strong variations of salinity were dominated by the amphipod Melita palmata, harpacticoids and the isopod Idotea baltica (Group A. The amphipod Corophium cf. runcicorne and the cumacean Iphinoe tenella predominated in the muddy bottoms of central areas (Group B. These species were also present in the deep muddy bottoms of the mouth of the inlet, with high carbonate and gravel contents, and with the myocopids and the amphipod Microdeutopus cf. armatus displaying maximum dominances (Group C.

  19. Ordovician chitinozoan biozonation of the Brabant Massif, Belgium.

    Science.gov (United States)

    Samuelsson, J; Verniers, J

    2000-12-01

    Chitinozoans from seven Ordovician units (Abbaye de Villers, Tribotte, Rigenée, Ittre, Bornival, and Brutia formations and a new unnamed unit, here provisionally called the Asquempont unit) belonging to the mainly concealed Brabant Massif, Belgium are described herein. Fifty-six samples were taken from rocks cropping out at the south-eastern rim of the massif in the Orneau, Dyle-Thyle and Senne-Sennette valleys. Microfossil preservation is moderate to poor, and the chitinozoans occur in low numbers. Taxonomically, the recovered chitinozoans are distributed into 29 taxa, some placed under open nomenclature. Together with earlier published graptolite and acritarch data, the analysis of the chitinozoan assemblages resulted in an improved chronostratigraphy of the investigated formations. We propose a local chitinozoan biozonation with 11 zones for the Brabant Massif. The oldest investigated units yielded chitinozoans typical for North Gondwana, and younger units (starting in the middle Caradoc), yielded some taxa also common in Baltica. As the Brabant Massif formed part of the microcontinent Avalonia, the chitinozoan assemblages recovered from the massif support the inferred drifting of Avalonia from high latitudes towards middle latitudes in the Ordovician as was suggested earlier.

  20. Contrasting seasonal drivers of virus abundance and production in the North Pacific Ocean.

    Science.gov (United States)

    Gainer, P Jackson; Pound, Helena L; Larkin, Alyse A; LeCleir, Gary R; DeBruyn, Jennifer M; Zinser, Erik R; Johnson, Zackary I; Wilhelm, Steven W

    2017-01-01

    The North Pacific Ocean (between approximately 0°N and 50°N) contains the largest continuous ecosystem on Earth. This region plays a vital role in the cycling of globally important nutrients as well as carbon. Although the microbial communities in this region have been assessed, the dynamics of viruses (abundances and production rates) remains understudied. To address this gap, scientific cruises during the winter and summer seasons (2013) covered the North Pacific basin to determine factors that may drive virus abundances and production rates. Along with information on virus particle abundance and production, we collected a spectrum of oceanographic metrics as well as information on microbial diversity. The data suggest that both biotic and abiotic factors affect the distribution of virus particles. Factors influencing virus dynamics did not vary greatly between seasons, although the abundance of viruses was almost an order of magnitude greater in the summer. When considered in the context of microbial community structure, our observations suggest that members of the bacterial phyla Proteobacteria, Planctomycetes, and Bacteroidetes were correlated to both virus abundances and virus production rates: these phyla have been shown to be enriched in particle associated communities. The findings suggest that environmental factors influence virus community functions (e.g., virion particle degradation) and that particle-associated communities may be important drivers of virus activity.

  1. Molecular diversity of the foregut bacteria community in the dromedary camel (Camelus dromedarius).

    Science.gov (United States)

    Samsudin, Anjas A; Evans, Paul N; Wright, André-Denis G; Al Jassim, Rafat

    2011-11-01

    The molecular diversity of the foregut bacterial community in the dromedary camel (Camelus dromedarius) in Central Australia was investigated through comparative analyses of 16S rRNA gene sequences prepared from the foregut contents of 12 adult feral camels fed on native vegetation. A total of 267 full-length 16S rRNA gene clones were examined, with 151 operational taxonomic units (OTUs) identified at a 99% species-level identity cut-off criterion. The prediction of actual diversity in the foregut of the dromedary camel using the Chaol approach was 238 OTUs, while the richness and evenness of the diversity estimated using Shannon index was 4.84. The majority of bacteria in the current study were affiliated with the bacterial phylum Firmicutes (67% of total clones) and were related to the classes Clostridia, Bacilli and Mollicutes, followed by the Bacteroidetes (25%) that were mostly represented by the family Prevotellaceae. The remaining phyla were represented by Actinobacteria, Chloroflexi, Cynophyta, Lentisphaerae, Planctomycetes, Proteobacteria and Sphirochaetes. Moreover, 11 clones of cultivated bacteria were identified as Brevundimonas sp., Butyrivibrio fibrisolvens, Prevotella sp. and Ruminococcus flavefaciens. The novelty in this foregut environment is remarkable where 97% of the OTUs were distantly related to any known sequence in the public database.

  2. Different organic loading rates on the biogas production during the anaerobic digestion of rice straw: A pilot study.

    Science.gov (United States)

    Zhou, Jun; Yang, Jun; Yu, Qing; Yong, Xiaoyu; Xie, Xinxin; Zhang, Lijuan; Wei, Ping; Jia, Honghua

    2017-07-27

    The aim of this work was to investigate the mesophilic methane fermentation of rice straw at different organic loading rates (OLRs) in a 300m(3) bioreactor. It was found that biogas production increased when the OLR was below 2.00kg VSsubstrate/(m(3)·d). The average volumetric biogas production reached 0.86m(3)/(m(3)·d) at an OLR of 2.00kg VSsubstrate/(m(3)·d). Biogas production rate was 323m(3)/t dry rice straw over the whole process. The pH, chemical oxygen demand, volatile fatty acid, and NH4(+)-N concentrations were all in optimal range at different OLRs. High-throughput sequencing analysis indicated that Firmicutes, Fibrobacteres, and Spirochaetes predominated in straw samples. Chloroflexi, Proteobacteria, and Planctomycetes were more abundant in the slurry. The hydrogenotrophic pathway was the main biochemical pathway of methanogenesis in the reactor. This study provides new information regarding the OLR and the differences in the spatial distribution of specific microbiota in a rice straw biogas plant. Copyright © 2017 Elsevier Ltd. All rights reserved.

  3. A snapshot on spatial and vertical distribution of bacterial communities in the eastern Indian Ocean

    Institute of Scientific and Technical Information of China (English)

    WANG Jing; KAN Jinjun; BORECKI Laura; ZHANG Xiaodong; WANG Dongxiao; SUN Jun

    2016-01-01

    Besides being critical components of marine food web, microorganisms play vital roles in biogeochemical cycling of nutrients and elements in the ocean. Currently little is known about microbial population structure and their distributions in the eastern Indian Ocean. In this study, we applied molecular approaches including polymerase chain reaction-denaturant gradient gel electrophoresis (PCR-DGGE) and High-Throughput next generation sequencing to investigate bacterial 16S rRNA genes from the equatorial regions and the adjacent Bay of Bengal in the eastern Indian Ocean. In general,Bacteroidetes,Proteobacteria (mainlyAlpha, andGamma),Actinobacteria, Cyanobacteria andPlanctomycetes dominated the microbial communities. Horizontally distinct spatial distribution of major microbial groups was observed from PCR-DGGE gel image analyses. However, further detailed characterization of community structures by pyrosequencing suggested a more pronounced stratified distribution pattern:Cyanobacteria andActinobacteria were more predominant at surface water (25 m);Bacteroidetes dominated at 25 m and 150 m whileProteobacteria (mainlyAlphaproteobacteria) occurred more frequently at 75 m water depth. With increasing water depth, the bacterial communities from different locations tended to share high similarity, indicating a niche partitioning for minor groups of bacteria recovered with high throughput sequencing approaches. This study provided the first “snapshot” on biodiversity and spatial distribution ofBacteria in water columns in the eastern Indian Ocean, and the findings further emphasized the potential functional roles of these microbes in energy and resource cycling in the eastern Indian Ocean.

  4. Searching for convergent evolution in manganese superoxidase dismutase using hydrophobic cluster analysis

    Directory of Open Access Journals (Sweden)

    Heng Xiang

    2014-06-01

    Full Text Available There are numerous examples of convergent evolution in nature. Major ecological adaptations such as flight, loss of limbs in vertebrates, pesticide resistance, adaptation to a parasitic way of life, etc., have all evolved more than once, as seen by their analogous functions in separate taxa. But what about protein evolution? Does the environment have a strong enough influence on intracellular processes that enzymes and other functional proteins play, to evolve similar functional roles separately in different organisms? Manganese Superoxide Dismutase (MnSOD is a manganesedependant metallo-enzyme which plays a crucial role in protecting cells from anti-oxidative stress by eliminating reactive (superoxide oxygen species. It is a ubiquitous housekeeping enzyme found in nearly all organisms. In this study we compare phylogenies based on MnSOD protein sequences to those based on scores from Hydrophobic Cluster Analysis (HCA. We calculated HCA similarity values for each pair of taxa to obtain a pair-wise distance matrix. A UPGMA tree based on the HCA distance matrix and a common tree based on the primary protein sequence for MnSOD was constructed. Differences between these two trees within animals, enterobacteriaceae, planctomycetes and cyanobacteria are presented and cited as possible examples of convergence. We note that several residue changes result in changes in hydrophobicity at positions which apparently are under the effect of positive selection.

  5. Microbial Diversity in Cerrado Biome (Neotropical Savanna Soils.

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    Alinne Pereira de Castro

    Full Text Available The Cerrado, the largest savanna region in South America, is located in central Brazil. Cerrado physiognomies, which range from savanna grasslands to forest formations, combined with the highly weathered, acidic clay Cerrado soils form a unique ecoregion. In this study, high-throughput sequencing of ribosomal RNA genes was combined with shotgun metagenomic analysis to explore the taxonomic composition and potential functions of soil microbial communities in four different vegetation physiognomies during both dry and rainy seasons. Our results showed that changes in bacterial, archaeal, and fungal community structures in cerrado denso, cerrado sensu stricto, campo sujo, and gallery forest soils strongly correlated with seasonal patterns of soil water uptake. The relative abundance of AD3, WPS-2, Planctomycetes, Thermoprotei, and Glomeromycota typically decreased in the rainy season, whereas the relative abundance of Proteobacteria and Ascomycota increased. In addition, analysis of shotgun metagenomic data revealed a significant increase in the relative abundance of genes associated with iron acquisition and metabolism, dormancy, and sporulation during the dry season, and an increase in the relative abundance of genes related to respiration and DNA and protein metabolism during the rainy season. These gene functional categories are associated with adaptation to water stress. Our results further the understanding of how tropical savanna soil microbial communities may be influenced by vegetation covering and temporal variations in soil moisture.

  6. Phylogenetic analysis of a microbialite-forming microbial mat from a hypersaline lake of the Kiritimati atoll, Central Pacific.

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    Dominik Schneider

    Full Text Available On the Kiritimati atoll, several lakes exhibit microbial mat-formation under different hydrochemical conditions. Some of these lakes trigger microbialite formation such as Lake 21, which is an evaporitic, hypersaline lake (salinity of approximately 170‰. Lake 21 is completely covered with a thick multilayered microbial mat. This mat is associated with the formation of decimeter-thick highly porous microbialites, which are composed of aragonite and gypsum crystals. We assessed the bacterial and archaeal community composition and its alteration along the vertical stratification by large-scale analysis of 16S rRNA gene sequences of the nine different mat layers. The surface layers are dominated by aerobic, phototrophic, and halotolerant microbes. The bacterial community of these layers harbored Cyanobacteria (Halothece cluster, which were accompanied with known phototrophic members of the Bacteroidetes and Alphaproteobacteria. In deeper anaerobic layers more diverse communities than in the upper layers were present. The deeper layers were dominated by Spirochaetes, sulfate-reducing bacteria (Deltaproteobacteria, Chloroflexi (Anaerolineae and Caldilineae, purple non-sulfur bacteria (Alphaproteobacteria, purple sulfur bacteria (Chromatiales, anaerobic Bacteroidetes (Marinilabiacae, Nitrospirae (OPB95, Planctomycetes and several candidate divisions. The archaeal community, including numerous uncultured taxonomic lineages, generally changed from Euryarchaeota (mainly Halobacteria and Thermoplasmata to uncultured members of the Thaumarchaeota (mainly Marine Benthic Group B with increasing depth.

  7. Vertical Distribution of Bacterial Community Diversity and Water Quality during the Reservoir Thermal Stratification

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    Hai-Han Zhang

    2015-06-01

    Full Text Available Reservoir thermal stratification drives the water temperature and dissolved oxygen gradient, however, the characteristic of vertical water microbial community during thermal stratification is so far poorly understood. In this work, water bacterial community diversity was determined using the Illumina Miseq sequencing technique. The results showed that epilimnion, metalimnion and hypolimnion were formed steadily in the JINPEN drinking water reservoir. Water temperature decreased steadily from the surface (23.11 °C to the bottom (9.17 °C. Total nitrogen ranged from 1.07 to 2.06 mg/L and nitrate nitrogen ranged from 0.8 to 1.84 mg/L. The dissolved oxygen concentration decreased sharply below 50 m, and reached zero at 65 m. The Miseq sequencing revealed a total of 4127 operational taxonomic units (OTUs with 97% similarity, which were affiliated with 15 phyla including Acidobacteria, Actinobacteria, Armatimonadetes, Bacteroidetes, Caldiserica, Chlamydiae, Chlorobi, Chloroflexi, Cyanobacteria, Firmicutes, Gemmatimonadetes, Nitrospirae, Planctomycetes, Proteobacteria, and Verrucomicrobia. The highest Shannon diversity was 4.41 in 45 m, and the highest Chao 1 diversity was 506 in 5 m. Rhodobacter dominated in 55 m (23.24% and 65 m (12.58%. Prosthecobacter dominated from 0.5 to 50 m. The heat map profile and redundancy analysis (RDA indicated significant difference in vertical water bacterial community composition in the reservoir. Meanwhile, water quality properties including dissolved oxygen, conductivity, nitrate nitrogen and total nitrogen have a dramatic influence on vertical distribution of bacterial communities.

  8. Molecular Techniques Revealed Highly Diverse Microbial Communities in Natural Marine Biofilms on Polystyrene Dishes for Invertebrate Larval Settlement

    KAUST Repository

    Lee, On On

    2014-01-09

    Biofilm microbial communities play an important role in the larval settlement response of marine invertebrates. However, the underlying mechanism has yet to be resolved, mainly because of the uncertainties in characterizing members in the communities using traditional 16S rRNA gene-based molecular methods and in identifying the chemical signals involved. In this study, pyrosequencing was used to characterize the bacterial communities in intertidal and subtidal marine biofilms developed during two seasons. We revealed highly diverse biofilm bacterial communities that varied with season and tidal level. Over 3,000 operational taxonomic units with estimates of up to 8,000 species were recovered in a biofilm sample, which is by far the highest number recorded in subtropical marine biofilms. Nineteen phyla were found, of which Cyanobacteria and Proteobacteria were the most dominant one in the intertidal and subtidal biofilms, respectively. Apart from these, Actinobacteria, Bacteroidetes, and Planctomycetes were the major groups recovered in both intertidal and subtidal biofilms, although their relative abundance varied among samples. Full-length 16S rRNA gene clone libraries were constructed for the four biofilm samples and showed similar bacterial compositions at the phylum level to those revealed by pyrosequencing. Laboratory assays confirmed that cyrids of the barnacle Balanus amphitrite preferred to settle on the intertidal rather than subtidal biofilms. This preference was independent of the biofilm bacterial density or biomass but was probably related to the biofilm community structure, particularly, the Proteobacterial and Cyanobacterial groups. © 2014 Springer Science+Business Media New York.

  9. Searching for convergent evolution in manganese superoxidase dismutase using hydrophobic cluster analysis.

    Science.gov (United States)

    Xiang, Heng; Zhang, Ruizhi; Li, Nengzhang; Vossbrinck, Charles R

    2014-06-01

    There are numerous examples of convergent evolution in nature. Major ecological adaptations such as flight, loss of limbs in vertebrates, pesticide resistance, adaptation to a parasitic way of life, etc., have all evolved more than once, as seen by their analogous functions in separate taxa. But what about protein evolution? Does the environment have a strong enough influence on intracellular processes that enzymes and other functional proteins play, to evolve similar functional roles separately in different organisms? Manganese Superoxide Dismutase (MnSOD) is a manganesedependant metallo-enzyme which plays a crucial role in protecting cells from anti-oxidative stress by eliminating reactive (superoxide) oxygen species. It is a ubiquitous housekeeping enzyme found in nearly all organisms. In this study we compare phylogenies based on MnSOD protein sequences to those based on scores from Hydrophobic Cluster Analysis (HCA). We calculated HCA similarity values for each pair of taxa to obtain a pair-wise distance matrix. A UPGMA tree based on the HCA distance matrix and a common tree based on the primary protein sequence for MnSOD was constructed. Differences between these two trees within animals, enterobacteriaceae, planctomycetes and cyanobacteria are presented and cited as possible examples of convergence. We note that several residue changes result in changes in hydrophobicity at positions which apparently are under the effect of positive selection.

  10. Coupling autotrophic denitrification with partial nitritation-anammox (PNA) for efficient total inorganic nitrogen removal.

    Science.gov (United States)

    Dasgupta, Sunayna; Wu, Sha; Goel, Ramesh

    2017-06-27

    The performance of and the microbial ecology in an integrated lab scale set up comprising of a PN/A bioreactor and an elemental sulfur-supported packed bed autotrophic denitrification (ESSAD) are reported. The PN/A reactor exhibited an average removal rate of 0.56±0.103kgNm(-3)d(-1), whereas the ESSAD reactor removed an average of 0.0018kg NO3(-)-Nm(-3)d(-1). The combined average removal rate was 0.6kgNm(-3)d(-1), yielding an overall total inorganic nitrogen efficiency of 97%. Based on 16S rRNA gene clone libraries from the ESSAD reactor, the extracted Operational Taxonomic Units (OTUs) formed a clade with Thiobacillus denitrificans sp. indicating a common ancestral relationship. High throughput amplicon sequencing targeting V3 region of 16S rRNA gene for the biofilm in the ESSAD also revealed an abundance of the Thiobacillus genus. Additionally, 16s rRNA amplicon sequencing of the genomic DNA from the PN/A reactor reflected a dominance of the Planctomycetes phylum. Copyright © 2017 Elsevier Ltd. All rights reserved.

  11. [Intestinal bacterial community is indicative for the healthy status of Litopenaeus vannamei].

    Science.gov (United States)

    Wu, Jin-feng; Xiong, Jin-bo; Wang, Xin; Qiu, Qian-ling-ling; Zheng, Jia-lai; Zhang, De-min

    2016-02-01

    High density and intensive Litopenaeus vannamei aquaculture has increased the frequency of shrimp disease, however, it remains uncertain whether change in intestinal bacteria could be indicative of shrimp health state (healthy or diseased). Therefore, we collected water and shrimp intestine samples from ponds with or without diseased shrimps. Using bacterial 16S rRNA gene as a biomarker, the bacterial community structure and diversity were evaluated with the Illumina MiSeq sequencing technique. The results showed that the variations of bacterioplankton community were primarily shaped by the levels of NO2(-)-N, chlorophyll a and PO4(3-)-P. Bacterial diversity was signif-7 icantly lower in diseased shrimps than in healthy ones. Using a response ratio analysis, we screened 28 operational taxonomic units (OTUs), and their abundances significantly changed in the intestines between healthy and diseased shrimps. In general, the abundances of OTUs belonged to Actinobacteria, Flavobacteria and Bacilli significantly decreased in diseased shrimps compared with those in healthy shrimps., while the OTUs affiliated to Clostridia showed an opposite pattern. In addition, we obtained 61 indicator species that primarily affiliated to Bacteroidetes, Proteobacteria, Firmicutes, Planctomycetes and Actinobacteria. Notably, the identified indicator taxa exhibited clearly discriminative patterns among habitats (water or intestine) and health status. Collectively, this study provided scientific information for development of new probiotics and disease prevention.

  12. Genome-Centric Analysis of Microbial Populations Enriched by Hydraulic Fracture Fluid Additives in a Coal Bed Methane Production Well.

    Science.gov (United States)

    Robbins, Steven J; Evans, Paul N; Parks, Donovan H; Golding, Suzanne D; Tyson, Gene W

    2016-01-01

    Coal bed methane (CBM) is generated primarily through the microbial degradation of coal. Despite a limited understanding of the microorganisms responsible for this process, there is significant interest in developing methods to stimulate additional methane production from CBM wells. Physical techniques including hydraulic fracture stimulation are commonly applied to CBM wells, however the effects of specific additives contained in hydraulic fracture fluids on native CBM microbial communities are poorly understood. Here, metagenomic sequencing was applied to the formation waters of a hydraulically fractured and several non-fractured CBM production wells to determine the effect of this stimulation technique on the in-situ microbial community. The hydraulically fractured well was dominated by two microbial populations belonging to the class Phycisphaerae (within phylum Planctomycetes) and candidate phylum Aminicenantes. Populations from these phyla were absent or present at extremely low abundance in non-fractured CBM wells. Detailed metabolic reconstruction of near-complete genomes from these populations showed that their high relative abundance in the hydraulically fractured CBM well could be explained by the introduction of additional carbon sources, electron acceptors, and biocides contained in the hydraulic fracture fluid.

  13. Electricity generation using chocolate industry wastewater and its treatment in activated sludge based microbial fuel cell and analysis of developed microbial community in the anode chamber.

    Science.gov (United States)

    Patil, Sunil A; Surakasi, Venkata Prasad; Koul, Sandeep; Ijmulwar, Shrikant; Vivek, Amar; Shouche, Y S; Kapadnis, B P

    2009-11-01

    Feasibility of using chocolate industry wastewater as a substrate for electricity generation using activated sludge as a source of microorganisms was investigated in two-chambered microbial fuel cell. The maximum current generated with membrane and salt bridge MFCs was 3.02 and 2.3 A/m(2), respectively, at 100 ohms external resistance, whereas the maximum current generated in glucose powered MFC was 3.1 A/m(2). The use of chocolate industry wastewater in cathode chamber was promising with 4.1 mA current output. Significant reduction in COD, BOD, total solids and total dissolved solids of wastewater by 75%, 65%, 68%, 50%, respectively, indicated effective wastewater treatment in batch experiments. The 16S rDNA analysis of anode biofilm and suspended cells revealed predominance of beta-Proteobacteria clones with 50.6% followed by unclassified bacteria (9.9%), alpha-Proteobacteria (9.1%), other Proteobacteria (9%), Planctomycetes (5.8%), Firmicutes (4.9%), Nitrospora (3.3%), Spirochaetes (3.3%), Bacteroides (2.4%) and gamma-Proteobacteria (0.8%). Diverse bacterial groups represented as members of the anode chamber community.

  14. Dynamic bacterial communities on reverse-osmosis membranes in a full-scale desalination plant.

    Science.gov (United States)

    Manes, C-L de O; West, N; Rapenne, S; Lebaron, P

    2011-01-01

    To better understand biofouling of seawater reverse osmosis (SWRO) membranes, bacterial diversity was characterized in the intake water, in subsequently pretreated water and on SWRO membranes from a full-scale desalination plant (FSDP) during a 9 month period. 16S rRNA gene fingerprinting and sequencing revealed that bacterial communities in the water samples and on the SWRO membranes were very different. For the different sampling dates, the bacterial diversity of the active and the total bacterial fractions of the water samples remained relatively stable over the sampling period whereas the bacterial community structure on the four SWRO membrane samples was significantly different. The richness and evenness of the SWRO membrane bacterial communities increased with usage time with an increase in the Shannon diversity index of 2.2 to 3.7. In the oldest SWRO membrane (330 days), no single operational taxonomic unit (OTU) dominated and the majority of the OTUs fell into the Alphaproteobacteria or the Planctomycetes. In striking contrast, a Betaproteobacteria OTU affiliated to the genus Ideonella was dominant and exclusively found in the membrane used for the shortest time (10 days). This suggests that bacteria belonging to this genus could be one of the primary colonizers of the SWRO membrane. Knowledge of the dominant bacterial species on SWRO membranes and their dynamics should help guide culture studies for physiological characterization of biofilm forming species.

  15. Bacterial Community Diversity of Oil-Contaminated Soils Assessed by High Throughput Sequencing of 16S rRNA Genes

    Directory of Open Access Journals (Sweden)

    Mu Peng

    2015-09-01

    Full Text Available Soil bacteria play a major role in ecological and biodegradable function processes in oil-contaminated soils. Here, we assessed the bacterial diversity and changes therein in oil-contaminated soils exposed to different periods of oil pollution using 454 pyrosequencing of 16S rRNA genes. No less than 24,953 valid reads and 6246 operational taxonomic units (OTUs were obtained from all five studied samples. OTU richness was relatively higher in contaminated soils than clean samples. Acidobacteria, Actinobacteria, Bacteroidetes, Chloroflexi, Planctomycetes and Proteobacteria were the dominant phyla among all the soil samples. The heatmap plot depicted the relative percentage of each bacterial family within each sample and clustered five samples into two groups. For the samples, bacteria in the soils varied at different periods of oil exposure. The oil pollution exerted strong selective pressure to propagate many potentially petroleum degrading bacteria. Redundancy analysis (RDA indicated that organic matter was the highest determinant factor for explaining the variations in community compositions. This suggests that compared to clean soils, oil-polluted soils support more diverse bacterial communities and soil bacterial community shifts were mainly controlled by organic matter and exposure time. These results provide some useful information for bioremediation of petroleum contaminated soil in the future.

  16. Integrated natural treatment systems for developing communities: low-tech N-removal through the fluctuating microbial pathways.

    Science.gov (United States)

    Shipin, O; Koottatep, T; Khanh, N T T; Polprasert, C

    2005-01-01

    Integration of natural treatment systems (NTS) (WSP, wetlands etc.) with each other as well as with advanced unit processes (biofiltration) offers a second lease of life to NTS. Long-term full and pilot cale experience in South Africa and Thailand have shown that contrary to a common view, a low tech N-removal from municipal and light industrial wastewater is a reality for a developing community The high treatment efficiency is ascribed to interplay of N-related processes complementing each other. The present FISH-based (Fluorescence In Situ Hybridization) approach to microbial community structure is a pioneering effort in the field of NTS. It establishes interrelationships between major N-removing groups (aerobic and anaerobic ammonia oxidizers (ANAMMOX), denitrifiers) within integrated systems and links them to the high treatment performance. Seasonally fluctuating presence of the ANAMMOX bacteria (0-2.5% of total bacterial numbers) in the NTS (free surface flow wetland) is reported for the first time. Their numbers correlate with metabolically dependent ammonia-oxidizers (2.0-3.0%) but not with stable overall Planctomycetes population (4.5-5.1%). As a result of the flexible microbial structure the robust low cost removal down to TN < 10 mg/L is routinely feasible at the loading rates ranging from 0.005 to 0.08 TN kg/m3/day.

  17. Active Microbial Communities Inhabit Sulphate-Methane Interphase in Deep Bedrock Fracture Fluids in Olkiluoto, Finland

    Directory of Open Access Journals (Sweden)

    Malin Bomberg

    2015-01-01

    Full Text Available Active microbial communities of deep crystalline bedrock fracture water were investigated from seven different boreholes in Olkiluoto (Western Finland using bacterial and archaeal 16S rRNA, dsrB, and mcrA gene transcript targeted 454 pyrosequencing. Over a depth range of 296–798 m below ground surface the microbial communities changed according to depth, salinity gradient, and sulphate and methane concentrations. The highest bacterial diversity was observed in the sulphate-methane mixing zone (SMMZ at 250–350 m depth, whereas archaeal diversity was highest in the lowest boundaries of the SMMZ. Sulphide-oxidizing ε-proteobacteria (Sulfurimonas sp. dominated in the SMMZ and γ-proteobacteria (Pseudomonas spp. below the SMMZ. The active archaeal communities consisted mostly of ANME-2D and Thermoplasmatales groups, although Methermicoccaceae, Methanobacteriaceae, and Thermoplasmatales (SAGMEG, TMG were more common at 415–559 m depth. Typical indicator microorganisms for sulphate-methane transition zones in marine sediments, such as ANME-1 archaea, α-, β- and δ-proteobacteria, JS1, Actinomycetes, Planctomycetes, Chloroflexi, and MBGB Crenarchaeota were detected at specific depths. DsrB genes were most numerous and most actively transcribed in the SMMZ while the mcrA gene concentration was highest in the deep methane rich groundwater. Our results demonstrate that active and highly diverse but sparse and stratified microbial communities inhabit the Fennoscandian deep bedrock ecosystems.

  18. Bacterial diversity in surface water of the Yellow Sea during and after a green alga tide in 2008

    Science.gov (United States)

    Guo, Cong; Li, Fuchao; Jiang, Peng; Liu, Zhaopu; Qin, Song

    2011-11-01

    From May to August 2008, a large "green tide", consisting of the alga Ulva ( Enteromorpha) prolifera, occurred in the Yellow Sea, China, affecting the local marine ecosystem and human activities. We investigated the influence of the green tide on the microbial community in the surface seawater, at four sites from July to August 2008, using bacterial 16S rRNA gene clone libraries. We sequenced 228 clones of unique patterns identified by restriction fragment length polymorphism (RFLP) techniques. The results show that 228 sequenced clones fell into six bacterial phyla: Proteobacteria, Bacteroidetes, Cyanobacteria, Verrucomicrobia, Actinobacteria, and Planctomycetes. Alphaproteobacteria (33%), Gammaproteobacteria (25%), Bacteroidetes (23%) and Cyanobacteria (9%) dominated the assemblage. Comparison between samples collected in July (during the tide) and those collected in August (after the tide) showed that, in the microbial community, diversities of Alphaproteobacteria and Cyanobacteria increased after the tide, while those of Gammaproteobacteria and Bacteroidetes decreased. These results indicate that the green tide influenced the growth of some bacteria, and provide information for further studies on the interactions and relationships between U. prolifera and the bacterial community. This study suggests that microbial community analysis is a good approach to monitoring green tides.

  19. Comparison of bacterial communities on limnic versus coastal marine particles reveals profound differences in colonization.

    Science.gov (United States)

    Bižić-Ionescu, Mina; Zeder, Michael; Ionescu, Danny; Orlić, Sandi; Fuchs, Bernhard M; Grossart, Hans-Peter; Amann, Rudolf

    2015-10-01

    Marine and limnic particles are hotspots of organic matter mineralization significantly affecting biogeochemical element cycling. Fluorescence in-situ hybridization and pyrosequencing of 16S rRNA genes were combined to investigate bacterial diversity and community composition on limnic and coastal marine particles > 5 and > 10 μm respectively. Limnic particles were more abundant (average: 1 × 10(7) l(-1)), smaller in size (average areas: 471 versus 2050 μm(2)) and more densely colonized (average densities: 7.3 versus 3.6 cells 100 μm(-2)) than marine ones. Limnic particle-associated (PA) bacteria harboured Alphaproteobacteria and Betaproteobacteria, and unlike previously suggested sizeable populations of Gammaproteobacteria, Actinobacteria and Bacteroidetes. Marine particles were colonized by Planctomycetes and Betaproteobacteria additionally to Alphaproteobacteria, Bacteroidetes and Gammaproteobacteria. Large differences in individual particle colonization could be detected. High-throughput sequencing revealed a significant overlap of PA and free-living (FL) bacteria highlighting an underestimated connectivity between both fractions. PA bacteria were in 14/21 cases more diverse than FL bacteria, reflecting a high heterogeneity in the particle microenvironment. We propose that a ratio of Chao 1 indices of PA/FL marine particles demonstrates that, despite the seemingly similar ecological niches, PA communities of both environments differ substantially. © 2014 Society for Applied Microbiology and John Wiley & Sons Ltd.

  20. Preliminary Analysis of Life within a Former Subglacial Lake Sediment in Antarctica

    Directory of Open Access Journals (Sweden)

    Gavin Burns

    2013-09-01

    Full Text Available Since the first descriptions of Antarctic subglacial lakes, there has been a growing interest and awareness of the possibility that life will exist and potentially thrive in these unique and little known environments. The unusual combination of selection pressures, and isolation from the rest of the biosphere, might have led to novel adaptations and physiology not seen before, or indeed to the potential discovery of relic populations that may have become extinct elsewhere. Here we report the first microbiological analysis of a sample taken from a former subglacial lake sediment in Antarctica (Lake Hodgson, on the Antarctic Peninsula. This is one of a number of subglacial lakes just emerging at the margins of the Antarctic ice sheet due to the renewed onset of deglaciation. Microbial diversity was divided into 23.8% Actinobacteria, 21.6% Proteobacteria, 20.2% Planctomycetes and 11.6% Chloroflexi, characteristic of a range of habitat types ( Overall, common sequences were neither distinctly polar, low temperature, freshwater nor marine. Twenty three percent of this diversity could only be identified to “unidentified bacterium”. Clearly these are diverse ecosystems with enormous potential.

  1. Molecular diversity of fungal and bacterial communities in the marine sponge Dragmacidon reticulatum.

    Science.gov (United States)

    Passarini, Michel R Z; Miqueletto, Paula B; de Oliveira, Valéria M; Sette, Lara D

    2015-02-01

    The present work aimed to investigate the diversity of bacteria and filamentous fungi of southern Atlantic Ocean marine sponge Dragmacidon reticulatum using cultivation-independent approaches. Fungal ITS rDNA and 18S gene analyses (DGGE and direct sequencing approaches) showed the presence of representatives of three order (Polyporales, Malasseziales, and Agaricales) from the phylum Basidiomycota and seven orders belonging to the phylum Ascomycota (Arthoniales, Capnodiales, Dothideales, Eurotiales, Hypocreales, Pleosporales, and Saccharomycetales). On the other hand, bacterial 16S rDNA gene analyses by direct sequencing approach revealed the presence of representatives of seven bacterial phyla (Cyanobacteria, Proteobacteria, Actinobacteria, Bacteroidetes, Lentisphaerae, Chloroflexi, and Planctomycetes). Results from statistical analyses (rarefaction curves) suggested that the sampled clones covered the fungal diversity in the sponge samples studied, while for the bacterial community additional sampling would be necessary for saturation. This is the first report related to the molecular analyses of fungal and bacterial communities by cultivation-independent approaches in the marine sponges D. reticulatum. Additionally, the present work broadening the knowledge of microbial diversity associated to marine sponges and reports innovative data on the presence of some fungal genera in marine samples. © 2015 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

  2. Bacterial Diversity Across a Turbidite-Stranded Sediment-Water Interface, La Jolla Canyon, CA

    Science.gov (United States)

    Harrison, B. K.; Flood, B.; Myrbo, A.; Bailey, J.

    2016-12-01

    The emplacement of gravity-driven sediment flows imposes a significant physical and geochemical impact on underlying sediment and microbial communities. Although previous studies have established lasting mineralogical (e.g., McKay and Pederson, 2014) and biological signatures (e.g., Anschutz et al., 2002) of turbidite deposition, the response of prokaryotes within and beneath debris flows remains poorly constrained. Both bacterial cells associated with the underlying sediment and allocthonous material must respond to substantially altered selective pressures. As a consequence, turbidites and underlying sediments provide an exceptional opportunity to examine 1) microbial community response to sedimentation 2) preservation and identification of microbial dispersal mechanisms. We collected Illumina MiSeq sequence libraries across an intact marine turbidite boundary at 25cm sediment depth in La Jolla canyon off the coast of California. 16S rRNA gene signatures of relict and active bacterial populations exhibit persistent differences attributable to turbidite deposition. In particular, the sedimentary boundary is sharply demarcated at the cm scale by the diversity and abundance of Chloroflexi, Planctomycetes, and Actinobacteria. Variations in the abundance of putative dissimilatory sulfate-reducing Deltaproteobacteria across the stranded sediment-water interface reflect persistent turbidite-induced changes to the geochemical environment. This work raises the possibility that abrupt sedimentological events may alter the microbial community in a manner that persists with burial.

  3. Phylogenetic Diversity of Bacteria Associated with the Marine Sponge Rhopaloeides odorabile†

    Science.gov (United States)

    Webster, Nicole S.; Wilson, Kate J.; Blackall, Linda L.; Hill, Russell T.

    2001-01-01

    Molecular techniques were employed to document the microbial diversity associated with the marine sponge Rhopaloeides odorabile. The phylogenetic affiliation of sponge-associated bacteria was assessed by 16S rRNA sequencing of cloned DNA fragments. Fluorescence in situ hybridization (FISH) was used to confirm the presence of the predominant groups indicated by 16S rDNA analysis. The community structure was extremely diverse with representatives of the Actinobacteria, low-G+C gram-positive bacteria, the β- and γ-subdivisions of the Proteobacteria, Cytophaga/Flavobacterium, green sulfur bacteria, green nonsulfur bacteria, planctomycetes, and other sequence types with no known close relatives. FISH probes revealed the spatial location of these bacteria within the sponge tissue, in some cases suggesting possible symbiotic functions. The high proportion of 16S rRNA sequences derived from novel actinomycetes is good evidence for the presence of an indigenous marine actinomycete assemblage in R. odorabile. High microbial diversity was inferred from low duplication of clones in a library with 70 representatives. Determining the phylogenetic affiliation of sponge-associated microorganisms by 16S rRNA analysis facilitated the rational selection of culture media and isolation conditions to target specific groups of well-represented bacteria for laboratory culture. Novel media incorporating sponge extracts were used to isolate bacteria not previously recovered from this sponge. PMID:11133476

  4. 16S-rRNA-based analysis of bacterial diversity in the gut of fungus-cultivating termites (Microtermes and Odontotermes species).

    Science.gov (United States)

    Makonde, Huxley M; Boga, Hamadi I; Osiemo, Zipporah; Mwirichia, Romano; Mackenzie, Lucy M; Göker, Markus; Klenk, Hans-Peter

    2013-11-01

    The interaction between termites and their gut symbionts has continued to attract the curiosity of researchers over time. The aim of this study was to characterize and compare the bacterial diversity and community structure in the guts of three termites (Odontotermes somaliensis, Odontotermes sp. and Microtermes sp.) using 16S rRNA gene sequencing of clone libraries. Clone libraries were screened by restriction fragment length polymorphism and representative clones from O. somaliensis (100 out of 330 clones), Odontotermes sp. (100 out of 359 clones) and Microtermes sp. (96 out 336 clones) were sequenced. Phylogenetic analysis indicated seven bacterial phyla were represented: Bacteroidetes, Spirochaetes, Firmicutes, Proteobacteria, Synergistetes, Planctomycetes and Actinobacteria. Sequences representing the phylum Bacteroidetes (>60 %) were the most abundant group in Odontotermes while those of Spirochaetes (29 %) and Firmicutes (23 %) were the abundant groups in Microtermes. The gut bacterial community structure within the two Odontotermes species investigated here was almost identical at the phylum level, but the Microtermes sp. had a unique bacterial community structure. Bacterial diversity was higher in Odontotermes than in Microtermes. The affiliation and clustering of the sequences, often with those from other termites' guts, indicate a majority of the gut bacteria are autochthonous having mutualistic relationships with their hosts. The findings underscore the presence of termite-specific bacterial lineages, the majority of which are still uncultured.

  5. Unearthing the Ecology of Soil Microorganisms Using a High Resolution DNA-SIP Approach to Explore Cellulose and Xylose Metabolism in Soil.

    Science.gov (United States)

    Pepe-Ranney, Charles; Campbell, Ashley N; Koechli, Chantal N; Berthrong, Sean; Buckley, Daniel H

    2016-01-01

    We explored microbial contributions to decomposition using a sophisticated approach to DNA Stable Isotope Probing (SIP). Our experiment evaluated the dynamics and ecological characteristics of functionally defined microbial groups that metabolize labile and structural C in soils. We added to soil a complex amendment representing plant derived organic matter substituted with either (13)C-xylose or (13)C-cellulose to represent labile and structural C pools derived from abundant components of plant biomass. We found evidence for (13)C-incorporation into DNA from (13)C-xylose and (13)C-cellulose in 49 and 63 operational taxonomic units (OTUs), respectively. The types of microorganisms that assimilated (13)C in the (13)C-xylose treatment changed over time being predominantly Firmicutes at day 1 followed by Bacteroidetes at day 3 and then Actinobacteria at day 7. These (13)C-labeling dynamics suggest labile C traveled through different trophic levels. In contrast, microorganisms generally metabolized cellulose-C after 14 days and did not change to the same extent in phylogenetic composition over time. Microorganisms that metabolized cellulose-C belonged to poorly characterized but cosmopolitan soil lineages including Verrucomicrobia, Chloroflexi, and Planctomycetes.

