WorldWideScience

Sample records for pseudaminobacter sp isolated

  1. Whole-genome shotgun sequence of the sulfur-oxidizing chemoautotroph Pseudaminobacter salicylatoxidans KCT001.

    Science.gov (United States)

    Alam, Masrure; Roy, Chayan; Pyne, Prosenjit; Agarwal, Atima; George, Ashish; Ghosh, Wriddhiman

    2012-09-01

    The facultatively sulfur-oxidizing chemolithoautotrophic alphaproteobacterium Pseudaminobacter salicylatoxidans KCT001 (MTCC 7265) belongs to the family Phyllobacteriaceae of the order Rhizobiales. Analysis of its genome offers valuable insight into the adaptive specializations and evolution of free-living soil bacteria that are phylogenetically closely related to symbiotic and invasive rhizobacteria.

  2. Listeria fleischmannii sp. nov., isolated from cheese.

    Science.gov (United States)

    Bertsch, David; Rau, Jörg; Eugster, Marcel R; Haug, Martina C; Lawson, Paul A; Lacroix, Christophe; Meile, Leo

    2013-02-01

    A study was performed on three isolates (LU2006-1(T), LU2006-2 and LU2006-3), which were sampled independently from cheese in western Switzerland in 2006, as well as a fourth isolate (A11-3426), which was detected in 2011, using a polyphasic approach. The isolates could all be assigned to the genus Listeria but not to any known species. Phenotypic and chemotaxonomic data were compatible with the genus Listeria and phylogenetic analysis based on 16S rRNA gene sequences confirmed that the closest relationships were with members of this genus. However, DNA-DNA hybridization demonstrated that the isolates did not belong to any currently described species. Cell-wall-binding domains of Listeria monocytogenes bacteriophage endolysins were able to attach to the isolates, confirming their tight relatedness to the genus Listeria. Although PCR targeting the central portion of the flagellin gene flaA was positive, motility was not observed. The four isolates could not be discriminated by Fourier transform infrared spectroscopy or pulsed-field gel electrophoresis. This suggests that they represent a single species, which seems to be adapted to the environment in a cheese-ripening cellar as it was re-isolated from the same type of Swiss cheese after more than 5 years. Conjugation experiments demonstrated that the isolates harbour a transferable resistance to clindamycin. The isolates did not exhibit haemolysis or show any indication of human pathogenicity or virulence. The four isolates are affiliated with the genus Listeria but can be differentiated from all described members of the genus Listeria and therefore they merit being classified as representatives of a novel species, for which we propose the name Listeria fleischmannii sp. nov.; the type strain is LU2006-1(T) ( = DSM 24998(T)  = LMG 26584(T)).

  3. Campylobacter iguaniorum sp. nov., isolated from reptiles.

    Science.gov (United States)

    Gilbert, Maarten J; Kik, Marja; Miller, William G; Duim, Birgitta; Wagenaar, Jaap A

    2015-03-01

    During sampling of reptiles for members of the class Epsilonproteobacteria, strains representing a member of the genus Campylobacter not belonging to any of the established taxa were isolated from lizards and chelonians. Initial amplified fragment length polymorphism, PCR and 16S rRNA sequence analysis showed that these strains were most closely related to Campylobacter fetus and Campylobacter hyointestinalis. A polyphasic study was undertaken to determine the taxonomic position of five strains. The strains were characterized by 16S rRNA and atpA sequence analysis, matrix-assisted laser desorption ionization time-of-flight (MALDI-TOF) mass spectrometry and conventional phenotypic testing. Whole-genome sequences were determined for strains 1485E(T) and 2463D, and the average nucleotide and amino acid identities were determined for these strains. The strains formed a robust phylogenetic clade, divergent from all other species of the genus Campylobacter. In contrast to most currently known members of the genus Campylobacter, the strains showed growth at ambient temperatures, which might be an adaptation to their reptilian hosts. The results of this study clearly show that these strains isolated from reptiles represent a novel species within the genus Campylobacter, for which the name Campylobacter iguaniorum sp. nov. is proposed. The type strain is 1485E(T) ( = LMG 28143(T) = CCUG 66346(T)). © 2015 IUMS.

  4. Brevibacterium marinum sp. nov., isolated from seawater.

    Science.gov (United States)

    Lee, Soon Dong

    2008-02-01

    A novel yellow-pigmented actinobacterium was isolated from seawater collected from Hwasun Beach in Jeju, Republic of Korea. A comparative analysis of the 16S rRNA gene sequence indicated that the organism, designated HFW-26(T), was closely related to members of the genus Brevibacterium. As found for other species of the genus Brevibacterium, strain HFW-26(T) possessed meso-diaminopimelic acid as the diagnostic cell-wall diamino acid, contained MK-8(H(2)) as the major menaquinone, contained polar lipids that included diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol and an unknown phospholipid, and had anteiso-C(15 : 0) and anteiso-C(17 : 0) as the predominant fatty acids. The G+C content of the DNA was 71.4 mol%. The phylogenetically closest relative was Brevibacterium picturae DSM 16132(T) (99.0 % 16S rRNA gene sequence similarity). However, DNA-DNA hybridization of strain HFW-26(T) showed 35.1-43.7 % relatedness with respect to B. picturae DSM 16132(T). The novel isolate could be clearly distinguished from B. picturae DSM 16132(T) on the basis of some cultural, physiological and biochemical characteristics. A battery of phenotypic and genetic data obtained in this study suggest that strain HFW-26(T) represents a novel species of the genus Brevibacterium, for which the name Brevibacterium marinum sp. nov. is proposed. The type strain is HFW-26(T) (=JBRI 2001(T)=KCTC 19221(T)=DSM 18964(T)).

  5. Streptomyces zagrosensis sp. nov., isolated from soil.

    Science.gov (United States)

    Mohammadipanah, Fatemeh; Hamedi, Javad; Spröer, Cathrin; Rohde, Manfred; Montero-Calasanz, María del Carmen; Klenk, Hans-Peter

    2014-10-01

    The taxonomic position of a novel actinomycete isolated from soil in Fars Province (Iran) was determined using a polyphasic approach. Phenotypic characterization and 16S rRNA gene sequence analysis of the isolate matched those described for members of the genus Streptomyces. On ISP2 medium, strain HM 1154(T) produced a dark cream, branched substrate mycelium and Retinaculiaperti aerial hyphae that in some images also appeared spiral and that developed into greyish-white spore chains with a smooth surface. The isolate showed optimal growth at 28 °C and pH 6-9 with 0-4% (w/v) NaCl. Whole-cell hydrolysates contained ll-diaminopimelic acid as diagnostic diamino acid, ribose and glucose. The main phospholipids were phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylinositol, three unknown phospholipids and an unknown aminophospholipid; MK-9(H4) and MK-9(H2) were the predominant menaquinones. The major cellular fatty acids were the branched saturated iso-C16:0 and anteiso-C15:0. Strain HM 1154(T) exhibited the highest 16S rRNA gene sequence similarities to Streptomyces coerulescens DSM 40146(T) (99.4%), Streptomyces varsoviensis DSM 40346(T) (99.3%), Streptomyces youssoufiensis DSM 41920(T) (99.2%), Streptomyces abikoensis DSM 40831(T) (99.2%), Streptomyces rimosus subsp. rimosus DSM 40260(T) (99.1%), Streptomyces luteireticuli DSM 40509(T) (99.1%), Streptomyces thioluteus DSM 40027(T) (99.1%), Streptomyces blastmyceticus DSM 40029(T) (99.0%) and Streptomyces hiroshimensis DSM 40037(T) (99.0%). DNA-DNA hybridization studies showed relatedness values of 11.0-35.8% with the closest related species. Based on these results, strain HM 1154(T) is considered to represent a novel species within the genus Streptomyces, for which the name Streptomyces zagrosensis sp. nov. is proposed. The type strain is HM 1154(T) ( = DSM 42018(T) = UTMC 1154(T) = CECT 8305(T)). © 2014 IUMS.

  6. Penicillium araracuarense sp. nov., Penicillium elleniae sp. nov., Penicillium penarojense sp. nov., Penicillium vanderhammenii sp. nov. and Penicillium wotroi sp. nov., isolated from leaf litter

    DEFF Research Database (Denmark)

    Houbraken, Jos; López-Quintero, Carlos A.; Frisvad, Jens Christian

    2011-01-01

    Several species of the genus Penicillium were isolated during a survey of the mycobiota of leaf litter and soil in Colombian Amazon forest. Five species, Penicillium penarojense sp. nov. (type strain CBS 113178T = IBT 23262T), Penicillium wotroi sp. nov. (type strain CBS 118171T = IBT 23253T...

  7. Actinomyces weissii sp. nov., isolated from dogs.

    Science.gov (United States)

    Hijazin, Muaz; Alber, Jörg; Lämmler, Christoph; Kämpfer, Peter; Glaeser, Stefanie P; Busse, Hans-Jürgen; Kassmannhuber, Johannes; Prenger-Berninghoff, Ellen; Förnges, Thorsten; Hassan, Abdulwahed Ahmed; Abdulmawjood, Amir; Zschöck, Michael

    2012-08-01

    Two Gram-positive, rod-shaped, non-spore-forming bacteria were isolated from the oral cavities of two dogs. On the basis of 16S rRNA gene sequence similarities both strains were shown to belong to the genus Actinomyces and were most closely related to Actinomyces bovis (97.3% and 97.5%, respectively). The polyamine profile of the two isolates and Actinomyces bovis DSM 43014(T) was composed of spermidine and spermine as the major components. Menaquinone MK-9 was the major compound in the quinone system of the two strains and Actinomyces bovis. The polar lipid profiles of strains 2298(T) and 4321 were almost identical, containing diphosphatidylglycerol as the major compound, and moderate to trace amounts of phosphatidylcholine, phosphatidylinositol, phosphatidylinositol-mannoside, phosphatidylglycerol and several unidentified lipids. A highly similar polar lipid profile was detected in Actinomyces bovis DSM 43014(T) supporting the affiliation of strains 2298(T) and 4321 to the genus Actinomyces. The typical major fatty acids were C(16:0), C(18:0) and C(18:1)ω9c. Fatty acids C(14:0) and C(18:2)ω6,9c were found in minor amounts. The results of physiological and biochemical analyses revealed clear differences between both strains and the most closely related species of the genus Actinomyces. Thus, strains 2298(T) and 4321 represent a novel species, for which the name Actinomyces weissii sp. nov., is proposed, with strain 2298(T) ( = CIP 110333(T) = LMG 26472(T) = CCM 7951(T) = CCUG 61299(T)) as the type strain.

  8. Dickeya aquatica sp. nov., isolated from waterways.

    Science.gov (United States)

    Parkinson, Neil; DeVos, Paul; Pirhonen, Minna; Elphinstone, John

    2014-07-01

    Pectinolytic Gram-negative bacteria were isolated from different waterways in the UK and Finland. Three strains (174/2(T), 181/2 and Dw054) had the same 16S rRNA gene sequences which shared 99% sequence similarity to species of the genus Dickeya, and a phylogeny of related genera confirmed attribution to this genus. Fatty acid profile analysis of all three strains found a high proportion of C16 : 1ω7c/C16 : 1ω7c and C16 : 0 fatty acids, and library profile searches found closest matches to Dickeya chrysanthemi. Production of a concatenated phylogeny using six loci, recA, gapA, atpD, gyrB, infB and rpoB, provided a high-resolution phylogeny which placed strains 174/2(T) and 181/2 as a distinct clade, separated from the other species of the genus Dickeya by a relatively long branch-length. DNA-DNA hybridization analysis with a limited number of reference species also supported the distinctiveness of strains 174/2(T) and 181/2 within the genus Dickeya. All three strains could be phenotypically distinguished from other species of the genus by fermentation of melibiose and raffinose but not D-arabinose or mannitol. The name Dickeya aquatica sp. nov. is proposed for the new taxon; the type strain is 174/2(T) ( = NCPPB 4580(T) = LMG 27354(T)). © 2014 British Crown Copyright 2014.