  6. Microbial and viral-like rhodopsins present in coastal marine sediments from four polar and subpolar regions

    Energy Technology Data Exchange (ETDEWEB)

    López, José L.; Golemba, Marcelo; Hernández, Edgardo; Lozada, Mariana; Dionisi, Hebe; Jansson, Janet K.; Carroll, Jolynn; Lundgren, Leif; Sjöling, Sara; Mac Cormack, Walter P.; Sobecky, Patricia

    2016-11-03

    Rhodopsins are broadly distributed. In this work, we analyzed 23 metagenomes corresponding to marine sediment samples from four regions that share cold climate conditions (Norway; Sweden; Argentina and Antarctica). In order to investigate the genes evolution of viral rhodopsins, an initial set of 6224 bacterial rhodopsin sequences according to COG5524 were retrieved from the 23 metagenomes. After selection by the presence of transmembrane domains and alignment, 123 viral (51) and non-viral (72) sequences (>50 amino acids) were finally included in further analysis. Viral rhodopsin genes were homologs of Phaeocystis globosa virus and Organic lake Phycodnavirus. Non-viral microbial rhodopsin genes were ascribed to Bacteroidetes, Planctomycetes, Firmicutes, Actinobacteria, Cyanobacteria, Proteobacteria, Deinococcus-Thermus and Cryptophyta and Fungi. A rescreening using Blastp, using as queries the viral sequences previously described, retrieved 30 sequences (>100 amino acids). Phylogeographic analysis revealed a geographical clustering of the sequences affiliated to the viral group. This clustering was not observed for the microbial non-viral sequences. The phylogenetic reconstruction allowed us to propose the existence of a putative ancestor of viral rhodopsin genes related to Actinobacteria and Chloroflexi. This is the first report about the existence of a phylogeographic association of the viral rhodopsin sequences from marine sediments.

  7. Pigment profiles and bacterial communities from Thailand thermal mats.

    Science.gov (United States)

    Portillo, M C; Sririn, V; Kanoksilapatham, W; Gonzalez, J M

    2009-11-01

    Differently colored layers of freshwater hot spring mats at Boekleung (Western Thailand) were studied. Temperatures ranged from over 50 up to 57 degrees C. Two mats were characterized: a laminated mat with a green and a red layers, and a monolayer, greenish-yellow mat. Bacterial communities in green, red, and yellow layers were investigated using molecular, culturing and pigment analysis methods. Pigment profiles covered a wide spectrum from chlorophylls to carotenoids. A green mat layer showed higher relative content of chlorophyll than yellow and red layers which presented higher proportion of carotenoids. Cyanobacterial isolates grow up to 55-56 degrees C and their pigment profiles showed a relatively high content of chlorophylls suggesting the importance of other bacterial groups in the mat pigment profiles. Bacterial communities were analyzed by 16S rDNA surveys showing Cyanobacteria and Chloroflexi as the mayor components of the community. Other significant members were Candidate Division OP10, Bacteroidetes, Planctomycetes and Actinobacteria. These results highlight a major participation of Cyanobacteria and Chloroflexi in thermal mat communities, and the preferential presence of Candidate Division OP10 in green mat layers. Differently colored mat layers showed characteristic bacterial communities which could be discriminated from pigment profiles and molecular surveys.

  8. Start-up of low-temperature anammox in UASB from mesophilic yeast factory anaerobic tank inoculum.

    Science.gov (United States)

    Zekker, Ivar; Rikmann, Ergo; Tenno, Toomas; Kroon, Kristel; Seiman, Andrus; Loorits, Liis; Fritze, Hannu; Tuomivirta, Tero; Vabamäe, Priit; Raudkivi, Markus; Mandel, Anni; Tenno, Taavo

    2015-01-01

    Robust start-up of the anaerobic ammonium oxidation (anammox) process from non-anammox-specific seeding material was achieved by using an inoculation with sludge-treating industrial [Formula: see text]-, organics- and N-rich yeast factory wastewater. N-rich reject water was treated at 20°C, which is significantly lower than optimum treatment temperature. Increasing the frequency of biomass fluidization (from 1-2 times per day to 4-5 times per day) through feeding the reactor with higher flow rate resulted in an improved total nitrogen removal rate (from 100 to 500 g m(-3)d(-1)) and increased anammox bacteria activity. As a result of polymerase chain reaction (PCR) tests, uncultured planctomycetes clone 07260064(4)-2-M13-_A01 (GenBank: JX852965) was identified from the biomass taken from the reactor. The presence of anammox bacteria after cultivation in the reactor was confirmed by quantitative PCR (qPCR); an increase in quantity up to ∼2×10(6) copies g VSS(-1) during operation could be seen in qPCR. Statistical modelling of chemical parameters revealed the roles of several optimized parameters needed for a stable process.

  9. Influence of Wastewater Discharge on the Metabolic Potential of the Microbial Community in River Sediments

    KAUST Repository

    Li, Dong

    2015-09-24

    To reveal the variation of microbial community functions during water filtration process in river sediments, which has been utilized widely in natural water treatment systems, this study investigates the influence of municipal wastewater discharge to streams on the phylotype and metabolic potential of the microbiome in upstream and particularly various depths of downstream river sediments. Cluster analyses based on both microbial phylogenetic and functional data collectively revealed that shallow upstream sediments grouped with those from deeper subsurface downstream regions. These sediment samples were distinct from those found in shallow downstream sediments. Functional genes associated with carbohydrate, xenobiotic, and certain amino acid metabolisms were overrepresented in upstream and deep downstream samples. In contrast, the more immediate contact with wastewater discharge in shallow downstream samples resulted in an increase in the relative abundance of genes associated with nitrogen, sulfur, purine and pyrimidine metabolisms, as well as restriction–modification systems. More diverse bacterial phyla were associated with upstream and deep downstream sediments, mainly including Actinobacteria, Planctomycetes, and Firmicutes. In contrast, in shallow downstream sediments, genera affiliated with Betaproteobacteria and Gammaproteobacteria were enriched with putative functions that included ammonia and sulfur oxidation, polyphosphate accumulation, and methylotrophic bacteria. Collectively, these results highlight the enhanced capabilities of microbial communities residing in deeper stream sediments for the transformation of water contaminants and thus provide a foundation for better design of natural water treatment systems to further improve the removal of contaminants. © 2015, Springer Science+Business Media New York.

  10. Variation in the diets of hydrothermal vent gastropods

    Science.gov (United States)

    Govenar, Breea; Fisher, Charles R.; Shank, Timothy M.

    2015-11-01

    A prevailing paradigm of hydrothermal vent ecology is that primary consumers feed on chemoautotrophic bacteria. However, for the purposes of reconstructing vent food webs and for tracking energy flow from the generation of rock and fluid chemistry through primary/ secondary productivity and consumption to the overlying water column, it remains unclear which consumers feed on which bacteria. In paired analyses of carbon and nitrogen tissue stable isotope values with unique 16S rRNA sequences from the stomach contents, we determined that two species of gastropod grazers appear to feed on epsilon-proteobacteria, while two other species have more diverse diets, including one species that consumes alpha-proteobacteria, planctomycetes, and non-green sulfur bacteria. Different carbon fixation pathways used by epsilon- and alpha-proteobacteria may account for the variation in the carbon stable isotope values among the consumers. Furthermore, our results indicate that trophic specialization and niche partitioning may contribute to the distribution and abundance of vent-endemic gastropods and support the hypothesis that consumers in the warmer habitats commonly feed on epsilon-proteobacteria that use the rTCA cycle, while in the cooler habitats they feed on additional bacteria that use the CBB cycle. These results suggest that the phylogenetic and metabolic diversity of free-living bacteria may play an important and previously overlooked role in facilitating species coexistence among primary consumers at hydrothermal vents and other chemosynthesis-based ecosystems.

  11. Unraveling the biochemistry and provenance of pupylation: a prokaryotic analog of ubiquitination

    Directory of Open Access Journals (Sweden)

    Aravind L

    2008-11-01

    Full Text Available Abstract Recently Mycobacterium tuberculosis was shown to possess a novel protein modification, in which a small protein Pup is conjugated to the epsilon-amino groups of lysines in target proteins. Analogous to ubiquitin modification in eukaryotes, this remarkable modification recruits proteins for degradation via archaeal-type proteasomes found in mycobacteria and allied actinobacteria. While a mycobacterial protein named PafA was found to be required for this conjugation reaction, its biochemical mechanism has not been elucidated. Using sensitive sequence profile comparison methods we establish that the PafA family proteins are related to the γ-glutamyl-cysteine synthetase and glutamine synthetase. Hence, we predict that PafA is the Pup ligase, which catalyzes the ATP-dependent ligation of the terminal γ-carboxylate of glutamate to lysines, similar to the above enzymes. We further discovered that an ortholog of the eukaryotic PAC2 (e.g. cg2106 is often present in the vicinity of the actinobacterial Pup-proteasome gene neighborhoods and is likely to represent the ancestral proteasomal chaperone. Pup-conjugation is sporadically present outside the actinobacteria in certain lineages, such as verrucomicrobia, nitrospirae, deltaproteobacteria and planctomycetes, and in the latter two lineages it might modify membrane proteins. Reviewers This article was reviewed by M. Madan Babu and Andrei Osterman

  12. Microbial community structure and nitrogenase gene diversity of sediment from a deep-sea hydrothermal vent field on the Southwest Indian Ridge

    Institute of Scientific and Technical Information of China (English)

    WU Yuehong; CAO Yi; WANG Chunsheng; WU Min; AHARON Oren; XU Xuewei

    2014-01-01

    A sediment sample was collected from a deep-sea hydrothermal vent field located at a depth of 2 951 m on the Southwest Indian Ridge. Phylogenetic analyses were performed on the prokaryotic community using polymerase chain reaction (PCR) amplification of the 16S rRNA and nifH genes. Within the Archaea, the dominant clones were from marine benthic group E (MBGE) and marine group I (MGI) belonging to the phyla Euryarchaeota and Thaumarchaeota, respectively. More than half of the bacterial clones belonged to the Proteobacteria, and most fell within the Gammaproteobacteria. No epsilonproteobacterial sequence was observed. Additional phyla were detected including the Actinobacteria, Bacteroidetes, Planctomycetes, Acidobacteria, Nitrospirae, Chloroflexi, Chlorobi, Chlamydiae, Verrucomicrobia, and candidate divisions OD1, OP11, WS3 and TM6, confirming their existence in hydrothermal vent environments. The detection of nifH gene suggests that biological nitrogen fixation may occur in the hydrothermal vent field of the South-west Indian Ridge. Phylogenetic analysis indicated that only Clusters I and III NifH were present. This is consistent with the phylogenetic analysis of the microbial 16S rRNA genes, indicating that Bacteria play the main role in nitrogen fixation in this hydrothermal vent environment.

  13. Microbial Diversity in Cerrado Biome (Neotropical Savanna) Soils.

    Science.gov (United States)

    de Castro, Alinne Pereira; Sartori da Silva, Maria Regina Silveira; Quirino, Betania Ferraz; da Cunha Bustamante, Mercedes Maria; Krüger, Ricardo Henrique

    2016-01-01

    The Cerrado, the largest savanna region in South America, is located in central Brazil. Cerrado physiognomies, which range from savanna grasslands to forest formations, combined with the highly weathered, acidic clay Cerrado soils form a unique ecoregion. In this study, high-throughput sequencing of ribosomal RNA genes was combined with shotgun metagenomic analysis to explore the taxonomic composition and potential functions of soil microbial communities in four different vegetation physiognomies during both dry and rainy seasons. Our results showed that changes in bacterial, archaeal, and fungal community structures in cerrado denso, cerrado sensu stricto, campo sujo, and gallery forest soils strongly correlated with seasonal patterns of soil water uptake. The relative abundance of AD3, WPS-2, Planctomycetes, Thermoprotei, and Glomeromycota typically decreased in the rainy season, whereas the relative abundance of Proteobacteria and Ascomycota increased. In addition, analysis of shotgun metagenomic data revealed a significant increase in the relative abundance of genes associated with iron acquisition and metabolism, dormancy, and sporulation during the dry season, and an increase in the relative abundance of genes related to respiration and DNA and protein metabolism during the rainy season. These gene functional categories are associated with adaptation to water stress. Our results further the understanding of how tropical savanna soil microbial communities may be influenced by vegetation covering and temporal variations in soil moisture.

  14. Metagenomic identification of bacterioplankton taxa and pathways involved in microcystin degradation in lake erie.

    Directory of Open Access Journals (Sweden)

    Xiaozhen Mou

    Full Text Available Cyanobacterial harmful blooms (CyanoHABs that produce microcystins are appearing in an increasing number of freshwater ecosystems worldwide, damaging quality of water for use by human and aquatic life. Heterotrophic bacteria assemblages are thought to be important in transforming and detoxifying microcystins in natural environments. However, little is known about their taxonomic composition or pathways involved in the process. To address this knowledge gap, we compared the metagenomes of Lake Erie free-living bacterioplankton assemblages in laboratory microcosms amended with microcystins relative to unamended controls. A diverse array of bacterial phyla were responsive to elevated supply of microcystins, including Acidobacteria, Actinobacteria, Bacteroidetes, Planctomycetes, Proteobacteria of the alpha, beta, gamma, delta and epsilon subdivisions and Verrucomicrobia. At more detailed taxonomic levels, Methylophilales (mainly in genus Methylotenera and Burkholderiales (mainly in genera Bordetella, Burkholderia, Cupriavidus, Polaromonas, Ralstonia, Polynucleobacter and Variovorax of Betaproteobacteria were suggested to be more important in microcystin degradation than Sphingomonadales of Alphaproteobacteria. The latter taxa were previously thought to be major microcystin degraders. Homologs to known microcystin-degrading genes (mlr were not overrepresented in microcystin-amended metagenomes, indicating that Lake Erie bacterioplankton might employ alternative genes and/or pathways in microcystin degradation. Genes for xenobiotic metabolism were overrepresented in microcystin-amended microcosms, suggesting they are important in bacterial degradation of microcystin, a phenomenon that has been identified previously only in eukaryotic systems.

  15. The microbial community in a high-temperature enhanced biological phosphorus removal (EBPR process

    Directory of Open Access Journals (Sweden)

    Ying Hui Ong

    2016-01-01

    Full Text Available An enhanced biological phosphorus removal (EBPR process operated at a relatively high temperature, 28 °C, removed 85% carbon and 99% phosphorus from wastewater over a period of two years. This study investigated its microbial community through fluorescent in situ hybridization (FISH and clone library generation. Through FISH, considerably more Candidatus “Accumulibacter phosphatis” (Accumulibacter-polyphosphate accumulating organisms (PAOs than Candidatus ‘Competibacter phosphatis’ (Competibacter-glycogen accumulating organisms were detected in the reactor, at 36 and 7% of total bacterial population, respectively. A low ratio of Glycogen/Volatile Fatty Acid of 0.69 further indicated the dominance of PAOs in the reactor. From clone library generated, 26 operational taxonomy units were retrieved from the sludge and a diverse population was shown, comprising Proteobacteria (69.6%, Actinobacteria (13.7%, Bacteroidetes (9.8%, Firmicutes (2.94%, Planctomycetes (1.96%, and Acidobacteria (1.47%. Accumulibacter are the only recognized PAOs revealed by the clone library. Both the clone library and FISH results strongly suggest that Accumulibacter are the major PAOs responsible for the phosphorus removal in this long-term EBPR at relatively high temperature.

  16. Biodegradation of roxarsone by a bacterial community of underground water and its toxic impact.

    Science.gov (United States)

    Mafla, S; Moraga, R; León, C G; Guzmán-Fierro, V G; Yañez, J; Smith, C T; Mondaca, M A; Campos, V L

    2015-08-01

    Roxarsone is included in chicken food as anticoccidial and mainly excreted unchanged in faeces. Microorganisms biotransform roxarsone into toxic compounds that leach and contaminate underground waters used for human consumption. This study evaluated roxarsone biotransformation by underground water microorganisms and the toxicity of the resulting compounds. Underground water from an agricultural field was used to prepare microcosms, containing 0.05 mM roxarsone, and cultured under aerobic or anaerobic conditions. Bacterial communities of microcosms were characterized by PCR-DGGE. Roxarsone degradation was measured by HPLC/HG/AAS. Toxicity was evaluated using HUVEC cells and the Toxi-ChromoTest kit. Roxarsone degradation analysis, after 15 days, showed that microcosms of underground water with nutrients degraded 90 and 83.3% of roxarsone under anaerobic and aerobic conditions, respectively. Microcosms without nutrients degraded 50 and 33.1% under anaerobic and aerobic conditions, respectively. Microcosms including nutrients showed more roxarsone conversion into toxic inorganic arsenic species. DGGE analyses showed the presence of Proteobacteria, Firmicutes, Actinobacteria, Planctomycetes and Spirochaetes. Toxicity assays showed that roxarsone biotransformation by underground water microorganisms in all microcosms generated degradation products toxic for eukaryotic and prokaryotic cells. Furthermore, toxicity increased when roxarsone leached though a soil column and was further transformed by the bacterial community present in underground water. Therefore, using underground water from areas where roxarsone containing manure is used as fertilizer might be a health risk.

  17. Microbial Diversity in Cerrado Biome (Neotropical Savanna) Soils

    Science.gov (United States)

    Pereira de Castro, Alinne; Sartori da Silva, Maria Regina Silveira; Quirino, Betania Ferraz; da Cunha Bustamante, Mercedes Maria; Krüger, Ricardo Henrique

    2016-01-01

    The Cerrado, the largest savanna region in South America, is located in central Brazil. Cerrado physiognomies, which range from savanna grasslands to forest formations, combined with the highly weathered, acidic clay Cerrado soils form a unique ecoregion. In this study, high-throughput sequencing of ribosomal RNA genes was combined with shotgun metagenomic analysis to explore the taxonomic composition and potential functions of soil microbial communities in four different vegetation physiognomies during both dry and rainy seasons. Our results showed that changes in bacterial, archaeal, and fungal community structures in cerrado denso, cerrado sensu stricto, campo sujo, and gallery forest soils strongly correlated with seasonal patterns of soil water uptake. The relative abundance of AD3, WPS-2, Planctomycetes, Thermoprotei, and Glomeromycota typically decreased in the rainy season, whereas the relative abundance of Proteobacteria and Ascomycota increased. In addition, analysis of shotgun metagenomic data revealed a significant increase in the relative abundance of genes associated with iron acquisition and metabolism, dormancy, and sporulation during the dry season, and an increase in the relative abundance of genes related to respiration and DNA and protein metabolism during the rainy season. These gene functional categories are associated with adaptation to water stress. Our results further the understanding of how tropical savanna soil microbial communities may be influenced by vegetation covering and temporal variations in soil moisture. PMID:26849674

  18. Bioprospecting Red Sea Coastal Ecosystems for Culturable Microorganisms and Their Antimicrobial Potential.

    Science.gov (United States)

    Al-Amoudi, Soha; Essack, Magbubah; Simões, Marta F; Bougouffa, Salim; Soloviev, Irina; Archer, John A C; Lafi, Feras F; Bajic, Vladimir B

    2016-09-10

    Microorganisms that inhabit unchartered unique soil such as in the highly saline and hot Red Sea lagoons on the Saudi Arabian coastline, represent untapped sources of potentially new bioactive compounds. In this study, a culture-dependent approach was applied to three types of sediments: mangrove mud (MN), microbial mat (MM), and barren soil (BS), collected from Rabigh harbor lagoon (RHL) and Al-Kharrar lagoon (AKL). The isolated bacteria were evaluated for their potential to produce bioactive compounds. The phylogenetic characterization of 251 bacterial isolates based on the 16S rRNA gene sequencing, supported their assignment to five different phyla: Proteobacteria, Firmicutes, Actinobacteria, Bacteroidetes, and Planctomycetes. Fifteen putative novel species were identified based on a 16S rRNA gene sequence similarity to other strain sequences in the NCBI database, being ≤98%. We demonstrate that 49 of the 251 isolates exhibit the potential to produce antimicrobial compounds. Additionally, at least one type of biosynthetic gene sequence, responsible for the synthesis of secondary metabolites, was recovered from 25 of the 49 isolates. Moreover, 10 of the isolates had a growth inhibition effect towards Staphylococcus aureus, Salmonella typhimurium and Pseudomonas syringae. We report the previously unknown antimicrobial activity of B. borstelensis, P. dendritiformis and M. salipaludis against all three indicator pathogens. Our study demonstrates the evidence of diverse cultured microbes associated with the Red Sea harbor/lagoon environments and their potential to produce antimicrobial compounds.

  19. Bioprospecting Red Sea Coastal Ecosystems for Culturable Microorganisms and Their Antimicrobial Potential

    Directory of Open Access Journals (Sweden)

    Soha Al-Amoudi

    2016-09-01

    Full Text Available Microorganisms that inhabit unchartered unique soil such as in the highly saline and hot Red Sea lagoons on the Saudi Arabian coastline, represent untapped sources of potentially new bioactive compounds. In this study, a culture-dependent approach was applied to three types of sediments: mangrove mud (MN, microbial mat (MM, and barren soil (BS, collected from Rabigh harbor lagoon (RHL and Al-Kharrar lagoon (AKL. The isolated bacteria were evaluated for their potential to produce bioactive compounds. The phylogenetic characterization of 251 bacterial isolates based on the 16S rRNA gene sequencing, supported their assignment to five different phyla: Proteobacteria, Firmicutes, Actinobacteria, Bacteroidetes, and Planctomycetes. Fifteen putative novel species were identified based on a 16S rRNA gene sequence similarity to other strain sequences in the NCBI database, being ≤98%. We demonstrate that 49 of the 251 isolates exhibit the potential to produce antimicrobial compounds. Additionally, at least one type of biosynthetic gene sequence, responsible for the synthesis of secondary metabolites, was recovered from 25 of the 49 isolates. Moreover, 10 of the isolates had a growth inhibition effect towards Staphylococcus aureus, Salmonella typhimurium and Pseudomonas syringae. We report the previously unknown antimicrobial activity of B. borstelensis, P. dendritiformis and M. salipaludis against all three indicator pathogens. Our study demonstrates the evidence of diverse cultured microbes associated with the Red Sea harbor/lagoon environments and their potential to produce antimicrobial compounds.

  20. Active Microbial Communities Inhabit Sulphate-Methane Interphase in Deep Bedrock Fracture Fluids in Olkiluoto, Finland

    Science.gov (United States)

    Bomberg, Malin; Nyyssönen, Mari; Pitkänen, Petteri; Lehtinen, Anne; Itävaara, Merja

    2015-01-01

    Active microbial communities of deep crystalline bedrock fracture water were investigated from seven different boreholes in Olkiluoto (Western Finland) using bacterial and archaeal 16S rRNA, dsrB, and mcrA gene transcript targeted 454 pyrosequencing. Over a depth range of 296–798 m below ground surface the microbial communities changed according to depth, salinity gradient, and sulphate and methane concentrations. The highest bacterial diversity was observed in the sulphate-methane mixing zone (SMMZ) at 250–350 m depth, whereas archaeal diversity was highest in the lowest boundaries of the SMMZ. Sulphide-oxidizing ε-proteobacteria (Sulfurimonas sp.) dominated in the SMMZ and γ-proteobacteria (Pseudomonas spp.) below the SMMZ. The active archaeal communities consisted mostly of ANME-2D and Thermoplasmatales groups, although Methermicoccaceae, Methanobacteriaceae, and Thermoplasmatales (SAGMEG, TMG) were more common at 415–559 m depth. Typical indicator microorganisms for sulphate-methane transition zones in marine sediments, such as ANME-1 archaea, α-, β- and δ-proteobacteria, JS1, Actinomycetes, Planctomycetes, Chloroflexi, and MBGB Crenarchaeota were detected at specific depths. DsrB genes were most numerous and most actively transcribed in the SMMZ while the mcrA gene concentration was highest in the deep methane rich groundwater. Our results demonstrate that active and highly diverse but sparse and stratified microbial communities inhabit the Fennoscandian deep bedrock ecosystems. PMID:26425566

  1. Seasonal dynamics of anammox bacteria in estuarial sediment of the Mai Po Nature Reserve revealed by analyzing the 16S rRNA and hydrazine oxidoreductase (hzo) genes.

    Science.gov (United States)

    Li, Meng; Cao, Huiluo; Hong, Yi-Guo; Gu, Ji-Dong

    2011-01-01

    The community and population dynamics of anammox bacteria in summer (wet) and winter (dry) seasons in estuarial mudflat sediment of the Mai Po Nature Reserve were investigated by 16S rRNA and hydrazine oxidoreductase (hzo) genes. 16S rRNA phylogenetic diversity showed that sequences related to 'Kuenenia' anammox bacteria were presented in summer but not winter while 'Scalindua' anammox bacteria occurred in both seasons and could be divided into six different clusters. Compared to the 16S rRNA genes, the hzo genes revealed a relatively uniform seasonal diversity, with sequences relating to 'Scalindua', 'Anammoxoglobus', and planctomycete KSU-1 found in both seasons. The seasonal specific bacterial groups and diversity based on the 16S rRNA and hzo genes indicated strong seasonal community structures in estuary sediment of this site. Furthermore, the higher abundance of hzo genes in summer than winter indicates clear seasonal population dynamics. Combining the physicochemical characteristics of estuary sediment in the two seasons and their correlations with anammox bacteria community structure, we proposed the strong seasonal dynamics in estuary sediment of Mai Po to be due to the anthropogenic and terrestrial inputs, especially in summer, which brings in freshwater anammox bacteria, such as 'Kuenenia', interacting with the coastal marine anammox bacteria 'Scalindua'.

  2. Bacterial Community Diversity of Oil-Contaminated Soils Assessed by High Throughput Sequencing of 16S rRNA Genes.

    Science.gov (United States)

    Peng, Mu; Zi, Xiaoxue; Wang, Qiuyu

    2015-09-24

    Soil bacteria play a major role in ecological and biodegradable function processes in oil-contaminated soils. Here, we assessed the bacterial diversity and changes therein in oil-contaminated soils exposed to different periods of oil pollution using 454 pyrosequencing of 16S rRNA genes. No less than 24,953 valid reads and 6246 operational taxonomic units (OTUs) were obtained from all five studied samples. OTU richness was relatively higher in contaminated soils than clean samples. Acidobacteria, Actinobacteria, Bacteroidetes, Chloroflexi, Planctomycetes and Proteobacteria were the dominant phyla among all the soil samples. The heatmap plot depicted the relative percentage of each bacterial family within each sample and clustered five samples into two groups. For the samples, bacteria in the soils varied at different periods of oil exposure. The oil pollution exerted strong selective pressure to propagate many potentially petroleum degrading bacteria. Redundancy analysis (RDA) indicated that organic matter was the highest determinant factor for explaining the variations in community compositions. This suggests that compared to clean soils, oil-polluted soils support more diverse bacterial communities and soil bacterial community shifts were mainly controlled by organic matter and exposure time. These results provide some useful information for bioremediation of petroleum contaminated soil in the future.

  3. Standard filtration practices may significantly distort planktonic microbial diversity estimates

    Directory of Open Access Journals (Sweden)

    Cory Cruz Padilla

    2015-06-01

    Full Text Available Fractionation of biomass by filtration is a standard method for sampling planktonic microbes. It is unclear how the taxonomic composition of filtered biomass changes depending on sample volume. Using seawater from a marine oxygen minimum zone, we quantified the 16S rRNA gene composition of biomass on a prefilter (1.6 μm pore-size and a downstream 0.2 μm filter over sample volumes from 0.05 to 5 L. Significant community shifts occurred in both filter fractions, and were most dramatic in the prefilter community. Sequences matching Vibrionales decreased from ~40-60% of prefilter datasets at low volumes (0.05-0.5 L to less than 5% at higher volumes, while groups such at the Chromatiales and Thiohalorhabdales followed opposite trends, increasing from minor representation to become the dominant taxa at higher volumes. Groups often associated with marine particles, including members of the Deltaproteobacteria, Planctomycetes and Bacteroidetes, were among those showing the greatest increase with volume (4 to 27-fold. Taxon richness (97% similarity clusters also varied significantly with volume, and in opposing directions depending on filter fraction, highlighting potential biases in community complexity estimates. These data raise concerns for studies using filter fractionation for quantitative comparisons of aquatic microbial diversity, for example between free-living and particle-associated communities.

  4. Metagenomic analysis of nitrogen metabolism genes in the surface of marine sediments

    Science.gov (United States)

    Reyes, Carolina; Schneider, Dominik; Thürmer, Andrea; Dellwig, Olaf; Lipka, Marko; Daniel, Rolf; Böttcher, Michael E.; Friedrich, Michael W.

    2016-04-01

    In this study, we analysed metagenomes along with biogeochemical profiles from Skagerrak (North Sea) and Bothnian Bay (Baltic Sea) sediments, to trace the prevailing nitrogen pathways. NO3- was present in the top 5 cm below the sediment-water interface at both sites. NH4+ increased with depth below 5 cm where it overlapped with the NO3- zone. Steady state modelling of NO3- and NH4+ porewater profiles indicates zones of net nitrogen species transformations. Protease, peptidase, urease and deaminase ammonification genes were detected in metagenomes. Genes involved in ammonia oxidation (amo, hao), nitrite oxidation (nxr), denitrification (nar, nir, nor) and dissimilatory NO3- reduction to NH4+ (nap, nfr and otr) were also present. 16S rRNA gene analysis showed that the nitrifying group Nitrosopumilales and other groups involved in nitrification and denitrification (Nitrobacter, Nitrosomonas, Nitrospira, Nitrosococcus, and Nitrosonomas) appeared less abundant in Skagerrak sediments compared to Bothnian Bay sediments. Beggiatoa and Thiothrix 16S rRNA genes were also present suggesting chemolithoautotrophic NO3- reduction to NO2- or NH4+ as a possible pathway. Although anammox planctomycetes 16S rRNA genes were present in metagenomes, anammox protein-coding genes were not detected. Our results show the metabolic potential for ammonification, nitrification, NO3- reduction, and denitrification activities in Skagerrak and Bothnian Bay sediments.

  5. Eukaryotic-like protein kinases in the prokaryotes and the myxobacterial kinome

    Science.gov (United States)

    Pérez, J.; Castañeda-García, A.; Jenke-Kodama, H.; Müller, R.; Muñoz-Dorado, J.

    2008-01-01

    Ser/Thr/Tyr kinases, which together comprise a major class of regulatory proteins in eukaryotes, were not believed to play an important role in prokaryotes until recently. However, our analysis of 626 prokaryotic genomes reveals that eukaryotic-like protein kinases (ELKs) are found in nearly two-thirds of the sequenced strains. We have identified 2697 ELKs, most of which are encoded by multicellular strains of the phyla Proteobacteria (Myxococcales), Actinobacteria, Cyanobacteria, and Chloroflexi, and 2 Acidobacteria and 1 Planctomycetes. Astonishingly, 7 myxobacterial strains together encode 892 ELKs, with 4 of the strains exhibiting a genomic ELK density similar to that observed in eukaryotes. Most myxobacterial ELKs show a modular organization in which the kinase domain is located at the N terminus. The C-terminal portion of the ELKs is highly diverse and often contains sequences with similarity to characterized domains, most of them involved in signaling mechanisms or in protein–protein interactions. However, many of these architectures are unique to the myxobacteria, an observation that suggests that this group exploits sophisticated and novel signal transduction systems. Phylogenetic reconstruction using the kinase domains revealed many orthologous sequence pairs and a huge number of gene duplications that probably occurred after speciation. Furthermore, studies of the microsynteny in the ELK-encoding regions reveal only low levels of synteny among Myxococcus xanthus, Plesiocystis pacifica, and Sorangium cellulosum. However, extensive similarities between M. xanthus, Stigmatella aurantiaca, and 3 Anaeromyxobacter strains were observed, indicating that they share regulatory pathways involving various ELKs. PMID:18836084

  6. Simultaneous enrichment of denitrifying anaerobic methane-oxidizing microorganisms and anammox bacteria in a hollow-fiber membrane biofilm reactor.

    Science.gov (United States)

    Ding, Zhao-Wei; Lu, Yong-Ze; Fu, Liang; Ding, Jing; Zeng, Raymond J

    2017-01-01

    In this study, the coculture system of denitrifying anaerobic methane oxidation (DAMO) microbes and anaerobic ammonium oxidation (anammox) bacteria was successfully enriched in a hollow-fiber membrane biofilm reactor (HfMBR) using freshwater sediment as the inoculum. The maximal removal rates of nitrate and ammonium were 78 mg N/L/day (131 mg N/m(2)/day) and 26 mg N/L/day (43 mg N/m(2)/day), respectively. Due to the high rate of methane mass transfer in HfMBR, the activity of DAMO archaea continued to increase during the enrichment period, indicating that HfMBR could be a powerful tool to enrich DAMO microorganisms. Effects of partial methane pressure, temperature, and pH on the cocultures were obvious. However, the microbial activity in HfMBR could be recovered quickly after the shock change of environmental factors. Furthermore, the result also found that DAMO bacteria likely had a stronger competitive advantage than anammox bacteria under the operating conditions in this study. High-throughput sequencing 16S rRNA genes illustrated that the dominant microbes were NC10, Euryarchaeota, Proteobacteria, Planctomycetes, and Chlorobi with relative abundance of 38.8, 26.2, 13.78, 6.2, and 3.6 %, respectively.

  7. Polarized Cell Division of Chlamydia trachomatis

    Science.gov (United States)

    Abdelrahman, Yasser; Ouellette, Scot P.; Belland, Robert J.; Cox, John V.

    2016-01-01

    Bacterial cell division predominantly occurs by a highly conserved process, termed binary fission, that requires the bacterial homologue of tubulin, FtsZ. Other mechanisms of bacterial cell division that are independent of FtsZ are rare. Although the obligate intracellular human pathogen Chlamydia trachomatis, the leading bacterial cause of sexually transmitted infections and trachoma, lacks FtsZ, it has been assumed to divide by binary fission. We show here that Chlamydia divides by a polarized cell division process similar to the budding process of a subset of the Planctomycetes that also lack FtsZ. Prior to cell division, the major outer-membrane protein of Chlamydia is restricted to one pole of the cell, and the nascent daughter cell emerges from this pole by an asymmetric expansion of the membrane. Components of the chlamydial cell division machinery accumulate at the site of polar growth prior to the initiation of asymmetric membrane expansion and inhibitors that disrupt the polarity of C. trachomatis prevent cell division. The polarized cell division of C. trachomatis is the result of the unipolar growth and FtsZ-independent fission of this coccoid organism. This mechanism of cell division has not been documented in other human bacterial pathogens suggesting the potential for developing Chlamydia-specific therapeutic treatments. PMID:27505160

  8. Unearthing the ecology of soil microorganisms using a high resolution DNA-SIP approach to explore cellulose and xylose metabolism in soil

    Directory of Open Access Journals (Sweden)

    Charles ePepe-Ranney

    2016-05-01

    Full Text Available We explored microbial contributions to decomposition using a sophisticated approach to DNA Stable Isotope Probing (SIP. Our experiment evaluated the dynamics and ecological characteristics of functionally defined microbial groups that metabolize labile and structural C in soils. We added to soil a complex amendment representing plant derived organic matter substituted with either 13C-xylose or 13C-cellulose to represent labile and structural C pools derived from abundant components of plant biomass. We found evidence for 13C-incorporation into DNA from 13C-xylose and 13C-cellulose in 49 and 63 operational taxonomic units (OTUs, respectively. The types of microorganisms that assimilated 13C in the 13C-xylose treatment changed over time being predominantly Firmicutes at day 1 followed by Bacteroidetes at day 3 and then Actinobacteria at day 7. These 13C-labeling dynamics suggest labile C traveled through different trophic levels. In contrast, microorganisms generally metabolized cellulose-C after 14 days and did not change to the same extent in phylogenetic composition over time. Microorganisms that metabolized cellulose-C belonged to poorly characterized but cosmopolitan soil lineages including Verrucomicrobia, Chloroflexi and Planctomycetes.

  9. Methanotrophic community dynamics in a seasonally anoxic fjord: Saanich Inlet, British Columbia

    Directory of Open Access Journals (Sweden)

    Mónica Torres-Beltrán

    2016-12-01

    Full Text Available Marine oxygen minimum zones (OMZs play disproportionate roles in nutrient and climate active trace gas cycling including nitrous oxide and methane, in the ocean. OMZs are currently expanding due to climate change making it increasingly important to identify microbial controls on trace gas cycling at the individual, population and community levels. Here we present a two-year survey of the microbial community along seasonal redox gradients in Saanich Inlet focused on identifying microbial agents driving methane oxidation. Although methanotrophs were rare, we identified three uncultivated groups affiliated with particulate methane monooxygenase (pMMO encoding phylogenetic groups (OPU, and methanotrophic symbionts as primary drivers of methane oxidation in Saanich Inlet. Distribution and activity patterns for these three groups were consistent with niche partitioning that became increasingly resolved during water column stratification. Moreover co-occurrence analysis combined with multi-level indicator species analysis revealed significant correlations between operational taxonomic units affiliated with Methylophaga, Methylophilales, SAR324, Verrucomicrobia, and Planctomycetes with OPUs and methanotrophic symbiont groups. Taken together these observations shed new light on the composition, dynamics, and potential interspecific interactions of microbes associated with CH4 cycling in the Saanich Inlet water column, provide a baseline for comparison between coastal and open ocean OMZs and support the potential role of OPUs, and methanotrophic symbiont groups as a widely distributed pelagic sink for CH4 along continental margins.

  10. Effect of organic matter strength on anammox for modified greenhouse turtle breeding wastewater treatment.

    Science.gov (United States)

    Chen, Chongjun; Huang, Xiaoxiao; Lei, Chenxiao; Zhang, Tian C; Wu, Weixiang

    2013-11-01

    Anaerobic ammonium-N removal from modified greenhouse turtle breeding wastewater with different chemical oxygen demand (COD) strengths (194.0-577.8 mg L(-1)) at relatively fixed C/N ratios (≈ 2) was investigated using a lab-scale up-flow anaerobic sludge blanket (UASB) anammox reactor. During the entire experiment, the total nitrogen (TN) removal efficiency was about 85% or higher, while the average COD removal efficiency was around 56.5 ± 7.9%. Based on the nitrogen and carbon balance, the nitrogen removal contribution was 79.6 ± 4.2% for anammox, 12.7 ± 3.0% for denitrification+denitritation and 7.7 ± 4.9% for other mechanisms. Denaturing gradient gel electrophoresis (DGGE) analyses revealed that Planctomycete, Proteobacteria and Chloroflexi bacteria were coexisted in the reactor. Anammox was always dominant when the reactor was fed with different COD concentrations, which indicated the stability of the anammox process with the coexistence of the denitrification process in treating greenhouse turtle breeding wastewater.

  11. Microbial community composition and functions are resilient to metal pollution along two forest soil gradients.

    Science.gov (United States)

    Azarbad, Hamed; Niklińska, Maria; Laskowski, Ryszard; van Straalen, Nico M; van Gestel, Cornelis A M; Zhou, Jizhong; He, Zhili; Wen, Chongqing; Röling, Wilfred F M

    2015-01-01

    Despite the global importance of forests, it is virtually unknown how their soil microbial communities adapt at the phylogenetic and functional level to long-term metal pollution. Studying 12 sites located along two distinct gradients of metal pollution in Southern Poland revealed that functional potential and diversity (assessed using GeoChip 4.2) were highly similar across the gradients despite drastically diverging metal contamination levels. Metal pollution level did, however, significantly impact bacterial community structure (as shown by MiSeq Illumina sequencing of 16S rRNA genes), but not bacterial taxon richness and community composition. Metal pollution caused changes in the relative abundance of specific bacterial taxa, including Acidobacteria, Actinobacteria, Bacteroidetes, Chloroflexi, Firmicutes, Planctomycetes and Proteobacteria. Also, a group of metal-resistance genes showed significant correlations with metal concentrations in soil. Our study showed that microbial communities are resilient to metal pollution; despite differences in community structure, no clear impact of metal pollution levels on overall functional diversity was observed. While screens of phylogenetic marker genes, such as 16S rRNA genes, provide only limited insight into resilience mechanisms, analysis of specific functional genes, e.g. involved in metal resistance, appears to be a more promising strategy. © FEMS 2014. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

  12. Characterising the microbiome of Corallina officinalis, a dominant calcified intertidal red alga.

    Science.gov (United States)

    Brodie, Juliet; Williamson, Christopher; Barker, Gary L; Walker, Rachel H; Briscoe, Andrew; Yallop, Marian

    2016-08-01

    The living prokaryotic microbiome of the calcified geniculate (articulated) red alga, Corallina officinalis from the intertidal seashore is characterised for the first time based on the V6 hypervariable region of 16S rRNA. Results revealed an extraordinary diversity of bacteria associated with the microbiome. Thirty-five prokaryotic phyla were recovered, of which Proteobacteria, Cyanobacteria, Bacteroidetes, Actinobacteria, Planctomycetes, Acidobacteria, Verrucomicrobia, Firmicutes and Chloroflexi made up the core microbiome. Unclassified sequences made up 25% of sequences, suggesting insufficient sampling of the world's oceans/macroalgae. The greatest diversity in the microbiome was on the upper shore, followed by the lower shore then the middle shore, although the microbiome community composition did not vary between shore levels. The C. officinalis core microbiome was broadly similar in composition to those reported in the literature for crustose coralline algae (CCAs) and free-living rhodoliths. Differences in relative abundance of the phyla between the different types of calcified macroalgal species may relate to the intertidal versus subtidal habit of the taxa and functionality of the microbiome components. The results indicate that much work is needed to identify prokaryotic taxa, and to determine the nature of the relationship of the bacteria with the calcified host spatially, temporally and functionally.

  13. Substrate type and free ammonia determine bacterial community structure in full-scale mesophilic anaerobic digesters treating cattle or swine manure

    Directory of Open Access Journals (Sweden)

    Jiabao eLi

    2015-11-01

    Full Text Available The microbial-mediated anaerobic digestion (AD process represents an efficient biological process for the treatment of organic waste along with biogas harvest. Currently, the key factors structuring bacterial communities and the potential core and unique bacterial populations in manure anaerobic digesters are not completely elucidated yet. In this study, we collected sludge samples from 20 full-scale anaerobic digesters treating cattle or swine manure, and investigated the variations of bacterial community compositions using high-throughput 16S rRNA amplicon sequencing. Clustering and correlation analysis suggested that substrate type and free ammonia (FA play key roles in determining the bacterial community structure. The COD: NH4+-N (C:N ratio of substrate and FA were the most important available operational parameters correlating to the bacterial communities in cattle and swine manure digesters, respectively. The bacterial populations in all of the digesters were dominated by phylum Firmicutes, followed by Bacteroidetes, Proteobacteria and Chloroflexi. Increased FA content selected Firmicutes, suggesting that they probably play more important roles under high FA content. Syntrophic metabolism by Proteobacteria, Chloroflexi, Synergistetes and Planctomycetes are likely inhibited when FA content is high. Despite the different manure substrates, operational conditions and geographical locations of digesters, core bacterial communities were identified. The core communities were best characterized by phylum Firmicutes, wherein Clostridium predominated overwhelmingly. Substrate-unique and abundant communities may reflect the properties of manure substrate and operational conditions. These findings extend our current understanding of the bacterial assembly in full-scale manure anaerobic digesters.

  14. Influence of Wastewater Discharge on the Metabolic Potential of the Microbial Community in River Sediments.

    Science.gov (United States)

    Li, Dong; Sharp, Jonathan O; Drewes, Jörg E

    2016-01-01

    To reveal the variation of microbial community functions during water filtration process in river sediments, which has been utilized widely in natural water treatment systems, this study investigates the influence of municipal wastewater discharge to streams on the phylotype and metabolic potential of the microbiome in upstream and particularly various depths of downstream river sediments. Cluster analyses based on both microbial phylogenetic and functional data collectively revealed that shallow upstream sediments grouped with those from deeper subsurface downstream regions. These sediment samples were distinct from those found in shallow downstream sediments. Functional genes associated with carbohydrate, xenobiotic, and certain amino acid metabolisms were overrepresented in upstream and deep downstream samples. In contrast, the more immediate contact with wastewater discharge in shallow downstream samples resulted in an increase in the relative abundance of genes associated with nitrogen, sulfur, purine and pyrimidine metabolisms, as well as restriction-modification systems. More diverse bacterial phyla were associated with upstream and deep downstream sediments, mainly including Actinobacteria, Planctomycetes, and Firmicutes. In contrast, in shallow downstream sediments, genera affiliated with Betaproteobacteria and Gammaproteobacteria were enriched with putative functions that included ammonia and sulfur oxidation, polyphosphate accumulation, and methylotrophic bacteria. Collectively, these results highlight the enhanced capabilities of microbial communities residing in deeper stream sediments for the transformation of water contaminants and thus provide a foundation for better design of natural water treatment systems to further improve the removal of contaminants.

  15. [High-throughput analysis of bacterial community of transition zone in littoral wetland of Wuliangsuhai eutrophic lake].

    Science.gov (United States)

    Li, Jingyu; Du, Ruifang; Zhao, Ji

    2015-05-04

    We studied soil bacterial community composition, abundance and diversity of transition zone along eutrophic lakeside wetland sediments and soils. The total DNA was extracted according to the sediment DNA extraction. Then high-throughput pyrosequencing was used to detect soil bacterial community composition,abundance and diversity based-on 16S rRNA gene. Soil physicochemical properties were tested to analyze its effects on bacterial community according to standard methods. The soil bacterial community composition and relative abundance were very different across transition zone in littoral wetland. Bacteria groups mainly include Proteobacteria, Bacteroidetes, Chloroflexi, Actinobacteria, Planctomycetes and Gemmatimonadetes at phylum level. The diversity index of bacterial communities gradually increased according the land distribution, especially the phylum Proteobacteria and the genus Sulfurimonas. Correlation analysis indicated that the combination of total phosphorus, total water soluble salt and ammonium has the most significant effects on the whole bacterial community structure, and Mantel Test results indicated that the correlation was statistically significant (R = 0.8857, P = 0.037). The bacterial community structure of transition zone is quite different in littoral wetland of Wuliangsuhai eutrophic lake, where Sulfurimonas play potential important roles in biogeochemical cycles of sediments in Wuliangsuhai Lake.

  16. Bacterial Diversity Associated with Cinachyra cavernosa and Haliclona pigmentifera, Cohabiting Sponges in the Coral Reef Ecosystem of Gulf of Mannar, Southeast Coast of India.

    Directory of Open Access Journals (Sweden)

    C Jasmin

    Full Text Available Sponges are abundant, diverse and functionally important organisms of coral reef ecosystems. Sponge-associated microorganisms have been receiving greater attention because of their significant contribution to sponge biomass, biogeochemical cycles and biotechnological potentials. However, our understanding of the sponge microbiome is limited to a few species of sponges from restricted geographical locations. Here, we report for the first time the bacterial diversity of two cohabiting sponges, viz. Cinachyra cavernosa and Haliclona pigmentifera, as well as that in the ambient water from the coral reef ecosystems of the Gulf of Mannar, located along the southeast coast of India. Two hundred and fifty two clones in the 16S rRNA gene library of these sponges were grouped into eight distinct phyla, of which four belonged to the core group that are associated only with sponges. Phylogenetic analysis of the core bacteria showed close affinity to other sponge-associated bacteria from different geographical locations. γ-Proteobacteria, Chloroflexi, Planctomycetes and Deferribacter were the core groups in C. cavernosa while β and δ-Proteobacteria performed this role in H. pigmentifera. We observed greater OTU diversity for C. cavernosa (Hǀ 2.07 compared to H. pigmentifera (Hǀ 1.97. UniFrac analysis confirmed the difference in bacterial diversity of the two sponge species and also between the sponges and the reef water (p<0.001. The results of our study restate the existence of a host driven force in shaping the sponge microbiome.

  17. Responses of plasmid-mediated quinolone resistance genes and bacterial taxa to (fluoro)quinolones-containing manure in arable soil.

    Science.gov (United States)

    Xiong, Wenguang; Sun, Yongxue; Ding, Xueyao; Zhang, Yiming; Zhong, Xiaoxia; Liang, Wenfei; Zeng, Zhenling

    2015-01-01

    The aim of the present study was to investigate the fate of plasmid-mediated quinolone resistance (PMQR) genes and the disturbance of soil bacterial communities posed by (fluoro)quinolones (FQNs)-containing manure in arable soil. Representative FQNs (enrofloxacin (ENR), ciprofloxacin (CIP) and norfloxacin (NOR)), PMQR genes (qepA, oqxA, oqxB, aac(6')-Ib-cr and qnrS) and bacterial communities in untreated soil, +manure and +manure+FQNs groups were analyzed using culture independent methods. The significantly higher abundance of oqxA, oqxB and aac(6')-Ib-cr, and significantly higher abundance of qnrS in +manure group than those in untreated soil disappeared at day 30 and day 60, respectively. All PMQR genes (oqxA, oqxB, aac(6')-Ib-cr and qnrS) dissipated 1.5-1.7 times faster in +manure group than those in +manure+FQNs group. The disturbance of soil bacterial communities posed by FQNs-containing manure was also found. The results indicated that significant effects of PMQR genes (oqxA, oqxB, aac(6')-Ib and qnrS) on arable soils introduced by manure disappeared 2 month after manure application. FQNs introduced by manure slowed down the dissipation of PMQR genes. The presence of high FQNs provided a selective advantage for species affiliated to the phylum including Acidobacteria, Verrucomicrobia and Planctomycetes while suppressing Proteobacteria and Actinobacteria.

  18. Nitrogen removal properties in a continuous marine anammox bacteria reactor under rapid and extensive salinity changes.

    Science.gov (United States)

    Wei, Qiaoyan; Kawagoshi, Yasunori; Huang, Xiaowu; Hong, Nian; Van Duc, Luong; Yamashita, Yuki; Hama, Takehide

    2016-04-01

    Salinity tolerance is one of the most important factors for the application of bioreactors to high-salinity wastewater. Although marine anammox bacteria (MAB) might be expected to tolerate higher salinities than freshwater anammox bacteria, there is little information on the effects of salinity on MAB activity. This study aimed to reveal the nitrogen removal properties in a continuous MAB reactor under conditions of rapid and extensive salinity changes. The reactor demonstrated stable nitrogen removal performance with a removal efficiency of over 85% under salinity conditions ranging from 0 to 50 g/L NaCl. The reactor performance was also well maintained, even though the salinity was rapidly changed from 30 to 50 g/L and from 30 to 0 g/L. Other evidence suggested that the seawater medium used contained components essential for effective MAB performance. Bacterial community analysis using polymerase chain reaction-denaturing gradient gel electrophoresis (PCR-DGGE) showed that planctomycete UKU-1, the dominant MAB species in the inoculum, was the main contributor to anammox activity under all conditions. The PCR-DGGE using a universal bacterial primer set showed different DNA band patterns between the reactor biomass sample collected under conditions of 75 g/L NaCl and all other conditions (0, 30, 50 and freshwater-medium). All DNA sequences determined were very similar to those of bacterial species from marine environments, anaerobic environments, or wastewater-treatment facilities.

  19. Bacterioplankton community analysis in tilapia ponds by Illumina high-throughput sequencing.

    Science.gov (United States)

    Fan, Li Min; Barry, Kamira; Hu, Geng Dong; Meng, Shun long; Song, Chao; Wu, Wei; Chen, Jia Zhang; Xu, Pao

    2016-01-01

    The changes of microbial community in aquaculture systems under the effects of stocking densities and seasonality were investigated in tilapia ponds. Total DNAs were extracted from the water samples, 16S rRNA gene was amplified and the bacterial community analyzed by Illumina high-throughput sequencing obtaining 3486 OTUs, from a total read of 715,842 sequences. Basing on the analysis of bacterial compositions, richness, diversity, bacterial 16S rRNA gene abundance, water sample comparisons and existence of specific bacterial taxa within three fish ponds in a 4 months period, the study conclusively observed that the dominant phylum in all water samples were similar, and they included; Proteobacteria, Cyanobacteria, Bacteroidetes, Actinobacteria, Planctomycetes and Chlorobi, distributed in different proportions in the different months and ponds. The seasonal changes had a more pronounced effect on the bacterioplankton community than the stocking densities; however some differences between the ponds were more likely caused by feed coefficient than by stocking densities. At the same time, most bacterial communities were affected by the nutrient input except phylum Cyanobacteria that was also affected by the feed control of tilapia.

  20. Rapid aerobic granulation in an SBR treating piggery wastewater by seeding sludge from a municipal WWTP.

    Science.gov (United States)

    Liu, Jun; Li, Jun; Wang, Xiaodong; Zhang, Qi; Littleton, Helen

    2017-01-01

    Aerobic sludge granulation was rapidly obtained in the erlenmeyer bottle and sequencing batch reactor (SBR) using piggery wastewater. Aerobic granulation occurred on day 3 and granules with mean diameter of 0.2mm and SVI30 of 20.3mL/g formed in SBR on day 18. High concentrations of Ca and Fe in the raw piggery wastewater and operating mode accelerated aerobic granulation, even though the seed sludge was from a municipal wastewater treatment plant (WWTP). Alpha diversity analysis revealed Operational Taxonomic Units, Shannon, ACE and Chao 1 indexes in aerobic granules were 2013, 5.51, 4665.5 and 3734.5, which were obviously lower compared to seed sludge. The percentages of major microbial communities, such as Proteobacteria, Bacteroidetes and Firmicutes were obviously higher in aerobic granules than seed sludge. Chloroflexi, Planctomycetes, Actinobacteria, TM7 and Acidobacteria showed much higher abundances in the inoculum. The main reasons might be the characteristics of raw piggery wastewater and granule structure. Copyright © 2016. Published by Elsevier B.V.

  1. Metagenomic identification of bacterioplankton taxa and pathways involved in microcystin degradation in lake erie.

    Science.gov (United States)

    Mou, Xiaozhen; Lu, Xinxin; Jacob, Jisha; Sun, Shulei; Heath, Robert

    2013-01-01

    Cyanobacterial harmful blooms (CyanoHABs) that produce microcystins are appearing in an increasing number of freshwater ecosystems worldwide, damaging quality of water for use by human and aquatic life. Heterotrophic bacteria assemblages are thought to be important in transforming and detoxifying microcystins in natural environments. However, little is known about their taxonomic composition or pathways involved in the process. To address this knowledge gap, we compared the metagenomes of Lake Erie free-living bacterioplankton assemblages in laboratory microcosms amended with microcystins relative to unamended controls. A diverse array of bacterial phyla were responsive to elevated supply of microcystins, including Acidobacteria, Actinobacteria, Bacteroidetes, Planctomycetes, Proteobacteria of the alpha, beta, gamma, delta and epsilon subdivisions and Verrucomicrobia. At more detailed taxonomic levels, Methylophilales (mainly in genus Methylotenera) and Burkholderiales (mainly in genera Bordetella, Burkholderia, Cupriavidus, Polaromonas, Ralstonia, Polynucleobacter and Variovorax) of Betaproteobacteria were suggested to be more important in microcystin degradation than Sphingomonadales of Alphaproteobacteria. The latter taxa were previously thought to be major microcystin degraders. Homologs to known microcystin-degrading genes (mlr) were not overrepresented in microcystin-amended metagenomes, indicating that Lake Erie bacterioplankton might employ alternative genes and/or pathways in microcystin degradation. Genes for xenobiotic metabolism were overrepresented in microcystin-amended microcosms, suggesting they are important in bacterial degradation of microcystin, a phenomenon that has been identified previously only in eukaryotic systems.

  2. Lentinula edodes-derived polysaccharide alters the spatial structure of gut microbiota in mice.

    Directory of Open Access Journals (Sweden)

    Xiaofei Xu

    Full Text Available Lentinula edodes-derived polysaccharides possess many therapeutic characteristics, including anti-tumor and immuno-modulation. The gut microbes play a critical role in modulation of immune function. However, the impact of Lentinula edodes-derived polysaccharides on the gut microbes have not yet been explored. In this study, high-throughput pyrosequencing technique was employed to investigate the effects of a new heteropolysaccharide L2 from Lentinula edodes on microbiota diversity and composition of small intestine, cecum, colon and distal end of colon (feces in mice. The results demonstrated that along mouse intestine the microbiota exhibit distinctly different space distribution. L2 treatment reduced the diversity and evenness of gut microbiota along the intestine, especially in the cecum and colon. In the fecal microbial communities, the decrease of Bacteroidetes by significantly increasing Proteobacteria were observed, which were characterized by the increased Helicobacteraceae and reduced S24-7 at family level. Some OTUs, corresponding to Bacteroides acidifaciens, Alistipes and Helicobacter suncus, were found to be significantly increased in L2 treated-mice. In particular, 4 phyla Chloroflexi, Gemmatimonadetes, Nitrospirae and Planctomycetes are exclusively present in L2-treated mice. This is helpful for further demonstrating healthy action mechanism of Lentinula edodes-derived polysaccharide L2.

  3. Bacterial diversity in surface water of the Yellow Sea duringand after a green alga tide in 2008

    Institute of Scientific and Technical Information of China (English)

    GUO Cong; LI Fuchao; JIANG Peng; LIU Zhaopu; QIN Song

    2011-01-01

    From May to August 2008,a large "green tide",consisting of the alga Ulva (Enteromorpha) prolifera,occurred in the Yellow Sea,China,affecting the local marine ecosystem and human activities.We investigated the influence of the green tide on the microbial community in the surface seawater,at four sites from July to August 2008,using bacterial 16S rRNA gene clone libraries.We sequenced 228clones of unique patterns identified by restriction fragment length polymorphism (RFLP) techniques.The results show that 228 sequenced clones fell into six bacterial phyla:Proteobacteria,Bacteroidetes,Cyanobacteria,Verrucomicrobia,Actinobacteria,and Planctomycetes.Alphaproteobacteria (33%),Gammaproteobacteria (25%),Bacteroidetes (23%) and Cyanobacteria (9%) dominated the assemblage.Comparison between samples collected in July (during the tide) and those collected in August (after the tide) showed that,in the microbial community,diversities of Alphaproteobacteria and Cyanobacteria increased after the tide,while those of Gammaproteobacteria and Bacteroidetes decreased.These results indicate that the green tide influenced the growth of some bacteria,and provide information for further studies on the interactions and relationships between U.prolifera and the bacterial community.This study suggests that microbial community analysis is a good approach to monitoring green tides.

  4. Community structure of microbial biofilms associated with membrane-based water purification processes as revealed using a polyphasic approach

    Energy Technology Data Exchange (ETDEWEB)

    Chen, C.L.; Chong, M.L.; Wong, M.T.; Ong, S.L.; Ng, W.J. [Dept. of Civil Engineering, National Univ. of Singapore (Singapore); Liu, W.T. [Dept. of Civil Engineering, National Univ. of Singapore (Singapore); Nanoscience and Nanotechnology Initiative, National Univ. of Singapore (Singapore); Seah, H. [Public Utilities Board (Singapore)

    2004-07-01

    The microbial communities of membrane biofilms occurring in two full-scale water purification processes employing microfiltration (MF) and reverse osmosis (RO) membranes were characterized using a polyphasic approach that employed bacterial cultivation, 16S rDNA clone library and fluorescence in situ hybridization techniques. All methods showed that the {alpha}-proteobacteria was the largest microbial fraction in the samples, followed by the {gamma}-proteobacteria. This suggested that members of these two groups could be responsible for the biofouling on the membranes studied. Furthermore, the microbial community structures between the MF and RO samples were considerably different in composition of the most predominant 16S rDNA clones and bacterial isolates from the {alpha}-proteobacteria and only shared two common groups (Bradyrhizobium, Bosea) out of more than 17 different bacterial groups observed. The MF and RO samples further contained Planctomycetes and Fibroacter/Acidobacteria as the second predominant bacterial clones, respectively, and differed in minor bacterial clones and isolates. The community structure differences were mainly attributed to differences in feed water, process configurations and operating environments, such as the pressure and hydrodynamic conditions present in the water purification systems. (orig.)

  5. Abundance and composition of indigenous bacterial communities in a multi-step biofiltration-based drinking water treatment plant.

    Science.gov (United States)

    Lautenschlager, Karin; Hwang, Chiachi; Ling, Fangqiong; Liu, Wen-Tso; Boon, Nico; Köster, Oliver; Egli, Thomas; Hammes, Frederik

    2014-10-01

    Indigenous bacterial communities are essential for biofiltration processes in drinking water treatment systems. In this study, we examined the microbial community composition and abundance of three different biofilter types (rapid sand, granular activated carbon, and slow sand filters) and their respective effluents in a full-scale, multi-step treatment plant (Zürich, CH). Detailed analysis of organic carbon degradation underpinned biodegradation as the primary function of the biofilter biomass. The biomass was present in concentrations ranging between 2-5 × 10(15) cells/m(3) in all filters but was phylogenetically, enzymatically and metabolically diverse. Based on 16S rRNA gene-based 454 pyrosequencing analysis for microbial community composition, similar microbial taxa (predominantly Proteobacteria, Planctomycetes, Acidobacteria, Bacteriodetes, Nitrospira and Chloroflexi) were present in all biofilters and in their respective effluents, but the ratio of microbial taxa was different in each filter type. This change was also reflected in the cluster analysis, which revealed a change of 50-60% in microbial community composition between the different filter types. This study documents the direct influence of the filter biomass on the microbial community composition of the final drinking water, particularly when the water is distributed without post-disinfection. The results provide new insights on the complexity of indigenous bacteria colonizing drinking water systems, especially in different biofilters of a multi-step treatment plant.

  6. Diversity and composition of bacterial community in soils and lake sediments from an Arctic lake area

    Directory of Open Access Journals (Sweden)

    Nengfei Wang

    2016-07-01

    Full Text Available This study assessed the diversity and composition of bacterial communities within soils and lake sediments from an Arctic lake area (London Island, Svalbard. A total of 2,987 operational taxonomic units (OTUs were identified by high throughput sequencing, targeting bacterial 16S rRNA. The samples from four sites (three samples in each site were significantly different in geochemical properties and bacterial community composition. Proteobacteria and Acidobacteria were abundant phyla in the nine soil samples, whereas Proteobacteria and Bacteroidetes were abundant phyla in the three sediment samples. Furthermore, Actinobacteria, Chlorobi, Chlorofiexi, Elusimicrobia, Firmicutes, Gemmatimonadetes, Nitrospirae, Planctomycetes, Proteobacteria significantly varied in their abundance among the four sampling sites. Additionally, members of the dominant genera, such as Clostridium, Luteolibacter, Methylibium, Rhodococus, and Rhodoplanes, were significantly different in their abundance among the four sampling sites. Besides, distance-based redundancy analysis revealed that pH (p < 0.001, water content (p < 0.01, ammonium nitrogen (NH4--N, p < 0.01, silicate silicon (SiO42--Si, p < 0.01, nitrite nitrogen (NO2--N, p < 0.05, organic carbon (p < 0.05, and organic nitrogen (p < 0.05 were the most significant factors that correlated with the bacterial community composition. The results suggest soils and sediments from a lake area in the Arctic harbor a high diversity of bacterial communities, which are influenced by many geochemical factors of Arctic environments.

  7. Bacterial communities in sediment of a Mediterranean marine protected area.

    Science.gov (United States)

    Catania, Valentina; Sarà, Gianluca; Settanni, Luca; Quatrini, Paola

    2017-04-01

    Biodiversity is crucial in preservation of ecosystems, and bacterial communities play an indispensable role for the functioning of marine ecosystems. The Mediterranean marine protected area (MPA) "Capo Gallo-Isola delle Femmine" was instituted to preserve marine biodiversity. The bacterial diversity associated with MPA sediment was compared with that from sediment of an adjacent harbour exposed to intense nautical traffic. The MPA sediment showed higher diversity with respect to the impacted site. A 16S rDNA clone library of the MPA sediment allowed the identification of 7 phyla: Proteobacteria (78%), Firmicutes (11%), Acidobacteria (3%), Actinobacteria (3%), Bacteroidetes (2%), Planctomycetes (2%), and Cyanobacteria (1%). Analysis of the hydrocarbon (HC)-degrading bacteria was performed using enrichment cultures. Most of the MPA sediment isolates were affiliated with Gram-positive G+C rich bacteria, whereas the majority of taxa in the harbour sediment clustered with Alpha- and Gammaproteobacteria; no Gram-positive HC degraders were isolated from the harbour sediment. Our results show that protection probably has an influence on bacterial diversity, and suggest the importance of monitoring the effects of protection at microbial level as well. This study creates a baseline of data that can be used to assess changes over time in bacterial communities associated with a Mediterranean MPA.

  8. Realization of microbial community stratification for single-stage nitrogen removal in a sequencing batch biofilter granular reactor.

    Science.gov (United States)

    Sun, Na; Ge, Chenghao; Ahmad, Hafiz Adeel; Gao, Baoyu; Ni, Shou-Qing

    2017-10-01

    A permanent microbial stratified nitrogen removal system coupling anammox with partial nitrification (SNAP) in a sequencing batch biofilter granular reactor (SBBGR) was successfully constructed for the treatment of ammonia-rich wastewater. With a nitrogen loading rate of 0.1kgNm(-3)·d(-1), the maximal ammonia and total nitrogen removal efficiencies could reach up to 96.08% and 84.86% on day 108, respectively. The pH, DO profiles revealed a switch of functional species (AOB and anammox) at a typical intermittent aeration cycle. qPCR and high throughput analyses certified a stable spatial microbial stratified community structure. Although, anammox preferred strict anaerobic environment while AOB needed oxygen, a special stratified community structure contributed to conquer this obstacle. Moreover, Bacteroidet, Chlorobi, OD1, Planctomycetes, and Proteobacteria were the dominant species in the SBBGR. Although we have predicted the possible pathways of nitrogen transformation, further studies are needed to validate the pathways in enzymology. Copyright © 2017 Elsevier Ltd. All rights reserved.

  9. Oil sheen weathering post Deepwater Horizon

    Science.gov (United States)

    Kellermann, M. Y.; Redmond, M. C.; Reddy, C. M.; Aeppli, C.; Nelson, R. K.; Valentine, D. L.

    2013-12-01

    A recently published study identified the source of the reoccurred oil sheens close to the Deepwater Horizon (DWH) disaster site as a finite contamination most likely derived from tanks and pits on the DWH wreckage itself. Here we use geochemical fingerprinting and microbial community analysis to better understand the fate and weathering processes affecting these surface oils. Both, alkanes and polycyclic aromatic hydrocarbons (PAHs) are shown to reflect a linear decrease of hydrocarbon compounds with increasing distance to the DWH wreckage site (equivalent to exposure time on the sea surface). These results indicate that in the early stage of weathering the combined effects of dissolution and evaporation dominate the degradation of these surface oils. Sheen microbial communities were dominated by Cyanobacteria, Planctomycetes, Verrucomicrobia, Flavobacteria, Alphaproteobacteria, and Deltaproteobacteria, with low relative abundances of Gammaproteobacteria likely to be hydrocarbon degraders (no more than 15% of sequences in each sample). However, some of these Gammaproteobacteria were closely related to putative hydrocarbon degraders observed in abundance in deep water plumes during the primary Deepwater Horizon spill, suggesting that very low levels of biodegradation may be also occurring. This in situ weathering experiment provides new insights in hydrocarbon weathering dynamics and shows how chemical and biological changes can potentially be masked by large evaporative losses of compounds smaller than C18 n-alkanes.

  10. Ribosome reinitiation at leader peptides increases translation of bacterial proteins.

    Science.gov (United States)

    Korolev, Semen A; Zverkov, Oleg A; Seliverstov, Alexandr V; Lyubetsky, Vassily A

    2016-04-16

    Short leader genes usually do not encode stable proteins, although their importance in expression control of bacterial genomes is widely accepted. Such genes are often involved in the control of attenuation regulation. However, the abundance of leader genes suggests that their role in bacteria is not limited to regulation. Specifically, we hypothesize that leader genes increase the expression of protein-coding (structural) genes via ribosome reinitiation at the leader peptide in the case of a short distance between the stop codon of the leader gene and the start codon of the structural gene. For instance, in Actinobacteria, the frequency of leader genes at a distance of 10-11 bp is about 70 % higher than the mean frequency within the 1 to 65 bp range; and it gradually decreases as the range grows longer. A pronounced peak of this frequency-distance relationship is also observed in Proteobacteria, Bacteroidetes, Spirochaetales, Acidobacteria, the Deinococcus-Thermus group, and Planctomycetes. In contrast, this peak falls to the distance of 15-16 bp and is not very pronounced in Firmicutes; and no such peak is observed in cyanobacteria and tenericutes. Generally, this peak is typical for many bacteria. Some leader genes located close to a structural gene probably play a regulatory role as well.

  11. Minor impact of ocean acidification to the composition of the active microbial community in an Arctic sediment.

    Science.gov (United States)

    Tait, Karen; Laverock, Bonnie; Shaw, Jennifer; Somerfield, Paul J; Widdicombe, Steve

    2013-12-01

    Effects of ocean acidification on the composition of the active bacterial and archaeal community within Arctic surface sediment was analysed in detail using 16S rRNA 454 pyrosequencing. Intact sediment cores were collected and exposed to one of five different pCO(2) concentrations [380 (present day), 540, 750, 1120 and 3000 μatm] and RNA extracted after a period of 14 days exposure. Measurements of diversity and multivariate similarity indicated very little difference between pCO(2) treatments. Only when the highest and lowest pCO(2) treatments were compared were significant differences evident, namely increases in the abundance of operational taxonomic units most closely related to the Halobacteria and differences to the presence/absence structure of the Planctomycetes. The relative abundance of members of the classes Planctomycetacia and Nitrospira increased with increasing pCO(2) concentration, indicating that these groups may be able to take advantage of changing pH or pCO(2) conditions. The modest response of the active microbial communities associated with these sediments may be due to the low and fluctuating pore-water pH already experienced by sediment microbes, a result of the pH buffering capacity of marine sediments, or due to currently unknown factors. Further research is required to fully understand the impact of elevated CO(2) on sediment physicochemical parameters, biogeochemistry and microbial community dynamics.

  12. Blastopirellula cremea sp. nov., isolated from a dead ark clam.

    Science.gov (United States)

    Lee, Hae-Won; Roh, Seong Woon; Shin, Na-Ri; Lee, Jina; Whon, Tae Woong; Jung, Mi-Ja; Yun, Ji-Hyun; Kim, Min-Soo; Hyun, Dong-Wook; Kim, Daekyung; Bae, Jin-Woo

    2013-06-01

    Strain LHWP2(T), a novel, aerobic, budding, motile and ovoid bacterium belonging to the phylum Planctomycetes, was isolated from a dead ark clam (Scapharca broughtonii) from the south coast of Korea. Strain LHWP2(T) grew optimally at 30 °C, in the presence of 4% (w/v) NaCl, and at pH 7. The predominant cellular fatty acids were C16:0, C18:1ω7c and/or C18:1ω6c (summed feature 8) and C18:1ω9c. The major isoprenoid quinone was menaquinone-6 (MK-6). The dominant polar lipid was identified as phosphatidylglycerol. Phylogenetic analysis based on 16S rRNA gene sequences indicated that the novel strain was most closely related to Blastopirellula marina DSM 3645(T), with a 16S rRNA gene sequence similarity of 94.1%. The genomic DNA G+C content of strain LHWP2(T) was 49.5 mol%. Strain LHWP2(T) was distinguished from B. marina DSM 3645(T) based on its optimum salinity, acid production from substrates, assimilation of substrates and DNA G+C content. Overall, these phenotypic, genotypic and phylogenetic data suggest that strain LHWP2(T) should be classified as a novel species belonging to the genus Blastopirellula, for which the name Blastopirellula cremea sp. nov. is proposed. The type strain is LHWP2(T) (=KACC 15559(T)=JCM 17758(T)).

  13. Polarized Cell Division of Chlamydia trachomatis.

    Science.gov (United States)

    Abdelrahman, Yasser; Ouellette, Scot P; Belland, Robert J; Cox, John V

    2016-08-01

    Bacterial cell division predominantly occurs by a highly conserved process, termed binary fission, that requires the bacterial homologue of tubulin, FtsZ. Other mechanisms of bacterial cell division that are independent of FtsZ are rare. Although the obligate intracellular human pathogen Chlamydia trachomatis, the leading bacterial cause of sexually transmitted infections and trachoma, lacks FtsZ, it has been assumed to divide by binary fission. We show here that Chlamydia divides by a polarized cell division process similar to the budding process of a subset of the Planctomycetes that also lack FtsZ. Prior to cell division, the major outer-membrane protein of Chlamydia is restricted to one pole of the cell, and the nascent daughter cell emerges from this pole by an asymmetric expansion of the membrane. Components of the chlamydial cell division machinery accumulate at the site of polar growth prior to the initiation of asymmetric membrane expansion and inhibitors that disrupt the polarity of C. trachomatis prevent cell division. The polarized cell division of C. trachomatis is the result of the unipolar growth and FtsZ-independent fission of this coccoid organism. This mechanism of cell division has not been documented in other human bacterial pathogens suggesting the potential for developing Chlamydia-specific therapeutic treatments.

  14. Pyrosequencing reveals the microbial communities in the Red Sea sponge Carteriospongia foliascens and their impressive shifts in abnormal tissues.

    Science.gov (United States)

    Gao, Zhao-Ming; Wang, Yong; Lee, On On; Tian, Ren-Mao; Wong, Yue Him; Bougouffa, Salim; Batang, Zenon; Al-Suwailem, Abdulaziz; Lafi, Feras F; Bajic, Vladimir B; Qian, Pei-Yuan

    2014-10-01

    Abnormality and disease in sponges have been widely reported, yet how sponge-associated microbes respond correspondingly remains inconclusive. Here, individuals of the sponge Carteriospongia foliascens under abnormal status were collected from the Rabigh Bay along the Red Sea coast. Microbial communities in both healthy and abnormal sponge tissues and adjacent seawater were compared to check the influences of these abnormalities on sponge-associated microbes. In healthy tissues, we revealed low microbial diversity with less than 100 operational taxonomic units (OTUs) per sample. Cyanobacteria, affiliated mainly with the sponge-specific species "Candidatus Synechococcus spongiarum," were the dominant bacteria, followed by Bacteroidetes and Proteobacteria. Intraspecies dynamics of microbial communities in healthy tissues were observed among sponge individuals, and potential anoxygenic phototrophic bacteria were found. In comparison with healthy tissues and the adjacent seawater, abnormal tissues showed dramatic increase in microbial diversity and decrease in the abundance of sponge-specific microbial clusters. The dominated cyanobacterial species Candidatus Synechococcus spongiarum decreased and shifted to unspecific cyanobacterial clades. OTUs that showed high similarity to sequences derived from diseased corals, such as Leptolyngbya sp., were found to be abundant in abnormal tissues. Heterotrophic Planctomycetes were also specifically enriched in abnormal tissues. Overall, we revealed the microbial communities of the cyanobacteria-rich sponge, C. foliascens, and their impressive shifts under abnormality.

  15. [Distinctive Features of the Microbial Diversity and the Polyketide Synthase GenesSpectrum in the Community of the Endemic Baikal Sponge Swartschewskia papyracea].

    Science.gov (United States)

    Kaluzhnaya, O V; Itskovich, V B

    2016-01-01

    The diversity of the symbiotic community of the endemic Baikal sponge Swartschewskia papyracea was studied, and an analysis of the polyketide synthases genes spectrum in sponge-associated microorganisms was carried out. Six bacterial phyla were detected in the S. papyracea microbiome, namely, Verrucomicrobia, Cyanobacteria, Actinobacteria, Bacteroidetes, Proteobacteria, and Planctomycetes. Unlike the microbial associations of other freshwater sponges, the community under study was dominated by the Verrucomicrobia (42.1%) and Cyanobacteria (17.5%) phyla, while the proportion of the Proteobacteria was unusually low (9.7%). In the S. papyracea community metagenome, there were identified 18 polyketide synthases genes fragments, the closest homologs of which included the polyketide synthases of the microorganisms belonging to the bacterial phyla Cyanobacteria, Proteobacteria (Betaproteobacteria, Deltaproteobacteria, and Gammaproteobacteria classes), and Acidobacteria and to the eukaryotic algae of the Heterokonta phylum (Eustigmatophyceae class). Polyketide synthase sequences from S. papyracea formed three groups on the phylogenetic tree: a group of hybrid NRPS/PKS complexes, a group of cyanobacterial polyketide synthases, and a group of homologs of the eukaryotic alga Nannochloropsis galiana. Notably, the identified polyketide synthase genes fragments showed only a 57-88% similarity to the sequences in the databases, which implies the presence of genes controlling the synthesis of the novel, still unstudied, polyketide compounds in the S. papyracea community. It was proposed that the habitation conditions of S. papyracea affect the taxonomic composition of the microorganisms associated with the sponge, including the diversity of the producers of secondary metabolites.

  16. Gut Bacterial Community of the Xylophagous Cockroaches Cryptocercus punctulatus and Parasphaeria boleiriana.

    Science.gov (United States)

    Berlanga, Mercedes; Llorens, Carlos; Comas, Jaume; Guerrero, Ricardo

    2016-01-01

    Cryptocercus punctulatus and Parasphaeria boleiriana are two distantly related xylophagous and subsocial cockroaches. Cryptocercus is related to termites. Xylophagous cockroaches and termites are excellent model organisms for studying the symbiotic relationship between the insect and their microbiota. In this study, high-throughput 454 pyrosequencing of 16S rRNA was used to investigate the diversity of metagenomic gut communities of C. punctulatus and P. boleiriana, and thereby to identify possible shifts in symbiont allegiances during cockroaches evolution. Our results revealed that the hindgut prokaryotic communities of both xylophagous cockroaches are dominated by members of four Bacteria phyla: Bacteroidetes, Firmicutes, Proteobacteria, and Actinobacteria. Other identified phyla were Spirochaetes, Planctomycetes, candidatus Saccharibacteria (formerly TM7), and Acidobacteria, each of which represented 1-2% of the total population detected. Community similarity based on phylogenetic relatedness by unweighted UniFrac analyses indicated that the composition of the bacterial community in the two species was significantly different (P cockroach species clustered with sequences previously described in termites and other cockroaches, but not with those from other animals or environments. These results suggest that, during their evolution, those cockroaches conserved several bacterial communities from the microbiota of a common ancestor. The ecological stability of those microbial communities may imply the important functional role for the survival of the host of providing nutrients in appropriate quantities and balance.

  17. Standard filtration practices may significantly distort planktonic microbial diversity estimates.

    Science.gov (United States)

    Padilla, Cory C; Ganesh, Sangita; Gantt, Shelby; Huhman, Alex; Parris, Darren J; Sarode, Neha; Stewart, Frank J

    2015-01-01

    Fractionation of biomass by filtration is a standard method for sampling planktonic microbes. It is unclear how the taxonomic composition of filtered biomass changes depending on sample volume. Using seawater from a marine oxygen minimum zone, we quantified the 16S rRNA gene composition of biomass on a prefilter (1.6 μm pore-size) and a downstream 0.2 μm filter over sample volumes from 0.05 to 5 L. Significant community shifts occurred in both filter fractions, and were most dramatic in the prefilter community. Sequences matching Vibrionales decreased from ~40 to 60% of prefilter datasets at low volumes (0.05-0.5 L) to less than 5% at higher volumes, while groups such at the Chromatiales and Thiohalorhabdales followed opposite trends, increasing from minor representation to become the dominant taxa at higher volumes. Groups often associated with marine particles, including members of the Deltaproteobacteria, Planctomycetes, and Bacteroidetes, were among those showing the greatest increase with volume (4 to 27-fold). Taxon richness (97% similarity clusters) also varied significantly with volume, and in opposing directions depending on filter fraction, highlighting potential biases in community complexity estimates. These data raise concerns for studies using filter fractionation for quantitative comparisons of aquatic microbial diversity, for example between free-living and particle-associated communities.

  18. [Effect of Elodea nuttallii-immobilized Nitrogen Cycling Bacteria on Nitrogen Removal Mechanism in an Inflow River, Gonghu Bay].