  9. Bacillus endolithicus sp. nov., isolated from pebbles.

    Science.gov (United States)

    Parag, B; Sasikala, Ch; Ramana, Ch V

    2015-12-01

    Strain JC267T was isolated from pebbles collected from Pingleshwar beach, Gujarat, India. Cells are Gram-stain-positive, facultatively anaerobic, non-motile rods forming sub-terminal endospores in swollen ellipsoidal to oval sporangia. Strain JC267T contains anteiso-C15 : 0, iso-C15 : 0, iso-C14 : 0, iso-C16 : 0, C16 : 0 and anteiso-C17 : 0 as major (>5 %) cellular fatty acids. Polar lipids include phosphatidylglycerol, phospholipids (PL1-3), glycolipids (GL1-2) and an unidentified lipid. Cell-wall amino acids are composed of diagnostic meso-diaminopimelic acid, dl-alanine and a small amount of d-glutamic acid. The genomic DNA G+C content of strain JC267T is 45.5 mol%. The 16S rRNA gene sequence of strain JC267T showed highest sequence similarities of Bacillus when subjected to EzTaxon-e blast analysis. The reassociation values based on DNA-DNA hybridization of strain JC267T with Bacillus halosaccharovorans IBRC-M 10095T and Bacillus niabensis JCM 16399T were 26 ± 1 % and 34 ± 3 %, respectively. Based on taxonomic data obtained using a polyphasic approach, strain JC267T represents a novel species of the genus Bacillus, for which the name Bacillus endolithicus sp. nov. is proposed. The type strain is JC267T ( = IBRC-M 10914T = KCTC 33579T).

  10. Antibiotic Resistance in Salmonella sp and Escherichia coli Isolated ...

    African Journals Online (AJOL)

    From the lactose and non lactose fermenters isolated, 16 Salmonella sp and 45 Escherichia coli isolates were identified by colonial morphology on agars, Gram staining, and biochemical tests. The highest mean total aerobic counts of the organism population isolated were obtained from farms C (6.52±0.17logcfu/ml) and D ...

  11. Lactobacillus kefiranofaciens sp. nov. Isolated from Kefir Grains

    National Research Council Canada - National Science Library

    FUJISAWA, TOMOHIKO; ADACHI, SUSUMU; TOBA, TAKAHIRO; ARIHARA, KEIZOH; MITSUOKA, TOMOTARI

    1988-01-01

    ... * Corresponding author. ABSTRACT Lactobacillus kefiranofaciens sp. nov. is described. Four strains of this species isolated from kefir grains are slime-forming, homofermentative, rod-shaped lactic acid bacteria...

  12. Chitinophaga eiseniae sp. nov., isolated from vermicompost.

    Science.gov (United States)

    Yasir, Muhammad; Chung, Eu Jin; Song, Geun Cheol; Bibi, Fehmida; Jeon, Che Ok; Chung, Young Ryun

    2011-10-01

    A Gram-negative, rod-shaped bacterial strain, YC6729(T), was isolated from vermicompost collected at Masan, Korea, and its taxonomic position was investigated by a polyphasic taxonomic approach. Strain YC6729(T) grew optimally at 30 °C and at pH 6.5-8.5. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain YC6729(T) belongs to the genus Chitinophaga in the family Chitinophagaceae. It was related most closely to Chitinophaga terrae KP01(T) (96.4 % 16S rRNA gene sequence similarity), Chitinophaga ginsengisegetis Gsoil 040(T) (96.1 %), Chitinophaga arvensicola IAM 12650(T) (96.1 %) and Chitinophaga pinensis DSM 2588(T) (93.3 %). Strain YC6729(T) contained MK-7 as the major menaquinone and homospermidine as the major polyamine. The fatty acids of strain YC6729(T) were iso-C(15 : 0), C(16 : 1)ω5c, iso-C(17 : 0) 3-OH, C(16 : 0), anteiso-C(18 : 0) and/or C(18 : 2)ω6,9c, iso-C(15 : 0) 2-OH and/or C(16 : 1)ω7c, C(14 : 0), iso-C(15 : 0) 3-OH, iso-C(15 : 1) G, C(18 : 1)ω5c, iso-C(15 : 1) I and/or C(13 : 0) 3-OH, C(13 : 0) 2-OH, C(16 : 0) 3-OH and unknown fatty acid ECL 13.565. The polar lipid profile contained phosphatidylethanolamine, unknown aminolipids and unknown lipids. The total DNA G+C content of strain YC6729(T) was 48.9 mol%. The phenotypic, chemotaxonomic and phylogenetic data showed that strain YC6729(T) represents a novel species of the genus Chitinophaga, for which the name Chitinophaga eiseniae sp. nov. is proposed. The type strain is YC6729(T) ( = KACC 13774(T)  = DSM 22224(T)).

  13. Emulsion properties of algae soluble protein isolate from Tetraselmis sp.

    NARCIS (Netherlands)

    Schwenzfeier, A.; Helbig, A.; Wierenga, P.A.; Gruppen, H.

    2013-01-01

    To study possible applications of microalgae proteins in foods, a colourless, protein-rich fraction was isolated from Tetraselmis sp. In the present study the emulsion properties of this algae soluble protein isolate (ASPI) were investigated. Droplet size and droplet aggregation of ASPI stabilized

  14. Screening Colletotrichum gloeosporioides f.sp Manihotis isolates for ...

    African Journals Online (AJOL)

    Six isolates of Colletotrichum gloeosporioides f.sp. manihotis obtained from anthracnose-infected cassava stems in six different cassava-growing locations of Akwa Ibom State were examined in the laboratory for morphological and physiological differences. The isolates were then screened in the greenhouse for virulence ...

  15. Methylobacterium persicinum sp. nov., Methylobacterium komagatae sp. nov., Methylobacterium brachiatum sp. nov., Methylobacterium tardum sp. nov. and Methylobacterium gregans sp. nov., isolated from freshwater.

    Science.gov (United States)

    Kato, Yuko; Asahara, Mika; Goto, Keiichi; Kasai, Hiroaki; Yokota, Akira

    2008-05-01

    Eight strains, 002-165T, 002-079T, B0021T, Hojyo2, RB603B, RB677T, 002-074T and RB678, isolated from the environment of food-processing factories in Japan, were characterized using a polyphasic approach. The isolates were Gram-negative, strictly aerobic, pink-pigmented, facultatively methylotrophic, non-spore-forming rods. The chemotaxonomic characteristics of these isolates included the presence of C18 : 1omega7c as the major cellular fatty acid and ubiquinone Q-10 as the predominant ubiquinone. The DNA G+C content was 67.1-71.1 mol%. Phylogenetic analyses of 16S rRNA and DNA gyrase B subunit (gyrB) nucleotide sequence confirmed that the eight strains belonged to the Methylobacterium clade. Moreover, a DNA-DNA hybridization analysis showed that the eight isolates represented five novel species. On the basis of their phenotypic and phylogenetic distinctiveness, the isolates represent five novel species within the genus Methylobacterium, for which the names Methylobacterium persicinum sp. nov. (type strain 002-165T =DSM 19562T =NBRC 103628T =NCIMB 14378T), Methylobacterium komagatae sp. nov. (type strain 002-079T =DSM 19563T =NBRC 103627T =NCIMB 14377T), Methylobacterium brachiatum sp. nov. (type strain B0021T =DSM 19569T =NBRC 103629T =NCIMB 14379T), Methylobacterium tardum sp. nov. (type strain RB677T =DSM 19566T =NBRC 103632T =NCIMB 14380T) and Methylobacterium gregans sp. nov. (type strain 002-074T =DSM 19564T =NBRC 103626T =NCIMB 14376T) are proposed.

  16. Isolation and identification of Staphylococcus sp. in powdered infant milk

    Science.gov (United States)

    Palilu, Prayolga Toban; Budiarso, Tri Yahya

    2017-05-01

    Staphylococcus sp. is one of the most dangerous bacteria that could cause food poisoning. It is a pathogenic bacterium which is able to produce enterotoxin in foods. Milk is an ideal growth medium for Staphylococcus sp., that may cause problem if it is to be consumed, especially by infant. It is the objective of this research to detect the presence of Staphylococcus sp. in powdered infant milk. As many as 14 samples obtained from market were used as samples for bacterial isolation. The isolation were done by employing enrichment step on BHI-broth, continued with Baird-Parker Agar which will produce a typical colony. It is then picked and grown on Mannitol Salt Agar, and gram staining, coagulase assay, and fermentation tests. The confirmation step was done by using API-Staph which gives the identification of Staphylococcus hemoliticus, Staphylococcus aureus and Staphylococcus epidermidis, with a percentage of identity ranging from 65.9-97.7%. Two isolates with the highest identification similarity values were then picked for molecular detection. A PCR primer pair targeting gene coding for enterotoxin A was used, and it gives positive result for the two isolates being tested. It is then concluded that the two isolates belong to Staphylococcus sp., and further research need to be done to correctly identify these isolates.

  17. Chitinophaga eiseniae sp. nov., isolated from vermicompost

    National Research Council Canada - National Science Library

    Yasir, Muhammad; Chung, Eu Jin; Song, Geun Cheol; Bibi, Fehmida; Jeon, Che Ok; Chung, Young Ryun

    2011-01-01

    A Gram-negative, rod-shaped bacterial strain, YC6729(T), was isolated from vermicompost collected at Masan, Korea, and its taxonomic position was investigated by a polyphasic taxonomic approach. Strain YC6729...

  18. Diversity of culturable actinobacteria isolated from marine sponge Haliclona sp.

    Science.gov (United States)

    Jiang, Shumei; Sun, Wei; Chen, Minjie; Dai, Shikun; Zhang, Long; Liu, Yonghong; Lee, Kyung Jin; Li, Xiang

    2007-11-01

    This study describes actinobacteria isolated from the marine sponge Haliclona sp. collected in shallow water of the South China Sea. A total of 54 actinobacteria were isolated using media selective for actinobacteria. Species diversity and natural product diversity of isolates from marine sponge Haliclona sp. were analysed. Twenty-four isolates were selected on the basis of their morphology on different media and assigned to the phylum Actinobacteria by a combination of 16S rRNA gene based restriction enzymes digestion and 16S rRNA gene sequence analysis. The 16S rRNA genes of 24 isolates were digested by restriction enzymes TaqI and MspI and assigned to different groups according to their restriction enzyme pattern. The phylogenetic analysis based on 16S rRNA gene sequencing showed that the isolates belonged to the genera Streptomyces, Nocardiopsis, Micromonospora and Verrucosispora; one other isolate was recovered that does not belong to known genera based on its unique 16S rRNA gene sequence. To our knowledge, this is the first report of a bacterium classified as Verrucosispora sp. that has been isolated from a marine sponge. The majority of the strains tested belong to the genus Streptomyces and three isolates may be new species. All of the 24 isolates were screened for genes encoding polyketide synthases (PKS) and nonribosomal peptide synthetases (NRPS). PKS and NRPS sequences were detected in more than half of the isolates and the different "PKS-I-PKS-II-NRPS" combinations in different isolates belonging to the same species are indicators of their potential natural product diversity and divergent genetic evolution.

  19. Molecular characterization of Trichoderma sp. isolated from ...

    African Journals Online (AJOL)

    The objectives of this research were to characterize isolates of Trichoderma collected from rhizospheres of chickpea, pigeonpea and lentil crop from different places of Uttar Pradesh, India, using microsatellite-primed polymerase chain reaction (MP-PCR) and ribosomal DNA (rDNA) sequence analysis and to combine these ...

  20. Campylobacter iguaniorum sp. nov., isolated from reptiles

    NARCIS (Netherlands)

    Gilbert, Maarten J; Kik, Marja; Miller, William G; Duim, Birgitta; Wagenaar, Jaap A

    2015-01-01

    During samplings of reptiles for Epsilonproteobacteria, Campylobacter strains not belonging to any of the established taxa were isolated from lizards and chelonians. Initial AFLP, PCR, and 16S rRNA sequence analysis showed that these strains were most closely related to Campylobacter fetus and

  1. Campylobacter iguaniorum sp. nov., isolated from reptiles

    NARCIS (Netherlands)

    Gilbert, Maarten J.; Kik, Marja; Miller, William G.; Duim, Birgitta; Wagenaar, Jaap A.