    Science.gov (United States)

    Han, Hua-yang; Li, Zheng-kui; Wang, Hao; Zhu, Qian

    2016-04-15

    Undisturbed sediment cores and surface water from Qinshui River in Gonghu Bay were collected to carry out a simulation experiment in our laboratory. The remediation effect of Elodea nuttallii-Immobilized Nitrogen Cycling Bacteria (INCB) was applied in the polluted inflow river. The denitrification rate, ANAMMOX rate and nitrogen microorganism diversity were measured by ¹⁵N isotope pairing technology and high-throughput sequencing technology based on 16S rRNA. The TN, NH₄⁺-N, NO₃⁻-N concentrations were reduced by 72.03%, 46.67% and 76.65% in the treatment with addition of Elodea nuttallii and INCB in our laboratory experiment. Meanwhile, denitrification bacteria and ANAMMOX bacteria had synergistic effect with each other. The denitrification and ANAMMOX rates were increased by 165 µmol (m² · h)⁻¹ and 269.7 µmol · (m² · h)⁻¹, respectively. The diversities of denitrification and ANAMMOX bacteria also increased in our experiment. From the level of major phylum, Proteobacteria, Planctomycetes, Acidobbacteria and Bacteroidetes all increased significantly. The results showed that the Elodea nuttallii-INCB assemblage technology could increase the bio-diversity of nitrogen cycling bacteria and promote the ability of nitrogen removal in Qinshui River.

  19. Diversity and Bacteria Community Structure of Activated Carbon Used in Advanced Drinking Water Treatment%饮用水深度处理活性炭池中微生物群落分布研究

    Institute of Scientific and Technical Information of China (English)

    王敏; 尚海涛; 郝春博; 骆鹏; 顾军农

    2011-01-01

    Two granular activated carbon (GAC) samples with 1. 5 a and 5 a age were collected, Bacterial genome DNA was extracted for the 16S rDNA gene amplification, and then a bacterial 16S rDNA gene clone library was constructed. After the phylogenetic analysis of 16S rDNA sequences, bacterial diversity and community structure of two activated carbon biofilm sample were studied. The results showed the bacteria in GAC with 5 a age could be divided into 11 groups, which were as follows α-Proteobacteria( 26. 5% ), β-Proteobacteria ( 16. 3% ), δ-Proteobacteria ( 16. 3% ) , Planctomycetes ( 12. 2% ), Gemmatimonadetes ( 6. 1% ) , Acidobacteria (4. 1% ), Nitrospira ( 2.0% ), γ-Proteobacteria ( 2.0% ), Bacteroidetes ( 2.0% ), Actinobacteria ( 2.0% ), Unclassified Bacteria (10. 2% ). The bacteria in GAC with 1.5 a age could be divided into 10 groups, which were as follows α-Proteobacteria( 21. 6% ),Planctomycetes( 10. 8% ), Bacteroidetes ( 10. 8% ), β-Proteobacteria ( 9.0% ), Acidobacteria ( 9.0% ), Nitrospira ( 7. 2% ), δ-Proteobacteria( 7.2% ), Unclassified Proteobacteria ( 5.4% ), Gemmatimonadetes ( 3.6% ) , Unclassified Bacteria ( 14.4% ). The results revealed a variety of bacterial divisions on the studied GAC biofilm. Proteobacteria had the highest share in the two total clones,and α- and β-Proteobacteria were on a dominant position. A relatively high proportion of δ-Proteobacteria was observed in the biofilm of GAC with 5 a age, and Nitrospira was in a minor proportion. However, a totally converse condition appeared in GAC with 1.5 a age.Two pathogenic bacteria, Afipia and Chryseobacterium, were detected in analyzed GACs, which implies a potential microbial risk in water supply.%采集2种炭龄饮用水深度处理活性炭池表面生物膜,提取微生物总DNA,构建细菌16S rDNA克隆文库,并通过16S rDNA序列的系统发育分析,对样品中的细菌种群多样性以及群落结构进行了研究.结果表明,5

  20. Bioprospecting Red Sea Coastal Ecosystems for Culturable Microorganisms and Their Antimicrobial Potential

    KAUST Repository

    Al Amoudi, Soha

    2016-09-10

    Microorganisms that inhabit unchartered unique soil such as in the highly saline and hot Red Sea lagoons on the Saudi Arabian coastline, represent untapped sources of potentially new bioactive compounds. In this study, a culture-dependent approach was applied to three types of sediments: mangrove mud (MN), microbial mat (MM), and barren soil (BS), collected from Rabigh harbor lagoon (RHL) and Al-Kharrar lagoon (AKL). The isolated bacteria were evaluated for their potential to produce bioactive compounds. The phylogenetic characterization of 251 bacterial isolates based on the 16S rRNA gene sequencing, supported their assignment to five different phyla: Proteobacteria, Firmicutes, Actinobacteria, Bacteroidetes, and Planctomycetes. Fifteen putative novel species were identified based on a 16S rRNA gene sequence similarity to other strain sequences in the NCBI database, being ≤98%. We demonstrate that 49 of the 251 isolates exhibit the potential to produce antimicrobial compounds. Additionally, at least one type of biosynthetic gene sequence, responsible for the synthesis of secondary metabolites, was recovered from 25 of the 49 isolates. Moreover, 10 of the isolates had a growth inhibition effect towards Staphylococcus aureus, Salmonella typhimurium and Pseudomonas syringae. We report the previously unknown antimicrobial activity of B. borstelensis, P. dendritiformis and M. salipaludis against all three indicator pathogens. Our study demonstrates the evidence of diverse cultured microbes associated with the Red Sea harbor/lagoon environments and their potential to produce antimicrobial compounds.

  1. Cultivation Versus Molecular Analysis of Banana (Musa sp.) Shoot-Tip Tissue Reveals Enormous Diversity of Normally Uncultivable Endophytic Bacteria.

    Science.gov (United States)

    Thomas, Pious; Sekhar, Aparna Chandra

    2017-05-01

    The interior of plants constitutes a unique environment for microorganisms with various organisms inhabiting as endophytes. Unlike subterranean plant parts, aboveground parts are relatively less explored for endophytic microbial diversity. We employed a combination of cultivation and molecular approaches to study the endophytic bacterial diversity in banana shoot-tips. Cultivable bacteria from 20 sucker shoot-tips of cv. Grand Naine included 37 strains under 16 genera and three phyla (Proteobacteria, Actinobacteria, Firmicutes). 16S rRNA gene-ribotyping approach on 799f and 1492r PCR-amplicons to avoid plant organelle sequences was ineffective showing limited bacterial diversity. 16S rRNA metagene profiling targeting the V3-V4 hypervariable region after filtering out the chloroplast (74.2 %), mitochondrial (22.9 %), and unknown sequences (1.1 %) revealed enormous bacterial diversity. Proteobacteria formed the predominant phylum (64 %) succeeded by Firmicutes (12.1 %), Actinobacteria (9.5 %), Bacteroidetes (6.4 %), Planctomycetes, Cyanobacteria, and minor shares (bacteria prevailing in banana shoot-tips (20 phyla, 46 classes) with about 2.6 % of the deciphered 269 genera and 1.5 % of the 656 observed species from the same source of shoot-tips attained through cultivation. The predominant genera included several agriculturally important bacteria. The study reveals an immense ecosystem of endophytic bacteria in banana shoot tissues endorsing the earlier documentation of intracellular "Cytobacts" and "Peribacts" with possible roles in plant holobiome and hologenome.

  2. Free-living bacterial communities associated with tubeworm (Ridgeia piscesae) aggregations in contrasting diffuse flow hydrothermal vent habitats at the Main Endeavour Field, Juan de Fuca Ridge.

    Science.gov (United States)

    Forget, Nathalie L; Kim Juniper, S

    2013-04-01

    We systematically studied free-living bacterial diversity within aggregations of the vestimentiferan tubeworm Ridgeia piscesae sampled from two contrasting flow regimes (High Flow and Low Flow) in the Endeavour Hydrothermal Vents Marine Protected Area (MPA) on the Juan de Fuca Ridge (Northeast Pacific). Eight samples of particulate detritus were recovered from paired tubeworm grabs from four vent sites. Most sequences (454 tag and Sanger methods) were affiliated to the Epsilonproteobacteria, and the sulfur-oxidizing genus Sulfurovum was dominant in all samples. Gammaproteobacteria were also detected, mainly in Low Flow sequence libraries, and were affiliated with known methanotrophs and decomposers. The cooccurrence of sulfur reducers from the Deltaproteobacteria and the Epsilonproteobacteria suggests internal sulfur cycling within these habitats. Other phyla detected included Bacteroidetes, Actinobacteria, Chloroflexi, Firmicutes, Planctomycetes, Verrucomicrobia, and Deinococcus-Thermus. Statistically significant relationships between sequence library composition and habitat type suggest a predictable pattern for High Flow and Low Flow environments. Most sequences significantly more represented in High Flow libraries were related to sulfur and hydrogen oxidizers, while mainly heterotrophic groups were more represented in Low Flow libraries. Differences in temperature, available energy for metabolism, and stability between High Flow and Low Flow habitats potentially explain their distinct bacterial communities.

  3. Urban-development-induced Changes in the Diversity and Composition of the Soil Bacterial Community in Beijing

    Science.gov (United States)

    Yan, Bing; Li, Junsheng; Xiao, Nengwen; Qi, Yue; Fu, Gang; Liu, Gaohui; Qiao, Mengping

    2016-12-01

    Numerous studies have implicated urbanization as a major cause of loss of biodiversity. Most of them have focused on plants and animals, even though soil microorganisms make up a large proportion of that biodiversity. However, it is unclear how the soil bacterial community is affected by urban development. Here, paired-end Illumina sequencing of the 16 S rRNA gene at V4 region was performed to study the soil microbial community across Beijing’s built-up area. Proteobacteria, Acidobacteria, Bacteroidetes, Actinobacteria, Gemmatimonadetes, Verrucomicrobia, Planctomycetes, and Chloroflexi were the dominant phyla in all samples, but the relative abundance of these phyla differed significantly across these concentric zones. The diversity and composition of the soil bacterial community were found to be closely correlated with soil pH. Variance partitioning analysis suggested that urban ring roads contributed 5.95% of the bacterial community variation, and soil environmental factors explained 17.65% of the variation. The results of the current work indicate that urban development can alter the composition and diversity of the soil microbial community, and showed pH to be a key factor in the shaping of the composition of the soil bacterial community. Urban development did have a strong impact on the bacterial community of urban soil in Beijing.

  4. Human gut microbiota: repertoire and variations

    Directory of Open Access Journals (Sweden)

    Jean-Christophe eLagier

    2012-11-01

    Full Text Available The composition of human gut microbiota and their relationship with the host and, consequently, with human health and disease, presents several challenges to microbiologists. Originally dominated by culture-dependent methods for exploring this ecosystem, the advent of molecular tools has revolutionized our ability to investigate these relationships. However, many biases that have led to contradictory results have been identified. Microbial culturomics, a recent concept based on a use of several culture conditions with identification by MALDI-TOF followed by the genome sequencing of the new species cultured had allowed a complementarity with metagenomics. Culturomics allowed to isolate 31 new bacterial species the largest human virus, the largest bacteria, and the largest Archaea from human. Moreover, some members of this ecosystem, such as Eukaryotes, giant viruses, Archaea and Planctomycetes, have been neglected by the majority of studies. In addition, numerous factors, such as age, geographic provenance, dietary habits, antibiotics or probiotics, can influence the composition of the microbiota. Finally, in addition to the countless biases associated with the study techniques, a considerable limitation to the interpretation of studies of human gut microbiota is associated with funding sources and transparency disclosures. In the future, studies independent of food industry funding and using complementary methods from a broad range of both culture-based and molecular tools will increase our knowledge of the repertoire of this complex ecosystem and host-microbiota mutualism.

  5. The candidate phylum Poribacteria by single-cell genomics: new insights into phylogeny, cell-compartmentation, eukaryote-like repeat proteins, and other genomic features.

    Directory of Open Access Journals (Sweden)

    Janine Kamke

    Full Text Available The candidate phylum Poribacteria is one of the most dominant and widespread members of the microbial communities residing within marine sponges. Cell compartmentalization had been postulated along with their discovery about a decade ago and their phylogenetic association to the Planctomycetes, Verrucomicrobia, Chlamydiae superphylum was proposed soon thereafter. In the present study we revised these features based on genomic data obtained from six poribacterial single cells. We propose that Poribacteria form a distinct monophyletic phylum contiguous to the PVC superphylum together with other candidate phyla. Our genomic analyses supported the possibility of cell compartmentalization in form of bacterial microcompartments. Further analyses of eukaryote-like protein domains stressed the importance of such proteins with features including tetratricopeptide repeats, leucin rich repeats as well as low density lipoproteins receptor repeats, the latter of which are reported here for the first time from a sponge symbiont. Finally, examining the most abundant protein domain family on poribacterial genomes revealed diverse phyH family proteins, some of which may be related to dissolved organic posphorus uptake.

  6. The candidate phylum Poribacteria by single-cell genomics: new insights into phylogeny, cell-compartmentation, eukaryote-like repeat proteins, and other genomic features.

    Science.gov (United States)

    Kamke, Janine; Rinke, Christian; Schwientek, Patrick; Mavromatis, Kostas; Ivanova, Natalia; Sczyrba, Alexander; Woyke, Tanja; Hentschel, Ute

    2014-01-01

    The candidate phylum Poribacteria is one of the most dominant and widespread members of the microbial communities residing within marine sponges. Cell compartmentalization had been postulated along with their discovery about a decade ago and their phylogenetic association to the Planctomycetes, Verrucomicrobia, Chlamydiae superphylum was proposed soon thereafter. In the present study we revised these features based on genomic data obtained from six poribacterial single cells. We propose that Poribacteria form a distinct monophyletic phylum contiguous to the PVC superphylum together with other candidate phyla. Our genomic analyses supported the possibility of cell compartmentalization in form of bacterial microcompartments. Further analyses of eukaryote-like protein domains stressed the importance of such proteins with features including tetratricopeptide repeats, leucin rich repeats as well as low density lipoproteins receptor repeats, the latter of which are reported here for the first time from a sponge symbiont. Finally, examining the most abundant protein domain family on poribacterial genomes revealed diverse phyH family proteins, some of which may be related to dissolved organic posphorus uptake.

  7. The Candidate Phylum Poribacteria by Single-Cell Genomics: New Insights into Phylogeny, Cell-Compartmentation, Eukaryote-Like Repeat Proteins, and Other Genomic Features

    Science.gov (United States)

    Kamke, Janine; Rinke, Christian; Schwientek, Patrick; Mavromatis, Kostas; Ivanova, Natalia; Sczyrba, Alexander; Woyke, Tanja; Hentschel, Ute

    2014-01-01

    The candidate phylum Poribacteria is one of the most dominant and widespread members of the microbial communities residing within marine sponges. Cell compartmentalization had been postulated along with their discovery about a decade ago and their phylogenetic association to the Planctomycetes, Verrucomicrobia, Chlamydiae superphylum was proposed soon thereafter. In the present study we revised these features based on genomic data obtained from six poribacterial single cells. We propose that Poribacteria form a distinct monophyletic phylum contiguous to the PVC superphylum together with other candidate phyla. Our genomic analyses supported the possibility of cell compartmentalization in form of bacterial microcompartments. Further analyses of eukaryote-like protein domains stressed the importance of such proteins with features including tetratricopeptide repeats, leucin rich repeats as well as low density lipoproteins receptor repeats, the latter of which are reported here for the first time from a sponge symbiont. Finally, examining the most abundant protein domain family on poribacterial genomes revealed diverse phyH family proteins, some of which may be related to dissolved organic posphorus uptake. PMID:24498082

  8. Microbial community changes during the start-up of an anaerobic/aerobic/anoxic-type sequencing batch reactor.

    Science.gov (United States)

    Zhang, Qian; He, Jiajie; Wang, Hongyu; Ma, Fang; Yang, Kai; Wang, Jingbo

    2013-01-01

    An anaerobic/aerobic/anoxic-type sequencing batch reactor was started up during a summer rainy season to obtain enhanced biological phosphorus removal (EBPR), and its sludge microbial community was also monitored in the hope of observing the microbial community evolution of polyphosphate-accumulating organisms (PAOs). During the start-up process, a total of 17 bands of highest species richness were detected in the sludge microbial community, including Alpha-, Beta-, and Gamma- Proteobacteria, as well as Actinobacteria and Planctomycetes. Major microbial community structural change was observed in Rhodocyclus-related and Acinetobacter-related PAOs, glycogen-accumulating organisms (GAOs), and Actinobacteria. In contrast to the current belief that enrichment of PAOs is essential for the establishment of EBPR, PAOs were not favourably enriched in this study. Instead, Actinobacteria and GAOs overwhelmingly flourished. The overall conclusion of this study challenges the conventional view that EBPR cannot live without traditional PAOs. However, it suggests an non-negligible role of denitrifying phosphorus-accumulating bacteria in EBPR systems, as well as other uncultured bacteria.

  9. Comprehensive in silico prediction and analysis of chlamydial outer membrane proteins reflects evolution and life style of the Chlamydiae

    Directory of Open Access Journals (Sweden)

    Myers Garry

    2009-12-01

    Full Text Available Abstract Background Chlamydiae are obligate intracellular bacteria comprising some of the most important bacterial pathogens of animals and humans. Although chlamydial outer membrane proteins play a key role for attachment to and entry into host cells, only few have been described so far. We developed a comprehensive, multiphasic in silico approach, including the calculation of clusters of orthologues, to predict outer membrane proteins using conservative criteria. We tested this approach using Escherichia coli (positive control and Bacillus subtilis (negative control, and applied it to five chlamydial species; Chlamydia trachomatis, Chlamydia muridarum, Chlamydia (a.k.a. Chlamydophila pneumoniae, Chlamydia (a.k.a. Chlamydophila caviae, and Protochlamydia amoebophila. Results In total, 312 chlamydial outer membrane proteins and lipoproteins in 88 orthologous clusters were identified, including 238 proteins not previously recognized to be located in the outer membrane. Analysis of their taxonomic distribution revealed an evolutionary conservation among Chlamydiae, Verrucomicrobia, Lentisphaerae and Planctomycetes as well as lifestyle-dependent conservation of the chlamydial outer membrane protein composition. Conclusion This analysis suggested a correlation between the outer membrane protein composition and the host range of chlamydiae and revealed a common set of outer membrane proteins shared by these intracellular bacteria. The collection of predicted chlamydial outer membrane proteins is available at the online database pCOMP http://www.microbial-ecology.net/pcomp and might provide future guidance in the quest for anti-chlamydial vaccines.

  10. Unearthing microbial diversity of Taxus rhizosphere via MiSeq high-throughput amplicon sequencing and isolate characterization

    Science.gov (United States)

    Hao, Da Cheng; Song, Si Meng; Mu, Jun; Hu, Wen Li; Xiao, Pei Gen

    2016-04-01

    The species variability and potential environmental functions of Taxus rhizosphere microbial community were studied by comparative analyses of 15 16S rRNA and 15 ITS MiSeq sequencing libraries from Taxus rhizospheres in subtropical and temperate regions of China, as well as by isolating laccase-producing strains and polycyclic aromatic hydrocarbon (PAH)-degrading strains. Total reads could be assigned to 2,141 Operational Taxonomic Units (OTUs) belonging to 31 bacteria phyla and 2,904 OTUs of at least seven fungi phyla. The abundance of Planctomycetes, Actinobacteria, and Chloroflexi was higher in T. cuspidata var. nana and T. × media rhizospheres than in T. mairei rhizosphere (NF), while Acidobacteria, Proteobacteria, Nitrospirae, and unclassified bacteria were more abundant in the latter. Ascomycota and Zygomycota were predominant in NF, while two temperate Taxus rhizospheres had more unclassified fungi, Basidiomycota, and Chytridiomycota. The bacterial/fungal community richness and diversity were lower in NF than in other two. Three dye decolorizing fungal isolates were shown to be highly efficient in removing three classes of reactive dye, while two PAH-degrading fungi were able to degrade recalcitrant benzo[a]pyrene. The present studies extend the knowledge pedigree of the microbial diversity populating rhizospheres, and exemplify the method shift in research and development of resource plant rhizosphere.

  11. Woody plant encroachment, and its removal, impact bacterial and fungal communities across stream and terrestrial habitats in a tallgrass prairie ecosystem.

    Science.gov (United States)

    Veach, Allison M; Dodds, Walter K; Jumpponen, Ari

    2015-10-01

    Woody plant encroachment has become a global threat to grasslands and has caused declines in aboveground richness and changes in ecosystem function; yet we have a limited understanding on the effects of these phenomena on belowground microbial communities. We completed riparian woody plant removals at Konza Prairie Biological Station, Kansas and collected soils spanning land-water interfaces in removal and woody vegetation impacted areas. We measured stream sediments and soils for edaphic variables (C and N pools, soil water content, pH) and bacterial (16S rRNA genes) and fungal (ITS2 rRNA gene repeat) communities using Illumina MiSeq metabarcoding. Bacterial richness and diversity decreased with distance from streams. Fungal richness decreased with distance from the stream in wooded areas, but was similar across landscape position while Planctomycetes and Basidiomycota relative abundance was lower in removal areas. Cyanobacteria, Ascomycota, Chytridiomycota and Glomeromycota relative abundance was greater in removal areas. Ordination analyses indicated that bacterial community composition shifted more across land-water interfaces than fungi yet both were marginally influenced by treatment. This study highlights the impacts of woody encroachment restoration on grassland bacterial and fungal communities which likely subsequently affects belowground processes and plant health in this ecosystem. © FEMS 2015. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

  12. Phylogenetic Study of the Evolution of PEP-Carboxykinase

    Directory of Open Access Journals (Sweden)

    Sanjukta Aich

    2007-01-01

    Full Text Available Phosphoenolpyruvate carboxykinase (PCK is the key enzyme to initiate the gluconeogenic pathway in vertebrates, yeast, plants and most bacteria. Nucleotide specificity divided all PCKs into two groups. All the eukaryotic mammalian and most archaeal PCKs are GTP-specifi c. Bacterial and fungal PCKs can be ATP-or GTP-specific but all plant PCKs are ATPspecific. Amino acid sequence alignment of PCK enzymes shows that the nucleotide binding sites are somewhat conserved within each class with few exceptions that do not have any clear ATP- or GTP-specific binding motif. Although the active site residues are mostly conserved in all PCKs, not much significant sequence homology persists between ATP- and GTPdependent PCK enzymes. There is only one planctomycetes PCK enzyme (from Cadidatus Kuenenia stuttgartiensis that shows sequence homology with both ATP-and GTP-dependent PCKs. Phylogenetic studies have been performed to understand the evolutionary relationship of various PCKs from different sources. Based on this study a flowchart of the evolution of PCK has been proposed.

  13. Prokaryotic diversity, distribution, and insights into their role in biogeochemical cycling in marine basalts

    Energy Technology Data Exchange (ETDEWEB)

    Mason, Olivia U.; Di Meo-Savoie, Carol A.; Van Nostrand, Joy D.; Zhou, Jizhong; Fisk, Martin R.; Giovannoni, Stephen J.

    2008-09-30

    We used molecular techniques to analyze basalts of varying ages that were collected from the East Pacific Rise, 9 oN, from the rift axis of the Juan de Fuca Ridge, and from neighboring seamounts. Cluster analysis of 16S rDNA Terminal Restriction Fragment Polymorphism data revealed that basalt endoliths are distinct from seawater and that communities clustered, to some degree, based on the age of the host rock. This age-based clustering suggests that alteration processes may affect community structure. Cloning and sequencing of bacterial and archaeal 16S rRNA genes revealed twelve different phyla and sub-phyla associated with basalts. These include the Gemmatimonadetes, Nitrospirae, the candidate phylum SBR1093 in the c, andin the Archaea Marine Benthic Group B, none of which have been previously reported in basalts. We delineated novel ocean crust clades in the gamma-Proteobacteria, Planctomycetes, and Actinobacteria that are composed entirely of basalt associated microflora, and may represent basalt ecotypes. Finally, microarray analysis of functional genes in basalt revealed that genes coding for previously unreported processes such as carbon fixation, methane-oxidation, methanogenesis, and nitrogen fixation are present, suggesting that basalts harbor previously unrecognized metabolic diversity. These novel processes could exert a profound influence on ocean chemistry.

  14. Vertical distribution of bacterial community is associated with the degree of soil organic matter decomposition in the active layer of moist acidic tundra.

    Science.gov (United States)

    Kim, Hye Min; Lee, Min Jin; Jung, Ji Young; Hwang, Chung Yeon; Kim, Mincheol; Ro, Hee-Myong; Chun, Jongsik; Lee, Yoo Kyung

    2016-11-01

    The increasing temperature in Arctic tundra deepens the active layer, which is the upper layer of permafrost soil that experiences repeated thawing and freezing. The increasing of soil temperature and the deepening of active layer seem to affect soil microbial communities. Therefore, information on soil microbial communities at various soil depths is essential to understand their potential responses to climate change in the active layer soil. We investigated the community structure of soil bacteria in the active layer from moist acidic tundra in Council, Alaska. We also interpreted their relationship with some relevant soil physicochemical characteristics along soil depth with a fine scale (5 cm depth interval). The bacterial community structure was found to change along soil depth. The relative abundances of Acidobacteria, Gammaproteobacteria, Planctomycetes, and candidate phylum WPS-2 rapidly decreased with soil depth, while those of Bacteroidetes, Chloroflexi, Gemmatimonadetes, and candidate AD3 rapidly increased. A structural shift was also found in the soil bacterial communities around 20 cm depth, where two organic (upper Oi and lower Oa) horizons are subdivided. The quality and the decomposition degree of organic matter might have influenced the bacterial community structure. Besides the organic matter quality, the vertical distribution of bacterial communities was also found to be related to soil pH and total phosphorus content. This study showed the vertical change of bacterial community in the active layer with a fine scale resolution and the possible influence of the quality of soil organic matter on shaping bacterial community structure.

  15. Biogeographical distribution and diversity of microbes in methane hydrate-bearing deep marine sediments, on the Pacific Ocean Margin

    DEFF Research Database (Denmark)

    Inagaki, F.; Nunoura, T.; Nakagawa, S.

    2006-01-01

    The deep subseafloor biosphere is among the least-understood habitats on Earth, even though the huge microbial biomass therein plays an important role for potential long-term controls on global biogeochemical cycles. We report here the vertical and geographical distribution of microbes and their ......The deep subseafloor biosphere is among the least-understood habitats on Earth, even though the huge microbial biomass therein plays an important role for potential long-term controls on global biogeochemical cycles. We report here the vertical and geographical distribution of microbes...... in prokaryotic distribution patterns in sediments with or without methane hydrates, we studied > 2,800 clones possessing partial sequences (400-500 bp) of the 16S rRNA gene and 348 representative clone sequences (approximate to 1 kbp) from the two geographically separated subseafloor environments. Archaea...... of the JS1 group, Planctomycetes, and Chloroflexi. Results from cluster and principal component analyses, which include previously reported data from the West and East Pacific Margins, suggest that, For these locations in the Pacific Ocean, prokaryotic communities from methane hydrate-bearing sediment cores...

  16. The influence of Rickettsiologists on post-modern microbiology

    Directory of Open Access Journals (Sweden)

    Kalliopi eGeorgiades

    2011-10-01

    Full Text Available Many of the definitions in microbiology are factually false. We have revised the great denominations of microbiology and attempted to free microorganisms from the theories of the 20th century. The presence of compartmentation and a nucleoid in Planctomycetes clearly calls into question the accuracy of the definitions of eukaryotes and prokaryotes. Archaea are viewed as prokaryotes resembling bacteria. However, the name archaea, suggesting an archaic origin of lifestyle, is inconsistent with the actual history of this family. Viruses are defined as small, filterable infectious agents, but giant viruses challenge the size criteria used for the definition of a virus. Pathogenicity does not require the acquisition of virulence factors (except for toxins, and in many cases, gene loss seems to be implicated in the emergence of virulence. Species classification based on 16S rRNA is useless for taxonomic purposes of human pathogens, as a 2% divergence would classify all Rickettsiae within the same species and would not identify bacteria specialized for the infection of mammals. The use of metagenomics helps us to understand evolution and physiology by elucidating the structure, function and interactions of microbial communities, but it neglects the minority populations. Finally, the tree of life (TOL theory, as established by Darwin, no longer matches our current genomic knowledge because genomics has revealed the occurrence of de novo-created genes and the mosaic structure of genomes.

  17. The microbiomes and metagenomes of forest biochars

    Science.gov (United States)

    Noyce, Genevieve L.; Winsborough, Carolyn; Fulthorpe, Roberta; Basiliko, Nathan

    2016-05-01

    Biochar particles have been hypothesized to provide unique microhabitats for a portion of the soil microbial community, but few studies have systematically compared biochar communities to bulk soil communities. Here, we used a combination of sequencing techniques to assess the taxonomic and functional characteristics of microbial communities in four-year-old biochar particles and in adjacent soils across three forest environments. Though effects varied between sites, the microbial community living in and around the biochar particles had significantly lower prokaryotic diversity and higher eukaryotic diversity than the surrounding soil. In particular, the biochar bacterial community had proportionally lower abundance of Acidobacteria, Planctomycetes, and β-Proteobacteria taxa, compared to the soil, while the eukaryotic biochar community had an 11% higher contribution of protists belonging to the Aveolata superphylum. Additionally, we were unable to detect a consistent biochar effect on the genetic functional potential of these microbial communities for the subset of the genetic data for which we were able to assign functions through MG-RAST. Overall, these results show that while biochar particles did select for a unique subset of the biota found in adjacent soils, effects on the microbial genetic functional potential appeared to be specific to contrasting forest soil environments.

  18. Bacterial communities on facial skin of teenage and elderly Thai females.

    Science.gov (United States)

    Somboonna, Naraporn; Wilantho, Alisa; Srisuttiyakorn, Chutika; Assawamakin, Anunchai; Tongsima, Sissades

    2017-04-08

    The Human Microbiome Project was first established to understand the roles of human-associated microbes to human health and disease. This study presents preliminary findings of Thai female facial skin microbiome using three pooled samples from groups of skin microbiome profiles, namely (1) healthy and (2) acne-prone young adults (teenage.hea and teenage.acn) and (3) healthy elderly adults (elderly.hea) based on standard dermatological criteria. These samples were sequenced using 454-pyrosequencing targeting 16S rRNA (V3-V4 regions). Good's coverage index of greater than 92% shows sufficient sampling of our data for each group. Three unique OTUs for each microbiome profile (43, 258 and 59 for teenage.hea, teenage.acn and ederly.hea, respectively) were obtained with 134 shared OTUs among the three datasets. Based on Morisita-Horn similarity coefficient, age is the major factor that brings the community relationship factor closer. The comparison among the three datasets reveal majority of Gemmatimonadetes, Planctomycetes and Nitrospirae in the teenage.hea, whereas Firmicutes are more prevalent in teenage.acn and elderly.hea skin types. In addition, when comparing Thai facial microbial diversity with the 16S data from U.S. forehead female database, significant differences were found among orders of bacteria, pointing to possible differences in human ecto-flora.

  19. Pyrosequencing Reveals the Microbial Communities in the Red Sea Sponge Carteriospongia foliascens and Their Impressive Shifts in Abnormal Tissues

    KAUST Repository

    Gao, Zhaoming

    2014-04-24

    Abnormality and disease in sponges have been widely reported, yet how sponge-associated microbes respond correspondingly remains inconclusive. Here, individuals of the sponge Carteriospongia foliascens under abnormal status were collected from the Rabigh Bay along the Red Sea coast. Microbial communities in both healthy and abnormal sponge tissues and adjacent seawater were compared to check the influences of these abnormalities on sponge-associated microbes. In healthy tissues, we revealed low microbial diversity with less than 100 operational taxonomic units (OTUs) per sample. Cyanobacteria, affiliated mainly with the sponge-specific species “Candidatus Synechococcus spongiarum,” were the dominant bacteria, followed by Bacteroidetes and Proteobacteria. Intraspecies dynamics of microbial communities in healthy tissues were observed among sponge individuals, and potential anoxygenic phototrophic bacteria were found. In comparison with healthy tissues and the adjacent seawater, abnormal tissues showed dramatic increase in microbial diversity and decrease in the abundance of sponge-specific microbial clusters. The dominated cyanobacterial species Candidatus Synechococcus spongiarum decreased and shifted to unspecific cyanobacterial clades. OTUs that showed high similarity to sequences derived from diseased corals, such as Leptolyngbya sp., were found to be abundant in abnormal tissues. Heterotrophic Planctomycetes were also specifically enriched in abnormal tissues. Overall, we revealed the microbial communities of the cyanobacteria-rich sponge, C. foliascens, and their impressive shifts under abnormality.

  20. Microbial community structure in moraine lakes and glacial meltwaters, Mount Everest.

    Science.gov (United States)

    Liu, Yongqin; Yao, Tandong; Jiao, Nianzhi; Kang, Shichang; Zeng, Yonghui; Huang, Sijun

    2006-12-01

    The bacterial diversity and abundance in two moraine lakes and two glacial meltwaters (5140, 5152, 5800 and 6350 m above sea level, respectively) in the remote Mount Everest region were examined through 16S rRNA gene clone library and flow cytometry approaches. In total, 247 clones were screened by RFLP and 60 16S rRNA gene sequences were obtained, belonging to the following groups: Proteobacteria (8% alpha subdivision, 21% beta subdivision, and 1% gamma subdivision), Cytophaga-Flavobacteria-Bacteroides (CFB) (54%), Actinobacteria (4%), Planctomycetes (2%), Verrucomicrobia (2%), Fibrobacteres (1%) and Eukaryotic chroloplast (3%), respectively. The high dominance of CFB distinguished the Mount Everest waters from other mountain lakes. The highest bacterial abundance and diversity occurred in the open moraine lake at 5152 m, and the lowest in the glacial meltwater at 6350 m. Low temperature at high altitude is considered to be critical for component dominancy. At the same altitude, nutrient availability plays a role in regulating population structure. Our results also show that the bacteria in Mount Everest may be derived from different sources.

  1. How 'cyclic' is the Supercontinental Cycle

    Science.gov (United States)

    Pisarevsky, Sergei

    2017-04-01

    . Paleomagnetic and LIP databases are growing fast, causing revisions of published supercontinental reconstructions. In this presentation I summarise newly published paleomagnetic, geological and geochronological data and propose a new kinematic model of ca. 1800-900 Ma global paleogeography. In summary, the following published data have been used for a modification of previous models: (i) new paleomagnetic and geochronological data from Mesoproterozoic and Early Neoproterozoic rocks in Baltica, North China, Sao Francisco, Amazonia, Australia; (ii) new discoveries of LIPs with ages between 1800 and 900 Ma in Siberia, North China, Sao Francisco and Congo; (iii) new geological and geochronological data from Europe and South America, which do not support the popular SAMBA model of a long-lived connection between Baltica and Amazonia in late Paleoproterozoic and Mesoproterozoic times. These and other multi-disciplinary data are sometimes contradictive to each other; so some parts of the new model need further testing. New data support the hypothesis of ca. 300 m.y. connection between the Siberia, Sao Francisco, Congo, North China, Amazonia and West Africa at 1800-1500 Ma. New paleomagnetic data from the Sao Francisco craton do not support the hypothesis that the Congo/ Sao Francisco craton was part of Rodinia. This new paleogeographic model causes some re-estimation of the timing and longevity of the process of supercontinental assembly and breakup.

  2. Inferred paleotectonic settings and paleogeography at 500-450 Ma based on geochemical evaluation of Ordovician volcanics and gabbros of the Upper Allochthon, Mid Norway

    Science.gov (United States)

    Hollocher, K.; Roberts, D.; Robinson, P.; Walsh, E.

    2012-04-01

    Evaluation of major- and trace-element analyses of Ordovician volcanics and gabbros from the Støren Nappe of the Upper Allochthon, Mid Norway, including 87 new analyses, covers the Late Cambrian-earliest Ordovician ophiolite complexes and overlying Ordovician volcanics. The older rocks have mainly MORB-like compositions likely formed in a back-arc basin, plus less abundant oceanic-arc basalts and andesites. Compositions characteristic of fore-arc environments are absent. The Upper Allochthon has three elements: A) The Gula Nappe of probable Cambrian and Tremadocian, epicontinental sedimentary rocks, B) The Støren and Meråker nappes with their basal suprasubduction-zone ophiolitic volcanics and intrusions plus younger Ordovician successions, C) In northwestern parts of the Støren Nappe, a complex of predominantly calc-alkaline arc intrusive rocks 482 to 441 Ma. The structural and stratigraphic history indicates obduction of ophiolites occurred at 480-475 Ma soon after formation, followed by uplift, erosion, and deposition of conglomerates incorporating ophiolite debris. The overlying sequence includes shelly Toquima-Table Head faunas of Laurentian affinity and younger strata into Upper Ordovician. Field relations suggest that the ophiolites were obducted onto rocks of the Gula Complex. A Tremadocian, graptolite-bearing black shale/phyllite in the eastern part of the Gula has close geochemical affinities with the reducing V- and U-enriched Alum shale of the Baltoscandian margin, black shales in the lower Köli nappes of the Upper Allochthon in Sweden, and similar shales in the Gander and Avalon zones of Maritime Canada. Such shales originated in high-latitude (40-50° south) cool-water environments, as existed in Late Cambrian-earliest Ordovician Baltica, Avalonia, and Ganderia, and have not been recorded in equatorial paleolatitudes, such as the earliest Ordovician margin of Laurentia. Our paleotectonic account for these features is in three time slices: 1) A

  3. Algunos aspectos de la variabilidad de los oogonios en poblaciones actuales del género Chara (Charophyceae. Aplicación paleontológica

    Directory of Open Access Journals (Sweden)

    Pedrola, J.

    1986-10-01

    Full Text Available A critical revision of some useful taxonomic criteria in paleontology of Charophytes is carried Out. The results are based in four modern populations ((Chara aculeolata, Chara aff.baltica, Chara delicatula and Chara globularis and they permit to make some serious objections to these critera. The results are related with three principal aspects: the meaning of the absolute magnitudes of me girogonite, the behaviour of his joint variation and the morphological variability during the calcification process. In general, and for each one of the four populations, an absence of influence of the position of the girogonite over their measurements is observed. This doesn't happens when the verticil is considered as source of variation. These biometrical differences which are equivalent to some of those that has been used to distinguish fossil species, are not due to a process of progressive or heteregenous calcification in the secuence of verticils of me plant. Several arguments against the indiscriminate use of cocients between absolute magnitudes (e.g. the polarity index as detectors of systematic interest are showed. In the same way, some remarks to the use of the morphology of the spiral calcificated cells, the prominence of the basal pore and some aspects of the apex shape, as taxonomic criteria are made. All this are variable within the same plant when there are differents in the calcification degree of the girogonites.

    Se hace una revisión crítica de-algunos criterios taxonómicos de uso habitual en paleontología de carofitas. Sus resultados, basados en cuatro poblaciones actuales (Chara aculeolata, Chara aff.baltica, Chara delicatula y Chara globularis, permiten hacer algunas serias objeciones a estos criterios. Dichos resultados se relacionan con tres aspectos principales: el significado de las magnitudes absolutas del girogonito, el comportamiento de su variación conjunta y la variabilidad

  4. The Öland limestone - A Swedish stone used for more than one thousand years

    Science.gov (United States)

    Schouenborg, Björn; Wickström, Linda; Mikaelsson, Jan

    2016-04-01

    The second largest island in Sweden is the home of the "Öland limestone", a condensed and bedded limestone whose origin dates back to Lower Ordovician, i.e. about 480 M years ago. Öland is a part of the palaeocontinent Baltica that, at the time, was situated at low latitudes with deposition of the calcareous sediments in a cool water environment. The limestone on Öland represents a proximal ramp tectonic setting, with the oldest sediments deposited in the west and younger sediments deposited towards east and southeast. Fluctuating sea-levels have created erosional hard grounds such as the Flowery sheet. These hardgrounds are recognised by their vivid colours and trace fossils, and can be traced all over Baltica, but is maybe best represented on Öland. Ordovician limestones are present in many places in Sweden, but it is the occurrence on Öland that is the most renowned in a building stone perspective. One reason for this is the favourable trading location, an island off the Swedish East coast in middle of the trading routes between the Baltic countries and the continent. Other reasons are the pleasant aesthetical values with numerous orthoceratites and other fossils. The limestones on Öland differ in colour. From the red varieties (with oxidized iron) to brownish and grey. The bedding is mostly in the cm-scale which easily enables very exploitable thickness of slabs. Every mm limestone represents about 1000 years of deposition. The limestone has most likely been used in a very crude way for many thousand years, but archaeological evidence of a more industrialized usage is just a little more than 1000 years. It is known from the literature that the first official Swedish king, Gustav Vasa (16th century), desired this stone. At the time it was called "Öland marble", and the king "imported" specialists to process it further at the Royal Stone workshop on northern Öland. Remnants of tools and working sites still remain in an outdoor museum. Export of the

  5. RESEARCH PAPERS : Palaeomagnetism of the Ross of Mull granite complex, western Scotland: lower Palaeozoic apparent polar wander of the Orthotectonic Caledonides

    Science.gov (United States)

    Piper, J. D. A.