    2015-01-01

    During sampling of reptiles for members of the class Epsilonproteobacteria, strains representing a member of the genus Campylobacter not belonging to any of the established taxa were isolated from lizards and chelonians. Initial amplified fragment length polymorphism, PCR and 16S rRNA sequence

  2. Campylobacter iguaniorum sp. nov., isolated from reptiles

    Science.gov (United States)

    During samplings of reptiles for Epsilonproteobacteria, Campylobacter strains were isolated from lizards and chelonians not belonging to any of the established taxa. Initial AFLP, PCR, and 16S rRNA sequence analysis showed that these strains were most closely related to Campylobacter fetus and Campy...

  3. Isolation of C11 Cyclopentenones from Two Didemnid Species, Lissoclinum sp. and Diplosoma sp.

    Directory of Open Access Journals (Sweden)

    Katsuhiro Ueda

    2009-12-01

    Full Text Available A series of new C11 cyclopentenones 1-7 was isolated, together with four known metabolites 9/10, 12 and 13, from the extract of the didemnid ascidian Lissoclinum sp. The other didemnid ascidian Diplosoma sp. contained didemnenones 1, 2 and 5, and five known metabolites 8-12. The structures of 1-7 were elucidated by spectroscopic analyses. Cytotoxicity of the isolated compounds was evaluated against three human cancer cell lines (HCT116, A431 and A549.

  4. A marine bacterium, Oceanobacillus sp. Pinky, isolated from Algoa ...

    African Journals Online (AJOL)

    In this study, we report on the bioflocculant production potential of an Oceanobacillus sp. isolated from the marine sediments of Algoa Bay. The bacteria produced an extracellular bioflocculant optimally in the presence of sodium carbonate as source of carbon with flocculating activity of about 95.5%. Other optimal culture ...

  5. Tannin Acyl Hydrolase Production by Citrobacter sp. isolated from ...

    African Journals Online (AJOL)

    MICHAEL

    Environ. Manage. December, 2009. Vol. 13(4) 95 - 97. Full-text Available Online at www.bioline.org.br/ja. Tannin Acyl Hydrolase Production by Citrobacter sp. isolated from Tannin rich. Environment, using Tamarindus indica seed powder. 1WILSON PETER A.; 2ROJAN P. JOHN;1PRAVEEN KUMAR; 1*SABU THOMAS.

  6. Dermatophilus chelonae sp. nov., isolated from chelonids in Australia.

    Science.gov (United States)

    Masters, A M; Ellis, T M; Carson, J M; Sutherland, S S; Gregory, A R

    1995-01-01

    Three isolates of a previously undescribed Dermatophilus sp. obtained from chelonids (two strains obtained from turtles and one strain obtained from a tortoise) were compared with 30 Dermatophilus congolensis isolates obtained from Australian mammals. The microscopic appearance, the colony morphology, and most biochemical test results for the chelonid isolates were characteristic of the genus Dermatophilus. Our isolates differed from the mammalian D. congolensis isolates in a number of cultural characteristics, including faster growth at 27 degrees C than at 37 degrees C, formation of two hemolysis zones around colonies on blood agar at 37 degrees C in the presence of 10% CO2, poor motility, and production of a distinctive odor. The DNA restriction enzyme digestion and protein electrophoresis patterns of our strains were distinct. The electrophoretic mobilities of 11 enzymes differed from the mobilities observed with D. congolensis strains. A monoclonal antibody to a surface antigen of an ovine isolate did not react with zoospores or filaments of the chelonid isolates. Biochemical differences between our isolates and D. congolensis included the ability of the chelonid isolates to reduce nitrate to nitrate and the fact that the chelonid isolates exhibit collagenase activity in vitro. We propose that the chelonid isolates should be placed in a new species, Dermatophilus chelonae. Strain W16, which was isolated from a nose scab on a snapping turtle, is the type strain; a culture of this strain has been deposited in the American Type Culture Collection as strain ATCC 51576.

  7. Indirect Manganese Removal by Stenotrophomonas sp. and Lysinibacillus sp. Isolated from Brazilian Mine Water

    Science.gov (United States)

    Barboza, Natália Rocha; Amorim, Soraya Sander; Santos, Pricila Almeida; Reis, Flávia Donária; Cordeiro, Mônica Mendes; Guerra-Sá, Renata; Leão, Versiane Albis

    2015-01-01

    Manganese is a contaminant in the wastewaters produced by Brazilian mining operations, and the removal of the metal is notoriously difficult because of the high stability of the Mn(II) ion in aqueous solutions. To explore a biological approach for removing excessive amounts of aqueous Mn(II), we investigated the potential of Mn(II) oxidation by both consortium and bacterial isolates from a Brazilian manganese mine. A bacterial consortium was able to remove 99.7% of the Mn(II). A phylogenetic analysis of isolates demonstrated that the predominant microorganisms were members of Stenotrophomonas, Bacillus, and Lysinibacillus genera. Mn(II) removal rates between 58.5% and 70.9% were observed for Bacillus sp. and Stenotrophomonas sp. while the Lysinibacillus isolate 13P removes 82.7%. The catalytic oxidation of Mn(II) mediated by multicopper oxidase was not properly detected; however, in all of the experiments, a significant increase in the pH of the culture medium was detected. No aggregates inside the cells grown for a week were found by electronic microscopy. Nevertheless, an energy-dispersive X-ray spectroscopy of the isolates revealed the presence of manganese in Stenotrophomonas sp. and Lysinibacillus sp. grown in K medium. These results suggest that members of Stenotrophomonas and Lysinibacillus genera were able to remove Mn(II) by a nonenzymatic pathway. PMID:26697496

  8. Nocardia sungurluensis sp. nov., isolated from soil.

    Science.gov (United States)

    Camas, Mustafa; Veyisoglu, Aysel; Sahin, Nevzat

    2014-05-01

    A novel Gram-reaction-positive, rod-shaped, non-motile and mycolic acid-containing strain, CR3272T, isolated from soil, was studied using a polyphasic approach. The organism showed a combination of chemotaxonomic and morphological properties typical of the genus Nocardia. The cell wall contained meso-diaminopimelic acid (type IV) and whole-cell sugars were galactose, glucose, arabinose and xylose. The predominant menaquinone was MK-8(H4cyc). The major phospholipids were diphosphatidylglycerol and phosphatidylinositol mannosides. Major fatty acids were C16:0, C18:1cis9, C18:0 10-methyl (TBSA) and C16:1cis9. The novel strain formed distinct phyletic line in the Nocardia 16S rRNA gene tree and was closely associated with Nocardia goodfellowii A2012T (98.6% 16S rRNA gene sequence similarity), Nocardia alba YIM 30243T (98.5%) and Nocardia caishijiensis F829T (97.9%). However, DNA-DNA relatedness values and phenotypic data demonstrated that strain CR3272T was clearly distinguished from all closely related species of the genus Nocardia. It is concluded that the organism be classified as representing a novel species of the genus Nocardia, for which the name Nocardia sungurluensis is proposed. The type strain is CR3272T (=DSM 45714T=KCTC 29094T).

  9. Nocardia zapadnayensis sp. nov., isolated from soil.

    Science.gov (United States)

    Ozdemir-Kocak, Fadime; Saygin, Hayrettin; Saricaoglu, Salih; Cetin, Demet; Pötter, Gabriele; Spröer, Cathrin; Guven, Kiymet; Isik, Kamil; Klenk, Hans-Peter; Sahin, Nevzat

    2016-01-01

    A novel Gram-stain positive, rod-shaped, non-motile and mycolic acid containing strain, FMN18(T), isolated from soil, was characterised using a polyphasic approach. The organism showed a combination of morphological, biochemical, physiological and chemotaxonomic properties that were consistent with its classification in the genus Nocardia and it formed a phyletic line in the Nocardia 16S rRNA gene tree. The cell wall contained meso-diaminopimelic acid (type IV) and whole cell sugars were galactose, glucose, arabinose and ribose. The predominant menaquinone was MK-8(H4ω-cyclo). The major phospholipids are diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol and phosphatidylinositol mannosides. Major fatty acids are C16:0, 10-methyl C18:0 (TBSA), C18:1 cis9 and C16:1 trans9. These chemotaxonomic traits are in good agreement with those known for representatives of the genus Nocardia. The phylogenetic analysis based on the 16S rRNA gene sequence of strain FMN18(T) showed it to be closely related to Nocardia grenadensis GW5-5797(T) (99.2 %), Nocardia speluncae N2-11(T) (99.1 %), Nocardia jinanensis 04-5195(T) (99.0 %) and Nocardia rhamnosiphila 202GMO(T) (98.3 %). The phylogenetic analysis based on the gyrB gene sequence of strain FMN18(T) showed it to be closely related to N. rhamnosiphila 202GMO(T) (99.0 %), N. grenadensis DSM 45869(T) (96.6 %), N. jinanensis DSM 45048(T) (93.1 %), N. carnea IFM 0237(T) (89.7 %) and N. speluncae DSM 45078(T) (89.1 %). A combination of DNA-DNA hybridization results and phenotypic properties demonstrated that strain FMN18(T) was clearly distinguished from all closely related Nocardia species. It is proposed that the organism be classified as representing a novel species of the genus Nocardia, for which the name Nocardia zapadnayensis (type strain FMN18(T) = DSM 45872(T) = KCTC 29234(T)) is proposed.

  10. Wickerhamiella slavikovae sp. nov. and Wickerhamiella goesii sp. nov., two yeast species isolated from natural substrates.

    Science.gov (United States)

    Hagler, Allen N; Ribeiro, José R A; Pinotti, T; Brandão, Luciana R; Pimenta, Raphael S; Lins, U; Lee, Ching-Fu; Hsieh, Chin-Wen; Lachance, Marc-André; Rosa, Carlos A

    2013-08-01

    Two novel yeast species were isolated during three independent studies of yeasts associated with natural substrates in Brazil and Taiwan. Analysis of the sequences of the D1/D2 domains of the large subunit rRNA gene showed that these novel species belong to the Wickerhamiella clade. The first was isolated from freshwater and a leaf of sugar cane (Saccharum officinarum) in Brazil and from leaves of Wedelia biflora in Taiwan. Described here as Wickerhamiella slavikovae sp. nov., it differs by 56 nucleotide substitutions and 19 gaps in the D1/D2 region of the large subunit rRNA gene from Candida sorbophila, the least divergent species. The second species, named Wickerhamiella goesii sp. nov., was isolated from leaves and the rhizosphere of sugar cane collected in Rio de Janeiro, Brazil. The species differs by 54 nucleotide substitutions and nine gaps in the D1/D2 domains from Candida drosophilae, its least divergent relative. The type strains are Wickerhamiella slavikovae sp. nov. IMUFRJ 52096(T) (= CBS 12417(T) = DBVPG 8032(T)) and Wickerhamiella goesii sp. nov. IMUFRJ 52102(T) (= CBS 12419(T) = DBVPG 8034(T)).