    1998-01-01

    that the three-plate model of the Caledonides (incorporating the collision of Laurentia and Baltica in mid-Ordovician times to produce the Orthotectonic Caledonides, and the closure of the Iapetus Ocean between Baltica-Laurentia and Avalonia in late Ordovician times to produce the Paratectonic Caledonides) was unified prior to the oldest magnetizations preserved in the Orthotectonic Caledonides. Certain second-order discrepancies remain and may either reflect the incompleteness of the present database or the effects of subsequent regional rotation and strike-slip movements prior to full welding of the orogen by late Lower Devonian times.

  6. Borehole seismic in crystalline environment at the COSC-project in Central Sweden

    Science.gov (United States)

    Krauß, Felix; Hedin, Peter; Almqvist, Bjarne; Simon, Helge; Giese, Rüdiger; Buske, Stefan; Juhlin, Christopher; Lorenz, Henning

    2016-04-01

    As support for the COSC drilling project (Collisional Orogeny in the Scandinavian Caledonides), an extensive seismic survey took place during September and October 2014 in and around the newly drilled 2.5 km deep COSC-1 borehole. The main aim of the COSC project is to better understand orogenic processes in past and recently active mountain belts. For this, the Scandinavian Caledonides provide a well preserved case of Paleozoic collision of the Laurentia and Baltica continental plates. Surface geology and geophysical data provide knowledge about the geometry of the Caledonian structure. The reflectivity geometry of the upper crust was imaged by regional seismic data and the resistivity structure by magnetotelluric methods. The crustal model was refined by seismic pre-site surveys in 2010 and 2011 to define the exact position of the first borehole, COSC-1. The completely cored COSC-1 borehole was drilled in Central Sweden through the Seve Nappe Complex, a part of the Middle Allochthon of the Scandinavian Caledonides that comprises units originating from the outer margin of Baltica. The upper 2350 m consist of alternating layers of highly strained felsic and calc-silicate gneisses and amphibolites. Below 1710 m the mylonite content increases successively and indicates a high strain zone of at least 800 m thickness. At ca. 2350 m, the borehole leaves the Seve Nappe Complex and enters underlying mylonitised lower grade metasedimentary units of unknown tectonostratigraphic position. The seismic survey consisted of three parts: a limited 3D-survey, a high resolution zero-offset VSP (vertical seismic profile) and a multi-azimuthal walkaway VSP (MSP) experiment with sources and receivers along three surface profiles and receivers at seven different depth levels of the borehole. For the zero-offset VSP (ZVSP) a hydraulic hammer source was used and activated over a period of 20 s as a sequence of impacts with increasing hit frequency. The wave field was recorded with 3

  7. Similar crustal evolution in the western units of the Adrar Souttouf Massif (Moroccan Sahara) and the Avalonian terranes: Insights from Hf isotope data

    Science.gov (United States)

    Gärtner, Andreas; Villeneuve, Michel; Linnemann, Ulf; Gerdes, Axel; Youbi, Nasrrddine; Hofmann, Mandy

    2016-06-01

    The Adrar Souttouf Massif is located at the western margin of the West African Craton and consists of several NNE-SSW trending units. Of them, the two westernmost have been interpreted to be linked with the Avalonian terrane assemblage and Meguma, respectively. New Hf isotopic data corroborates the Avalon correlation but has no impact one way or another on the possible Meguma connection, as there is no Hf data available from the latter. The obtained pattern of εHf(t) values vs. zircon age of the likely Avalonia related Oued Togba unit is similar to published data from Avalonia. Zircons of this unit show characteristic patterns of crustal mixing at 0.7 to 1.3 Ga and 1.75 to 2.25 Ga, while juvenile crust was likely formed around 0.6 to 0.75 Ga, from 1.2 to 2.2 Ga, and between 2.5 and 3.2 Ga. The zircons of the Sebkha Gezmayet unit reveal crustal mixing for the entire Palaeozoic and Neoproterozoic, from 2.05 to 2.11 Ga, and 2.8 to 2.9 Ga. Juvenile crust formation is interpreted to have occurred from 0.5 to 0.7 Ga, at around 2.1 Ga, and at ca. 2.9 Ga. As Mesoproterozoic zircons are abundant in the likely Avalonia-like Oued Togba unit, but uncommon at the West African Craton, their origin has to be found elsewhere. A comparison of available Hf data from Amazonia and Baltica, the two potential source cratons of Avalonia, shows similarities but is hampered by the lack of available data from Amazonia. Finally, a few grains from both units have Eoarchaean model ages. Among similar grains from other peri-Gondwanan terranes, they give indication of partial recycling of Eoarchaean crust in the vicinity of the northwestern West African Craton.

  8. Twelve previously unknown phage genera are ubiquitous in global oceans.

    Science.gov (United States)

    Holmfeldt, Karin; Solonenko, Natalie; Shah, Manesh; Corrier, Kristen; Riemann, Lasse; Verberkmoes, Nathan C; Sullivan, Matthew B

    2013-07-30

    Viruses are fundamental to ecosystems ranging from oceans to humans, yet our ability to study them is bottlenecked by the lack of ecologically relevant isolates, resulting in "unknowns" dominating culture-independent surveys. Here we present genomes from 31 phages infecting multiple strains of the aquatic bacterium Cellulophaga baltica (Bacteroidetes) to provide data for an underrepresented and environmentally abundant bacterial lineage. Comparative genomics delineated 12 phage groups that (i) each represent a new genus, and (ii) represent one novel and four well-known viral families. This diversity contrasts the few well-studied marine phage systems, but parallels the diversity of phages infecting human-associated bacteria. Although all 12 Cellulophaga phages represent new genera, the podoviruses and icosahedral, nontailed ssDNA phages were exceptional, with genomes up to twice as large as those previously observed for each phage type. Structural novelty was also substantial, requiring experimental phage proteomics to identify 83% of the structural proteins. The presence of uncommon nucleotide metabolism genes in four genera likely underscores the importance of scavenging nutrient-rich molecules as previously seen for phages in marine environments. Metagenomic recruitment analyses suggest that these particular Cellulophaga phages are rare and may represent a first glimpse into the phage side of the rare biosphere. However, these analyses also revealed that these phage genera are widespread, occurring in 94% of 137 investigated metagenomes. Together, this diverse and novel collection of phages identifies a small but ubiquitous fraction of unknown marine viral diversity and provides numerous environmentally relevant phage-host systems for experimental hypothesis testing.

  9. More about the Ordovician–Silurian transition beds at Mirny Creek, Omulev Mountains, NE Russia: carbon isotopes and conodonts

    Directory of Open Access Journals (Sweden)

    Dimitri Kaljo

    2012-11-01

    Full Text Available Profound environmental and biodiversity changes take place in the Ordovician–Silurian boundary interval. The Mirny Creek and Neznakomka River bank sections discussed in this paper expose the upper Katian–lower Rhuddanian part of the boundary beds. The succession consists of carbonate rocks, partly with bioherms, alternating with argillaceous and siltstone packages that are well dated by graptolites. Microfossils are rare, especially in the Hirnantian, but conodonts provide some useful markers just below and above the Hirnantian stage boundaries. The Hirnantian δ13C trend in the Mirny Creek section is the stratigraphically longest described so far and it has a highly specific shape. The trend commenced at the first appearance datum of Normalograptus extraordinarius or slightly below this level. The main peak occurs near the middle of the N. persculptus Biozone. Samples from the Neznakomka River suggest a somewhat wider peak interval than at Mirny Creek. Detailed comparison of the Mirny and Stirnas (Latvia δ13C curves shows a general similarity despite great specific features of both trends. Correlation of the δ13C trends from China, Baltica and North America with that at Mirny Creek reveals a great variety of shapes of the carbon isotope curve. However, its rising limb commenced, if represented, everywhere close to the beginning of the N. extraordinarius Biozone or in terms of the Baltic succession, at the bottom of the Porkuni Regional Stage. Most likely a general shape of the HICE trend is pyramidal, which is peaking in the early N. persculptus Biochrone. Differences in the values and shape of an actual curve at different localities depend on local environmental conditions, sometimes modifying the global signal rather strongly.

  10. Seasonal stages of phytoplankton community structure and sinking loss in the Gulf of Riga

    Science.gov (United States)

    Olli, Kalle; Heiskanen, Anna-Stiina

    1999-12-01

    In this paper, we present the biomass, species composition and sinking losses of phytoplankton and heterotrophic flagellates obtained during three seasonal stages (May 1995; June-July 1994; August 1993) from the Gulf of Riga — a eutrophied, semi-enclosed area in the Baltic Sea. The Gulf was characterised by intensive dinoflagellate (mainly Peridiniella catenata) dominated spring bloom (2700-7600 μg l -1 wet weight) while the diatom Thalassiosira baltica contributed most (80-90%) to the settling phytoplankton biomass (up to 6.5 g m -2 day -1). The mineral nutrients were abundant during the bloom and it is suggested that the differential sedimentation of species was caused by physical factors (thermal stratification of the water column). The phytoplankton biomass in summer (780-2600 μg l -1) was dominated by high abundance of filamentous cyanobacterium Aphanizomenon flos-aquae, autotrophic nanoflagellates and picoplankton. The primary vertical flux of phytoplankton (flos-aquae. Below the pycnocline, resuspended dormant diatom populations caused a significant (up to 1 g m -2 day -1) secondary flux. Large heterotrophic dinoflagellates ( Gyrodinium/Gymnodinium) were abundant (up to 500 μg l -1) in the middle layers and associated to ammonium regeneration. The early autumn stage was a post cyanobacterial bloom situation with relatively low phytoplankton abundance (330-860 μg l -1) dominated by A. flos-aquae and nanoflagellates. Also, the sedimentation of phytoplankton was lowest (up to 340 mg m -2 day -1). Our results indicate high seasonal differences in the phytoplankton community structure and sedimentation. However, the high within-season temporal variability overrules the variability between different areas of the southern part of the Gulf.

  11. Marine bioearosol in the area of Gdańsk Bay

    Directory of Open Access Journals (Sweden)

    Małgorzata Michalska

    2011-03-01

    Full Text Available Formation of bioaerosol is an important process of mass and energy exchange between sea and atmosphere by means of droplets of marine dust. Studies on aerosol activity of the sea was developed in the last decades of the 20 th century. Those studies revealed that concentrations of bacteria in aerosol droplets were hundreds times higher than their concentrations in superficial parts of seawater. The research also proved that aerosol activity of the sea can influence the sanitary condition of the air, especially at the seacoast areas. Surveys of air structure in coastal regions were performed on the Tricity beaches as well as in Sobieszewo and Komary. Atmospheric air sampling stations in the marine zone were located on the Gulf of Gdansk at the Vistula river mouth. Air samples were collected from the front platform on the ship R/V Baltica at 4m above the sea surface. The air samples were collected by filtration method using Sartorius apparatus. Airborne microbes were deposited onto sterile gelatine Sartorius filters. All filters were exposed directly towards the oncoming wind. After sampling, the exposed filters were placed onto the agar media on Petri plates and incubated. All measurement results were depicted in (CFU/m3 i.e. colony forming units in 1 m3 of the examined air. Meteorological measurements included: temperature, humidity, wind speed and direction. The obtained results revealed that statistically significant trends were observed between the total number of bacteria or moulds and a season of sampling. The greatest number of microorganisms was noted in spring and autumn. Correlation analysis showed that statistically significant relationship exists between microbial abundance and the wind direction or speed and location of sampling site. Large quantities of fungal spores was detected in the areas of Gdynia and Gdansk - Brzeêno when south-west winds were blowing from the land. The highest number of bacteria were observed at the sampling

  12. Revision of Silurian vertebrate biozones and their correlation with the conodont succession

    Directory of Open Access Journals (Sweden)

    Tiiu Märss

    2013-11-01

    Full Text Available The first vertebrate-based subdivisions of Silurian strata were mainly drawn on material from outcrops in Britain and drill cores from the southern Baltic. Nearly twenty years ago the first vertebrate biozonal scheme was developed on the basis of vertebrate distribution in several continuous drill core sections in the northern Baltic. This paper presents a new scheme in which many new data on vertebrate distribution from the Baltica (Baltic region, NW Russia, Avalonia (southern Britain, eastern Canada, Laurentia (northern Canada, Greenland, Scotland and Kara (Arctic Russia palaeocontinents have been used. All the zones have been defined, and the geographical distribution and the reference stratum and locality for each zone have been given. The Llandovery part of the succession contains the Valyalepis crista, Loganellia aldridgei and L. scotica zones; the Wenlock part is represented by the Archipelepis bifurcata/Arch. turbinata, L. grossi, Overia adraini, L. einari and Paralogania martinssoni zones. The Par. martinssoni Zone continues in the Ludlow and is followed by the Phlebolepis ornata, Phl. elegans, Andreolepis hedei, Thelodus sculptilis and T. admirabilis zones. The last zone continues in the lower Přidoli and is followed by the Nostolepis gracilis, Poracanthodes punctatus and Trimerolepis timanica zones. The L. aldridgei and Arch. bifurcata zones are new, and the Arch. turbinata and O. adraini faunas have been raised from ‘faunal succession units’ to zones. The geographically widely distributed L. grossi Zone in the upper Sheinwoodian and the Par. martinssoni Zone in the upper Homerian–lowermost Gorstian allow the integration of regional successions into one Generalized Vertebrate Zonal Scheme. Possible correlations of conodont and vertebrate biozones, and gaps in sedimentation in the northern East Baltic Silurian sequence have been discussed, the most extensive hiatus being between the Paadla and Kuressaare stages.

  13. Ca-Mg kutnahorite and struvite production by Idiomarina strains at modern seawater salinities.

    Science.gov (United States)

    González-Muñoz, María Teresa; De Linares, Concepción; Martínez-Ruiz, Francisca; Morcillo, Fernando; Martín-Ramos, Daniel; Arias, José María

    2008-06-01

    The production of Mg-rich carbonates by Idiomarina bacteria at modern seawater salinities has been investigated. With this objective, four strains: Idiomarina abyssalis (strain ATCC BAA-312), Idiomarina baltica (strain DSM 15154), Idiomarina loihiensis (strains DSM 15497 and MAH1) were used. The strain I. loihiensis MAH1 is a new isolate, identified in the scope of this work. The four moderately halophilic strains precipitated struvite (NH4MgPO4 x 6H2O) crystals that appear encased by small Ca-Mg kutnahorite [CaMg(CO3)2] spheres and dumbbells, which are also regularly distributed in the bacterial colonies. The proportion of Ca-Mg kutnahorite produced by the bacteria assayed ranged from 50% to 20%, and I. abyssalis also produced monohydrocalcite. All precipitated minerals appeared to be related to the bacterial metabolism and, consequently, can be considered biologically induced. Amino acid metabolism resulted in a release of ammonia and CO2 that increase the pH and CO(3)(2-) concentration of the culture medium, creating an alkaline environment that favoured carbonate and struvite precipitation. This precipitation may be also related to heterogeneous nucleation on negatively charged points of biological structures. Because the nature of the organic matrix determines which ion is preferentially adsorbed and, consequently, which mineral phase is formed, the uniquely high content in odd-iso-branched fatty acids of the Idiomarina suggests that their particular membrane characteristics could induce Ca-Mg kutnahorite production. The Ca-Mg kutnahorite, a mineral with a dolomite-ordered structure, production at seawater salinities is noticeable. To date, such precipitation in laboratory cultures, has only been described in hypersaline conditions. It has also been the first time that biomineralization processes have been related to Idiomarina bacteria.

  14. Radiocarbon Dates Link Marine Incursion and Neoglacial Ice Terminus Advance With Tlingit Ethnohistory and Archeology in Lower Glacier Bay

    Science.gov (United States)

    Connor, C. L.; Monteith, D.; Howell, W.; Strevelar, G.; Leirer, M.

    2004-12-01

    Radiocarbon dates from wood, organic sediments, and marine shells were collected from eroded beach terraces and upper beach sediments in the Beardslee Islands and Berg Bay in Glacier Bay National Park, Alaska. These provide a timetable for the the outwash plain construction and final advance of the Late Neoglacial glacier front over this outwash plain into lower Glacier Bay. On Kidney Island in the central Beardslee Islands, marine sediments containing Macoma baltica shells were deposited 4310 +/- 40 years BP. Outwash from advancing up-bay glaciers, buried these sediments and created terrestrial substrates upon which forests existed by 1630 +/- 60 BP and 1300 +/- 50 yrs BP. Final ice advance over this forested outwash plain occurred after 430 +/- 60 BP (1430 to 1510 AD) on Kidney Island. This ice arrived at the southern edge of Lester Island in Bartlett Cove after 370 +/- 50 BP (1440 to 1520 AD); preceding the arrival of George Vancouver in 1794 AD. In nearby Icy Straits, archeological investigations have yielded some of the oldest dates of human occupation in the region at 10,180 +/- 800 uncorrected years BP (Ackerman, 1968). In Glacier Bay's ethno-historically rich areas of Bartlett Cove, the Beardslee Islands and Berg Bay the Huna people have names for places and narratives that describe late Neoglacial landscapes. S'é Shuyee is the "area at the end of the glacial mud", L'awsha Shakee Aan "town on top of the glacial sand dunes". There are accounts of villages overrun by surging glaciers, and a name for the bay Sit' eeti Geeyi that translates as "bay in place of the glacier". These dates provide linkage between the geological, archeological, and ethnohistorical evidence that chronicles the history of the Huna people in this dynamic glacier marine environment.

  15. Evolution of the Sibişel Shear Zone (South Carpathians): A study of its type locality near Răşinari (Romania) and tectonic implications

    Science.gov (United States)

    Ducea, Mihai N.; Negulescu, Elena; Profeta, Lucia; Sǎbǎu, Gavril; Jianu, Denisa; Petrescu, Lucian; Hoffman, Derek

    2016-09-01

    The Sibişel Shear Zone is a 1-3 km wide, ductile shear zone located in the South Carpathian Mountains, Romania. In the Rășinari area, the ductile shear zone juxtaposes amphibolite facies rocks of the Lotru Metamorphic Suite against greenschist facies rocks of the Râuşorul Cisnădioarei Formation. The first represents the eroded remnants of Peri-Gondwanan arcs formed between the Neoproterozoic-Silurian (650-430 Ma), regionally metamorphosed to amphibolite facies during the Variscan orogeny (350-320 Ma). The second is composed of metasedimentary and metavolcanic Neoproterozoic-Ordovician (700-497 Ma) assemblages of mafic to intermediate bulk composition also resembling an island arc metamorphosed during the Ordovician (prior to 463 Ma). Between these lie the epidote amphibolite facies mylonitic and ultramylonitic rocks of the Sibișel Formation, a tectonic mélange dominated by mafic actinolite schists attenuated into a high strain ductile shear zone. Mineral Rb-Sr isochrons document the time of juxtaposition of the three domains during the Permian to Early Triassic ( 290-240 Ma). Ductile shear sense indicators suggest a right lateral transpressive mechanism of juxtaposition; the Sibişel shear zone is a remnant Permo-Triassic suture between two Early Paleozoic Gondwanan terranes. A zircon and apatite U-Th/He age transect across the shear zone yields Alpine ages (54-90 Ma apatite and 98-122 Ma zircon); these data demonstrate that the exposed rocks were not subjected to Alpine ductile deformation. Our results have significant implications for the assembly of Gondwanan terranes and their docking to Baltica during Pangea's formation. Arc terranes free of Variscan metamorphism existed until the Early Triassic, emphasizing the complex tectonics of terrane amalgamation during the closure of Paleotethys.

  16. Induced resistance to periwinkle grazing in the brown seaweed Fucus vesiculosus (Phaeophyceae): molecular insights and seaweed-mediated effects on herbivore interactions.

    Science.gov (United States)

    Flöthe, Carla R; Molis, Markus; John, Uwe

    2014-06-01

    Herbivory is a key factor for controlling seaweed biomass and community structure. To cope with grazers, constitutive and inducible defenses have evolved in macroalgae. Inducible chemical defenses show grazer-specificity and, at the same time, have the potential to mediate interactions among different herbivores. Furthermore, temporal variations in defense patterns, which may adjust antiherbivory responses to grazing pressure, were reported in two brown seaweeds. However, underlying cellular processes are only rudimentarily characterized. To investigate the response of Fucus vesiculosus (L.) to periwinkle (Littorina obtusata) grazing, feeding assays were conducted at several times during a 33 d induction experiment. Underlying cellular processes were analyzed through gene expression profiling. Furthermore, direct processes driving the antiherbivory response to periwinkle grazing and indirect effects on another herbivore, the isopod Idotea baltica, were elucidated. F. vesiculosus showed multiple defense pulses in response to periwinkle grazing, suggesting a high level of temporal variability in antiherbivory traits. Defense induction was accompanied by extensive transcriptome changes. Approximately 400 genes were significantly up-/down-regulated relative to controls, including genes relevant for translation and the cytoskeleton. Genes involved in photosynthesis were mostly down-regulated, while genes related to the respiratory chain were up-regulated, indicating alterations in resource allocation. The comparison of genes regulated in response to isopod (previous study) and periwinkle grazing suggests specific induction of several genes by each herbivore. However, grazing by both herbivores induced similar metabolic processes in F. vesiculosus. These common defense-related processes reflected in strong indirect effects as isopods were also repelled after previous grazing by L. obtusata.

  17. Climate sensibility and stability of coastal dunes. Final report; Klimasensibilitaet und Stabiltaet nicht regenerierbarer Oekosysteme: Kuestenduenen. Schlussbericht

    Energy Technology Data Exchange (ETDEWEB)

    Handelmann, D.; Klittmann, T.; Badenhop, J.; Folger, M.

    2000-07-01

    Coastal dunes have an important function as unique habitats for plants and animals as well as natural barriers against storm tides. Thus, they are of special value for nature conservation and coastal defence issues. Facing their potential endangering due to accelerated climate change profound knowledge of stabilty of coastal dunes is essential. In this context the presented study deals with the impact of climate change on biogenic sand stabilization in coastal dunes, which have to be conceived as an ecosystemic process. Questions of climate affected reactions of organism groups involved in this process (plants, soil microflora, soil fauna) and alterations in soil structure were followed up. Within the scope of a 2-years-lasting field experiment conducted on the Eastfrisian Island Norderney the microclimate near the soil surface was modified by gauze covering, which was set up on field plots. (orig.) [German] In ihrer Funktion als Lebensraum fuer Pflanzen und Tiere sowie als natuerlicher Schutzwall bei Sturmfluten wird den Kuestenduenen eine wichtige Bedeutung im Natur- und Kuestenschutz beigemessen. Angesichts ihrer potentiellen Gefaehrdung durch einen beschleunigten Klimawandel ist ein fundierter Kenntnisstand zur Stabilitaet von Kuestenduenen von elementarem Interesse. Vor diesem Hintergrund befasst sich die vorliegende Studie mit dem Einfluss von Klimaaenderungen auf die biogene Sandstabilisierung in Kuestenduenen, die aufgrund des bestehenden organismischen Beziehungsgeflechtes als oekosystemarer Prozess aufzufassen ist. Dabei wurden Fragen nach klimaabhaengigen Reaktionen der an diesem Prozess beteiligten Organismengruppen (Pflanzen, Bodenmikroflora, Bodenfauna) und Veraenderungen des Bodengefueges bearbeitet. Im Rahmen eines 2-jaehrigen Freilandexperimentes auf der Ostfriesischen Insel Norderney wurde das bodennahe Mikroklima mittels einer Gazeueberspannung auf 4 m{sup 2} grossen und mit Strandhafer (Calammophila baltica) bepflanzten Parzellen experimentell

  18. Exploring occurrence and molecular diversity of betaine lipids across taxonomy of marine microalgae.

    Science.gov (United States)

    Cañavate, José Pedro; Armada, Isabel; Ríos, José Luis; Hachero-Cruzado, Ismael

    2016-04-01

    Betaine lipids (BL) from ten microalgae species of the kingdoms Plantae and Chromista were identified and quantified by HPLC/ESI-TOF-MS. Diacylgyceryl-N-trimethylhomoserine (DGTS) was detected in Trebouxiophyceae and Eustigmatophyceae species, whereas Tetraselmis suecica was described as the first green algae containing diacylglyceryl-hydroxymethyl-N,N,N-trimethyl-beta-alanine (DGTA). DGTA molecular species where also characterized in Cryptophyceae species as well as in the Bacillariophyceae diatom Phaeodactylum tricornutum. The Mediophyceae diatom Chaetoceros gracilis had no DGTA, but contained diacylglyceryl-carboxyhydroxymethylcholine (DGCC). A principal coordinate (PCO) analysis of microalgae species revealed the existence of three main clusters around each BL type. The first PCO axis (43.9% of total variation) grouped Chlorophyceae, Trebouxiophyceae and Eustigmatophyceae species and positively correlated with DGTS. The second PCO axis (27.8% of total variation) segregated DGTA from DGCC containing species. Cryptophyceae, Bacillariophyceae and Chlorodendrophyceae were the more closely associated species to DGTA. Mediophyceae and Dinophyceae species contained DGCC as the only BL. Molecular diversity varied from the simplest DGCC composition in Gyrodinium dorsum to the highest spectrum of ten different molecular species detected for DGTA (Rhodomonas baltica) and DGCC (C. gracilis). The fatty acid profile of DGTS was very dissimilar to that of the whole lipid cell content. DGTS from Nannochloropsis gaditana was highly unsaturated respecting to total lipids, whereas in Picochlorum atomus DGTS unsaturation was nearly one half to that of total lipids. Dissimilarity between DGTA and total lipid fatty acid profile was minimum among all BL and DGTA fatty acid unsaturation was the maximum observed in the study. New DGCC molecular species enriched in 20:5 were described in Mediophyceae diatoms. Multivariate microalgae ordination using BL as descriptors revealed a higher

  19. Metabolomic Assessment of Induced and Activated Chemical Defence in the Invasive Red Alga Gracilaria vermiculophylla

    Science.gov (United States)

    Nylund, Göran M.; Weinberger, Florian; Rempt, Martin; Pohnert, Georg

    2011-01-01

    In comparison with terrestrial plants the mechanistic knowledge of chemical defences is poor for marine macroalgae. This restricts our understanding in the chemically mediated interactions that take place between algae and other organisms. Technical advances such as metabolomics, however, enable new approaches towards the characterisation of the chemically mediated interactions of organisms with their environment. We address defence responses in the red alga Gracilaria vermiculophylla using mass spectrometry based metabolomics in combination with bioassays. Being invasive in the north Atlantic this alga is likely to possess chemical defences according to the prediction that well-defended exotics are most likely to become successful invaders in systems dominated by generalist grazers, such as marine macroalgal communities. We investigated the effect of intense herbivore feeding and simulated herbivory by mechanical wounding of the algae. Both processes led to similar changes in the metabolic profile. Feeding experiments with the generalist isopod grazer Idotea baltica showed that mechanical wounding caused a significant increase in grazer resistance. Structure elucidation of the metabolites of which some were up-regulated more than 100 times in the wounded tissue, revealed known and novel eicosanoids as major components. Among these were prostaglandins, hydroxylated fatty acids and arachidonic acid derived conjugated lactones. Bioassays with pure metabolites showed that these eicosanoids are part of the innate defence system of macroalgae, similarly to animal systems. In accordance with an induced defence mechanism application of extracts from wounded tissue caused a significant increase in grazer resistance and the up-regulation of other pathways than in the activated defence. Thus, this study suggests that G. vermiculophylla chemically deters herbivory by two lines of defence, a rapid wound-activated process followed by a slower inducible defence. By unravelling

  20. Metabolomic assessment of induced and activated chemical defence in the invasive red alga Gracilaria vermiculophylla.

    Directory of Open Access Journals (Sweden)

    Göran M Nylund

    Full Text Available In comparison with terrestrial plants the mechanistic knowledge of chemical defences is poor for marine macroalgae. This restricts our understanding in the chemically mediated interactions that take place between algae and other organisms. Technical advances such as metabolomics, however, enable new approaches towards the characterisation of the chemically mediated interactions of organisms with their environment. We address defence responses in the red alga Gracilaria vermiculophylla using mass spectrometry based metabolomics in combination with bioassays. Being invasive in the north Atlantic this alga is likely to possess chemical defences according to the prediction that well-defended exotics are most likely to become successful invaders in systems dominated by generalist grazers, such as marine macroalgal communities. We investigated the effect of intense herbivore feeding and simulated herbivory by mechanical wounding of the algae. Both processes led to similar changes in the metabolic profile. Feeding experiments with the generalist isopod grazer Idotea baltica showed that mechanical wounding caused a significant increase in grazer resistance. Structure elucidation of the metabolites of which some were up-regulated more than 100 times in the wounded tissue, revealed known and novel eicosanoids as major components. Among these were prostaglandins, hydroxylated fatty acids and arachidonic acid derived conjugated lactones. Bioassays with pure metabolites showed that these eicosanoids are part of the innate defence system of macroalgae, similarly to animal systems. In accordance with an induced defence mechanism application of extracts from wounded tissue caused a significant increase in grazer resistance and the up-regulation of other pathways than in the activated defence. Thus, this study suggests that G. vermiculophylla chemically deters herbivory by two lines of defence, a rapid wound-activated process followed by a slower inducible

  1. INTERMODAL TRANSPORT IN EUROPE - OPPORTUNITIES THROUGH INNOVATION

    Directory of Open Access Journals (Sweden)

    Norbert Wagener

    2014-12-01

    Full Text Available Background: Freight transport volume in ton-km in OECD countries will grow considerably up to 150 to 230 % in 2050 compared to 2010. Although the EU policy aims to shift 30% of road freight over 300 km to other modes such as rail or waterborne transport by 2030 the recent trends show a stable modal split of road at approx. 75%. Conventional intermodal transport on the major European routes has shown a steady but only limited organic growth through recent years. Therefore, new innovative concepts for intermodal transport and for the shift from road to rail are needed. Methods: Definitions of intermodal transport have been clarified and the development of combined transport in Europe and in Germany and Poland in particular has been analyzed on the basis of available data sources. New innovative concepts for intermodal transport have been identified on the basis of desk research, recent relevant projects (RETRACK, SCANDRIA, Rail Baltica and market intelligence. Results: The analysis leads to the conclusion that new innovative concepts in intermodal transport comprise new forms of organization as well as new technologies and new routes. The following three innovations to facilitate the shift from road to rail by intermodal transport are being introduced and discussed: multimodal operation of ocean carriers in maritime hinterland transportation, innovative handling technologies for non-crane able trainers and freight corridors for long distance intermodal transport within the TEN-T network and on the Europe-Asia corridor. Conclusions: Further accelerated growth in the shift from road to rail through intermodal transport requires new innovative concepts beyond the traditional combined transport in Western Europe. Three promising innovative concepts have been introduced. Further research is needed and should be focused on financial and economic appraisal as well as on the effectiveness of state intervention policies. 

  2. Sequence structure and intragenomic variability of ribosomal ITS2 in monozoic tapeworms of the genus Khawia (Cestoda: Caryophyllidea), parasites of cyprinid fish.

    Science.gov (United States)

    Králová-Hromadová, Ivica; Bazsalovicsová, Eva; Oros, Mikuláš; Scholz, Tomáš

    2012-10-01

    The sequence structure of the ribosomal internal transcribed spacer 2 (ITS2) was determined for six species of Khawia (Cestoda: Caryophyllidea), parasites of cyprinid fish in the Holarctic Region. Homologous intragenomic ITS2 structure was found in Khawia armeniaca, Khawia baltica, and Khawia rossittensis; whereas divergent intragenomic ITS2 copies were detected in Chinese, Japanese, and Slovak isolates of Khawia sinensis and in Khawia japonensis, both parasitic in common carp, and in Khawia saurogobii, recently described from Chinese lizard gudgeon in China. Despite distinct morphological differences between K. saurogobii and K. sinensis, both species display very high level of molecular homogeneity. Variation in number of short repetitive motifs [(GCCT)(n) (GCCC)(n)], [(GTG)(n)], [(ATAC)(n)], [ACGTGT (TCGTGT)(n)], [(GT)(n)], [(GT)(n)], and [(ACCT)(n) (GCCT)(n)] resulted in assortment of ITS2 sequences in four ITS2 variants in K. saurogobii from China, three in Chinese and Japanese isolates of K. sinensis, and five ITS2 variants in K. sinensis from Slovakia. In K. japonensis, the structure and arrangement of microsatellites was different from those of K. sinensis and K. saurogobii. The heterogeneity in the number of two microsatellite regions [(TG)(n); (TTG)(n)] divided ITS2 clones into two variants-first ITS2 variant (472 bp) with (TG)(5) and (TTG)(6), and second variant with (TG)(7) and (TTG)(2) (465 bp). Sequence identity of K. saurogobii with all but one (K. sinensis) congeneric species ranged between 49.5 and 69.2%, which corresponds to the interspecific differences. In contrast, sequence identity of K. saurogobii and K. sinensis (87.6-95.0%) failed into the range of intraspecific variation determined for K. sinensis samples. This close genetic similarity indicates that recently described K. saurogobii may have undergone morphological divergence as a result of ongoing sympatric speciation by host switching.

  3. Estimating relative paleolongitudes with the assumption of middle Paleozoic true polar wander

    Science.gov (United States)

    van der Voo, R.; Bazhenov, M.

    2003-04-01

    Three new paleomagnetic poles have been obtained from Lower Ordovician, Lower Silurian, and Middle Devonian rocks in the Chingiz Range, Kazakhstan (see Bazhenov et al. presentation in session MG3, this meeting). They form an apparent polar wander (APW) loop that resembles similar loops for Ordovician through Devonian poles from Baltica, Laurentia and Gondwana. The latter have previously been attributed to true polar wander (TPW) in an admittedly speculative paper (Van der Voo, 1994, EPSL, vol. 122, pp. 239-243). A characteristic of TPW is that all continents should see its expression manifested in their APW paths, especially if relative plate velocities were much less than TPW rates. Paleopoles from Siberia and the China blocks do not contradict a TPW signature for the Ordovician through Devonian interval, but the results are not complete enough to establish a loop in the APW paths. However, the paleopoles from the Chingiz block in Kazakhstan fit the requisite looping pattern. Even though TPW remains speculative for this interval until it has been shown that all continents have similarly shaped APW paths, there are two interesting issues that are related to TPW. (1) If TPW occurred, similarly shaped APW paths from all continents can be superposed and the Euler rotations necessary for this superposition place the continents in their ancient relative positions to first approximation. This implies that a rough estimate of relative paleolongitudes can be obtained. (2) Superposition of the APW paths should not lead to overlap in continental positions, so that the absence of overlaps constitutes one possible test of the TPW hypothesis. The currently available data from the major continents pass this test.

  4. Rodinia: Supercontinent's poster child or problem child?

    Science.gov (United States)

    Cawood, Peter; Hawkesworth, Chris

    2014-05-01

    Earth's rock record extending from 1.7 to 0.75 Ga, that period encompassing the entire Rodinian supercontinent cycle and the latter part of Nuna cycle, and corresponding with Earth's Middle Age, is characterized by environmental, evolutionary and lithospheric stability that contrasts with the dramatic changes in preceding and succeeding eras. The period is marked by a paucity of passive margins, an absence of a significant Sr anomaly in the paleoseawater record or in the epsilon Hf(t) in detrital zircon, a lack of orogenic gold and volcanic-hosted massive sulfide deposits, and an absence of glacial deposits and of iron formations. In contrast, anorthosites and kindred bodies are well developed and major pulses of Mo and Cu mineralization, including the world's largest examples of these deposits, are features of this period. These trends are attributed to the combined effects of lithospheric behavior related to secular cooling of the mantle and a relatively stable continental assemblage that was initiated during assembly of the Nuna supercontinent by ~1.7 Ga and continued until breakup of its closely related successor, Rodinia, around 0.75 Ga. The overall low abundance of passive margins within this timeframe is consistent with a stable continental configuration, which also provided a framework for environmental and evolutionary stability. A series of convergent margin accretionary orogens developed along the margin of the supercontinent as evidenced by rock sequences preserved in dispersed fragments in Australia, Antarctica, Amazonia, Baltica and Laurentia. Abundant anorthosites and related rocks developed inboard of the plate margin. Their temporal distribution appears to link with the secular cooling of the mantle in which the overlying continental lithosphere was then strong enough to be thickened, during either low angle subduction or post-subduction collision, and to support the emplacement of large plutons into the crust, yet the underlying mantle was still

  5. The North German Conductivity Anomaly revisited

    Science.gov (United States)

    Schäfer, A.; Houpt, L.; Brasse, H.; Hoffmann, N.

    2011-10-01

    The North German Conductivity Anomaly was detected already in the early years of electromagnetic deep sounding. It refers to the reversal of induction arrows (as a graphical representation of the tipper transfer function, the ratio of vertical to horizontal magnetic field variations) at the northern and southern margins of the North German Basin. In spite of the many experiments carried out so far, its origin has remained ambiguous; explanations encompass a deep-crustal or even mantle source as well as the simple response to deepening of sedimentary sequences in the centre of the basin. Here, we report on modelling of new long-period magnetotelluric data collected along two profiles in NE Germany and S Sweden, with one transect crossing the Sorgenfrei-Tornquist Zone as the main boundary between Precambrian Baltica and the Palaeozoic belts of central Europe. With the exception of a few sites probably influenced by 3-D salt domes, the data allow a 2-D analysis. Resolution is reduced for large depths due to a well-conducting, saline aquifer, extending across the entire basin. The main result is that the reversal of induction arrows can largely be explained by the resistivity contrast between crystalline basement and sedimentary basin fill. Beneath Rügen island, a southward dipping conductor is interpreted to reflect an alum shale layer in Middle Cambrian-Lower Ordovician sediments. Beneath the southern basin, a moderately conductive upper mantle is modelled (although not very well resolved) which may reflect the thinning of the lithosphere as implied by seismic tomography. As the main anomalously inductive effect is primarily explained by the basin edges and numerous other anomalies exist inside the basin, we suggest not using the term 'North German Conductivity Anomaly' any longer.

  6. 伊乐藻-固定化脱氮微生物技术对入贡湖河道脱氮机制的影响%Effect of Elodea nuttallii-immobilized Nitrogen Cycling Bacteria on Nitrogen Removal Mechanism in an Inflow River, Gonghu Bay

    Institute of Scientific and Technical Information of China (English)

    韩华杨; 李正魁; 王浩; 朱倩

    2016-01-01

    Undisturbed sediment cores and surface water from Qinshui River in Gonghu Bay were collected to carry out a simulation experiment in our laboratory. The remediation effect of Elodea nuttallii-Immobilized Nitrogen Cycling Bacteria ( INCB) was applied in the polluted inflow river. The denitrification rate, ANAMMOX rate and nitrogen microorganism diversity were measured by 15N isotope pairing technology and high-throughput sequencing technology based on 16S rRNA. The TN, NH40-N, NO3--N concentrations were reduced by 72. 03%,46. 67% and 76. 65% in the treatment with addition of Elodea nuttallii and INCB in our laboratory experiment. Meanwhile, denitrification bacteria and ANAMMOX bacteria had synergistic effect with each other. The denitrification and ANAMMOX rates were increased by 165 μmol•( m2•h) -1 and 269. 7 μmol•( m2•h) -1 , respectively. The diversities of denitrification and ANAMMOX bacteria also increased in our experiment. From the level of major phylum, Proteobacteria, Planctomycetes, Acidobbacteria and Bacteroidetes all increased significantly. The results showed that the Elodea nuttallii-INCB assemblage technology could increase the bio-diversity of nitrogen cycling bacteria and promote the ability of nitrogen removal in Qinshui River.%采用无扰动的入贡湖亲水河底泥柱芯以及上覆水进行实验,探究了伊乐藻与固定化脱氮微生物技术对受污染的入贡湖湾河道的生态修复效果.运用稳定性15N同位素配对技术和基于16S rRNA高通量测序技术探讨了伊乐藻与固定化脱氮微生物联用技术( E-INCB)对亲水河底泥的反硝化速率、厌氧氨氧化速率以及脱氮微生物群落多样性的影响.结果表明,添加了伊乐藻与固定化脱氮微生物以后,亲水河水质得到明显改善,TN、NH40-N、NO3--N的去除率分别为72.03%、46.67%、76.65%,同时,添加了伊乐藻和固定化脱氮微生物以后,泥水界面的反硝化细菌和厌氧氨氧化细菌表现

  7. Community structure of airborne microbes in spring in a constructed wetland system for sewage treatment%人工湿地污水处理系统春季空气微生物群落结构分析?