  11. Lactobacillus apinorum sp. nov., Lactobacillus mellifer sp. nov., Lactobacillus mellis sp. nov., Lactobacillus melliventris sp. nov., Lactobacillus kimbladii sp. nov., Lactobacillus helsingborgensis sp. nov. and Lactobacillus kullabergensis sp. nov., isolated from the honey stomach of the honeybee Apis mellifera

    Science.gov (United States)

    Alsterfjord, Magnus; Nilson, Bo; Butler, Èile; Vásquez, Alejandra

    2014-01-01

    We previously discovered a symbiotic lactic acid bacterial (LAB) microbiota in the honey stomach of the honeybee Apis mellifera. The microbiota was composed of several phylotypes of Bifidobacterium and Lactobacillus. 16S rRNA gene sequence analyses and phenotypic and genetic characteristics revealed that the phylotypes isolated represent seven novel species. One grouped with Lactobacillus kunkeei and the others belong to the Lactobacillus buchneri and Lactobacillus delbrueckiisubgroups of Lactobacillus. We propose the names Lactobacillus apinorum sp. nov., Lactobacillus mellifer sp. nov., Lactobacillus mellis sp. nov., Lactobacillus melliventris sp. nov., Lactobacillus kimbladii sp. nov., Lactobacillus helsingborgensis sp. nov. and Lactobacillus kullabergensis sp. nov. for these novel species, with the respective type strains being Fhon13NT ( = DSM 26257T = CCUG 63287T), Bin4NT ( = DSM 26254T = CCUG 63291T), Hon2NT ( = DSM 26255T = CCUG 63289T), Hma8NT ( = DSM 26256T = CCUG 63629T), Hma2NT ( = DSM 26263T = CCUG 63633T), Bma5NT ( = DSM 26265T = CCUG 63301T) and Biut2NT ( = DSM 26262T = CCUG 63631T). PMID:24944337

  12. Lactobacillus apinorum sp. nov., Lactobacillus mellifer sp. nov., Lactobacillus mellis sp. nov., Lactobacillus melliventris sp. nov., Lactobacillus kimbladii sp. nov., Lactobacillus helsingborgensis sp. nov. and Lactobacillus kullabergensis sp. nov., isolated from the honey stomach of the honeybee Apis mellifera.

    Science.gov (United States)

    Olofsson, Tobias C; Alsterfjord, Magnus; Nilson, Bo; Butler, Eile; Vásquez, Alejandra

    2014-09-01

    We previously discovered a symbiotic lactic acid bacterial (LAB) microbiota in the honey stomach of the honeybee Apis mellifera. The microbiota was composed of several phylotypes of Bifidobacterium and Lactobacillus. 16S rRNA gene sequence analyses and phenotypic and genetic characteristics revealed that the phylotypes isolated represent seven novel species. One grouped with Lactobacillus kunkeei and the others belong to the Lactobacillus buchneri and Lactobacillus delbrueckii subgroups of Lactobacillus. We propose the names Lactobacillus apinorum sp. nov., Lactobacillus mellifer sp. nov., Lactobacillus mellis sp. nov., Lactobacillus melliventris sp. nov., Lactobacillus kimbladii sp. nov., Lactobacillus helsingborgensis sp. nov. and Lactobacillus kullabergensis sp. nov. for these novel species, with the respective type strains being Fhon13N(T) ( = DSM 26257(T) = CCUG 63287(T)), Bin4N(T) ( = DSM 26254(T) = CCUG 63291(T)), Hon2N(T) ( = DSM 26255(T) = CCUG 63289(T)), Hma8N(T) ( = DSM 26256(T) = CCUG 63629(T)), Hma2N(T) ( = DSM 26263(T) = CCUG 63633(T)), Bma5N(T) ( = DSM 26265(T) = CCUG 63301(T)) and Biut2N(T) ( = DSM 26262(T) = CCUG 63631(T)). © 2014 IUMS.

  13. Antimicrobial activity of endophytic fungus Fusarium sp. isolated from medicinal honeysuckle plant

    National Research Council Canada - National Science Library

    Zhang Huiru; Sun Xinchen; Xu Chunping

    2016-01-01

    .... An endophytic fungus was isolated from honeysuckle, an important Chinese medicinal plant. The phylogenetic and physiological characterization indicated that the isolated strain JY2corresponded to Fusarium sp...

  14. Nocardia aciditolerans sp. nov., isolated from a spruce forest soil.

    Science.gov (United States)

    Golinska, Patrycja; Wang, Dylan; Goodfellow, Michael

    2013-05-01

    Actinomycetes growing on acidified starch-casein agar seeded with suspensions of litter and mineral soil from a spruce forest were provisionally assigned to the genus Nocardia based upon colonial properties. Representative isolates were found to grow optimally at pH 5.5, have chemotaxonomic and morphological features consistent with their assignment to the genus Nocardia and formed two closely related subclades in the Nocardia 16S rRNA gene tree. DNA:DNA relatedness assays showed that representatives of the subclades belong to a single genomic species. The isolates were distantly associated with their nearest phylogenetic neighbour, the type strain of Nocardia kruczakiae, and were distinguished readily from the latter based on phenotypic properties. On the basis of these data it is proposed that the isolates merit recognition as a new species, Nocardia aciditolerans sp. nov. The type strain is isolate CSCA68(T) (=KACC 17155(T) = NCIMB 14829(T) = DSM 45801(T)).

  15. Direct transesterification of Oedogonium sp. oil be using immobilized isolated novel Bacillus sp. lipase.

    Science.gov (United States)

    Sivaramakrishnan, Ramachandran; Muthukumar, Karuppan

    2014-01-01

    This work emphasizes the potential of the isolated Bacillus sp. lipase for the production of fatty acid methyl ester by the direct transesterification of Oedogonium sp. of macroalgae. Dimethyl carbonate was used as the extraction solvent and also as the reactant. The effect of solvent/algae ratio, water addition, catalyst, temperature, stirring and time on the direct transesterification was studied. The highest fatty acid methyl ester yield obtained under optimum conditions (5 g Oedogonium sp. powder, 7.5 ml of solvent (dimethyl carbonate)/g of algae, 8% catalyst (%wt/wt of oil), distilled water 1% (wt/wt of algae), 36 h, 55°C and 180 rpm) was 82%. Final product was subjected to thermogravimetric analysis and (1)H NMR analysis. The results showed that the isolated enzyme has good potential in catalyzing the direct transesterification of algae, and the dimethyl carbonate did not affect the activity of the isolated lipase. Copyright © 2013 The Society for Biotechnology, Japan. Published by Elsevier B.V. All rights reserved.

  16. Enterobacter turicensis sp. nov. and Enterobacter helveticus sp. nov., isolated from fruit powder.

    Science.gov (United States)

    Stephan, Roger; Van Trappen, Stefanie; Cleenwerck, Ilse; Vancanneyt, Marc; De Vos, Paul; Lehner, Angelika

    2007-04-01

    Four Gram-negative, facultatively anaerobic, non-spore-forming isolates of coccoid rods were obtained from fruit powder and investigated in a polyphasic taxonomic study. Comparative 16S rRNA gene sequence analysis allocated the isolates to the family Enterobacteriaceae. Their phylogenetic position within the family Enterobacteriaceae was confirmed by rpoB sequence analysis and as the highest rpoB sequence similarities were obtained with Enterobacter radicincitans, Enterobacter cowanii and Enterobacter sakazakii, the isolates clearly belong to the genus Enterobacter. Biochemical data revealed that the isolates can be separated into two distinct groups that represent two novel species, as confirmed by DNA-DNA hybridizations. The two novel species can be differentiated from their nearest neighbours by the following characteristics: the utilization of sucrose, D-sorbitol, putrescine and mucate, the hydrolysis of aesculin and a negative result in the Voges-Proskauer reaction. It is therefore proposed that these novel isolates are classified as Enterobacter turicensis sp. nov. (type strain 508/05(T)=LMG 23730(T)=DSM 18397(T)) and Enterobacter helveticus sp. nov. (type strain 513/05(T)=LMG 23732(T)=DSM 18396(T)).

  17. Streptococcus loxodontisalivarius sp. nov. and Streptococcus saliviloxodontae sp. nov., isolated from oral cavities of elephants.

    Science.gov (United States)

    Saito, Masanori; Shinozaki-Kuwahara, Noriko; Hirasawa, Masatomo; Takada, Kazuko

    2014-09-01

    Four Gram-stain-positive, catalase-negative, coccoid-shaped organisms were isolated from elephant oral cavities. The isolates were tentatively identified as streptococcal species based on the results of biochemical tests. Comparative 16S rRNA gene sequencing studies confirmed the organisms to be members of the genus Streptococcus. Two isolates (NUM 6304(T) and NUM 6312) were related most closely to Streptococcus salivarius with 96.8 % and 93.1 % similarity based on the 16S rRNA gene and the RNA polymerase β subunit encoding gene (rpoB), respectively, and to Streptococcus vestibularis with 83.7 % similarity based on the 60 kDa heat-shock protein gene (groEL). The other two isolates (NUM 6306(T) and NUM 6318) were related most closely to S. vestibularis with 97.0 % and 82.9 % similarity based on the 16S rRNA and groEL genes, respectively, and to S. salivarius with 93.5 % similarity based on the rpoB gene. Based on phylogenetic and phenotypic evidence, these isolates are suggested to represent novel species of the genus Streptococcus, for which the names Streptococcus loxodontisalivarius sp. nov. (type strain NUM 6304(T) = JCM 19287(T) = DSM 27382(T)) and Streptococcus saliviloxodontae sp. nov. (type strain NUM 6306(T) = JCM 19288(T) = DSM 27513(T)) are proposed. © 2014 IUMS.

  18. Bifidobacterium commune sp. nov. isolated from the bumble bee gut.

    Science.gov (United States)

    Praet, Jessy; Meeus, Ivan; Cnockaert, Margo; Aerts, Maarten; Smagghe, Guy; Vandamme, Peter

    2015-05-01

    Bifidobacteria were isolated from the gut of Bombus lapidarius, Bombus terrestris and Bombus hypnorum bumble bees by direct isolation on modified trypticase phytone yeast extract agar. The MALDI-TOF MS profiles of four isolates (LMG 28292(T), R-53560, R-53124, LMG 28626) were found to be identical and did not cluster with the profiles of established Bifidobacterium species. Analysis of the 16S rRNA gene sequence of strain LMG 28292(T) revealed that LMG 28292(T) is most closely related to the Bifidobacterium bohemicum type strain (96.8%), which was also isolated from bumble bee gut specimens. The hsp60 gene of strain LMG 28292(T) shows 85.8% sequence similarity to that of the B. bohemicum type strain. The (GTG)5-PCR profiles and the hsp60 sequences of all four isolates were indistinguishable; however, three different phenotypes were observed among the four isolates by means of the API 50CHL microtest system. Based on the phylogenetic, genotypic and phenotypic data, we propose to classify the four isolates within the novel species Bifidobacterium commune sp. nov., with LMG 28292(T) (= DSM 28792(T)) as the type strain.

  19. Novel linear megaplasmid from Brevibacterium sp. isolated from extreme environment.

    Science.gov (United States)

    Dib, Julián Rafael; Wagenknecht, Martin; Hill, Russell T; Farías, María Eugenia; Meinhardt, Friedhelm

    2010-06-01

    Brevibacterium sp. Ap13, isolated from flamingo's feces in Laguna Aparejos, a high-altitude lake located at approximately 4,200 m in the northwest of Argentina was previously found to be resistant to multiple antibiotics, and was therefore screened for plasmids that may be implicated in antibiotic resistance. Brevibacterium sp. Ap13 was found to contain two plasmids of approximately 87 and 436 kb, designated pAP13 and pAP13c, respectively. Only pAP13 was stably maintained and was extensively characterized by pulsed-field gel electrophoresis to reveal that this plasmid is linear and likely has covalently linked terminal proteins associated with its 5' ends. This is the first report of a linear plasmid in the genus Brevibacterium and may provide a new tool for genetic manipulation of this commercially important genus. ((c) 2010 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim).

  20. Methylobacterium pseudosasicola sp. nov. and Methylobacterium phyllostachyos sp. nov., isolated from bamboo leaf surfaces.

    Science.gov (United States)

    Madhaiyan, Munusamy; Poonguzhali, Selvaraj

    2014-07-01

    Two strains of Gram-negative, methylotrophic bacteria, isolated because of their abilities to promote plant growth, were subjected to a polyphasic taxonomic study. The isolates were strictly aerobic, motile, pink-pigmented, facultatively methylotrophic, non-spore-forming rods. The chemotaxonomic characteristics of the isolates included the presence of C18 : 1ω7c as the major cellular fatty acid. The DNA G+C contents of strains BL36(T) and BL47(T) were 69.4 and 69.8 mol%, respectively. 16S rRNA gene sequence analysis of strains BL36(T) and BL47(T) placed them under the genus Methylobacterium, with the pairwise sequence similarity between them and the type strains of closely related species ranging from 97.2 to 99.0%. On the basis of their phenotypic and phylogenetic distinctiveness and the results of DNA-DNA hybridization analysis, the isolates represent two novel species within the genus Methylobacterium, for which the names Methylobacterium pseudosasicola sp. nov. (type strain BL36(T) = NBRC 105203(T) = ICMP 17621(T)) and Methylobacterium phyllostachyos sp. nov. (type strain BL47(T) = NBRC 105206(T) = ICMP 17619(T)) are proposed. © 2014 IUMS.

  1. Mineralization of a Malaysian crude oil by Pseudomonas sp. and Achromabacter sp. isolated from coastal waters

    Energy Technology Data Exchange (ETDEWEB)

    Ahmad, J.; Ahmad, M.F.

    1995-12-31

    Regarded as being a potentially effective tool to combat oil pollution, bioremediation involves mineralization, i.e., the conversion of complex hydrocarbons into harmless CO{sub 2} and water by action of microorganisms. Therefore, in achieving optimum effectiveness from the application of these products on crude oil in local environments, the capability of the bacteria to mineralize hydrocarbons was evaluated. The microbial laboratory testing of mineralization on local oil degraders involved, first, isolation of bacteria found at a port located on the west coast of Peninsular Malaysia. Subsequently, these bacteria were identified by means of Biomereux`s API 20E and 20 NE systems and later screened by their growth on a Malaysian crude oil. Selected strains of Pseudomonas sp. and Achromabacter sp. were then exposed individually to a similar crude oil in a mineralization unit and monitored for 16 days for release of CO{sub 2}. Pseudomonas paucimobilis was found to produce more CO{sub 2} than Achromobacter sp. When tested under similar conditions, mixed populations of these two taxa produced more CO{sub 2} than that produced by any individual strain. Effective bioremediation of local crude in Malaysian waters can therefore be achieved from biochemically developed Pseudomonas sp. strains.

  2. Burkholderia humisilvae sp. nov., Burkholderia solisilvae sp. nov. and Burkholderia rhizosphaerae sp. nov., isolated from forest soil and rhizosphere soil.

    Science.gov (United States)

    Lee, Jae-Chan; Whang, Kyung-Sook

    2015-09-01

    Strains Y-12(T) and Y-47(T) were isolated from mountain forest soil and strain WR43(T) was isolated from rhizosphere soil, at Daejeon, Korea. The three strains grew at 10-55 °C (optimal growth at 28-30 °C), at pH 3.0-8.0 (optimal growth at pH 6.0) and in the presence of 0-4.0% (w/v) NaCl, growing optimally in the absence of added NaCl. On the basis of 16S rRNA gene sequence analysis, the three strains were found to belong to the genus Burkholderia, showing the closest phylogenetic similarity to Burkholderia diazotrophica JPY461(T) (97.2-97.7%); the similarity between the three sequences ranged from 98.3 to 98.7%. Additionally, the three strains formed a distinct group in phylogenetic trees based on the housekeeping genes recA and gyrB. The predominant ubiquinone was Q-8, the major fatty acids were C16 : 0 and C17  : 0 cyclo and the DNA G+C content of the novel isolates was 61.6-64.4 mol%. DNA-DNA relatedness among the three strains and the type strains of the closest species of the genus Burkholderia was less than 50%. On the basis of 16S rRNA, recA and gyrB gene sequence similarities, chemotaxonomic and phenotypic data, the three strains represent three novel species within the genus Burkholderia, for which the names Burkholderia humisilvae sp. nov. (type strain Y-12(T)= KACC 17601(T) = NBRC 109933(T) = NCAIM B 02543(T)), Burkholderia solisilvae sp. nov. (type strain Y-47(T) = KACC 17602(T)= NBRC 109934(T) = NCAIM B 02539(T)) and Burkholderia rhizosphaerae sp. nov. (type strain WR43(T) = KACC 17603(T) = NBRC 109935(T) = NCAIM B 02541(T)) are proposed.

  3. Aeromonas simiae sp. nov., isolated from monkey faeces.

    Science.gov (United States)

    Harf-Monteil, Colette; Flèche, Anne Le; Riegel, Philippe; Prévost, Gilles; Bermond, Delphine; Grimont, Patrick A D; Monteil, Henri

    2004-03-01

    Two Aeromonas strains, IBS S6874(T) and IBS S6652, were isolated from the faeces of two healthy monkeys (Macaca fascicularis) from Mauritius that were kept in quarantine in the Centre for Primatology, Strasbourg, France. Phylogenetic analysis based on 16S rRNA gene sequences showed that the two isolates formed an unknown genetic lineage within the genus Aeromonas. The two isolates had nearly identical sequences (0.1 % nucleotide substitution) that were related closely to those of recognized Aeromonas species (1.7-3.5 % nucleotide substitution). DNA-DNA hybridization showed that strains IBS S6874(T) and IBS S6652 had high DNA-DNA similarity (89 %) to each other and a low level of DNA-DNA similarity to closely related taxa (18 % relatedness to Aeromonas trota and 16 % relatedness to Aeromonas schubertii). Phenotypically, the two monkey isolates differed from most previously described mesophilic Aeromonas species by their lack of haemolysis on sheep-blood agar and inability to produce indole, gas from glucose or acid from mannitol. They differed from the most closely related species, A. schubertii, by their ability to produce acid from D-cellobiose and D-sucrose and by their pyrazinamidase activity. The name Aeromonas simiae sp. nov. is proposed for these isolates; strain IBS S6874(T) (=CIP 107798(T)=CCUG 47378(T)) is the type strain.

  4. Micromonospora cremea sp. nov. and Micromonospora zamorensis sp. nov., isolated from the rhizosphere of Pisum sativum.

    Science.gov (United States)

    Carro, Lorena; Pukall, Rüdiger; Spröer, Cathrin; Kroppenstedt, Reiner M; Trujillo, Martha E

    2012-12-01

    Three actinobacterial strains, CR30(T), CR36 and CR38(T), were isolated from rhizosphere soil of Pisum sativum plants collected in Spain. The strains were filamentous, Gram-stain-positive and produced single spores. Phylogenetic, chemotaxonomic and morphological analyses confirmed that the three strains belonged to the genus Micromonospora. 16S rRNA gene sequence analysis of strains CR30(T) and CR36 showed a close relationship to Micromonospora coriariae NAR01(T) (99.3% similarity) while strain CR38(T) had a similarity of 99.0% with Micromonospora saelicesensis Lupac 09(T). In addition, gyrB gene phylogeny clearly differentiated the novel isolates from recognized Micromonospora species. DNA-DNA hybridization, BOX-PCR and ARDRA profiles confirmed that these strains represent novel genomic species. The cell-wall peptidoglycan of strains CR30(T) and CR38(T) contained meso-diaminopimelic acid. Both strains had MK-10(H(4)) as the main menaquinone and a phospholipid type II pattern. An array of physiological tests also differentiated the isolates from their closest neighbours. Considering all the data obtained, it is proposed that strains CR30(T) and CR36 represent a novel species under the name Micromonospora cremea sp. nov. (type strain CR30(T) = CECT 7891(T) = DSM 45599(T)), whereas CR38(T) represents a second novel species, for which the name Micromonospora zamorensis sp. nov. is proposed, with CR38(T) ( = CECT 7892(T) = DSM 45600(T)) as the type strain.

  5. Saturnispora bothae sp. nov., isolated from rotting wood.

    Science.gov (United States)

    Morais, Camila G; Lara, Carla A; Borelli, Beatriz M; Cadete, Raquel M; Moreira, Juliana D; Lachance, Marc-André; Rosa, Carlos A

    2016-10-01

    Two strains representing a novel species of the genus Saturnispora were isolated from rotting wood samples collected in an Atlantic Rainforest site in Brazil. Analyses of the sequences of the D1/D2 domains of the rRNA gene showed that this novel species belongs to a subclade in the Saturnispora clade formed by Saturnispora sanitii, Saturnispora sekii, Saturnispora silvae and Saturnisporasuwanaritii. The novel species differed in D1/D2 sequences by 60 or more nucleotide substitutions from these species. The strains produced asci with one to four hemispherical ascospores. A novel species named Saturnispora bothae sp. nov. is proposed to accommodate these isolates. The type strain is UFMG-CM-Y292T (=CBS 13484T). The MycoBank number is MB 817127.

  6. Actinomyces hominis sp. nov., isolated from a wound swab.

    Science.gov (United States)

    Funke, Guido; Englert, Ralf; Frodl, Reinhard; Bernard, Kathryn A; Stenger, Steffen

    2010-07-01

    A coryneform bacterium (strain 1094(T)) was isolated from a wound swab taken from an 89-year-old female patient. Chemotaxonomic investigations suggested that this bacterium was related to the genera Actinomyces, Arcanobacterium and Actinobaculum. Phylogenetic analysis of 16S rRNA gene sequences showed that strain 1094(T) was most closely related to Actinomyces europaeus CCUG 32789 A(T) (94.3 % similarity). Phenotypically, the isolate could be separated from its closest phylogenetic neighbours on the basis of being positive for catalase, CAMP reaction, acid phosphatase, N-acetyl-beta-glucosaminidase and raffinose fermentation. Based on the data presented, it is proposed that strain 1094(T) should be classified in a novel species, Actinomyces hominis sp. nov. The type strain is 1094(T) (=CCUG 57540(T) =DSM 22168(T)).

  7. Aeromonas aquariorum sp. nov., isolated from aquaria of ornamental fish.

    Science.gov (United States)

    Martínez-Murcia, A J; Saavedra, M J; Mota, V R; Maier, T; Stackebrandt, E; Cousin, S

    2008-05-01

    During a survey to determine the prevalence of Aeromonas strains in water and skin of imported ornamental fish, 48 strains presumptively identified as Aeromonas were isolated but they could not be identified as members of any previously described Aeromonas species. These strains were subjected to a polyphasic approach including phylogenetic analysis derived from gyrB, rpoD and 16S rRNA gene sequencing, DNA-DNA hybridization, MALDI-TOF MS analysis, genotyping by RAPD and extensive biochemical and antibiotic susceptibility tests in order to determine their taxonomic position. Based on the results of the phylogenetic analyses and DNA-DNA hybridization data, we describe a novel species of the genus Aeromonas, for which the name Aeromonas aquariorum sp. nov. is proposed, with strain MDC47T (=DSM 18362T =CECT 7289T) as the type strain. This is the first Aeromonas species description based on isolations from ornamental fish.

  8. Prevotella aurantiaca sp. nov., isolated from the human oral cavity.

    Science.gov (United States)

    Sakamoto, Mitsuo; Suzuki, Natsuko; Okamoto, Masaaki

    2010-03-01

    Two anaerobic, pigmented, non-spore-forming, Gram-stain-negative, rod-shaped strains isolated from the human oral cavity, OMA31(T) and OMA130, were characterized by determining their phenotypic and biochemical features, cellular fatty acid profiles and phylogenetic positions based on 16S rRNA gene sequence analysis. 16S rRNA gene sequence analysis showed that the new isolates belonged to a single species of the genus Prevotella. The two isolates showed 100 % 16S rRNA gene sequence similarity with each other and were most closely related to Prevotella intermedia ATCC 25611(T) with 96.4 % 16S rRNA gene sequence similarity; the next most closely related strains to the isolates were Prevotella pallens AHN 10371(T) (96.1 %) and Prevotella falsenii JCM 15124(T) (95.3 %). Phenotypic and biochemical characteristics of the isolates were the same as those of P. intermedia JCM 12248(T), P. falsenii JCM 15124(T) and Prevotella nigrescens JCM 12250(T). The isolates could be differentiated from P. pallens JCM 11140( T) by mannose fermentation and alpha-fucosidase activity. Conventional biochemical tests were unable to differentiate the new isolates from P. intermedia, P. falsenii and P. nigrescens. However, hsp60 gene sequence analysis suggested that strain OMA31(T) was not a representative of P. intermedia, P. pallens, P. falsenii or P. nigrescens. Based on these data, a novel species of the genus Prevotella, Prevotella aurantiaca sp. nov., is proposed, with OMA31(T) (=JCM 15754(T)=CCUG 57723(T)) as the type strain.