    Institute of Scientific and Technical Information of China (English)

    吴等等; 宋志文; 王琳; 徐爱玲; 夏岩

    2014-01-01

    通过构建16S/18S rDNA基因文库,分析自由表面流人工湿地污水处理系统春季空气细菌和空气真菌群落结构特征.结果表明,空气细菌分布在变形菌门(Proteobacteria)、放线菌门(Actinobacteria)、浮霉菌门(Planctomycetes)、蓝藻门(Cyanophyta)、绿弯菌门(Chloroflexi)、拟杆菌门(Bacteroidetes)和厚壁菌门(Firmicutes),主要为β-变形菌纲(71.04%)、γ-变形菌纲(12.03%)、α-变形菌纲(3.83%)、蓝藻纲(4.38%)、芽孢杆菌纲(3.28%)和鞘脂杆菌纲(2.19%),优势菌属是马赛菌属(Massilia 66.66%)、假单胞菌属(Pseudomonas 4.37%)、蓝丝细菌属(Cyanothece 3.83%)和沙雷氏菌属(Serratia 3.28%).空气真菌主要类群为座囊菌纲(Dothideomycetes 61.18%),其次是接合菌纲(Zygomycetes 16.47%)、盘菌纲(Discomycetes 14.12%),优势菌属是核腔菌属(Pyrenophora 48.31%)、被孢霉属(Mortierella 15.7%)、缘刺盘菌属(Cheilymenia 12.4%)、Boothiomyces (4.5%).人工湿地空气微生物中未检测出大肠杆菌(Escherichia coli)、沙门氏菌(Salmonella spp.)和产气荚膜梭菌(Clostridium perfringens),但存在粘质沙雷氏菌(S. marcescens)、恶臭假单胞菌(P. putida)、表皮葡萄球菌(Staphylococcus epidermidis)等致病菌或条件致病菌.%Airborne microbes are major biological components of the ecosystem and have important ecological functions. They affect human health, cause air pollution, and are key indicators of air quality. To determine the community structure of airborne microbes in a surface-flow wetland system constructed for sewage treatment in spring, the airborne bacteria and airborne fungi were analyzed by a 16S/18S rDNA gene clone library method. Phylogenetic analysis of airborne bacteria in the airborne microbes sample showed that there were seven groups: Proteobacteria, Actinobacteria, Planctomycetes, Cyanophyta, Chloroflexi, Bacteroidetes and Firmicutes. The main types of airborne bacteria were Betaproteobacteria (71

  8. Diffuse flow environments within basalt- and sediment-based hydrothermal vent ecosystems harbor specialized microbial communities.

    Science.gov (United States)

    Campbell, Barbara J; Polson, Shawn W; Zeigler Allen, Lisa; Williamson, Shannon J; Lee, Charles K; Wommack, K Eric; Cary, S Craig

    2013-01-01

    Hydrothermal vents differ both in surface input and subsurface geochemistry. The effects of these differences on their microbial communities are not clear. Here, we investigated both alpha and beta diversity of diffuse flow-associated microbial communities emanating from vents at a basalt-based hydrothermal system along the East Pacific Rise (EPR) and a sediment-based hydrothermal system, Guaymas Basin. Both Bacteria and Archaea were targeted using high throughput 16S rRNA gene pyrosequencing analyses. A unique aspect of this study was the use of a universal set of 16S rRNA gene primers to characterize total and diffuse flow-specific microbial communities from varied deep-sea hydrothermal environments. Both surrounding seawater and diffuse flow water samples contained large numbers of Marine Group I (MGI) Thaumarchaea and Gammaproteobacteria taxa previously observed in deep-sea systems. However, these taxa were geographically distinct and segregated according to type of spreading center. Diffuse flow microbial community profiles were highly differentiated. In particular, EPR dominant diffuse flow taxa were most closely associated with chemolithoautotrophs, and off axis water was dominated by heterotrophic-related taxa, whereas the opposite was true for Guaymas Basin. The diversity and richness of diffuse flow-specific microbial communities were strongly correlated to the relative abundance of Epsilonproteobacteria, proximity to macrofauna, and hydrothermal system type. Archaeal diversity was higher than or equivalent to bacterial diversity in about one third of the samples. Most diffuse flow-specific communities were dominated by OTUs associated with Epsilonproteobacteria, but many of the Guaymas Basin diffuse flow samples were dominated by either OTUs within the Planctomycetes or hyperthermophilic Archaea. This study emphasizes the unique microbial communities associated with geochemically and geographically distinct hydrothermal diffuse flow environments.

  9. Structure, mineralogy and microbial diversity of geothermal spring microbialites associated with a deep oil drilling in Romania

    Directory of Open Access Journals (Sweden)

    Cristian eComan

    2015-03-01

    Full Text Available Modern mineral deposits play an important role in evolutionary studies by providing clues to the formation of ancient lithified microbial communities. Here we report the presence of microbialite-forming microbial mats in different microenvironments at 32ºC, 49ºC and 65ºC around the geothermal spring from an abandoned oil drill in Ciocaia, Romania. The mineralogy and the macro- and microstructure of the microbialites were investigated, together with their microbial diversity based on a 16S rRNA gene amplicon sequencing approach. The calcium carbonate is deposited mainly in the form of calcite. At 32ºC and 49ºC, the microbialites show a laminated structure with visible microbial mat-carbonate crystal interactions. At 65ºC, the mineral deposit is clotted, without obvious organic residues. Partial 16S rRNA gene amplicon sequencing showed that the relative abundance of the phylum Archaea was low at 32ºC (1%. The dominant bacterial groups at 32ºC were Cyanobacteria, Gammaproteobacteria, Firmicutes, Bacteroidetes, Chloroflexi, Thermi, Actinobacteria, Planctomycetes and Defferibacteres. At 49ºC, there was a striking dominance of the Gammaproteobacteria, followed by Firmicutes, Bacteroidetes, and Armantimonadetes. The 65ºC sample was dominated by Betaproteobacteria, Firmicutes, [OP1], Defferibacteres, Thermi, Thermotogae, [EM3] and Nitrospirae. Several groups from Proteobacteria and Firmicutes, together with Halobacteria and Melainabacteria were described for the first time in calcium carbonate deposits. Overall, the spring from Ciocaia emerges as a valuable site to probe microbes-minerals interrelationships along thermal and geochemical gradients.

  10. Effects of Elevated Atmospheric CO2 on Microbial Community Structure at the Plant-Soil Interface of Young Beech Trees (Fagus sylvatica L.) Grown at Two Sites with Contrasting Climatic Conditions.

    Science.gov (United States)

    Gschwendtner, Silvia; Leberecht, Martin; Engel, Marion; Kublik, Susanne; Dannenmann, Michael; Polle, Andrea; Schloter, Michael

    2015-05-01

    Soil microbial community responses to elevated atmospheric CO2 concentrations (eCO2) occur mainly indirectly via CO2-induced plant growth stimulation leading to quantitative as well as qualitative changes in rhizodeposition and plant litter. In order to gain insight into short-term, site-specific effects of eCO2 on the microbial community structure at the plant-soil interface, young beech trees (Fagus sylvatica L.) from two opposing mountainous slopes with contrasting climatic conditions were incubated under ambient (360 ppm) CO2 concentrations in a greenhouse. One week before harvest, half of the trees were incubated for 2 days under eCO2 (1,100 ppm) conditions. Shifts in the microbial community structure in the adhering soil as well as in the root rhizosphere complex (RRC) were investigated via TRFLP and 454 pyrosequencing based on 16S ribosomal RNA (rRNA) genes. Multivariate analysis of the community profiles showed clear changes of microbial community structure between plants grown under ambient and elevated CO2 mainly in RRC. Both TRFLP and 454 pyrosequencing showed a significant decrease in the microbial diversity and evenness as a response of CO2 enrichment. While Alphaproteobacteria dominated by Rhizobiales decreased at eCO2, Betaproteobacteria, mainly Burkholderiales, remained unaffected. In contrast, Gammaproteobacteria and Deltaproteobacteria, predominated by Pseudomonadales and Myxococcales, respectively, increased at eCO2. Members of the order Actinomycetales increased, whereas within the phylum Acidobacteria subgroup Gp1 decreased, and the subgroups Gp4 and Gp6 increased under atmospheric CO2 enrichment. Moreover, Planctomycetes and Firmicutes, mainly members of Bacilli, increased under eCO2. Overall, the effect intensity of eCO2 on soil microbial communities was dependent on the distance to the roots. This effect was consistent for all trees under investigation; a site-specific effect of eCO2 in response to the origin of the trees was not observed.

  11. Patterns of Bacterial and Archaeal Gene Expression Through the Lower Amazon River

    Energy Technology Data Exchange (ETDEWEB)

    Satinsky, Brandon; Smith, Christa; Sharma, Shalabh; Ward, Nicholas D.; Krusche, Alex; Richey, Jeffrey E.; Yager, Patricia; Crump, Byron; Moran, Mary A.

    2017-08-08

    Analysis of metatranscriptomic and metagenomic datasets from the lower reaches of the Amazon River between Óbidos and the river mouth revealed microbial transcript and gene pools dominated by Actinobacteria, Thaumarchaeota, Bacteroidetes, Acidobacteria, Betaproteobacteria, and Planctomycetes. Three mainstem stations spanning a 625 km reach had similar gene expression patterns (transcripts gene copy-1) across a diverse suite of element cycling genes, but two tributary-influenced stations at the mouth of the Tapajós River and near the Tocantins River at Belém had distinct transcriptome composition and expression ratios, particularly for genes encoding light-related energy capture (higher) and iron acquisition and ammonia oxidation (lower). Environmental parameters that were useful predictors of gene expression ratios included concentrations of lignin phenols, suspended sediments, nitrate, phosphate, and particulate organic carbon and nitrogen. Similar to the gene expression data, these chemical properties reflected highly homogeneous mainstem stations punctuated by distinct tributary- influenced stations at Tapajós and Belém. Although heterotrophic processes were expected to dominate in the lower Amazon, transcripts from photosynthetic bacteria were abundant in tributary-influenced regions, and transcripts from Thaumarcheota taxa genetically capable of chemosynthetic ammonia oxidation accounted for up to 21% of the transcriptome at others. Based on regressions of transcript numbers against gene numbers, expression ratios of Thaumarchaeota populations were largely unchanged within the mainstem, suggesting a relatively minor role for gene regulation. These quantitative gene and transcript inventories detail a diverse array of energy acquisition strategies and metabolic capabilities for bacteria and archaea populations of the world’s largest river system.

  12. Molecular analyses of microbial diversity associated with the Lonar soda lake in India: an impact crater in a basalt area.

    Science.gov (United States)

    Wani, Aijaz Ahmad; Surakasi, Venkata Prasad; Siddharth, Jay; Raghavan, Raamesh Gowri; Patole, Milind S; Ranade, Dilip; Shouche, Yogesh S

    2006-12-01

    The prokaryotic diversity associated with an Indian soda lake (Lonar Crater Lake) located in a basaltic soil area was investigated using a culture-independent approach. Community DNA was extracted directly from four sediment samples obtained by coring to depths of 10-20 cm. Small subunit rRNA genes (16S rDNA) were amplified by PCR using primers specific to the domains Bacteria and Archaea. The PCR products were cloned and sequenced. For the bacterial rDNA clone library, 500 clones were randomly selected for further analysis. After restriction fragment length polymorphism (RFLP) analysis and subsequent sequencing, a total of 44 unique phylotypes were obtained. These phylotypes spanned a wide range within the domain Bacteria, occupying eight major lineages/phyla. 34% of the clones were classified as firmicutes. The other clones were grouped into proteobacteria (29.5%), actinobacteria (6.8%), deinococcus-thermus (4.5%), cytophages-flavobacterium-bacteroidetes (13.3%), planctomycetes (6.8%), cyanobacteria (4.5%) and spirochetes (2.27%). In the case of the archaeal 16S rDNA library, analysis of 250 randomly selected clones revealed the presence of 13 distinct phylotypes; 5 phylotypes were associated with Crenarchaeota and 8 with Euryarchaeota. Most of the euryarchaeota sequences were related to methanogens. Findings from this molecular study of a site investigated for the first time have revealed the presence of a highly diverse bacterial population and a comparatively less diverse archaeal population. The majority ( approximately 80%) of the cloned sequences show little affiliation with known taxa (<97% sequence similarity) and may represent novel taxa/sequences and organisms specifically adapted to this basaltic soda lake environment. Diversity analyses demonstrate greater diversity and evenness of bacterial species compared to a skewed representation of species for Archaea.

  13. Sterol Synthesis in Diverse Bacteria.

    Science.gov (United States)

    Wei, Jeremy H; Yin, Xinchi; Welander, Paula V

    2016-01-01

    Sterols are essential components of eukaryotic cells whose biosynthesis and function has been studied extensively. Sterols are also recognized as the diagenetic precursors of steranes preserved in sedimentary rocks where they can function as geological proxies for eukaryotic organisms and/or aerobic metabolisms and environments. However, production of these lipids is not restricted to the eukaryotic domain as a few bacterial species also synthesize sterols. Phylogenomic studies have identified genes encoding homologs of sterol biosynthesis proteins in the genomes of several additional species, indicating that sterol production may be more widespread in the bacterial domain than previously thought. Although the occurrence of sterol synthesis genes in a genome indicates the potential for sterol production, it provides neither conclusive evidence of sterol synthesis nor information about the composition and abundance of basic and modified sterols that are actually being produced. Here, we coupled bioinformatics with lipid analyses to investigate the scope of bacterial sterol production. We identified oxidosqualene cyclase (Osc), which catalyzes the initial cyclization of oxidosqualene to the basic sterol structure, in 34 bacterial genomes from five phyla (Bacteroidetes, Cyanobacteria, Planctomycetes, Proteobacteria, and Verrucomicrobia) and in 176 metagenomes. Our data indicate that bacterial sterol synthesis likely occurs in diverse organisms and environments and also provides evidence that there are as yet uncultured groups of bacterial sterol producers. Phylogenetic analysis of bacterial and eukaryotic Osc sequences confirmed a complex evolutionary history of sterol synthesis in this domain. Finally, we characterized the lipids produced by Osc-containing bacteria and found that we could generally predict the ability to synthesize sterols. However, predicting the final modified sterol based on our current knowledge of sterol synthesis was difficult. Some bacteria

  14. Microbial community composition of transiently wetted Antarctic Dry Valley soils

    Directory of Open Access Journals (Sweden)

    Thomas D. Neiderberger

    2015-01-01

    Full Text Available During the summer months, wet (hyporheic soils associated with ephemeral streams and lake edges in the Antarctic Dry Valleys (DV become hotspots of biological activity and are hypothesized to be an important source of carbon and nitrogen for arid DV soils. Recent research in the DV has focused on the geochemistry and microbial ecology of lakes and arid soils, with substantially less information being available on hyporheic soils. Here we determined the unique properties of hyporheic microbial communities, resolved their relationship to environmental parameters and to compared them to archetypal arid DV soils. Generally, pH increased and chlorophyll a concentrations decreased along transects from wet to arid soils (9.0 to ~7.0 for pH and ~0.8 to ~ 5 µg/cm3 for chlorophyll a, respectively. Soil water content decreased to below ~3% in the arid soils. Community fingerprinting-based principle component analyses revealed that bacterial communities formed distinct clusters specific to arid and wet soils; however, eukaryotic communities that clustered together did not have similar soil moisture content nor did they group together based on sampling location. Collectively, rRNA pyrosequencing indicated a considerably higher abundance of Cyanobacteria in wet soils and a higher abundance of Acidobacterial, Actinobacterial, Deinococcus/Thermus, Bacteroidetes, Firmicutes, Gemmatimonadetes, Nitrospira and Planctomycetes in arid soils. The two most significant differences at the genus level were Gillisia signatures present in arid soils and chloroplast signatures related to Streptophyta that were common in wet soils. Fungal dominance was observed in arid soils and Viridplantae were more common in wet soils. This research represents an in-depth characterization of microbial communities inhabiting wet DV soils. Results indicate that the repeated wetting of hyporheic zones has a profound impact on the bacterial and eukaryotic communities inhabiting in these areas.

  15. Taxonomic and functional characteristics of microbial communities and their correlation with physicochemical properties of four geothermal springs in Odisha, India

    Directory of Open Access Journals (Sweden)

    Subrata K Das

    2015-10-01

    Full Text Available This study describes microbial diversity in four tropical hot springs representing moderately thermophilic environments (temperature range: 40-58 °C; pH: 7.2-7.4 with discrete geochemistry. Metagenome sequence data showed a dominance of Bacteria over Archaea; the most abundant phyla were Chloroflexi and Proteobacteria, although other phyla were also present, such as Acetothermia, Nitrospirae, Acidobacteria, Firmicutes, Deinococcus-Thermus, Bacteroidetes, Thermotogae, Euryarchaeota, Verrucomicrobia, Ignavibacteriae, Cyanobacteria, Actinobacteria, Planctomycetes, Spirochaetes, Armatimonadetes, Crenarchaeota, and Aquificae. The distribution of major genera and their statistical correlation analyses with the physicochemical parameters predicted that the temperature, aqueous concentrations of ions (such as sodium, chloride, sulfate, and bicarbonate, total hardness, dissolved solids and conductivity were the main environmental variables influencing microbial community composition and diversity. Despite the observed high taxonomic diversity, there were only little variations in the overall functional profiles of the microbial communities in the four springs. Genes involved in the metabolism of carbohydrates and carbon fixation were the most abundant functional class of genes present in these hot springs. The distribution of genes involved in carbon fixation predicted the presence of all the six known autotrophic pathways in the metagenomes. A high prevalence of genes involved in membrane transport, signal transduction, stress response, bacterial chemotaxis and flagellar assembly were observed along with genes involved in the pathways of xenobiotic degradation and metabolism. The analysis of the metagenomic sequences affiliated to the candidate phylum Acetothermia from spring TB-3 provided new insight into the metabolism and physiology of yet-unknown members of this lineage of bacteria.

  16. Sulfate-reducing anaerobic ammonium oxidation as a potential treatment method for high nitrogen-content wastewater.

    Science.gov (United States)

    Rikmann, Ergo; Zekker, Ivar; Tomingas, Martin; Tenno, Taavo; Menert, Anne; Loorits, Liis; Tenno, Toomas

    2012-07-01

    After sulfate-reducing ammonium oxidation (SRAO) was first assumed in 2001, several works have been published describing this process in laboratory-scale bioreactors or occurring in the nature. In this paper, the SRAO process was performed using reject water as a substrate for microorganisms and a source of NH(4) (+), with SO(4) (2-) being added as an electron acceptor. At a moderate temperature of 20°C in a moving bed biofilm reactor (MBBR) sulfate reduction along with ammonium oxidation were established. In an upflow anaerobic sludge blanket reactor (UASBR) the SRAO process took place at 36°C. Average volumetric TN removal rates of 0.03 kg-N/m³/day in the MBBR and 0.04 kg-N/m³/day in the UASBR were achieved, with long-term moderate average removal efficiencies, respectively. Uncultured bacteria clone P4 and uncultured planctomycete clone Amx-PAn30 were detected from the biofilm of the MBBR, from sludge of the UASBR uncultured Verrucomicrobiales bacterium clone De2102 and Uncultured bacterium clone ATB-KS-1929 were found also. The stoichiometrical ratio of NH(4) (+) removal was significantly higher than could be expected from the extent of SO(4) (2-) reduction. This phenomenon can primarily be attributed to complex interactions between nitrogen and sulfur compounds and organic matter present in the wastewater. The high NH(4) (+) removal ratio can be attributed to sulfur-utilizing denitrification/denitritation providing the evidence that SRAO is occurring independently and is not a result of sulfate reduction and anammox. HCO(3) (-) concentrations exceeding 1,000 mg/l were found to have an inhibiting effect on the SRAO process. Small amounts of hydrazine were naturally present in the reaction medium, indicating occurrence of the anammox process. Injections of anammox intermediates, hydrazine and hydroxylamine, had a positive effect on SRAO process performance, particularly in the case of the UASBR.

  17. Metagenomics of the deep Mediterranean, a warm bathypelagic habitat.

    Directory of Open Access Journals (Sweden)

    Ana-Belen Martín-Cuadrado

    Full Text Available BACKGROUND: Metagenomics is emerging as a powerful method to study the function and physiology of the unexplored microbial biosphere, and is causing us to re-evaluate basic precepts of microbial ecology and evolution. Most marine metagenomic analyses have been nearly exclusively devoted to photic waters. METHODOLOGY/PRINCIPAL FINDINGS: We constructed a metagenomic fosmid library from 3,000 m-deep Mediterranean plankton, which is much warmer (approximately 14 degrees C than waters of similar depth in open oceans (approximately 2 degrees C. We analyzed the library both by phylogenetic screening based on 16S rRNA gene amplification from clone pools and by sequencing both insert extremities of ca. 5,000 fosmids. Genome recruitment strategies showed that the majority of high scoring pairs corresponded to genomes from Rhizobiales within the Alphaproteobacteria, Cenarchaeum symbiosum, Planctomycetes, Acidobacteria, Chloroflexi and Gammaproteobacteria. We have found a community structure similar to that found in the aphotic zone of the Pacific. However, the similarities were significantly higher to the mesopelagic (500-700 m deep in the Pacific than to the single 4000 m deep sample studied at this location. Metabolic genes were mostly related to catabolism, transport and degradation of complex organic molecules, in agreement with a prevalent heterotrophic lifestyle for deep-sea microbes. However, we observed a high percentage of genes encoding dehydrogenases and, among them, cox genes, suggesting that aerobic carbon monoxide oxidation may be important in the deep ocean as an additional energy source. CONCLUSIONS/SIGNIFICANCE: The comparison of metagenomic libraries from the deep Mediterranean and the Pacific ALOHA water column showed that bathypelagic Mediterranean communities resemble more mesopelagic communities in the Pacific, and suggests that, in the absence of light, temperature is a major stratifying factor in the oceanic water column, overriding

  18. Comparative metagenomics of bathypelagic plankton and bottom sediment from the Sea of Marmara.

    Science.gov (United States)

    Quaiser, Achim; Zivanovic, Yvan; Moreira, David; López-García, Purificación

    2011-02-01

    To extend comparative metagenomic analyses of the deep-sea, we produced metagenomic data by direct 454 pyrosequencing from bathypelagic plankton (1000  m depth) and bottom sediment of the Sea of Marmara, the gateway between the Eastern Mediterranean and the Black Seas. Data from small subunit ribosomal RNA (SSU rRNA) gene libraries and direct pyrosequencing of the same samples indicated that Gamma- and Alpha-proteobacteria, followed by Bacteroidetes, dominated the bacterial fraction in Marmara deep-sea plankton, whereas Planctomycetes, Delta- and Gamma-proteobacteria were the most abundant groups in high bacterial-diversity sediment. Group I Crenarchaeota/Thaumarchaeota dominated the archaeal plankton fraction, although group II and III Euryarchaeota were also present. Eukaryotes were highly diverse in SSU rRNA gene libraries, with group I (Duboscquellida) and II (Syndiniales) alveolates and Radiozoa dominating plankton, and Opisthokonta and Alveolates, sediment. However, eukaryotic sequences were scarce in pyrosequence data. Archaeal amo genes were abundant in plankton, suggesting that Marmara planktonic Thaumarchaeota are ammonia oxidizers. Genes involved in sulfate reduction, carbon monoxide oxidation, anammox and sulfatases were over-represented in sediment. Genome recruitment analyses showed that Alteromonas macleodii 'surface ecotype', Pelagibacter ubique and Nitrosopumilus maritimus were highly represented in 1000  m-deep plankton. A comparative analysis of Marmara metagenomes with ALOHA deep-sea and surface plankton, whale carcasses, Peru subsurface sediment and soil metagenomes clustered deep-sea Marmara plankton with deep-ALOHA plankton and whale carcasses, likely because of the suboxic conditions in the deep Marmara water column. The Marmara sediment clustered with the soil metagenome, highlighting the common ecological role of both types of microbial communities in the degradation of organic matter and the completion of biogeochemical cycles.

  19. Communities of archaea and bacteria in a subsurface radioactive thermal spring in the Austrian Central Alps, and evidence of ammonia-oxidizing Crenarchaeota.

    Science.gov (United States)

    Weidler, Gerhard W; Dornmayr-Pfaffenhuemer, Marion; Gerbl, Friedrich W; Heinen, Wolfgang; Stan-Lotter, Helga

    2007-01-01

    Scanning electron microscopy revealed great morphological diversity in biofilms from several largely unexplored subterranean thermal Alpine springs, which contain radium 226 and radon 222. A culture-independent molecular analysis of microbial communities on rocks and in the water of one spring, the "Franz-Josef-Quelle" in Bad Gastein, Austria, was performed. Four hundred fifteen clones were analyzed. One hundred thirty-two sequences were affiliated with 14 bacterial operational taxonomic units (OTUs) and 283 with four archaeal OTUs. Rarefaction analysis indicated a high diversity of bacterial sequences, while archaeal sequences were less diverse. The majority of the cloned archaeal 16S rRNA gene sequences belonged to the soil-freshwater-subsurface (1.1b) crenarchaeotic group; other representatives belonged to the freshwater-wastewater-soil (1.3b) group, except one clone, which was related to a group of uncultivated Euryarchaeota. These findings support recent reports that Crenarchaeota are not restricted to high-temperature environments. Most of the bacterial sequences were related to the Proteobacteria (alpha, beta, gamma, and delta), Bacteroidetes, and Planctomycetes. One OTU was allied with Nitrospina sp. (delta-Proteobacteria) and three others grouped with Nitrospira. Statistical analyses suggested high diversity based on 16S rRNA gene analyses; the rarefaction plot of archaeal clones showed a plateau. Since Crenarchaeota have been implicated recently in the nitrogen cycle, the spring environment was probed for the presence of the ammonia monooxygenase subunit A (amoA) gene. Sequences were obtained which were related to crenarchaeotic amoA genes from marine and soil habitats. The data suggested that nitrification processes are occurring in the subterranean environment and that ammonia may possibly be an energy source for the resident communities.

  20. Microbial Precipitation and Diagenesis in Salt Ponds from Little Darby Island, Exumas, Bahamas.

    Science.gov (United States)

    Piggot, A. M.; Klaus, J.; Swart, P. K.; Reid, P.

    2014-12-01

    Microbial activity is responsible for the majority of carbonate precipitation and early diagenesis in restricted hypersaline ponds on Little Darby Island, Bahamas. The four ponds on Little Darby exhibit a range of salinities (10-69) and sedimentary deposits that record the evolution of ponds from restricted shallow marine embayments to isolated hypersaline ponds. Only the largest and most hypersaline pond, Anaconda, was covered by a classically defined multi-layered microbial mat (3 cm thick) with calcium carbonate precipitates. Microbial laminations and organosedimentary layers were preserved throughout the 90cm sediment core. The brackish ponds had thinner (Actinobacteria, Alphaproteobacteria, Bacteroidetes, Chloroflexi, Cyanobacteria, Deltaproteobacteria, Gammaproteobacteria and Planctomycetes, with metabolisms previously linked to carbonate producing mat systems. Sulfate reduction and heterotrophic degradation of exopolymeric substances were identified as the primary mechanism for microbial carbonate precipitation. The δ13C values of carbonate sediments ranged from -5.5‰ to 3‰, with the more negative values representing the heterotrophic involvement in carbonate precipitation. The more positive values (0-3‰) were associated with the deeper sediments deposited in a marine environment before the ponds were isolated. Pore fluid chemical ratios of Ca2+/Cl-, Mg2+/Cl-, and Sr2+/Cl- ratios also suggest that precipitation and recrystallization of carbonate minerals is occurring in the buried sediments and indicates that the microbial influence on buried sediments is not limited to surface mats. The results reported here demonstrate that the absence of microbially induced sedimentary structures, such as laminations in hypersaline ponds, does not imply the absence of microbially mediated carbonate precipitation.

  1. Same, same but different: symbiotic bacterial associations in GBR sponges

    Directory of Open Access Journals (Sweden)

    Nicole S Webster

    2013-01-01

    Full Text Available Symbioses in marine sponges involve diverse consortia of microorganisms that contribute to the health and ecology of their hosts. The microbial communities of 13 taxonomically diverse Great Barrier Reef (GBR sponge species were assessed by DGGE and 16S rRNA gene sequencing to determine intra and inter species variation in bacterial symbiont composition. Microbial profiling revealed communities that were largely conserved within different individuals of each species with intra species similarity ranging from 65-100%. 16S rRNA gene sequencing revealed that the communities were dominated by Proteobacteria, Chloroflexi, Acidobacteria, Actinobacteria, Nitrospira and Cyanobacteria. Sponge-associated microbes were also highly host-specific with no operational taxonomic units (OTUs common to all species and the most ubiquitous OTU found in only 5 of the 13 sponge species. In total, 91% of the OTUs were restricted to a single sponge species. However, GBR sponge microbes were more closely related to other sponge-derived bacteria than they were to environmental communities with sequences falling within 50 of the 173 previously defined sponge-(or sponge-coral specific sequence clusters. These sequence clusters spanned the Acidobacteria, Actinobacteria, Proteobacteria, Bacteroidetes, Chloroflexi, Cyanobacteria, Gemmatimonadetes, Nitrospira and the Planctomycetes-Verrucomicrobia-Chlamydiae superphylum. The number of sequences assigned to these sponge-specific clusters across all species ranged from 0% to 92%. No relationship between host phylogeny and symbiont communities were observed across the different sponge orders, although the highest level of similarity was detected in two closely related Xestospongia species. This study identifies the core microbial inhabitants in a range of GBR sponges thereby providing the basis for future studies on sponge symbiotic function and research aiming to predict how sponge holobionts will respond to environmental

  2. Influence of Igneous Basement on Deep Sediment Microbial Diversity on the Eastern Juan de Fuca Ridge Flank

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    Jessica M. Labonté

    2017-08-01

    Full Text Available Microbial communities living in deeply buried sediment may be adapted to long-term energy limitation as they are removed from new detrital energy inputs for thousands to millions of years. However, sediment layers near the underlying oceanic crust may receive inputs from below that influence microbial community structure and/or activity. As part of the Census of Deep Life, we used 16S rRNA gene tag pyrosequencing on DNA extracted from a spectrum of deep sediment-basement interface samples from the subsurface of the Juan de Fuca Ridge flank (collected on IODP Expedition 327 to examine this possible basement influence on deep sediment communities. This area experiences rapid sedimentation, with an underlying basaltic crust that hosts a dynamic flux of hydrothermal fluids that diffuse into the sediment. Chloroflexi sequences dominated tag libraries in all sediment samples, with variation in the abundance of other bacterial groups (e.g., Actinobacteria, Aerophobetes, Atribacteria, Planctomycetes, and Nitrospirae. These variations occur in relation to the type of sediment (clays versus carbonate-rich and the depth of sample origin, and show no clear connection to the distance from the discharge outcrop or to basement fluid microbial communities. Actinobacteria-related sequences dominated the basalt libraries, but these should be viewed cautiously due to possibilities for imprinting from contamination. Our results indicate that proximity to basement or areas of seawater recharge is not a primary driver of microbial community composition in basal sediment, even though fluids diffusing from basement into sediment may stimulate microbial activity.

  3. Ubiquitous dissolved inorganic carbon assimilation by marine bacteria in the Pacific Northwest coastal ocean as determined by stable isotope probing.

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    Suzanne DeLorenzo

    Full Text Available In order to identify bacteria that assimilate dissolved inorganic carbon (DIC in the northeast Pacific Ocean, stable isotope probing (SIP experiments were conducted on water collected from 3 different sites off the Oregon and Washington coasts in May 2010, and one site off the Oregon Coast in September 2008 and March 2009. Samples were incubated in the dark with 2 mM (13C-NaHCO(3, doubling the average concentration of DIC typically found in the ocean. Our results revealed a surprising diversity of marine bacteria actively assimilating DIC in the dark within the Pacific Northwest coastal waters, indicating that DIC fixation is relevant for the metabolism of different marine bacterial lineages, including putatively heterotrophic taxa. Furthermore, dark DIC-assimilating assemblages were widespread among diverse bacterial classes. Alphaproteobacteria, Gammaproteobacteria, and Bacteroidetes dominated the active DIC-assimilating communities across the samples. Actinobacteria, Betaproteobacteria, Deltaproteobacteria, Planctomycetes, and Verrucomicrobia were also implicated in DIC assimilation. Alteromonadales and Oceanospirillales contributed significantly to the DIC-assimilating Gammaproteobacteria within May 2010 clone libraries. 16S rRNA gene sequences related to the sulfur-oxidizing symbionts Arctic96BD-19 were observed in all active DIC assimilating clone libraries. Among the Alphaproteobacteria, clones related to the ubiquitous SAR11 clade were found actively assimilating DIC in all samples. Although not a dominant contributor to our active clone libraries, Betaproteobacteria, when identified, were predominantly comprised of Burkholderia. DIC-assimilating bacteria among Deltaproteobacteria included members of the SAR324 cluster. Our research suggests that DIC assimilation is ubiquitous among many bacterial groups in the coastal waters of the Pacific Northwest marine environment and may represent a significant metabolic process.

  4. Spatio-temporal interdependence of bacteria and phytoplankton during a Baltic Sea spring bloom

    Directory of Open Access Journals (Sweden)

    Carina eBunse

    2016-04-01

    Full Text Available In temperate systems, phytoplankton spring blooms deplete inorganic nutrients and are major sources of organic matter for the microbial loop. In response to phytoplankton exudates and environmental factors, heterotrophic microbial communities are highly dynamic and change their abundance and composition both on spatial and temporal scales. Yet, most of our understanding about these processes comes from laboratory model organism studies, mesocosm experiments or single temporal transects. Spatial-temporal studies examining interactions of phytoplankton blooms and bacterioplankton community composition and function, though being highly informative, are scarce. In this study, pelagic microbial community dynamics (bacteria and phytoplankton and environmental variables were monitored during a spring bloom across the Baltic Proper (two cruises between North Germany to Gulf of Finland. To test to what extent bacterioplankton community composition relates to the spring bloom, we used next generation amplicon sequencing of the 16S rRNA gene, phytoplankton diversity analysis based on microscopy counts and population genotyping of the dominating diatom Skeletonema marinoi. Several phytoplankton bloom related and environmental variables were identified to influence bacterial community composition. Members of Bacteroidetes and Alphaproteobacteria dominated the bacterial community composition but the bacterial groups showed no apparent correlation with direct bloom related variables. The less abundant bacterial phyla Actinobacteria, Planctomycetes, and Verrucomicrobia, on the other hand, were strongly associated with phytoplankton biomass, diatom:dinoflagellate ratio and colored dissolved organic matter (cDOM. Many bacterial operational taxonomic units (OTUs showed high niche specificities. For example, particular Bacteroidetes OTUs were associated with two distinct genetic clusters of S. marinoi. Our study revealed the complexity of interactions of bacterial

  5. A Metagenomic Assembly-Based Approach to Decoding Taxa in the Dead Zone

    Science.gov (United States)

    Thrash, C.; Baker, B.; Seitz, K.; Gillies, L.; Temperton, B.; Rabalais, N. N.; Mason, O. U.

    2016-02-01

    Coastal regions of eutrophication-driven oxygen depletion are widespread and increasing in number. Also known as dead zones, these regions take their name from the deleterious effects of hypoxia (dissolved oxygen less than 2 mg/L) on shrimp, demersal fish, and other animal life. Dead zones result from nutrient enrichment of primary production, concomitant consumption by chemoorganotrophic aerobic microorganisms, and strong stratification that prevents ventilation of bottom water. One of the largest dead zones in the world occurs seasonally in the northern Gulf of Mexico (nGOM), where hypoxia can reach up to 22,000 square kilometers. To explore the underlying genomic variation and metabolic potential of microorganisms in hypoxia, we performed metagenomic and metatranscriptomic sequencing on six samples from the 2013 nGOM dead zone from both hypoxic and oxic bottom waters. Over 217 Mb of sequence was assembled into contigs of at least 3 kb with IDBA-UD, with 72 greater than 100 kb, and the largest 495 kb in length. Annotation by IMG recovered over 224 thousand genes in these contigs. Binning with tetra-ESOM and quality filtering based on relative coverage of sample-specific reads led to the recovery of 83 partial to near complete (31 over 70%) high-quality genomes. These metagenomes represent key microbial taxa previously determined to be numerically abundant from 16S rRNA data, such as Thaumarcheaota, Marine Group II Euryarchaeota, SAR406, Synechococcus spp., Actinobacteria, and Planctomycetes. Ongoing work includes the recruitment of metatranscriptomic data to binned contigs for evaluation of relative gene expression, metabolic reconstruction, and comparative genomics with related organisms elsewhere in the global oceans. These data will provide us with detailed information regarding the metabolic potential and activity of many of the key players in the nGOM dead zone.

  6. Protist-bacteria associations: Gammaproteobacteria and Alphaproteobacteria are prevalent as digestion-resistant bacteria in ciliated protozoa

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    Jun eGong

    2016-04-01

    Full Text Available Protistan bacterivory, a microbial process involving ingestion and digestion, is ecologically important in the microbial loop in aquatic and terrestrial ecosystems. While bacterial resistance to protistan ingestion are relatively well understood, little is known about protistan digestion in which some ingested bacteria could not be digested in cells of major protistan grazers in the natural environment. Here we report the phylogenetic identities of digestion-resistant bacteria (DRB that could survive starvation and form relatively stable associations with 11 marine and one freshwater ciliate species. Using clone library and sequencing of 16S rRNA genes, we found that the protistan predators could host a high diversity of DRB, most of which represented novel bacterial taxa that have not been cultivated. The localization inside host cells, quantity, and viability of these bacteria were checked using fluorescence in situ hybridization. The DRB were affiliated with Actinobacteria, Bacteroidetes, Firmicutes, Parcubacteria (OD1, Planctomycetes, and Proteobacteria, with Gammaproteobacteria and Alphaproteobacteria being the most frequently occurring classes. The dominance of Gamma- and Alphaproteobacteria corresponds well to a previous study of Global Ocean Sampling metagenomic data showing the widespread types of bacterial type VI and IV secretion systems (T6SS and T4SS in these two taxa, suggesting a putatively significant role of secretion systems in promoting marine protist-bacteria associations. In the DRB assemblages, opportunistic bacteria such as Alteromonadaceae, Pseudoalteromonadaceae and Vibrionaceae often presented with high proportions, indicating these bacteria could evade protistan grazing thus persist and accumulate in the community, which, however, contrasts with the well-known rarity of these bacteria in nature. This begs the question whether viral lysis is significant in killing these indigestible bacteria in microbial communities

  7. Patterns of Bacterial and Archaeal Gene Expression through the Lower Amazon River

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    Brandon M. Satinsky

    2017-08-01

    Full Text Available Analysis of metatranscriptomic and metagenomic datasets from the lower reaches of the Amazon River between Óbidos and the river mouth revealed microbial transcript and gene pools dominated by Actinobacteria, Thaumarchaeota, Bacteroidetes, Acidobacteria, Betaproteobacteria, and Planctomycetes. Three mainstem stations spanning a 625 km reach had similar gene expression patterns (transcripts gene copy−1 across a diverse suite of element cycling genes, but two tributary-influenced stations at the mouth of the Tapajós River and near the Tocantins River at Belém had distinct transcriptome composition and expression ratios, particularly for genes encoding light-related energy capture (higher and iron acquisition and ammonia oxidation (lower. Environmental parameters that were useful predictors of gene expression ratios included concentrations of lignin phenols, suspended sediments, nitrate, phosphate, and particulate organic carbon and nitrogen. Similar to the gene expression data, these chemical properties reflected highly homogeneous mainstem stations punctuated by distinct tributary-influenced stations at Tapajós and Belém. Although heterotrophic processes were expected to dominate in the lower Amazon, transcripts from photosynthetic bacteria were abundant in tributary-influenced regions, and transcripts from Thaumarcheota taxa genetically capable of chemosynthetic ammonia oxidation accounted for up to 21% of the transcriptome at others. Based on regressions of transcript numbers against gene numbers, expression ratios of Thaumarchaeota populations were largely unchanged within the mainstem, suggesting a relatively minor role for gene regulation. These quantitative gene and transcript inventories detail a diverse array of energy acquisition strategies and metabolic capabilities for bacteria and archaea populations of the world's largest river system.