  9. Nocardia donostiensis sp. nov., isolated from human respiratory specimens.

    Science.gov (United States)

    Ercibengoa, Maria; Bell, Melissa; Marimón, José Maria; Humrighouse, Benjamin; Klenk, Hans-Peter; Pötter, Gabrielle; Pérez-Trallero, Emilio

    2016-05-01

    Three human clinical isolates (X1654, X1655, and W9944) were recovered from the sputum and bronchial washings of two patients with pulmonary infections. The 16S rRNA gene sequence analysis of the isolates showed that they share 100 % sequence similarity with each other and belong to the genus Nocardia. Close phylogenetic neighbours are Nocardia brevicatena ATCC 15333(T) (98.6 %) and Nocardia paucivorans ATCC BAA-278T (98.4 %). The in silico DNA-DNA relatedness between the isolates ranges from 96.8 to 100 % suggesting that they belong to the same genomic species. The DNA-DNA relatedness between X1654 and N. brevicatena ATCC 15333(T) is 13.3 ± 2.3 % and N. paucivorans ATCC BAA-278T is 18.95 ± 1.1 % suggesting that they do not belong to the same genomic species. Believed to represent a novel species, these isolates were further characterised to establish their taxonomic standing within the genus. Chemotaxonomic data for isolate X1654 are consistent with those described for the genus Nocardia: this isolate produced saturated and unsaturated fatty acids, tuberculostearic acid (15.9 %), the major menaquinone was MK-8 (H4cyclic), mycolic acid chain lengths ranged from 38 to 58 carbons, produced meso-diaminopimelic acid with arabinose, glucose, and galactose as the whole cell sugars. The polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol, and phosphatidylinositol mannosides. The DNA G+C content is 66.7 mol  %. Based on the combination of phenotypic, chemotaxonomic, and genotypic data for X1654, X1655, and W9944, we conclude that these isolates represent a novel species within the genus Nocardia for which we propose the name Nocardia donostiensis sp. nov. with X1654(T) (=DSM 46814(T) = CECT 8839(T)) as the type strain.

  10. Mycoplasma mucosicanis sp. nov., isolated from the mucosa of dogs.

    Science.gov (United States)

    Spergser, Joachim; Langer, Stefan; Muck, Simone; Macher, Kathrin; Szostak, Michael; Rosengarten, Renate; Busse, Hans-Jürgen

    2011-04-01

    Fourteen Mycoplasma strains were isolated from the oral cavity and genital tract of asymptomatic dogs. Isolates had been preliminarily identified by conventional serological testing as Mycoplasma bovigenitalium, but in 16S-23S rRNA intergenic spacer PCR-RFLP assays the isolates exhibited an RFLP pattern distinct from M. bovigenitalium PG11(T). Analysis of the 16S rRNA gene placed a representative of the isolates (strain 1642(T)) in the M. bovigenitalium subcluster of the Mycoplasma bovis cluster of mycoplasmas, with the highest sequence similarities to Mycoplasma californicum ST-6(T) (96.4 %), M. bovigenitalium PG11(T) (96.3 %) and Mycoplasma phocirhinis 852(T) (96.2 %). 16S rRNA gene sequence similarities almost equidistant from three recognized species and results obtained by sequence analysis of the 16S-23S rRNA intergenic spacer region, polar lipid profiles and serological reactions indicated that this organism represents a novel species of the genus Mycoplasma for which the name Mycoplasma mucosicanis sp. nov. is proposed, with strain 1642(T) ( = ATCC BAA-1895(T)  = DSM 22457(T)) as the type strain.

  11. Micromonospora phytophila sp. nov. and Micromonospora luteiviridis sp. nov., isolated as natural inhabitants of plant nodules.

    Science.gov (United States)

    Carro, Lorena; Veyisoglu, Aysel; Riesco, Raúl; Spröer, Cathrin; Klenk, Hans-Peter; Sahin, Nevzat; Trujillo, Martha E

    2017-11-17

    Two actinobacterial isolates, strains SG15T and SGB14T, were recovered through a microbial diversity study of nitrogen fixing nodules from Pisum sativum plants collected in Salamanca (Spain). The taxonomic status of these isolates was determined using a polyphasic approach and both presented chemotaxonomic and morphological properties consistent with their classification in the genus Micromonospora. For strains SG15T and SGB14T, the highest 16S rRNA gene sequence similarities were observed with Micromonospora coxensis JCM 13248T (99.2 %) and Micromonospora purpureochromogenes DSM 43821T (99.4 %), respectively. However, strains SG15T and SGB14T were readily distinguished from their phylogenetic neighbours both genetically and phenotypically indicating that they represent two new Micromonospora species. The following names are proposed for these species: Micromonosporaphytophila sp. nov. type strain SG15T (=CECT 9369T; =DSM 105363T), and Micromonosporaluteiviridis sp. nov. type strain SGB14T (=CECT 9370T; =DSM 105362T).

  12. Neisseria wadsworthii sp. nov. and Neisseria shayeganii sp. nov., isolated from clinical specimens.

    Science.gov (United States)

    Wolfgang, William J; Carpenter, Andrea N; Cole, Jocelyn A; Gronow, Sabine; Habura, Andrea; Jose, Sherly; Nazarian, Elizabeth J; Kohlerschmidt, Donna J; Limberger, Ronald; Schoonmaker-Bopp, Dianna; Spröer, Cathrin; Musser, Kimberlee A

    2011-01-01

    An analysis of 16S rRNA gene sequences from archived clinical reference specimens has identified two novel Neisseria species. For each species, two strains from independent sources were identified. Amongst species with validly published names, the closest species to the newly identified organisms were Neisseria canis, N. dentiae, N. zoodegmatis, N. animaloris and N. weaveri. DNA-DNA hybridization studies demonstrated that the newly identified isolates represent species that are distinct from these nearest neighbours. Analysis of partial 23S rRNA gene sequences for the newly identified strains and their nearest neighbours provided additional support for the species designation. Bayesian analysis of 16S rRNA gene sequences suggested that the newly identified isolates belong to distinct but related species of the genus Neisseria, and are members of a clade that includes N. dentiae, N. bacilliformis and N. canis. The predominant cellular fatty acids [16 : 0, summed feature 3 (16 : 1ω7c and/or iso-15 : 0 2-OH) and 18 : 1ω7c], as well as biochemical and morphological analyses further support the designation of Neisseria wadsworthii sp. nov. (type strain 9715(T) =DSM 22247(T) =CIP 109934(T)) and Neisseria shayeganii sp. nov. (type strain 871(T) =DSM 22246(T) =CIP 109933(T)).

  13. Nocardia goodfellowii sp. nov. and Nocardia thraciensis sp. nov., isolated from soil.

    Science.gov (United States)

    Sazak, Anil; Sahin, Nevzat; Camas, Mustafa

    2012-06-01

    The taxonomic position of two soil actinomycetes, strains A2012(T) and A2019(T), isolated from Turkish soils, was determined using a polyphasic approach. Comparative 16S rRNA gene sequence analysis showed that the strains belonged to the family Nocardiaceae. Strains A2012(T) and A2019(T) were most closely related to Nocardia caishijiensis DSM 44831(T) (98.9 %) and Nocardia mexicana CIP 108295(T) (98.6 %), respectively; similarity to other type strains of the genus Nocardia ranged from 96.9 to 97.9 %. However, DNA-DNA relatedness and phenotypic data demonstrated that strains A2012(T) and A2019(T) could be clearly distinguished from members of the most closely related Nocardia species. It is evident from the genotypic and phenotypic data that the two isolates represent two novel species of the genus Nocardia. It is proposed, therefore, that strains A2012(T) and A2019(T) be classified in the genus Nocardia as representatives of Nocardia goodfellowii sp. nov. (type strain A2012(T) = DSM 45516(T) = NRRL B-24833(T) = KCTC 19986(T)) and Nocardia thraciensis sp. nov. (type strain A2019(T) = DSM 45517(T) = NRRL B-24834(T) = KCTC 19985(T)), respectively.

  14. Methylobacterium iners sp. nov. and Methylobacterium aerolatum sp. nov., isolated from air samples in Korea.

    Science.gov (United States)

    Weon, Hang-Yeon; Kim, Byung-Yong; Joa, Jae-Ho; Son, Jung-A; Song, Myung-Hee; Kwon, Soon-Wo; Go, Seung-Joo; Yoon, Sang-Hong

    2008-01-01

    Two bacterial strains isolated from air samples, 5317S-33(T) and 5413S-11(T), were characterized by determining their phenotypic characteristics, cellular fatty acid profiles and phylogenetic positions based on 16S rRNA gene sequence analysis. 16S rRNA gene sequence analysis showed that these isolates belonged to the genus Methylobacterium. Strain 5317S-33(T) was most closely related to Methylobacterium adhaesivum AR27(T) (97.9% sequence similarity). Strain 5413S-11(T) was most closely related to Methylobacterium fujisawaense DSM 5686(T) (97.3% sequence similarity), Methylobacterium oryzae CBMB20(T) (97.1% similarity) and Methylobacterium radiotolerans JCM 2831(T) (97.0% similarity). Cells of both strains were strictly aerobic, Gram-negative, motile and rod-shaped. The major fatty acid was C(18:1)omega7c. The G+C contents of the genomic DNA were 68.0 mol% for strain 5317S-33(T) and 73.2 mol% for strain 5413S-11(T). According to DNA-DNA hybridization data, strain 5317S-33(T) showed a level of DNA-DNA relatedness of 33 % with M. adhaesivum DSM 17169(T), and strain 5413S-11(T) showed low levels of DNA-DNA relatedness (Methylobacterium, for which the names Methylobacterium iners sp. nov. (type strain 5317S-33(T) =KACC 11765(T) =DSM 19015(T)) and Methylobacterium aerolatum sp. nov. (type strain 5413S-11(T) =KACC 11766(T) =DSM 19013(T)) are proposed.

  15. Bacillus terrae sp. nov. isolated from Cistus ladanifer rhizosphere soil.

    Science.gov (United States)

    Díez-Méndez, Alexandra; Rivas, Raúl; Mateos, Pedro F; Martínez-Molina, Eustoquio; Santín, Primitivo Julio; Sánchez-Rodríguez, Juan Antonio; Velázquez, Encarna

    2017-05-01

    A bacterial strain designated RA9T was isolated from a root of Cistus ladanifer in Spain. Phylogenetic analyses based on 16S rRNA gene sequences placed the isolate into the genus Bacillus with its closest relatives being Bacillus fortis R-6514T and Bacillus fordii R-7190T with 98.2 % similarity in both cases. DNA-DNA hybridization studies showed mean relatedness values of 29 and 30 %, respectively, between strain RA9T and the type strains of B. fortis and B. fordii. Cells of the isolate were Gram-stain-positive, motile, sporulating rods. Catalase and oxidase were positive. Gelatin, starch and casein were not hydrolysed. Menaquinone MK-7 was the only menaquinone detected and iso-C15 : 0 and anteiso-C15 : 0 were the major fatty acids. The polar lipid profile consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, one unidentified aminophospholipid, one unidentified phospholipid, one unidentifed glycolipid and one unidentified lipid. meso-Diaminopimelic acid was detected in the peptidoglycan. The DNA G+C content was 43.1 mol%. Phylogenetic, chemotaxonomic and phenotypic analyses showed that strain RA9T should be considered as representing a novel species of the genus Bacillus, for which the name Bacillus terrae sp. nov. is proposed. The type strain is RA9T (=LMG 29736T=CECT 9170T).

  16. Gracilibacillus kimchii sp. nov., a halophilic bacterium isolated from kimchi.

    Science.gov (United States)

    Oh, Young Joon; Lee, Hae-Won; Lim, Seul Ki; Kwon, Min-Sung; Lee, Jieun; Jang, Ja-Young; Park, Hae Woong; Nam, Young-Do; Seo, Myung-Ji; Choi, Hak-Jong

    2016-09-01

    A novel halophilic bacterium, strain K7(T), was isolated from kimchi, a traditional Korean fermented food. The strain is Gram-positive, motile, and produces terminal endospores. The isolate is facultative aerobic and grows at salinities of 0.0-25.0% (w/v) NaCl (optimum 10-15% NaCl), pH 5.5-8.5 (optimum pH 7.0-7.5), and 15-42°C (optimum 37°C). The predominant isoprenoid quinone in the strain is menaquinone-7 and the peptidoglycan of the strain is meso-diaminopimelic acid. The major fatty acids of the strain are anteisio-C15:0, iso-C15:0, and, C16:0 (other components were < 10.0%), while the major polar lipids are diphosphatidylglycerol, phosphatidylglycerol, phosphatidylcholine, and three unidentified lipids. A phylogenetic analysis of 16S rRNA gene sequence similarity showed that the isolated strain was a cluster of the genus Gracilibacillus. High levels of gene sequence similarity were observed between strain K7(T) and Gracilibacillus orientalis XH-63(T) (96.5%), and between the present strain and Gracilibacillus xinjiangensis (96.5%). The DNA G+C content of this strain is 37.7 mol%. Based on these findings, strain K7(T) is proposed as a novel species: Gracilibacillus kimchii sp. nov. The type strain is K7(T) (KACC 18669(T); JCM 31344(T)).

  17. Bacillus cellulasensis sp. nov., isolated from marine sediment.

    Science.gov (United States)

    Mawlankar, Rahul; Thorat, Meghana N; Krishnamurthi, Srinivasan; Dastager, Syed G

    2016-01-01

    A novel bacterial strain NIO-1130(T) was isolated from sediment sample taken from Chorao Island, Goa Province, India, and subjected to a taxonomic investigation. The strain was Gram-positive, aerobic, and motile. Phylogenetic analysis based on 16S rRNA gene sequences placed the isolate within the genus Bacillus and strain NIO-1130(T) showed highest sequence similarity with Bacillus halosaccharovorans DSM 25387(T) (98.4%) and Bacillus niabensis CIP 109816(T) (98.1%), whereas other Bacillus species showed bacillus group. The major menaquinone was MK-7 and the predominant cellular fatty acids were iso-C15:0, anteiso-C15:0, iso-C17:0, and anteiso-C17:0. The strain showed a DNA G+C content of 39.9 mol%. DNA-DNA hybridization studies revealed that strain NIO-1130(T) exhibits 70% similarity with Bacillus halosaccharovorans DSM 25387(T) and Bacillus niabensis CIP 109816(T). On the basis of physiological, biochemical, chemotaxonomic and phylogenetic analyses, we consider the isolate to represent a novel species of the genus Bacillus, for which the name Bacillus cellulasensis sp. nov., is proposed. The type strain is NIO-1130(T) (=NCIM 5461(T)=CCTCC AB 2011126(T)).

  18. Paenibacillus periandrae sp. nov., isolated from nodules of Periandra mediterranea.

    Science.gov (United States)

    Menéndez, Esther; Ramírez-Bahena, Martha-Helena; Carro, Lorena; Fernández-Pascual, Mercedes; Peter Klenk, Hans; Velázquez, Encarna; Mateos, Pedro F; Peix, Alvaro; Rita Scotti, Maria

    2016-04-01

    A bacterial strain designated PM10T was isolated from root nodules of Periandra mediterranea in Brazil. Phylogenetic analyses based on 16S rRNA gene sequences placed the isolate in the genus Paenibacillus with its closest relatives being Paenibacillus vulneris CCUG 53270T and Paenibacillus yunnanensis YN2T with 95.6 and 95.9% 16S rRNA gene sequence similarity, respectively. The isolate was a Gram-stain-variable, motile, sporulating rod that was catalase-negative and oxidase-positive. Caseinase was positive, amylase was weakly positive and gelatinase was negative. Growth was supported by many carbohydrates and organic acids as carbon sources. MK-7 was the only menaquinone detected and anteiso-C15 : 0 was the major fatty acid. Major polar lipids were diphosphatidylglycerol, phosphatidylmonomethylethanolamine, phosphatidylethanolamine, phosphatidylglycerol and two unidentified lipids. meso-Diaminopimelic acid was detected in the peptidoglycan. The DNA G+C content was 52.9 mol%. Phylogenetic, chemotaxonomic and phenotypic analyses showed that strain PM10T should be considered representative of a novel species of the genus Paenibacillus, for which the name Paenibacillus periandrae sp. nov. is proposed. The type strain is PM10T (=LMG 28691T=CECT 8827T).

  19. Micrococcus lactis sp. nov., isolated from dairy industry waste.

    Science.gov (United States)

    Chittpurna; Singh, Pradip K; Verma, Dipti; Pinnaka, Anil Kumar; Mayilraj, Shanmugam; Korpole, Suresh

    2011-12-01

    A Gram-positive, yellow-pigmented, actinobacterial strain, DW152(T), was isolated from a dairy industry effluent treatment plant. 16S rRNA gene sequence analysis indicated that strain DW152(T) exhibited low similarity with many species with validly published names belonging to the genera Micrococcus and Arthrobacter. However, phenotypic properties including chemotaxonomic markers affiliated strain DW152(T) to the genus Micrococcus. Strain DW152(T) had ai-C(15:0) and i-C(15:0) as major cellular fatty acids, and MK-8(H(2)) as the major menaquinone. The cell-wall peptidoglycan of strain DW152(T) had l-lysine as the diagnostic amino acid and the type was A4α. The DNA G+C content of strain DW152(T) was 68.0 mol%. In 16S rRNA gene sequence analysis, strain DW152(T) exhibited significant similarity with Micrococcus terreus NBRC 104258(T), but the mean value of DNA-DNA relatedness between these strains was only 42.3%. Moreover, strain DW152(T) differed in biochemical and chemotaxonomic characteristics from M. terreus and other species of the genus Micrococcus. Based on the above differences, we conclude that strain DW152(T) should be treated as a novel species of the genus Micrococcus, for which the name Micrococcus lactis sp. nov. is proposed. The type strain of Micrococcus lactis sp. nov. is DW152(T) (=MTCC10523(T) =DSM 23694(T)).

  20. Bifidobacterium aquikefiri sp. nov., isolated from water kefir.

    Science.gov (United States)

    Laureys, David; Cnockaert, Margo; De Vuyst, Luc; Vandamme, Peter

    2016-01-05

    A novel Bifidobacterium, strain LMG 28769T, was isolated from a household water kefir fermentation process. The cells were Gram-stain-positive, non-motile, non-spore-forming, catalase-negative, oxidase-negative, and facultatively anaerobic short rods. Analysis of its 16S rRNA gene sequence revealed Bifidobacterium crudilactis and Bifidobacterium psychraerophilum (97.4 % and 97.1 % similarity towards the respective type strain sequences) as nearest phylogenetic neighbors. Its assignment to the genus Bifidobacterium was confirmed by the presence of fructose 6-phosphate phosphoketolase (F6PPK) activity. Analysis of the hsp60 gene sequence revealed a very low similarity with nucleotide sequences in the NCBI nucleotide database. The genotypic and phenotypic analyses allowed to differentiate strain LMG 28769T from all established Bifidobacterium species. Strain LMG 28769T (= CCUG 67145T = R-54638T) therefore represents a new species, for which the name Bifidobacterium aquikefiri sp. nov. is proposed.

  1. Brevibacterium massiliense sp. nov., isolated from a human ankle discharge.

    Science.gov (United States)

    Roux, Véronique; Raoult, Didier

    2009-08-01

    Gram-positive, non-spore-forming rods, strain 5401308T, were isolated from a human ankle discharge. Based on cellular morphology and the results of biochemical testing, this strain was tentatively identified as an undescribed member of the genus Brevibacterium. The major fatty acids were anteiso-C15:0 (45.3%), anteiso-C17:0 (19.2%) and iso-C15:0 (18.3%). Phylogenetic analysis based on 16S rRNA gene sequence comparison showed that the bacterium was closely related to the type strains of Brevibacterium mcbrellneri (96.3% similarity) and Brevibacterium paucivorans (95.8%). On the basis of phenotypic data and phylogenetic inference, it is proposed that this strain represents a novel species, designated Brevibacterium massiliense sp. nov.; the type strain is 5401308T (=CSUR P26T=CIP 109422T=CCUG 53855T).

  2. Actinomyces massiliensis sp. nov., isolated from a patient blood culture.

    Science.gov (United States)

    Renvoise, Aurélie; Raoult, Didier; Roux, Véronique

    2009-03-01

    Gram-positive, non-spore-forming rods (strain 4401292(T)) were isolated from a human blood sample. Based on cellular morphology and the results of biochemical tests, this strain was tentatively identified as belonging to an undescribed species of the genus Actinomyces. Phylogenetic analysis based on 16S rRNA gene sequence comparison showed that the bacterium was related closely to Actinomyces gerencseriae (95.1 % 16S rRNA gene sequence similarity), Actinomyces israelii (95.2 %), Actinomyces oricola (95.2 %), Actinomyces ruminicola (93.3 %) and Actinomyces dentalis (91.4 %). The predominant fatty acids were C18 : 1omega9c and C16 : 0. On the basis of phenotypic data and phylogenetic inference, the novel species Actinomyces massiliensis sp. nov. is proposed; the type strain is 4401292(T) (=CSUR P18(T)=CCUG 53522(T)).

  3. Rhizobium halotolerans sp. nov., Isolated from chloroethylenes contaminated soil.

    Science.gov (United States)

    Diange, Eboa Adolf; Lee, Sang-Seob

    2013-06-01

    The strain designated as AB21(T) was isolated from chloroethylenes contaminated soil. Cells are gram-negative, aerobic, non-spore-forming, and motile rods. Phylogenetic analysis based on 16S rRNA gene sequence showed that it belonged to the genus Rhizobium, and was closely related to Rhizobium sullae IS 123(T) (97.4 %), Rhizobium yanglingense SH 22623(T) (97.2 %), Rhizobium gallicum R 602sp(T) (97.1 %), Rhizobium alamii GBV 016(T) (97.0 %), and Rhizobium monogolense USDA 1844(T) (97.0 %). It showed less than 97 % identity with the remaining Rhizobium species. This novel isolate grew optimally at 25-37 °C (optimum, 30 °C) and pH 6-9 (optimum, pH 8.0). It grew in the presence of 0-4 % (w/v) NaCl, tolerating a 4 % (w/v) NaCl. DNA-DNA hybridization experiment shows less than 53 % binding with closely related Rhizobium. Predominant quinone is ubiquinone (Q-10). The major fatty acids were summed feature 8 (composed of C(18:1) ω7c/C(18:1) ω6c), C(19:0) cyclo ω8c, and C(16:0). The G+C molar content is 62.5 mol%. Based on the polyphasic analysis, strain AB21(T) is referred to be a novel species of the genus Rhizobium for which the name Rhizobium halotolerans sp. nov. is proposed. The type strain is AB21(T) (=KEMC 224-056(T) = JCM 17536(T)).

  4. Lactobacillus plajomi sp. nov. and Lactobacillus modestisalitolerans sp. nov., isolated from traditional fermented foods.

    Science.gov (United States)

    Miyashita, Mika; Yukphan, Pattaraporn; Chaipitakchonlatarn, Winai; Malimas, Taweesak; Sugimoto, Masako; Yoshino, Mayumi; Kamakura, Yuki; Potacharoen, Wanchern; Tanasupawat, Somboon; Tanaka, Naoto; Nakagawa, Yasuyoshi; Suzuki, Ken-ichiro

    2015-08-01

    Three Lactobacillus-like strains, NB53T, NB446T and NB702, were isolated from traditional fermented food in Thailand. Comparative 16S rRNA gene sequence analysis indicated that these strains belong to the Lactobacillus plantarum group. Phylogenetic analysis based on the dnaK, rpoA, pheS and recA gene sequences indicated that these three strains were distantly related to known species present in the L. plantarum group. DNA-DNA hybridization with closely related strains demonstrated that these strains represented two novel species; the novel strains could be differentiated based on chemotaxonomic and phenotypic characteristics. Therefore, two novel species of the genus Lactobacillus, Lactobacillus plajomi sp. nov. (NB53T) and Lactobacillus modestisalitolerans sp. nov. (NB446T and NB702), are proposed with the type strains NB53T ( = NBRC 107333T = BCC 38054T) and NB446T ( = NBRC 107235T = BCC 38191T), respectively.