  8. Bacterial diversity in the bottom boundary layer of the inner continental shelf of Oregon, USA

    KAUST Repository

    Bertagnolli, AD

    2011-06-21

    There have been few studies of the bacterial community within the bottom boundary layer (BBL) the turbulent region of the water column above the benthos in shallow seas. Typically, the BBL has large amounts of particulate organic matter suspended by turbulence, and it is often the first region of the water column to become hypoxic when oxygen declines. Communities at the surface (5 m) and in the BBL (1 to 10 m above the sea floor) were compared by terminal restriction fragment length polymorphism (T-RFLP) analysis and sequencing of the 16S rRNA gene. Multivariate statistical methods (hierarchical clustering, non-metric multidimensional scaling, and analysis of similarity (ANOSIM)) indicated that the microbial community of the BBL is distinct from the surface community. ANOSIM supported the distinction between surface and BBLs (R values 0.427 and 0.463, based on analysis with restriction enzymes BsuR1 and Hin6I, respectively, p < 0.1%). Six terminal restriction fragments showed an increase in abundance with depth. Cloning, screening and sequencing identified these as a novel environmental clade (Eastern North Pacific Chromatiales (ENPC) clade), the ARTIC96BD-19 clade of Gammaproteobacteria, the 6N14 and Agg8 clades of the phylum Planctomycetes, the OM60/NOR5 clade of Gammaproteobacteria, and uncultivated members of the Roseobacter clade in the MB11C09 and ULA23 subgroups. To the best of our knowledge, this analysis is the first to focus on the unique composition of microbial communities of the BBL in shallow, inner-shelf regions off the coast of Oregon, USA, and the first to report that an uncharacterized clade of Chromatiales is indigenous in this habitat.

  9. Carbon and nitrogen inputs affect soil microbial community structure and function

    Science.gov (United States)

    Liu, X. J. A.; Mau, R. L.; Hayer, M.; Finley, B. K.; Schwartz, E.; Dijkstra, P.; Hungate, B. A.

    2016-12-01

    Climate change has been projected to increase energy and nutrient inputs to soils, affecting soil organic matter (SOM) decomposition (priming effect) and microbial communities. However, many important questions remain: how do labile C and/or N inputs affect priming and microbial communities? What is the relationship between them? To address these questions, we applied N (NH4NO3 ; 100 µg N g-1 wk-1), C (13C glucose; 1000 µg C g-1 wk-1), C+N to four different soils for five weeks. We found: 1) N showed no effect, whereas C induced the greatest priming, and C+N had significantly lower priming than C. 2) C and C+N additions increased the relative abundance of actinobacteria, proteobacteria, and firmicutes, but reduced relative abundance of acidobacteria, chloroflexi, verrucomicrobia, planctomycetes, and gemmatimonadetes. 3) Actinobacteria and proteobacteria increased relative abundance over time, but most others decreased over time. 4) substrate additions (N, C, C+N) significantly reduced microbial alpha diversity, which also decreased over time. 5) For beta diversity, C and C+N formed significantly different communities compare to the control and N treatments. Overtime, microbial community structure significantly altered. Four soils have drastically different community structures. These results indicate amounts of substrate C were determinant factors in modulating the rate of SOM decomposition and microbial communities. Variable responses of different microbial communities to labile C and N inputs indicate that complex relationships between priming and microbial functions. In general, we demonstrate that energy inputs can quickly accelerate SOM decomposition whereas extra N input can slow this process, though both had similar microbial community responses.

  10. Succession of bacterial community structure and diversity in soil along a chronosequence of reclamation and re-vegetation on coal mine spoils in China.

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    Yuanyuan Li

    Full Text Available The growing concern about the effectiveness of reclamation strategies has motivated the evaluation of soil properties following reclamation. Recovery of belowground microbial community is important for reclamation success, however, the response of soil bacterial communities to reclamation has not been well understood. In this study, PCR-based 454 pyrosequencing was applied to compare bacterial communities in undisturbed soils with those in reclaimed soils using chronosequences ranging in time following reclamation from 1 to 20 year. Bacteria from the Proteobacteria, Chloroflexi, Actinobacteria, Acidobacteria, Planctomycetes and Bacteroidetes were abundant in all soils, while the composition of predominant phyla differed greatly across all sites. Long-term reclamation strongly affected microbial community structure and diversity. Initial effects of reclamation resulted in significant declines in bacterial diversity indices in younger reclaimed sites (1, 8-year-old compared to the undisturbed site. However, bacterial diversity indices tended to be higher in older reclaimed sites (15, 20-year-old as recovery time increased, and were more similar to predisturbance levels nearly 20 years after reclamation. Bacterial communities are highly responsive to soil physicochemical properties (pH, soil organic matter, Total N and P, in terms of both their diversity and community composition. Our results suggest that the response of soil microorganisms to reclamation is likely governed by soil characteristics and, indirectly, by the effects of vegetation restoration. Mixture sowing of gramineae and leguminosae herbage largely promoted soil geochemical conditions and bacterial diversity that recovered to those of undisturbed soil, representing an adequate solution for soil remediation and sustainable utilization for agriculture. These results confirm the positive impacts of reclamation and vegetation restoration on soil microbial diversity and suggest that the

  11. Succession of bacterial community structure and diversity in soil along a chronosequence of reclamation and re-vegetation on coal mine spoils in China.

    Science.gov (United States)

    Li, Yuanyuan; Wen, Hongyu; Chen, Longqian; Yin, Tingting

    2014-01-01

    The growing concern about the effectiveness of reclamation strategies has motivated the evaluation of soil properties following reclamation. Recovery of belowground microbial community is important for reclamation success, however, the response of soil bacterial communities to reclamation has not been well understood. In this study, PCR-based 454 pyrosequencing was applied to compare bacterial communities in undisturbed soils with those in reclaimed soils using chronosequences ranging in time following reclamation from 1 to 20 year. Bacteria from the Proteobacteria, Chloroflexi, Actinobacteria, Acidobacteria, Planctomycetes and Bacteroidetes were abundant in all soils, while the composition of predominant phyla differed greatly across all sites. Long-term reclamation strongly affected microbial community structure and diversity. Initial effects of reclamation resulted in significant declines in bacterial diversity indices in younger reclaimed sites (1, 8-year-old) compared to the undisturbed site. However, bacterial diversity indices tended to be higher in older reclaimed sites (15, 20-year-old) as recovery time increased, and were more similar to predisturbance levels nearly 20 years after reclamation. Bacterial communities are highly responsive to soil physicochemical properties (pH, soil organic matter, Total N and P), in terms of both their diversity and community composition. Our results suggest that the response of soil microorganisms to reclamation is likely governed by soil characteristics and, indirectly, by the effects of vegetation restoration. Mixture sowing of gramineae and leguminosae herbage largely promoted soil geochemical conditions and bacterial diversity that recovered to those of undisturbed soil, representing an adequate solution for soil remediation and sustainable utilization for agriculture. These results confirm the positive impacts of reclamation and vegetation restoration on soil microbial diversity and suggest that the most important

  12. Biogeography of Deep-sea benthic bacteria at regional scale (LTER HAUSGARTEN, Fram Strait, Arctic.

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    Marianne Jacob

    Full Text Available Knowledge on spatial scales of the distribution of deep-sea life is still sparse, but highly relevant to the understanding of dispersal, habitat ranges and ecological processes. We examined regional spatial distribution patterns of the benthic bacterial community and covarying environmental parameters such as water depth, biomass and energy availability at the Arctic Long-Term Ecological Research (LTER site HAUSGARTEN (Eastern Fram Strait. Samples from 13 stations were retrieved from a bathymetric (1,284-3,535 m water depth, 54 km in length and a latitudinal transect (∼ 2,500 m water depth; 123 km in length. 454 massively parallel tag sequencing (MPTS and automated ribosomal intergenic spacer analysis (ARISA were combined to describe both abundant and rare types shaping the bacterial community. This spatial sampling scheme allowed detection of up to 99% of the estimated richness on phylum and class levels. At the resolution of operational taxonomic units (97% sequence identity; OTU3% only 36% of the Chao1 estimated richness was recovered, indicating a high diversity, mostly due to rare types (62% of all OTU3%. Accordingly, a high turnover of the bacterial community was also observed between any two sampling stations (average replacement of 79% of OTU3%, yet no direct correlation with spatial distance was observed within the region. Bacterial community composition and structure differed significantly with increasing water depth along the bathymetric transect. The relative sequence abundance of Verrucomicrobia and Planctomycetes decreased significantly with water depth, and that of Deferribacteres increased. Energy availability, estimated from phytodetrital pigment concentrations in the sediments, partly explained the variation in community structure. Overall, this study indicates a high proportion of unique bacterial types on relatively small spatial scales (tens of kilometers, and supports the sampling design of the LTER site HAUSGARTEN to

  13. Structure, mineralogy, and microbial diversity of geothermal spring microbialites associated with a deep oil drilling in Romania.

    Science.gov (United States)

    Coman, Cristian; Chiriac, Cecilia M; Robeson, Michael S; Ionescu, Corina; Dragos, Nicolae; Barbu-Tudoran, Lucian; Andrei, Adrian-Ştefan; Banciu, Horia L; Sicora, Cosmin; Podar, Mircea

    2015-01-01

    Modern mineral deposits play an important role in evolutionary studies by providing clues to the formation of ancient lithified microbial communities. Here we report the presence of microbialite-forming microbial mats in different microenvironments at 32°C, 49°C, and 65°C around the geothermal spring from an abandoned oil drill in Ciocaia, Romania. The mineralogy and the macro- and microstructure of the microbialites were investigated, together with their microbial diversity based on a 16S rRNA gene amplicon sequencing approach. The calcium carbonate is deposited mainly in the form of calcite. At 32°C and 49°C, the microbialites show a laminated structure with visible microbial mat-carbonate crystal interactions. At 65°C, the mineral deposit is clotted, without obvious organic residues. Partial 16S rRNA gene amplicon sequencing showed that the relative abundance of the phylum Archaea was low at 32°C (1%. The dominant bacterial groups at 32°C were Cyanobacteria, Gammaproteobacteria, Firmicutes, Bacteroidetes, Chloroflexi, Thermi, Actinobacteria, Planctomycetes, and Defferibacteres. At 49°C, there was a striking dominance of the Gammaproteobacteria, followed by Firmicutes, Bacteroidetes, and Armantimonadetes. The 65°C sample was dominated by Betaproteobacteria, Firmicutes, [OP1], Defferibacteres, Thermi, Thermotogae, [EM3], and Nitrospirae. Several groups from Proteobacteria and Firmicutes, together with Halobacteria and Melainabacteria were described for the first time in calcium carbonate deposits. Overall, the spring from Ciocaia emerges as a valuable site to probe microbes-minerals interrelationships along thermal and geochemical gradients.

  14. Metagenome-based diversity analyses suggest a significant contribution of non-cyanobacterial lineages to carbonate precipitation in modern microbialites

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    Purificacion eLopez-Garcia

    2015-08-01

    Full Text Available Cyanobacteria are thought to play a key role in carbonate formation due to their metabolic activity, but other organisms carrying out oxygenic photosynthesis (photosynthetic eukaryotes or other metabolisms (e.g. anoxygenic photosynthesis, sulfate reduction, may also contribute to carbonate formation. To obtain more quantitative information than that provided by more classical PCR-dependent methods, we studied the microbial diversity of microbialites from the Alchichica crater lake (Mexico by mining for 16S/18S rRNA genes in metagenomes obtained by direct sequencing of environmental DNA. We studied samples collected at the Western (AL-W and Northern (AL-N shores of the lake and, at the latter site, along a depth gradient (1, 5, 10 and 15 m depth. The associated microbial communities were mainly composed of bacteria, most of which seemed heterotrophic, whereas archaea were negligible. Eukaryotes composed a relatively minor fraction dominated by photosynthetic lineages, diatoms in AL-W, influenced by Si-rich seepage waters, and green algae in AL-N samples. Members of the Gammaproteobacteria and Alphaproteobacteria classes of Proteobacteria, Cyanobacteria and Bacteroidetes were the most abundant bacterial taxa, followed by Planctomycetes, Deltaproteobacteria (Proteobacteria, Verrucomicrobia, Actinobacteria, Firmicutes and Chloroflexi. Community composition varied among sites and with depth. Although cyanobacteria were the most important bacterial group contributing to the carbonate precipitation potential, photosynthetic eukaryotes, anoxygenic photosynthesizers and sulfate reducers were also very abundant. Cyanobacteria affiliated to Pleurocapsales largely increased with depth. Scanning electron microscopy (SEM observations showed considerable areas of aragonite-encrusted Pleurocapsa-like cyanobacteria at microscale. Multivariate statistical analyses showed a strong positive correlation of Pleurocapsales and Chroococcales with aragonite formation at

  15. Bacterial associates of arboreal ants and their putative functions in an obligate ant-plant mutualism.

    Science.gov (United States)

    Eilmus, Sascha; Heil, Martin

    2009-07-01

    Bacterial communities are highly diverse and have great ecological importance. In the present study, we used an in silico analysis of terminal restriction fragments (tRF) to characterize the bacterial community of the plant ant Pseudomyrmex ferrugineus. This species is an obligate inhabitant of Acacia myrmecophytes and feeds exclusively on plant-derived food sources. Ants are the dominant insect group in tropical rain forests. Associations of ants with microbes, which contribute particularly to the ants' nitrogen nutrition, could allow these insects to live on mostly or entirely plant-based diets and could thus contribute to the explanation of the high abundances that are reached by tropical ants. We found tRF patterns representing at least 30 prokaryotic taxa, of which the Acidobacteria, Actinobacteria, Bacteroidetes, Firmicutes, Planctomycetes, Proteobacteria, and Spirochaetes comprised 93%. Because most bacterial taxa were found in all ant-derived samples studied and because the bacteria detected on the ants' host plant revealed little overlap with this community, we regard our results as reliably representing the bacterial community that is associated with P. ferrugineus. Genera with a likely function as ant symbionts were Burkholderia, Pantoea, Weissella, and several members of the Enterobacteriaceae. The presence of these and various other groups was confirmed via independent PCR and cultivation approaches. Many of the bacteria that we detected belong to purportedly N-fixing taxa. Bacteria may represent important further partners in ant-plant mutualisms, and their influences on ant nutrition can contribute to the extraordinary abundance and evolutionary success of tropical arboreal ants.

  16. Microbial Diversity in Hydrate-bearing and -free Seafloor Surface Sediments in the Shenhu Area, South China Sea

    Science.gov (United States)

    Su, X.

    2015-12-01

    In 2007, the China's first gas hydrate drilling expedition GMGS-1 in the Shenhu area on the northern continental slope of the South China Sea was performed (Zhang et al., 2007). Six holes (namely Sites SH1B, SH2B, SH3B, SH5B, SH5C and SH7B) were drilled, and gas hydrate samples were recovered at three sites: Sites SH2B, SH3B and SH7B. In order to investigate microbial diversity and community features in correlation to gas hydrate-bearing sediments, a study on microbial diversity in the surface sediments at hydrate-bearing sites (SH3B and SH7B) and -free sites (SH1B, SH5B, SH5C) was carried out by using 16S rRNA gene phylogenetic analysis. The phylogenetic results indicated difference in microbial communities between hydrate-bearing and -free sediments. At the gas hydrate-bearing sites, bacterial communities were dominated by Deltaproteobacteria (30.5%), and archaeal communities were dominated by Miscellaneous Crenarchaeotic Group (33.8%); In contrast, Planctomycetes was the major group (43.9%) in bacterial communities, while Marine Benthic Group-D (MBG-D) (32.4%) took up the largest proportion in the archaeal communities. Moreover, the microbial communities have characteristics different from those in other hydrate-related sediments around the world, indicating that the presence of hydrates could affect the microbial distribution and community composition. In addition, the microbial community composition in the studied sediments has its own uniqueness, which may be resulted by co-effect of geochemical characteristics and presence/absence of gas hydrates.

  17. Comparison of Fecal Microbiota of Mongolian and Thoroughbred Horses by High-throughput Sequencing of the V4 Region of the 16S rRNA Gene.

    Science.gov (United States)

    Zhao, Yiping; Li, Bei; Bai, Dongyi; Huang, Jinlong; Shiraigo, Wunierfu; Yang, Lihua; Zhao, Qinan; Ren, Xiujuan; Wu, Jing; Bao, Wuyundalai; Dugarjaviin, Manglai

    2016-09-01

    The hindgut of horses is an anaerobic fermentative chamber for a complex and dynamic microbial population, which plays a critical role in health and energy requirements. Research on the gut microbiota of Mongolian horses has not been reported until now as far as we know. Mongolian horse is a major local breed in China. We performed high-throughput sequencing of the 16S rRNA genes V4 hypervariable regions from gut fecal material to characterize the gut microbiota of Mongolian horses and compare them to the microbiota in Thoroughbred horses. Fourteen Mongolian and 19 Thoroughbred horses were used in the study. A total of 593,678 sequence reads were obtained from 33 samples analyzed, which were found to belong to 16 phyla and 75 genera. The bacterial community compositions were similar for the two breeds. Firmicutes (56% in Mongolian horses and 53% in Thoroughbred horses) and Bacteroidetes (33% and 32% respectively) were the most abundant and predominant phyla followed by Spirochaete, Verrucomicrobia, Proteobacteria, and Fibrobacteres. Of these 16 phyla, five (Synergistetes, Planctomycetes, Proteobacteria, TM7, and Chloroflexi) were significantly different (p<0.05) between the two breeds. At the genus level, Treponema was the most abundant genus (43% in Mongolian horses vs 29% in Thoroughbred horses), followed by Ruminococcus, Roseburia, Pseudobutyrivibrio, and Anaeroplasma, which were detected in higher distribution proportion in Mongolian horses than in Thoroughbred horses. In contrast, Oscillibacter, Fibrobacter, Methanocorpusculum, and Succinivibrio levels were lower in Mongolian horses. Among 75 genera, 30 genera were significantly different (p<0.05) between the two breeds. We found that the environment was one of very important factors that influenced horse gut microbiota. These findings provide novel information about the gut microbiota of Mongolian horses and a foundation for future investigations of gut bacterial factors that may influence the development and

  18. Diversity, distribution and hydrocarbon biodegradation capabilities of microbial communities in oil-contaminated cyanobacterial mats from a constructed wetland.

    Directory of Open Access Journals (Sweden)

    Raeid M M Abed

    Full Text Available Various types of cyanobacterial mats were predominant in a wetland, constructed for the remediation of oil-polluted residual waters from an oil field in the desert of the south-eastern Arabian Peninsula, although such mats were rarely found in other wetland systems. There is scarce information on the bacterial diversity, spatial distribution and oil-biodegradation capabilities of freshwater wetland oil-polluted mats. Microbial community analysis by Automated Ribosomal Spacer Analysis (ARISA showed that the different mats hosted distinct microbial communities. Average numbers of operational taxonomic units (OTUsARISA were relatively lower in the mats with higher oil levels and the number of shared OTUsARISA between the mats was 90% of the sequences affiliated to Proteobacteria (41% of total sequences, Cyanobacteria (31%, Bacteriodetes (11.5%, Planctomycetes (7% and Chloroflexi (3%. Known autotrophic (e.g. Rivularia and heterotrophic (e.g. Azospira nitrogen-fixing bacteria as well as purple sulfur and non-sulfur bacteria were frequently encountered in all mats. On the other hand, sequences of known sulfate-reducing bacteria (SRBs were rarely found, indicating that SRBs in the wetland mats probably belong to yet-undescribed novel species. The wetland mats were able to degrade 53-100% of C12-C30 alkanes after 6 weeks of incubation under aerobic conditions. We conclude that oil and ammonia concentrations are the major key players in determining the spatial distribution of the wetland mats' microbial communities and that these mats contribute directly to the removal of hydrocarbons from oil field wastewaters.

  19. Potential of a 16S rRNA-based taxonomic microarray for analyzing the rhizosphere effects of maize on Agrobacterium spp. and bacterial communities.

    Science.gov (United States)

    Sanguin, Hervé; Remenant, Benoît; Dechesne, Arnaud; Thioulouse, Jean; Vogel, Timothy M; Nesme, Xavier; Moënne-Loccoz, Yvan; Grundmann, Geneviève L

    2006-06-01

    Bacterial diversity is central to ecosystem sustainability and soil biological function, for which the role of roots is important. The high-throughput analysis potential of taxonomic microarray should match the breadth of bacterial diversity. Here, the power of this technology was evidenced through methodological verifications and analysis of maize rhizosphere effect based on a 16S rRNA-based microarray developed from the prototype of H. Sanguin et al. (Environ. Microbiol. 8:289-307, 2006). The current probe set was composed of 170 probes (41 new probes in this work) that targeted essentially the Proteobacteria. Cloning and sequencing of 16S rRNA amplicons were carried out on maize rhizosphere and bulk soil DNA. All tested clones that had a perfect match with corresponding probes were positive in the hybridization experiment. The hierarchically nested probes were reliable, but the level of taxonomic identification was variable, depending on the probe set specificity. The comparison of experimental and theoretical hybridizations revealed 0.91% false positives and 0.81% false negatives. The microarray detection threshold was estimated at 0.03% of a given DNA type based on DNA spiking experiments. A comparison of the maize rhizosphere and bulk soil hybridization results showed a significant rhizosphere effect, with a higher predominance of Agrobacterium spp. in the rhizosphere, as well as a lower prevalence of Acidobacteria, Bacteroidetes, Verrucomicrobia, and Planctomycetes, a new taxon of interest in soil. In addition, well-known taxonomic groups such as Sphingomonas spp., Rhizobiaceae, and Actinobacteria were identified in both microbial habitats with strong hybridization signals. The taxonomic microarray developed in the present study was able to discriminate and characterize bacterial community composition in related biological samples, offering extensive possibilities for systematic exploration of bacterial diversity in ecosystems.

  20. Potential of a 16S rRNA-Based Taxonomic Microarray for Analyzing the Rhizosphere Effects of Maize on Agrobacterium spp. and Bacterial Communities†

    Science.gov (United States)

    Sanguin, Hervé; Remenant, Benoît; Dechesne, Arnaud; Thioulouse, Jean; Vogel, Timothy M.; Nesme, Xavier; Moënne-Loccoz, Yvan; Grundmann, Geneviève L.

    2006-01-01

    Bacterial diversity is central to ecosystem sustainability and soil biological function, for which the role of roots is important. The high-throughput analysis potential of taxonomic microarray should match the breadth of bacterial diversity. Here, the power of this technology was evidenced through methodological verifications and analysis of maize rhizosphere effect based on a 16S rRNA-based microarray developed from the prototype of H. Sanguin et al. (Environ. Microbiol. 8:289-307, 2006). The current probe set was composed of 170 probes (41 new probes in this work) that targeted essentially the Proteobacteria. Cloning and sequencing of 16S rRNA amplicons were carried out on maize rhizosphere and bulk soil DNA. All tested clones that had a perfect match with corresponding probes were positive in the hybridization experiment. The hierarchically nested probes were reliable, but the level of taxonomic identification was variable, depending on the probe set specificity. The comparison of experimental and theoretical hybridizations revealed 0.91% false positives and 0.81% false negatives. The microarray detection threshold was estimated at 0.03% of a given DNA type based on DNA spiking experiments. A comparison of the maize rhizosphere and bulk soil hybridization results showed a significant rhizosphere effect, with a higher predominance of Agrobacterium spp. in the rhizosphere, as well as a lower prevalence of Acidobacteria, Bacteroidetes, Verrucomicrobia, and Planctomycetes, a new taxon of interest in soil. In addition, well-known taxonomic groups such as Sphingomonas spp., Rhizobiaceae, and Actinobacteria were identified in both microbial habitats with strong hybridization signals. The taxonomic microarray developed in the present study was able to discriminate and characterize bacterial community composition in related biological samples, offering extensive possibilities for systematic exploration of bacterial diversity in ecosystems. PMID:16751545

  1. A zebrafish model for Chlamydia infection with the obligate intracellular pathogen Waddlia chondrophila

    Directory of Open Access Journals (Sweden)

    Alexander Fehr

    2016-11-01

    Full Text Available Obligate intracellular chlamydial bacteria of the Planctomycetes-Verrucomicrobia-Chlamydiae (PVC superphylum are important pathogens of terrestrial and marine vertebrates, yet many features of their pathogenesis and host specificity are still unknown. This is particularly true for families such as the Waddliacea which, in addition to epithelia, cellular targets for nearly all Chlamydia, can infect and replicate in macrophages, an important arm of the innate immune system or in their free-living amoebal counterparts. An ideal pathogen model system should include both host and pathogen, which led us to develop the first larval zebrafish model for chlamydial infections with Waddlia chondrophila. By varying the means and sites of application, epithelial cells of the swimbladder, endothelial cells of the vasculature and phagocytosing cells of the innate immune system became preferred targets for infection in zebrafish larvae. Through the use of transgenic zebrafish, we could observe recruitment of neutrophils to the infection site and demonstrate for the first time that W. chondrophila is taken up and replicates in these phagocytic cells and not only in macrophages. Furthermore, we present evidence that myeloid differentiation factor 88 (MyD88 mediated signalling plays a role in the innate immune reaction to W. chondrophila, eventually by Toll-like receptor (TLRs recognition. Infected larvae with depleted levels of MyD88 showed a higher infection load and a lower survival rate compared to control fish. This work presents a new and potentially powerful non-mammalian experimental model to study the pathology of chlamydial virulence in vivo and opens up new possibilities for investigation of other members of the PVC superphylum.

  2. Start-up of the anammox process from the conventional activated sludge in a hybrid bioreactor

    Institute of Scientific and Technical Information of China (English)

    Xiumei Duan; Jiti Zhou; Sen Qiao; Xin Yin; Tian Tian; Fangdi Xu

    2012-01-01

    The anaerobic ammonium oxidation (anammox) process was successfully started up from conventional activated sludge using a hybrid bioreactor within 2 months.The average removal efficiencies of ammonia and nitrite were both over 80%,and the maximum total nitrogen removal rate of 1.85 kg1 N/(m3·day) was obtained on day 362 with the initial sludge concentration of 0.7 g mixed liquor suspended solids (MLSS)/L.Scanning electron microscope (SEM) observation of the granular sludge in the hybrid reactor clearly showed a high degree of compactness and cell sphericity,and the cell size was quite uniform.Transmission electron microscope photos showed that cells were round or oval,the cellular diameter was 0.6-1.0 μm,and the percentage of the anammoxosome compartment was 51%-85% of the whole cell volume.Fluorescence in situ hybridization analysis (FISH) indicated that anammox bacteria became the dominant population in the community (accounting for more than 51% of total bacteria on day 250).Seven planctomycete 16S rRNA gene sequences were present in the 16S rRNA gene clone library generated from the biomass and affiliated to Candidatus Kuenenia stuttgartiensis and Candidatus Brocadia sp.,a new anammox species.In addition,the average effluent suspended solid (MLSS) concentrations of outlets Ⅰ (above the non-woven carrier) and Ⅱ (below the non-woven carrier) were 0.0009 and 0.0035 g/L,respectively.This showed that the non-woven carrier could catch the biomass effectively,which increased biomass and improved the nitrogen removal rate in the reactor.

  3. MICROBIAL COMMUNITIES AT THE BOREHOLE OBSERVATORY ON THE COSTA RICA RIFT FLANK (OCEAN DRILLING PROGRAM HOLE 896A

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    Lisa eNigro

    2012-06-01

    Full Text Available The microbiology of subsurface, hydrothermally-influenced basaltic crust flanking mid-ocean ridges has remained understudied, due to the difficulty in accessing the subsurface environment. The instrumented boreholes resulting from scientific ocean drilling offer access to samples of the formation fluids circulating through oceanic crust. We analyzed the phylogenetic diversity of bacterial communities of fluid and microbial mat samples collected in situ from the observatory at Ocean Drilling Program Hole 896A, drilled into ~6.5-million-year-old basaltic crust on the flank of the Costa Rica Rift in the equatorial Pacific Ocean. Bacterial 16S rRNA gene sequences recovered from borehole fluid and from a microbial mat coating the outer surface of the fluid port revealed both unique and shared phylotypes. The dominant bacterial clones from both samples were related to the autotrophic, sulfur-oxidizing genus Thiomicrospira. Both samples yielded diverse gamma- and alphaproteobacterial phylotypes, as well as members of the Bacteroidetes, Planctomycetes, and Verrucomicrobia. Analysis of ribulose 1,5-bisphosphate carboxylase/oxygenase (RuBisCO genes (cbbL and cbbM from the sampling port mat and from the borehole fluid demonstrated autotrophic carbon assimilation potential for in-situ microbial communities; most cbbL genes were related to those of the sulfur-oxidizing genera Thioalkalivibrio and Thiomicrospira, and cbbM genes were affiliated with uncultured phyloytypes from hydrothermal vent plumes and marine sediments. Several 16S rRNA gene phylotypes from the 896A observatory grouped with phylotypes recovered from seawater-exposed basalts and sulfide deposits at inactive hydrothermal vents, but there is little overlap with hydrothermally-influenced basaltic boreholes 1026B and U1301A on the Juan de Fuca Ridge flank, suggesting that site-specific characteristics of Hole 896A (i.e. seawater mixing into borehole fluids affect the microbial community

  4. [Effects of dissolved oxygen in the oxic parts of A/O reactor on degradation of organic pollutants and analysis of microbial community for treating petrochemical wastewater].

    Science.gov (United States)

    Ding, Peng-Yuan; Chu, Li-Bing; Zhang, Nan; Wang, Xing; Wang, Jian-Long

    2015-02-01

    Effects of dissolved oxygen (DO) on the biodegradation of organic pollutants were investigated using A/O reactors for the treatment of actual petrochemical wastewater. Two A/O reactors, DO were controlled at 2-3 mg x L(-1) in the oxic parts of reactor A and 5-6 mg x L(-1) of reactor B, were operated in parallel for comparison. The nearly a half of year operation results showed that the effluent COD in reactor A (72.5 ± 14.8 mg x L(-1)) was slightly higher than that in reactor B (68.7 ± 14.6 mg x L(-1)) at a HRT of 20 h. The average COD removal efficiencies were 67.0% and 68.8%, respectively. The effluent ammonium concentration was maintained at 0.8 mg x L(-1) and approximately 95% of ammonium removal was achieved. The effluent BOD, concentration was lower than 5 mg x L(-1). This indicated that the organic pollutants could be degraded thoroughly by the A/O processes, which were affected slightly by DO. Results of 454 pyrosequencing analysis of the sludge in oxic parts showed that at the phylum levels, sequences belonged to Proteobacteria, Planctomycetes and Bacteroidetes were abundant with 58.7% and 59.2%, 14.7% and 12.7%, 10.8% and 12.4% of total bacterial sequences in reactor A and B, respectively. Ammonium oxidation bacteria Nitrosomonas, nitrite oxidizing bacteria Nitrospira and obligate aerobic bacteria were highly enriched in reactor B with high DO levels, while the anaerobic denitrifiers Azospira and Acidovora were highly enriched in reactor A with low DO levels. The identified bacteria belonged to genera Novosphingobium, Comamonas, Sphingobium and Altererythrobacter were reported to degrade PAHs, chloronitrobenzene, pesticides and petroleum, which contributed to the degradation of petrochemical wastewater.

  5. Species specificity of bacteria associated to the brown seaweeds Lobophora (Dictyotales, Phaeophyceae and their potential for induction of rapid coral bleaching in Acropora muricata

    Directory of Open Access Journals (Sweden)

    Christophe William Vieira

    2016-03-01

    Full Text Available While reef degradation is occurring worldwide, it is not uncommon to see phase shifts from coral to macroalgal dominated reefs. Numerous studies have addressed the mechanisms by which macroalgae may outcompete corals and a few recent studies highlighted the putative role of bacteria at the interface between macroalgae and corals. Some studies suggest that macroalgae may act as vectors and/or foster proliferation of microorganisms pathogenic for corals. Using a combination of high throughput sequencing, bacterial culturing and in situ bioassays we question if the adversity of macroalgal-associated bacteria to corals is mediated by specific bacterial taxa. Using Illumina sequencing, we characterized and compared the bacterial community from two Lobophora (Dictyotales, Phaeophyceae species. The two species presented distinctive bacterial communities. Both species shared approximately half of their OTUs, mainly the most abundant bacteria. Species-specific OTUs belong to Planctomycetes, Proteobacteria and Bacteroidetes. In total, 16 culturable bacterial strain were isolated and identified from the Lobophora surface, consisting of 10 genera (from 9 families, 4 classes and 3 phyla, some of which are not known as, but are related to pathogens involved in coral diseases, and others naturally associated to corals. When patches of marine agar with 24 h cultures of each of these bacteria were placed in direct contact with the branches of the scleractinian coral Acropora muricata, they caused severe bleaching after 24 h exposure. Results suggest that regardless of taxonomic affinities, increase in density of any bacteria can be adverse to corals. Nevertheless, the microbial community associated to macroalgal surface may not represent a threat to corals, because the specific bacterial screening and control exerted by the alga preventing specific bacterial proliferation.

  6. Distinct Anaerobic Bacterial Consumers of Cellobiose-Derived Carbon in Boreal Fens with Different CO2/CH4 Production Ratios.

    Science.gov (United States)

    Juottonen, Heli; Eiler, Alexander; Biasi, Christina; Tuittila, Eeva-Stiina; Yrjälä, Kim; Fritze, Hannu

    2017-02-15

    Northern peatlands in general have high methane (CH4) emissions, but individual peatlands show considerable variation as CH4 sources. Particularly in nutrient-poor peatlands, CH4 production can be low and exceeded by carbon dioxide (CO2) production from unresolved anaerobic processes. To clarify the role anaerobic bacterial degraders play in this variation, we compared consumers of cellobiose-derived carbon in two fens differing in nutrient status and the ratio of CO2 to CH4 produced. After [(13)C]cellobiose amendment, the mesotrophic fen produced equal amounts of CH4 and CO2 The oligotrophic fen had lower CH4 production but produced 3 to 59 times more CO2 than CH4 RNA stable-isotope probing revealed that in the mesotrophic fen with higher CH4 production, cellobiose-derived carbon was mainly assimilated by various recognized fermenters of Firmicutes and by Proteobacteria The oligotrophic peat with excess CO2 production revealed a wider variety of cellobiose-C consumers, including Firmicutes and Proteobacteria, but also more unconventional degraders, such as Telmatobacter-related Acidobacteria and subphylum 3 of Verrucomicrobia Prominent and potentially fermentative Planctomycetes and Chloroflexi did not appear to process cellobiose-C. Our results show that anaerobic degradation resulting in different levels of CH4 production can involve distinct sets of bacterial degraders. By distinguishing cellobiose degraders from the total community, this study contributes to defining anaerobic bacteria that process cellulose-derived carbon in peat. Several of the identified degraders, particularly fermenters and potential Fe(III) or humic substance reducers in the oligotrophic peat, represent promising candidates for resolving the origin of excess CO2 production in peatlands.

  7. Linking Activity and Function to Ecosystem Dynamics in a Coastal Bacterioplankton Community

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    Scott Michael Gifford

    2014-04-01

    Full Text Available For bacterial communities containing hundreds to thousands of distinct populations, connecting functional processes and environmental dynamics at high taxonomic resolution has remained challenging. Here we use the expression of ribosomal proteins (%RP as a proxy for in situ activity of 200 taxa within 20 metatranscriptomic samples in a coastal ocean time series encompassing both seasonal variability and diel dynamics. %RP patterns grouped the taxa into seven activity clusters with distinct profiles in functional gene expression and correlations with environmental gradients. Clusters 1-3 had their highest potential activity in the winter and fall, and included some of the most active taxa, while Clusters 4-7 had their highest potential activity in the spring and summer. Cluster 1 taxa were characterized by gene expression for motility and complex carbohydrate degradation (dominated by Gammaproteobacteria and Bacteroidetes, and Cluster 2 taxa by transcription of genes for amino acid and aromatic compound metabolism and aerobic anoxygenic phototrophy (Roseobacter. Other activity clusters were enriched in transcripts for proteorhodopsin and methylotrophy (Cluster 4; SAR11 and methylotrophs, photosynthesis and attachment (Clusters 5 and 7; Synechococcus, picoeukaryotes, Verucomicrobia, and Planctomycetes, and sulfur oxidation (Cluster 7; Gammaproteobacteria. The seasonal patterns in activity were overlain, and sometimes obscured, by large differences in %RP over shorter day-night timescales. Seventy-eight taxa, many of them heterotrophs, had a higher %RP activity index during the day than night, indicating strong diel activity at this coastal site. Emerging from these taxonomically- and time-resolved estimates of in situ microbial activity are predictions of specific ecological groupings of microbial taxa in a dynamic coastal environment.

  8. Microbial responses to chitin and chitosan in oxic and anoxic agricultural soil slurries

    Science.gov (United States)

    Wieczorek, A. S.; Hetz, S. A.; Kolb, S.

    2014-06-01

    Microbial degradation of chitin in soil substantially contributes to carbon cycling in terrestrial ecosystems. Chitin is globally the second most abundant biopolymer after cellulose and can be deacetylated to chitosan or can be hydrolyzed to N,N'-diacetylchitobiose and oligomers of N-acetylglucosamine by aerobic and anaerobic microorganisms. Which pathway of chitin hydrolysis is preferred by soil microbial communities is unknown. Supplementation of chitin stimulated microbial activity under oxic and anoxic conditions in agricultural soil slurries, whereas chitosan had no effect. Thus, the soil microbial community likely was more adapted to chitin as a substrate. In addition, this finding suggested that direct hydrolysis of chitin was preferred to the pathway that starts with deacetylation. Chitin was apparently degraded by aerobic respiration, ammonification, and nitrification to carbon dioxide and nitrate under oxic conditions. When oxygen was absent, fermentation products (acetate, butyrate, propionate, hydrogen, and carbon dioxide) and ammonia were detected, suggesting that butyric and propionic acid fermentation, along with ammonification, were likely responsible for anaerobic chitin degradation. In total, 42 different chiA genotypes were detected of which twenty were novel at an amino acid sequence dissimilarity of less than 50%. Various chiA genotypes responded to chitin supplementation and affiliated with a novel deep-branching bacterial chiA genotype (anoxic conditions), genotypes of Beta- and Gammaproteobacteria (oxic and anoxic conditions), and Planctomycetes (oxic conditions). Thus, this study provides evidence that detected chitinolytic bacteria were catabolically diverse and occupied different ecological niches with regard to oxygen availability enabling chitin degradation under various redox conditions on community level.

  9. Temporal and Spatial Distribution of the Microbial Community of Winogradsky Columns.

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    David J Esteban

    Full Text Available Winogradsky columns are model microbial ecosystems prepared by adding pond sediment to a clear cylinder with additional supplements and incubated with light. Environmental gradients develop within the column creating diverse niches that allow enrichment of specific bacteria. The enrichment culture can be used to study soil and sediment microbial community structure and function. In this study we used a 16S rRNA gene survey to characterize the microbial community dynamics during Winogradsky column development to determine the rate and extent of change from the source sediment community. Over a period of 60 days, the microbial community changed from the founding pond sediment population: Cyanobacteria, Chloroflexi, Nitrospirae, and Planctomycetes increased in relative abundance over time, while most Proteobacteria decreased in relative abundance. A unique, light-dependent surface biofilm community formed by 60 days that was less diverse and dominated by a few highly abundant bacteria. 67-72% of the surface community was comprised of highly enriched taxa that were rare in the source pond sediment, including the Cyanobacteria Anabaena, a member of the Gemmatimonadetes phylum, and a member of the Chloroflexi class Anaerolinea. This indicates that rare taxa can become abundant under appropriate environmental conditions and supports the hypothesis that rare taxa serve as a microbial seed bank. We also present preliminary findings that suggest that bacteriophages may be active in the Winogradsky community. The dynamics of certain taxa, most notably the Cyanobacteria, showed a bloom-and-decline pattern, consistent with bacteriophage predation as predicted in the kill-the-winner hypothesis. Time-lapse photography also supported the possibility of bacteriophage activity, revealing a pattern of colony clearance similar to formation of viral plaques. The Winogradsky column, a technique developed early in the history of microbial ecology to enrich soil

  10. Temporal and Spatial Distribution of the Microbial Community of Winogradsky Columns.

    Science.gov (United States)

    Esteban, David J; Hysa, Bledi; Bartow-McKenney, Casey

    2015-01-01

    Winogradsky columns are model microbial ecosystems prepared by adding pond sediment to a clear cylinder with additional supplements and incubated with light. Environmental gradients develop within the column creating diverse niches that allow enrichment of specific bacteria. The enrichment culture can be used to study soil and sediment microbial community structure and function. In this study we used a 16S rRNA gene survey to characterize the microbial community dynamics during Winogradsky column development to determine the rate and extent of change from the source sediment community. Over a period of 60 days, the microbial community changed from the founding pond sediment population: Cyanobacteria, Chloroflexi, Nitrospirae, and Planctomycetes increased in relative abundance over time, while most Proteobacteria decreased in relative abundance. A unique, light-dependent surface biofilm community formed by 60 days that was less diverse and dominated by a few highly abundant bacteria. 67-72% of the surface community was comprised of highly enriched taxa that were rare in the source pond sediment, including the Cyanobacteria Anabaena, a member of the Gemmatimonadetes phylum, and a member of the Chloroflexi class Anaerolinea. This indicates that rare taxa can become abundant under appropriate environmental conditions and supports the hypothesis that rare taxa serve as a microbial seed bank. We also present preliminary findings that suggest that bacteriophages may be active in the Winogradsky community. The dynamics of certain taxa, most notably the Cyanobacteria, showed a bloom-and-decline pattern, consistent with bacteriophage predation as predicted in the kill-the-winner hypothesis. Time-lapse photography also supported the possibility of bacteriophage activity, revealing a pattern of colony clearance similar to formation of viral plaques. The Winogradsky column, a technique developed early in the history of microbial ecology to enrich soil microbes, may therefore be

  11. Uncultured bacterial diversity in a seawater recirculating aquaculture system revealed by 16S rRNA gene amplicon sequencing.

    Science.gov (United States)

    Lee, Da-Eun; Lee, Jinhwan; Kim, Young-Mog; Myeong, Jeong-In; Kim, Kyoung-Ho

    2016-04-01

    Bacterial diversity in a seawater recirculating aquaculture system (RAS) was investigated using 16S rRNA amplicon sequencing to understand the roles of bacterial communities in the system. The RAS was operated at nine different combinations of temperature (15°C, 20°C, and 25°C) and salinity (20‰, 25‰, and 32.5‰). Samples were collected from five or six RAS tanks (biofilters) for each condition. Fifty samples were analyzed. Proteobacteria and Bacteroidetes were most common (sum of both phyla: 67.2% to 99.4%) and were inversely proportional to each other. Bacteria that were present at an average of ≥ 1% included Actinobacteria (2.9%) Planctomycetes (2.0%), Nitrospirae (1.5%), and Acidobacteria (1.0%); they were preferentially present in packed bed biofilters, mesh biofilters, and maturation biofilters. The three biofilters showed higher diversity than other RAS tanks (aerated biofilters, floating bed biofilters, and fish tanks) from phylum to operational taxonomic unit (OTU) level. Samples were clustered into several groups based on the bacterial communities. Major taxonomic groups related to family Rhodobacteraceae and Flavobacteriaceae were distributed widely in the samples. Several taxonomic groups like [Saprospiraceae], Cytophagaceae, Octadecabacter, and Marivita showed a cluster-oriented distribution. Phaeobacter and Sediminicola-related reads were detected frequently and abundantly at low temperature. Nitrifying bacteria were detected frequently and abundantly in the three biofilters. Phylogenetic analysis of the nitrifying bacteria showed several similar OTUs were observed widely through the biofilters. The diverse bacterial communities and the minor taxonomic groups, except for Proteobacteria and Bacteroidetes, seemed to play important roles and seemed necessary for nitrifying activity in the RAS, especially in packed bed biofilters, mesh biofilters, and maturation biofilters.

  12. Microbial community in the potential gas hydrate area Kaoping Canyon bearing sediment at offshore SW Taiwan

    Science.gov (United States)

    Wu, S. Y.; Hung, C. C.; Lai, S. J.; Ding, J. Y.; Lai, M. C.

    2015-12-01

    The deep sub-seafloor biosphere is among the least-understood habitats on Earth, even though the huge microbial biomass plays a potentially important role in long-term controls of global biogeochemical cycles. The research team from Taiwan, supported by the Central Geological Survey (CGS), has been demonstrated at SW offshore Taiwan that indicated this area is potential gas hydrate region. Therefore, the Gas Hydrate Master Program (GHMP) was brought in the National Energy Program-Phase II (NEP-II) to continue research and development. In this study, the microbial community structure of potential gas hydrate bearing sediments of giant piston core MD-178-10-3291 (KP12N) from the Kaoping Canyon offshore SW of Taiwan were investigated. This core was found many empty spaces and filling huge methane gas (>99.9 %) that might dissociate from solid gas hydrate. 16S rRNA gene clone libraries and phylogenetic analysis showed that the dominant members of Archaea were ANME (13 %), SAGMEG (31 %) and DSAG (20 %), and those of Bacteria were Chloroflexi (13 %), Candidate division JS1 (40 %) and Planctomycetes (15 %). Among them, ANME-3 is only distributed at the sulfate-methane interface (SMI) of 750 cmbsf, and sharing similarity with the Hydrate Ridge clone HydBeg92. ANME-1 and SAGMEG distributed below 750 cmbsf. In addition, DSAG and Candidate division JS1 are most dominant and distributed vertically at all tested depths from 150-3600 cmbsf. Combine the geochemical data and microbial phylotype distribution suggests the potential of gas hydrate bearing sediments at core MD-178-10-3291 (KP12N) from the Kaoping Canyon offshore SW of Taiwan.

  13. Going deeper: metagenome of a hadopelagic microbial community.

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    Emiley A Eloe

    Full Text Available The paucity of sequence data from pelagic deep-ocean microbial assemblages has severely restricted molecular exploration of the largest biome on Earth. In this study, an analysis is presented of a large-scale 454-pyrosequencing metagenomic dataset from a hadopelagic environment from 6,000 m depth within the Puerto Rico Trench (PRT. A total of 145 Mbp of assembled sequence data was generated and compared to two pelagic deep ocean metagenomes and two representative surface seawater datasets from the Sargasso Sea. In a number of instances, all three deep metagenomes displayed similar trends, but were most magnified in the PRT, including enrichment in functions for two-component signal transduction mechanisms and transcriptional regulation. Overrepresented transporters in the PRT metagenome included outer membrane porins, diverse cation transporters, and di- and tri-carboxylate transporters that matched well with the prevailing catabolic processes such as butanoate, glyoxylate and dicarboxylate metabolism. A surprisingly high abundance of sulfatases for the degradation of sulfated polysaccharides were also present in the PRT. The most dramatic adaptational feature of the PRT microbes appears to be heavy metal resistance, as reflected in the large numbers of transporters present for their removal. As a complement to the metagenome approach, single-cell genomic techniques were utilized to generate partial whole-genome sequence data from four uncultivated cells from members of the dominant phyla within the PRT, Alphaproteobacteria, Gammaproteobacteria, Bacteroidetes and Planctomycetes. The single-cell sequence data provided genomic context for many of the highly abundant functional attributes identified from the PRT metagenome, as well as recruiting heavily the PRT metagenomic sequence data compared to 172 available reference marine genomes. Through these multifaceted sequence approaches, new insights have been provided into the unique functional

  14. COMPOSITION AND FUNCTION OF THE MICROBIAL COMMUNITY RELATED WITH THE NITROGEN CYCLING ON THE POTATO RHIZOSPHERE

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    Nathalia Maria Vanesa Florez Zapata

    2013-09-01

    Full Text Available In the S. tuberosum group phureja crops, mineral fertilizer and organic amendments are applied to meet the plants’ nutritional demands, however the effect of such practices on the associated rizospheric microbial communities are still unknown. Nitrogen plays an important role in agricultural production, and a great diversity of microorganisms regulates its transformation in the soil, affecting its availability for the plant. The aim of this study was to assess the structure of microbal[trm1]  communities related with the N cycle of S. tuberosum group phureja  rizospheric soil samples, with contrasting physical-chemical properties and fertilization strategy.  Few significant differences between the community composition at the phylum level were found, only Planctomycetes phylum was different between samples of different soil type and fertilization strategy. However, the analysis of nitrogen-associated functional groups made by ribotyping characterization, grouped soils in terms of such variables in a similar way to the physical-chemical properties. Major differences between soil samples were typified by higher percentages of the ribotypes from nitrite oxidation, nitrogen fixation and denitrification on organic amendment soils. Our results suggest that, the dominant rhizosphere microbial composition is very similar between soils, possibly as a result of population’s selection mediated by the rhizosphere effect. However, agricultural management practices in addition to edaphic properties of sampled areas, appear to affect some functional groups associated with the nitrogen cycling, due to differences found on soil’s physical-chemical properties, like the concentration of ammonium that seems to have an effect regulating the distribution and activity of nitrogen related functional groups in the S. tuberosum rhizosphere.  

  15. A Phylogenetic Analysis of the Globins in Fungi

    Science.gov (United States)

    Hoogewijs, David; Dewilde, Sylvia; Vierstraete, Andy; Moens, Luc; Vinogradov, Serge N.

    2012-01-01

    Background All globins belong to one of three families: the F (flavohemoglobin) and S (sensor) families that exhibit the canonical 3/3 α-helical fold, and the T (truncated 3/3 fold) globins characterized by a shortened 2/2 α-helical fold. All eukaryote 3/3 hemoglobins are related to the bacterial single domain F globins. It is known that Fungi contain flavohemoglobins and single domain S globins. Our aims are to provide a census of fungal globins and to examine their relationships to bacterial globins. Results Examination of 165 genomes revealed that globins are present in >90% of Ascomycota and ∼60% of Basidiomycota genomes. The S globins occur in Blastocladiomycota and Chytridiomycota in addition to the phyla that have FHbs. Unexpectedly, group 1 T globins were found in one Blastocladiomycota and one Chytridiomycota genome. Phylogenetic analyses were carried out on the fungal globins, alone and aligned with representative bacterial globins. The Saccharomycetes and Sordariomycetes with two FHbs form two widely divergent clusters separated by the remaining fungal sequences. One of the Saccharomycete groups represents a new subfamily of FHbs, comprising a previously unknown N-terminal and a FHb missing the C-terminal moiety of its reductase domain. The two Saccharomycete groups also form two clusters in the presence of bacterial FHbs; the surrounding bacterial sequences are dominated by Proteobacteria and Bacilli (Firmicutes). The remaining fungal FHbs cluster with Proteobacteria and Actinobacteria. The Sgbs cluster separately from their bacterial counterparts, except for the intercalation of two Planctomycetes and a Proteobacterium between the Fungi incertae sedis and the Blastocladiomycota and Chytridiomycota. Conclusion Our results are compatible with a model of globin evolution put forward earlier, which proposed that eukaryote F, S and T globins originated via horizontal gene transfer of their bacterial counterparts to the eukaryote ancestor, resulting from

  16. A phylogenetic analysis of the globins in fungi.

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    David Hoogewijs

    Full Text Available BACKGROUND: All globins belong to one of three families: the F (flavohemoglobin and S (sensor families that exhibit the canonical 3/3 α-helical fold, and the T (truncated 3/3 fold globins characterized by a shortened 2/2 α-helical fold. All eukaryote 3/3 hemoglobins are related to the bacterial single domain F globins. It is known that Fungi contain flavohemoglobins and single domain S globins. Our aims are to provide a census of fungal globins and to examine their relationships to bacterial globins. RESULTS: Examination of 165 genomes revealed that globins are present in >90% of Ascomycota and ~60% of Basidiomycota genomes. The S globins occur in Blastocladiomycota and Chytridiomycota in addition to the phyla that have FHbs. Unexpectedly, group 1 T globins were found in one Blastocladiomycota and one Chytridiomycota genome. Phylogenetic analyses were carried out on the fungal globins, alone and aligned with representative bacterial globins. The Saccharomycetes and Sordariomycetes with two FHbs form two widely divergent clusters separated by the remaining fungal sequences. One of the Saccharomycete groups represents a new subfamily of FHbs, comprising a previously unknown N-terminal and a FHb missing the C-terminal moiety of its reductase domain. The two Saccharomycete groups also form two clusters in the presence of bacterial FHbs; the surrounding bacterial sequences are dominated by Proteobacteria and Bacilli (Firmicutes. The remaining fungal FHbs cluster with Proteobacteria and Actinobacteria. The Sgbs cluster separately from their bacterial counterparts, except for the intercalation of two Planctomycetes and a Proteobacterium between the Fungi incertae sedis and the Blastocladiomycota and Chytridiomycota. CONCLUSION: Our results are compatible with a model of globin evolution put forward earlier, which proposed that eukaryote F, S and T globins originated via horizontal gene transfer of their bacterial counterparts to the eukaryote

  17. Deterministic influences exceed dispersal effects on hydrologically-connected microbiomes: Deterministic assembly of hyporheic microbiomes

    Energy Technology Data Exchange (ETDEWEB)

    Graham, Emily B. [Biological Sciences Division, Pacific Northwest National Laboratory, Richland WA USA; Crump, Alex R. [Biological Sciences Division, Pacific Northwest National Laboratory, Richland WA USA; Resch, Charles T. [Geochemistry Department, Pacific Northwest National Laboratory, Richland WA USA; Fansler, Sarah [Biological Sciences Division, Pacific Northwest National Laboratory, Richland WA USA; Arntzen, Evan [Environmental Compliance and Emergency Preparation, Pacific Northwest National Laboratory, Richland WA USA; Kennedy, David W. [Biological Sciences Division, Pacific Northwest National Laboratory, Richland WA USA; Fredrickson, Jim K. [Biological Sciences Division, Pacific Northwest National Laboratory, Richland WA USA; Stegen, James C. [Biological Sciences Division, Pacific Northwest National Laboratory, Richland WA USA

    2017-03-28

    Subsurface zones of groundwater and surface water mixing (hyporheic zones) are regions of enhanced rates of biogeochemical cycling, yet ecological processes governing hyporheic microbiome composition and function through space and time remain unknown. We sampled attached and planktonic microbiomes in the Columbia River hyporheic zone across seasonal hydrologic change, and employed statistical null models to infer mechanisms generating temporal changes in microbiomes within three hydrologically-connected, physicochemically-distinct geographic zones (inland, nearshore, river). We reveal that microbiomes remain dissimilar through time across all zones and habitat types (attached vs. planktonic) and that deterministic assembly processes regulate microbiome composition in all data subsets. The consistent presence of heterotrophic taxa and members of the Planctomycetes-Verrucomicrobia-Chlamydiae (PVC) superphylum nonetheless suggests common selective pressures for physiologies represented in these groups. Further, co-occurrence networks were used to provide insight into taxa most affected by deterministic assembly processes. We identified network clusters to represent groups of organisms that correlated with seasonal and physicochemical change. Extended network analyses identified keystone taxa within each cluster that we propose are central in microbiome composition and function. Finally, the abundance of one network cluster of nearshore organisms exhibited a seasonal shift from heterotrophic to autotrophic metabolisms and correlated with microbial metabolism, possibly indicating an ecological role for these organisms as foundational species in driving biogeochemical reactions within the hyporheic zone. Taken together, our research demonstrates a predominant role for deterministic assembly across highly-connected environments and provides insight into niche dynamics associated with seasonal changes in hyporheic microbiome composition and metabolism.

  18. The abundance of functional genes, cbbL, nifH, amoA and apsA, and bacterial community structure of intertidal soil from Arabian Sea.

    Science.gov (United States)

    Keshri, Jitendra; Yousuf, Basit; Mishra, Avinash; Jha, Bhavanath

    2015-06-01

    The Gulf of Cambay is a trumpet-shaped inlet of the Arabian Sea, located along the west coast of India and confronts a high tidal range with strong water currents. The region belongs to a semi-arid zone and saline alkaline intertidal soils are considered biologically extreme. The selected four soil types (S1-S4) were affected by salinity, alkalinity and sodicity. Soil salinity ranged from 20 to 126 dS/m, soil pH 8.6-10.0 with high sodium adsorption ratio (SAR) and exchangeable sodium percentage (ESP). Abundance of the key functional genes like cbbL, nifH, amoA and apsA involved in biogeochemical cycling were targeted using qPCR, which varied from (2.36 ± 0.03) × 10(4) to (2.87 ± 0.26) × 10(8), (1.18 ± 0.28) × 10(6) to (1.01 ± 0.26) × 10(9), (1.41 ± 0.21) × 10(6) to (1.29 ± 0.05) × 10(8) and (8.47 ± 0.23) × 10(4) to (1.73 ± 0.01) × 10(6) per gram dry weight, respectively. The microbial community structure revealed that soils S1 and S3 were dominated by phylum Firmicutes whereas S4 and S2 showed an abundance of Proteobacterial clones. These soils also represented Bacteroidetes, Chloroflexi, Actinobacteria, Planctomycetes and Acidobacteria clones. Molecular phylogeny showed a significant variation in the bacterial community distribution among the intertidal soil types. A high number of novel taxonomic units were observed which makes the intertidal zone a unique reservoir of unidentified bacterial taxa that may be explored further.

  19. Domain Cell Theory supports the independent evolution of the Eukarya, Bacteria and Archaea and the Nuclear Compartment Commonality hypothesis.

    Science.gov (United States)

    Staley, James T

    2017-06-01

    In 2015, the Royal Society of London held a meeting to discuss the various hypotheses regarding the origin of the Eukarya. Although not all participants supported a hypothesis, the proposals that did fit into two broad categories: one group favoured 'Prokaryotes First' hypotheses and another addressed 'Eukaryotes First' hypotheses. Those who proposed Prokaryotes First hypotheses advocated either a fusion event between a bacterium and an archaeon that produced the first eukaryote or the direct evolution of the Eukarya from the Archaea. The Eukaryotes First proponents posit that the eukaryotes evolved initially and then, by reductive evolution, produced the Bacteria and Archaea. No mention was made of another previously published hypothesis termed the Nuclear Compartment Commonality (NuCom) hypothesis, which proposed the evolution of the Eukarya and Bacteria from nucleated ancestors (Staley 2013 Astrobiol Outreach1, 105 (doi:10.4172/2332-2519.1000105)). Evidence from two studies indicates that the nucleated Planctomycetes-Verrucomicrobia-Chlamydia superphylum members are the most ancient Bacteria known (Brochier & Philippe 2002 Nature417, 244 (doi:10.1038/417244a); Jun et al. 2010 Proc. Natl Acad. Sci. USA107, 133-138 (doi:10.1073/pnas.0913033107)). This review summarizes the evidence for the NuCom hypothesis and discusses how simple the NuCom hypothesis is in explaining eukaryote evolution relative to the other hypotheses. The philosophical importance of simplicity and its relationship to truth in hypotheses such as NuCom and Domain Cell Theory is presented. Domain Cell Theory is also proposed herein, which contends that each of the three cellular lineages of life, the Archaea, Bacteria and Eukarya domains, evolved independently, in support of the NuCom hypothesis. All other proposed hypotheses violate Domain Cell Theory because they posit the evolution of different cellular descendants from ancestral cellular types. © 2017 The Authors.

  20. Magnetotactic Bacteria from Extreme Environments

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    Christopher T. Lefèvre

    2013-03-01

    Full Text Available Magnetotactic bacteria (MTB represent a diverse collection of motile prokaryotes that biomineralize intracellular, membrane-bounded, tens-of-nanometer-sized crystals of a magnetic mineral called magnetosomes. Magnetosome minerals consist of either magnetite (Fe3O4 or greigite (Fe3S4 and cause cells to align along the Earth’s geomagnetic field lines as they swim, a trait called magnetotaxis. MTB are known to mainly inhabit the oxic–anoxic interface (OAI in water columns or sediments of aquatic habitats and it is currently thought that magnetosomes function as a means of making chemotaxis more efficient in locating and maintaining an optimal position for growth and survival at the OAI. Known cultured and uncultured MTB are phylogenetically associated with the Alpha-, Gamma- and Deltaproteobacteria classes of the phylum Proteobacteria, the Nitrospirae phylum and the candidate division OP3, part of the Planctomycetes-Verrucomicrobia-Chlamydiae (PVC bacterial superphylum. MTB are generally thought to be ubiquitous in aquatic environments as they are cosmopolitan in distribution and have been found in every continent although for years MTB were thought to be restricted to habitats with pH values near neutral and at ambient temperature. Recently, however, moderate thermophilic and alkaliphilic MTB have been described including: an uncultured, moderately thermophilic magnetotactic bacterium present in hot springs in northern Nevada with a probable upper growth limit of about 63 °C; and several strains of obligately alkaliphilic MTB isolated in pure culture from different aquatic habitats in California, including the hypersaline, extremely alkaline Mono Lake, with an optimal growth pH of >9.0.

  1. Soil pH and electrical conductivity are key edaphic factors shaping bacterial communities of greenhouse soils in Korea.

    Science.gov (United States)

    Kim, Jeong Myeong; Roh, An-Sung; Choi, Seung-Chul; Kim, Eun-Jeong; Choi, Moon-Tae; Ahn, Byung-Koo; Kim, Sun-Kuk; Lee, Young-Han; Joa, Jae-Ho; Kang, Seong-Soo; Lee, Shin Ae; Ahn, Jae-Hyung; Song, Jaekyeong; Weon, Hang-Yeon

    2016-12-01

    Soil microorganisms play an essential role in soil ecosystem processes such as organic matter decomposition, nutrient cycling, and plant nutrient availability. The land use for greenhouse cultivation has been increasing continuously, which involves an intensive input of agricultural materials to enhance productivity; however, relatively little is known about bacterial communities in greenhouse soils. To assess the effects of environmental factors on the soil bacterial diversity and community composition, a total of 187 greenhouse soil samples collected across Korea were subjected to bacterial 16S rRNA gene pyrosequencing analysis. A total of 11,865 operational taxonomic units at a 97% similarity cutoff level were detected from 847,560 sequences. Among nine soil factors evaluated; pH, electrical conductivity (EC), exchangeable cations (Ca(2+), Mg(2+), Na(+), and K(+)), available P2O5, organic matter, and NO3-N, soil pH was most strongly correlated with bacterial richness (polynomial regression, pH: R(2) = 0.1683, P pH: R(2) = 0.1765, P pH and EC (Mantel test, pH: r = 0.2672, P 1%), the relative abundances of Proteobacteria, Gemmatimonadetes, Acidobacteria, Bacteroidetes, Chloroflexi, and Planctomycetes were also more strongly correlated with pH and EC values, compared with other soil cation contents, such as Ca(2+), Mg(2+), Na(+), and K(+). Our results suggest that, despite the heterogeneity of various environmental variables, the bacterial communities of the intensively cultivated greenhouse soils were particularly influenced by soil pH and EC. These findings therefore shed light on the soil microbial ecology of greenhouse cultivation, which should be helpful for devising effective management strategies to enhance soil microbial diversity and improving crop productivity.

  2. Bacterial communities in the rhizosphere of Vitis vinifera L. cultivated under distinct agricultural practices in Argentina.

    Science.gov (United States)

    Vega-Avila, A D; Gumiere, T; Andrade, P A M; Lima-Perim, J E; Durrer, A; Baigori, M; Vazquez, F; Andreote, F D

    2015-02-01

    Plants interact with a myriad of microbial cells in the rhizosphere, an environment that is considered to be important for plant development. However, the differential structuring of rhizosphere microbial communities due to plant cultivation under differential agricultural practices remains to be described for most plant species. Here we describe the rhizosphere microbiome of grapevine cultivated under conventional and organic practices, using a combination of cultivation-independent approaches. The quantification of bacterial 16S rRNA and nifH genes, by quantitative PCR (qPCR), revealed similar amounts of these genes in the rhizosphere in both vineyards. PCR-DGGE was used to detect differences in the structure of bacterial communities, including both the complete whole communities and specific fractions, such as Alphaproteobacteria, Betaproteobacteria, Actinobacteria, and those harboring the nitrogen-fixing related gene nifH. When analyzed by a multivariate approach (redundancy analysis), the shifts observed in the bacterial communities were poorly explained by variations in the physical and chemical characteristics of the rhizosphere. These approaches were complemented by high-throughput sequencing (67,830 sequences) based on the V6 region of the 16S rRNA gene, identifying the major bacterial groups present in the rhizosphere of grapevines: Proteobacteria, Actinobacteria, Firmicutes, Bacteriodetes, Acidobacteria, Cloroflexi, Verrucomicrobia and Planctomycetes, which occur in distinct proportions in the rhizosphere from each vineyard. The differences might be related to the selection of plant metabolism upon distinct reservoirs of microbial cells found in each vineyard. The results fill a gap in the knowledge of the rhizosphere of grapevines and also show distinctions in these bacterial communities due to agricultural practices.

  3. The diversity and distribution of anammox bacteria in the marine aquaculture zones.

    Science.gov (United States)

    Li, Meng; Gu, Ji-Dong

    2016-10-01

    The accumulation of toxic inorganic nitrogen is one of the major water quality problems in intensive aquaculture systems, thus the N removal in aquaculture systems is an important issue for the sustainable development of aquaculture. To understand one of the major microbial N removal processes, anaerobic ammonium oxidation (anammox), phylogenetic diversity, and distribution of anammox bacteria in sediments of four different marine aquaculture zones in Hong Kong (HK) were investigated. The 16S rRNA genes analysis indicated that sequences detected from Cheung Sha Wan (CSW) and Sok Kwu Wan (SKW) were closely related to several clusters within the Scalindua genus of anammox bacteria, including a new habitat-specific group, while only several sequences related to Scalindua and Kuenenia were detected in Sham Wan (SW) and Yim Tin Tsai East (YTTE). Most of the sequences obtained in SW and YTTE with the same PCR primers showed a low similarity to the known anammox bacteria, forming several novel groups within the Planctomycetes. However, results from the hydrazine oxidoreductase (HZO) encoding gene showed that only sequences from SW were related to the genus of Kuenenia, and sequences from other three sites were closely related to the genus of Scalindua. The community analysis showed that CSW and SKW share similar anammox bacterial community structures while SW and YTTE contain a unique anammox bacterial community. Furthermore, correlations reflect that organic matter is positively correlated with Kuenenia-like anammox bacteria, while the redox potential is significantly correlated with Scalindua-like anammox bacteria in marine aquaculture zones. Our results extend the knowledge of anammox bacteria in marine aquaculture systems and highlight the importance of environmental factors in shaping the community structures of anammox bacteria.

  4. Microbial characterization of microbial ecosystems associated to evaporites domes of gypsum in Salar de Llamara in Atacama desert.

    Science.gov (United States)

    Rasuk, Maria Cecilia; Kurth, Daniel; Flores, Maria Regina; Contreras, Manuel; Novoa, Fernando; Poire, Daniel; Farias, Maria Eugenia

    2014-10-01

    The Central Andes in northern Chile contains a large number of closed basins whose central depression is occupied by saline lakes and salt crusts (salars). One of these basins is Salar de Llamara (850 m a.s.l.), where large domed structures of seemingly evaporitic origin forming domes can be found. In this work, we performed a detailed microbial characterization of these domes. Mineralogical studies revealed gypsum (CaSO(4)) as a major component. Microbial communities associated to these structures were analysed by 454 16S rDNA amplicon sequencing and compared between winter and summer seasons. Bacteroidetes Proteobacteria and Planctomycetes remained as the main phylogenetic groups, an increased diversity was found in winter. Comparison of the upper air-exposed part and the lower water-submerged part of the domes in both seasons showed little variation in the upper zone, showing a predominance of Chromatiales (Gammaproteobacteria), Rhodospirillales (Alphaproteobacteria), and Sphingobacteriales (Bacteroidetes). However, the submerged part showed marked differences between seasons, being dominated by Proteobacteria (Alpha and Gamma) and Verrucomicrobia in summer, but with more diverse phyla found in winter. Even though not abundant by sequence, Cyanobacteria were visually identified by scanning electron microscopy (SEM), which also revealed the presence of diatoms. Photosynthetic pigments were detected by high-performance liquid chromatography, being more diverse on the upper photosynthetic layer. Finally, the system was compared with other endoevaporite, mats microbialite and Stromatolites microbial ecosystems, showing higher similitude with evaporitic ecosystems from Atacama and Guerrero Negro. This environment is of special interest for extremophile studies because microbial life develops associated to minerals in the driest desert all over the world. Nevertheless, it is endangered by mining activity associated to copper and lithium extraction; thus, its

  5. Microbial community structure of relict niter-beds previously used for saltpeter production.

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    Takashi Narihiro

    Full Text Available From the 16th to the 18th centuries in Japan, saltpeter was produced using a biological niter-bed process and was formed under the floor of gassho-style houses in the historic villages of Shirakawa-go and Gokayama, which are classified as United Nations Educational, Scientific and Cultural Organization (UNESCO World Heritage Sites. The relict niter-beds are now conserved in the underfloor space of gassho-style houses, where they are isolated from destabilizing environmental factors and retain the ability to produce nitrate. However, little is known about the nitrifying microbes in such relict niter-bed ecosystems. In this study, the microbial community structures within nine relict niter-bed soils were investigated using 454 pyrotag analysis targeting the 16S rRNA gene and the bacterial and archaeal ammonia monooxygenase gene (amoA. The 16S rRNA gene pyrotag analysis showed that members of the phyla Proteobacteria, Actinobacteria, Bacteroidetes, Chloroflexi, Firmicutes, Gemmatimonadetes, and Planctomycetes were major microbial constituents, and principal coordinate analysis showed that the NO3-, Cl-, K+, and Na+ contents were potential determinants of the structures of entire microbial communities in relict niter-bed soils. The bacterial and archaeal amoA libraries indicated that members of the Nitrosospira-type ammonia-oxidizing bacteria (AOB and "Ca. Nitrososphaera"-type ammonia-oxidizing archaea (AOA, respectively, predominated in relict niter-bed soils. In addition, soil pH and organic carbon content were important factors for the ecological niche of AOB and AOA in relict niter-bed soil ecosystems.

  6. Microbial community structure of relict niter-beds previously used for saltpeter production.

    Science.gov (United States)

    Narihiro, Takashi; Tamaki, Hideyuki; Akiba, Aya; Takasaki, Kazuto; Nakano, Koichiro; Kamagata, Yoichi; Hanada, Satoshi; Maji, Taizo

    2014-01-01

    From the 16th to the 18th centuries in Japan, saltpeter was produced using a biological niter-bed process and was formed under the floor of gassho-style houses in the historic villages of Shirakawa-go and Gokayama, which are classified as United Nations Educational, Scientific and Cultural Organization (UNESCO) World Heritage Sites. The relict niter-beds are now conserved in the underfloor space of gassho-style houses, where they are isolated from destabilizing environmental factors and retain the ability to produce nitrate. However, little is known about the nitrifying microbes in such relict niter-bed ecosystems. In this study, the microbial community structures within nine relict niter-bed soils were investigated using 454 pyrotag analysis targeting the 16S rRNA gene and the bacterial and archaeal ammonia monooxygenase gene (amoA). The 16S rRNA gene pyrotag analysis showed that members of the phyla Proteobacteria, Actinobacteria, Bacteroidetes, Chloroflexi, Firmicutes, Gemmatimonadetes, and Planctomycetes were major microbial constituents, and principal coordinate analysis showed that the NO3-, Cl-, K+, and Na+ contents were potential determinants of the structures of entire microbial communities in relict niter-bed soils. The bacterial and archaeal amoA libraries indicated that members of the Nitrosospira-type ammonia-oxidizing bacteria (AOB) and "Ca. Nitrososphaera"-type ammonia-oxidizing archaea (AOA), respectively, predominated in relict niter-bed soils. In addition, soil pH and organic carbon content were important factors for the ecological niche of AOB and AOA in relict niter-bed soil ecosystems.

  7. Diversity of epiphytic bacteria of three species of Gracilaria and their bacteriostatic activities%三种江蓠共附生细菌多样性及抑菌活性分析

    Institute of Scientific and Technical Information of China (English)

    覃媚; 于清武; 竺利波; 李菲; 颜栋美; 余炼; 高程海

    2016-01-01

    Objective]The present study was conducted to explore the diversity of culturable epiphytic bacteria of three species of Gracilaria and bacteriostatic activities of their metabolits in sea area around Weizhoudao Island, Beibu Gulf, Guangxi, in order to provide reference for development of these epiphytic bacteria in the sea area and new biological fungicides. [Method]Dilution coating method was applied to observe colonial morphology and distribution of epiphytic bac-teria of three species of Gracilaria. Diversity of the epiphytic bacteria of Gracilaria was analyzed based on 16S rRNA se-quence and their bacteriostatic activities were screened by disc diffusion method. [Result]Twenty-eight strains were ex-tracted from Gracilaria verrucosa, Gracilaria textorii and Gracilaria glomerata in Beibu Gulf, Guangxi belonged to four subclasses, thirteen families and fifteen genuses(Bacillus sp.; Staphylococcus sp.; Vibrio sp.; Psychrobacter sp.; Al-teromonas sp.;Pseudoalteromonas sp.; Erythrobacter sp.; Paracoccus sp.; Kocuria sp.; Micrococcus sp.; Rhodopirellula sp.; Kytococcus sp.; Dermacoccus sp.; Maribacter sp.; Cobetia sp.). The metabolites of five strains showed obvious an-tagonistic effects against Colletrichum gloeosporiode M2 or C. gloeosporiodes Lz2. Metabolites of strains GXS0044, GXS0017 and GXS0035 showed sound inhibition effects towards C. gloeosporiodes Lz2(antibacterial circle diameters were 15.0, 14.5 and 15.5 mm, respectively). Metabolites of strains GXS0023 and GXS0031 showed obvious inhibition effects towards C. gloeosporiode M2(antibacterial circle diameters were 15.0 and 17.0 mm, respectively). [Conclusion]There are resource-ful epiphytic bacteria of Gracilaria and their metabolites activities are different. Therefore, searching for pathogens that are resistant to agricultural diseases from seaweeds will become a new direction in development of new pathogen fungicides that against agricultural diseases.%【目的】研究广西北部湾涠洲岛海域3种

  8. The involvement of bacterial quorum sensing in the spoilage of refrigerated Litopenaeus vannamei.

    Science.gov (United States)

    Zhu, Suqin; Wu, Haohao; Zeng, Mingyong; Liu, Zunying; Wang, Ying

    2015-01-02

    Quorum-sensing signals in refrigerated shrimp (Litopenaeus vannamei) undergoing spoilage were examined using bioreporter assays, thin-layer chromatography and gas chromatography-mass spectrometry, and the results revealed the presence of three types of autoinducers including acetylated homoserine lactones (AHLs) (i.e., N-hexanoyl-homoserine lactone, N-oxohexanoyl-homoserine lactone and N-octanoyl-homoserine lactone), autoinducer-2, and cyclic dipeptides (i.e., cyclo-(L-Pro-L-Leu), cyclo-(L-Leu-L-Leu) and cyclo-(L-Pro-L-Phe)). Autoinducer-2, rather than any AHL, was detected in extracts from pure cultures of the specific spoilage organisms (SSO), i.e., Shewanella putrefaciens (SS01) and Shewanella baltica (SA02). As for the cyclic peptides, only SA02 was determined to produce cyclo-(L-Pro-L-Leu). According to the transcription levels of LuxR (the master quorum-sensing regulator) in the SSO in response to exogenous autoinducers, the SSO could sense AHLs and cyclo-(L-Leu-L-Leu), rather than autoinducer-2, cyclo-(L-Leu-L-Leu) and cyclo-(L-Pro-L-Phe). In accordance with the results of LuxR expression, the production of biofilm matrixes and extracellular proteases in the SSO was regulated by exogenous AHLs and cyclo-(L-Pro-L-Leu), rather than 4,5-dihydroxy-2,3-pentanedione (the autoinducer-2 precursor), cyclo-(L-Leu-L-Leu) and cyclo-(L-Pro-L-Phe). Exogenous N-hexanoyl-homoserine lactone and cyclo-(L-Pro-L-Leu) increased the growth rates and population percentages of the SSO in shrimp samples under refrigerated storage, and interestingly, exogenous 4,5-dihydroxy-2,3-pentanedione also increased the population percentages of the SSO in vivo by inhibiting the growth of the competing bacteria. However, according to the levels of TVB-N and the volatile organic components in the shrimp samples, exogenous 4,5-dihydroxy-2,3-pentanedione did not accelerate the shrimp spoilage process as N-hexanoyl-homoserine lactone and cyclo-(L-Pro-L-Leu) did. In summary, our results suggest that

  9. Late Carboniferous remagnetisation of Palaeozoic rocks in the NE Rhenish Massif, Germany

    Science.gov (United States)

    Zwing, A.; Bachtadse, V.; Soffel, H. C.

    During stepwise thermal and alternating field demagnetisation experiments on Devonian and Lower Carboniferous carbonate and clastic rocks from the north-eastern part of the Rhenish Massif, Germany, three components of magnetisation (A, B, C) are identified. Component A is a recent viscous overprint that parallels the local present day geomagnetic field. Component B is mainly observed from 260 up to 550 °C during thermal demagnetisation and is carried by magnetite. In two localities, where red siltstones and red carbonate rocks were sampled, component B is stable up to 670 °C, indicating the presence of hematite. Three clusters of in situ B directions can be identified, which are controlled by the tectonic position of the sampling areas. These are from NW to SE: the Remscheid anticline (RA), the Lüdenscheid syncline (LS) and the Attendorn and Wittgenstein synclines (AS/WS). Standard and inclination-only fold tests, using parametric resampling, yield optimal statistical parameters at increasing amounts of untilting ranging from 0% in the South up to 57% in the North of the NE Rhenish Massif. Despite the variations in optimal untilting, the resulting site mean directions of component B do not differ significantly in inclination. These results are interpreted to reflect the acquisition of magnetisation during progressive northward migration of the deformation front in Late Carboniferous times. The resulting palaeolatitudes (RA: 1°S +2°-3°; LS: 2°S +3°-2°; AS/WS: 1°S +3°-4°) are in good agreement with the predicted position of the sampling area in the Late Carboniferous, as derived from a published Apparent Polar Wander Path for Baltica and Laurentia. The unblocking temperature spectra and the synfolding nature of B yield strong evidence that chemical processes, possibly driven by fluid migration during orogenesis, caused this remagnetisation. A third component C was observed in zones of tight folding with steeply dipping to overturned bedding planes and is

  10. The formation of Pangea

    Science.gov (United States)

    Stampfli, G. M.; Hochard, C.; Vérard, C.; Wilhem, C.; vonRaumer, J.

    2013-05-01

    The making of Pangea is the result of large-scale amalgamation of continents and micro-continents, which started at the end of the Neoproterozoic with the formation of Gondwana. As pieces were added to Gondwana on its South-American, Antarctica and Australia side, ribbon-like micro-continents were detached from its African and South-Chinese side: Cadomia in the late Neoproterozoic, Avalonia and Hunia in the Ordovician, Galatia in the Devonian and Cimmeria in the Permian. Cadomia was re-accreted to Gondwana, but the other ribbon-continents were accreted to Baltica, North-China, Laurussia or Laurasia. Finding the origin of these numerous terranes is a major geological challenge. Recently, a global plate tectonic model was developed together with a large geological/geodynamic database, at the Lausanne University, covering the last 600 Ma of the Earth's history. Special attention was given to the placing of Gondwana derived terranes in their original position, using all possible constraints. We propose here a solution for the Variscan terranes, another paper deals with the Altaids. The Galatian super-terrane was detached from Gondwana in the Devonian, during the opening of Paleotethys, and was quickly separated into four sub-terranes that started to by-pass each other. The leading terranes collided at the end of the Devonian with the Hanseatic terrane detached from Laurussia. In the Carboniferous, Gondwana started to impinge onto the amalgamated terranes, creating the Variscan chain and the Pangean super-continent. East of