  5. Cellulomonas soli sp. nov. and Cellulomonas oligotrophica sp. nov., isolated from soil.

    Science.gov (United States)

    Hatayama, Kouta; Esaki, Kouji; Ide, Teruhiko

    2013-01-01

    Two novel bacterial strains, designated Kc1(T) and Kc5(T), were isolated from soil in Japan. Cells of the novel strains were Gram-reaction-positive, aerobic or facultatively anaerobic, motile rods. Phylogenetic analyses based on 16S rRNA gene sequences indicated that both strains belonged to the genus Cellulomonas. The 16S rRNA gene sequences of strains Kc1(T) and Kc5(T) showed closest similarity to that of Cellulomonas terrae DB5(T) (98.1 % and 98.4 % similarity, respectively), and the 16S rRNA gene similarity between the two novel strains was 97.8 %. In both strains, the major menaquinone was MK-9(H(4)), the predominant polar lipids were diphosphatidylglycerol and phosphatidylinositol mannosides, and the peptidoglycan contained ornithine and glutamic acid. Cell-wall sugars were identified as rhamnose, galactose and mannose in strain Kc1(T) and rhamnose and glucose in strain Kc5(T). The DNA G+C contents of strains Kc1(T) and Kc5(T) were 73.6 mol% and 75.8 mol%, respectively. Based on the chemotaxonomic and physiological data and the results of DNA-DNA hybridizations, the two strains represent two novel species within the genus Cellulomonas, for which the names Cellulomonas soli sp. nov. (type strain Kc1(T) =DSM 24484(T) =JCM 17535(T)) and Cellulomonas oligotrophica sp. nov. (type strain Kc5(T) =DSM 24482(T) =JCM 17534(T)) are proposed.

  6. Streptococcus moroccensis sp. nov. and Streptococcus rifensis sp. nov., isolated from raw camel milk.

    Science.gov (United States)

    Kadri, Zaina; Amar, Mohamed; Ouadghiri, Mouna; Cnockaert, Margo; Aerts, Maarten; El Farricha, Omar; Vandamme, Peter

    2014-07-01

    Two catalase- and oxidase-negative Streptococcus-like strains, LMG 27682(T) and LMG 27684(T), were isolated from raw camel milk in Morocco. Comparative 16S rRNA gene sequencing assigned these bacteria to the genus Streptococcus with Streptococcus rupicaprae 2777-2-07(T) as their closest phylogenetic neighbour (95.9% and 95.7% similarity, respectively). 16S rRNA gene sequence similarity between the two strains was 96.7%. Although strains LMG 27682(T) and LMG 27684(T) shared a DNA-DNA hybridization value that corresponded to the threshold level for species delineation (68%), the two strains could be distinguished by multiple biochemical tests, sequence analysis of the phenylalanyl-tRNA synthase (pheS), RNA polymerase (rpoA) and ATP synthase (atpA) genes and by their MALDI-TOF MS profiles. On the basis of these considerable phenotypic and genotypic differences, we propose to classify both strains as novel species of the genus Streptococcus, for which the names Streptococcus moroccensis sp. nov. (type strain, LMG 27682(T)  = CCMM B831(T)) and Streptococcus rifensis sp. nov. (type strain, LMG 27684(T)  = CCMM B833(T)) are proposed. © 2014 IUMS.

  7. Kryptousia macronema gen. nov., sp. nov. and Kryptousia microlepis sp. nov., nostocalean cyanobacteria isolated from phyllospheres.

    Science.gov (United States)

    Alvarenga, Danillo Oliveira; Andreote, Ana Paula Dini; Branco, Luis Henrique Zanini; Fiore, Marli Fatima

    2017-09-01

    Tropical ecosystems worldwide host very diverse microbial communities, but are increasingly threatened by deforestation and climate change. Thus, characterization of biodiversity in these environments, and especially of microbial communities that show unique adaptations to their habitats, is a very urgent matter. Information about representatives of the phylum Cyanobacteria in tropical environments is scarce, even though they are fundamental primary producers that help other microbes to thrive in nutrient-depleted habitats, including phyllospheres. In order to increase our knowledge of cyanobacterial diversity, a study was conducted to characterize isolates from Avicennia schaueriana and Merostachys neesii leaves collected at a mangrove and an Atlantic forest reserve located at the littoral of São Paulo state, south-east Brazil. The morphological, ultrastructural, phylogenetic, molecular and ecological features of the strains led to the recognition of the new genus Kryptousia, comprising two new species, Kryptousiamacronema gen. nov., sp. nov. and Kryptousiamicrolepis sp. nov., described here according to the International Code of Nomenclature for algae, fungi and plants. The new genus and species were classified in the nostocalean family Tolypotrichaceae. This finding advances knowledge on the microbial diversity of South American ecosystems and sheds further light on the systematics of cyanobacteria.

  8. Prevotella fusca sp. nov. and Prevotella scopos sp. nov., isolated from the human oral cavity.

    Science.gov (United States)

    Downes, Julia; Wade, William G

    2011-04-01

    Two strains of anaerobic, Gram-negative bacilli isolated from the human oral cavity were subjected to a comprehensive range of phenotypic and genotypic tests and were found to belong to two separate taxa. Phylogenetic analysis of full-length 16S rRNA gene sequences showed that the strains were both related to, but distinct from, the type strain of Prevotella melaninogenica. Two novel species, Prevotella fusca sp. nov. and Prevotella scopos sp. nov., are proposed to accommodate these strains. Both strains were saccharolytic and produced acetic and succinic acids, with lesser amounts of lactic and isovaleric acids, as end products of fermentation, and both were sensitive to 20 % bile. The principal cellular long-chain fatty acids of both strains were ai-C(15 : 0), 3-OH i-C(17 : 0), 3-OH C(16 : 0), i-C(15 : 0) and C(16 : 0). The DNA G+C contents of the type strains of Prevotella fusca (W1435(T)  = DSM 22504(T)  = CCUG 57946(T)) and Prevotella scopos (W2052(T)  = DSM 22613(T ) = CCUG 57945(T)) were 43 and 41 mol%, respectively. The two species could be differentiated by gelatin hydrolysis, cellobiose and ribose fermentation, and production of β-glucosidase.

  9. Cryobacterium flavum sp. nov. and Cryobacterium luteum sp. nov., isolated from glacier ice.

    Science.gov (United States)

    Liu, Qing; Liu, Hongcan; Wen, Ying; Zhou, Yuguang; Xin, Yuhua

    2012-06-01

    Gram-positive, rod-shaped bacteria, strains Hh8(T), Hh15(T) and Hh40-2, were isolated from the No. 1 glacier in Xinjiang, north-west China. Colonies of strain Hh8(T) were orange-yellow, convex and round on PYG plates. Strain Hh8(T) grew at 0-19 °C and pH 5.5-10.5. Colonies of strain Hh15(T), which was able to grow at 0-20 °C and pH 5.5-12, were lemon yellow, convex and round on PYG plates. Phylogenetic analysis based on 16S rRNA gene sequences showed that these three strains were related to members of the genus Cryobacterium. The major cellular fatty acids of the novel strains were anteiso-C(15:0), iso-C(16:0), iso-C(15:0) and anteiso-C(15:1) A. On the basis of phenotypic characteristics, phylogenetic analysis and DNA-DNA relatedness data, two novel species, Cryobacterium flavum sp. nov. (type strain Hh8(T) = CGMCC 1.11215(T) = NBRC 107879(T)) and Cryobacterium luteum sp. nov. (type strain Hh15(T) = CGMCC 1.11210(T) = NBRC 107880(T)), are proposed.

  10. Identification and characterization of two amylase producing bacteria Cellulosimicrobium sp. and Demequina sp. isolated from marine organisms

    Directory of Open Access Journals (Sweden)

    Laila S.H. Al-Naamani

    2015-01-01

    Full Text Available Marine sources have been known to yield novel compounds with a wide range of bioactivity with various commercial applications. In this study, the abilities of bacteria isolated from eight marine organisms to produce α-amylase were examined. All eight organisms were found to harbor amylase producing bacteria. Two bacterial species isolated from the green alga Ulva rigida and the sponge Mycale sp. were further identified and their α-amylases were purified and characterized. The bacterial species isolated from U. rigida and Mycale sp. were identified by DNA sequencing as Cellulosimicrobium sp. and Demequina sp., respectively. Cellulosimicrobium sp. obtained maximum cell growth and amylase production at 29.C and in the presence of lactose as a carbon source. Optimal cell growth and amylase production by Demequina sp. was observed at 35.C. While lactose enhanced cell growth of Demequina sp., maximum amylase production was found when fructose and glycerol were the available sources of carbon. Both strains grew better in the presence of tryptone, whilst peptone stimulated amylase production. Maximal cell growth and amylase production by both of the strains was found at a medium salinity of 3% NaCl.

  11. Methanobacterium petrolearium sp. nov. and Methanobacterium ferruginis sp. nov., mesophilic methanogens isolated from salty environments.

    Science.gov (United States)

    Mori, Koji; Harayama, Shigeaki

    2011-01-01

    Two methane-producing archaea, designated Mic5c12(T) and Mic6c05(T), were isolated from sludge deposited in a crude oil storage tank and a tubercle on the interior of a pipe transporting natural gas-containing brine, respectively. The isolates were Gram-staining-variable, non-motile rods and grew only on H(2)/CO(2). Strain Mic6c05(T) produced methane from some alcohols without showing any growth; strain Mic5c12(T) did not utilize alcohols. The optimum growth conditions for strain Mic5c12(T) were 35 °C, pH 6.5 and 0-0.68 M NaCl and for strain Mic6c05(T) were 40 °C, pH 6.0-7.5 and 0.34 M NaCl. Strain Mic5c12(T) was halotolerant and strain Mic6c05(T) was halophilic. Comparative 16S rRNA gene sequence analysis revealed that strains Mic5c12(T) and Mic6c05(T) belonged to the genus Methanobacterium and their closest relative was Methanobacterium subterraneum A8p(T) (97.3 and 97.9 % 16S rRNA gene sequence similarity, respectively). The findings from the 16S rRNA gene sequence analyses were supported by analysis of McrA, the alpha subunit of methyl-coenzyme M reductase. On the basis of phylogenetic analyses and phenotypic characteristics, two novel species are proposed, Methanobacterium petrolearium sp. nov. and Methanobacterium ferruginis sp. nov., with type strains Mic5c12(T) (=NBRC 105198(T) =DSM 22353(T)) and Mic6c05(T) (=NBRC 105197(T) =DSM 21974(T)), respectively.

  12. Bacillus swezeyi sp. nov. and Bacillus haynesii sp. nov., isolated from desert soil.

    Science.gov (United States)

    Dunlap, Christopher A; Schisler, David A; Perry, Elizabeth B; Connor, Nora; Cohan, Frederick M; Rooney, Alejandro P

    2017-08-01

    Two isolates of Gram-reaction-positive, facultatively anaerobic, motile, rod-shaped, endospore-forming bacteria were identified during a survey of the diversity of strains belonging to the genus Bacillus deposited in the Agriculture Research Service Culture Collection. These strains were originally isolated from soil in Evolution Canyon III (Israel) in a survey of ecological diversification. Phylogenetic analysis of the 16S rRNA gene of strains NRRL B-41294T and NRRL B-41327T determined they were closely related to members of the Bacillus licheniformis clade. The genome of each strain was sequenced, and further analysis indicated that the strains represented unique species based on in silico DNA-DNA hybridization analyses. A phylogenomic analysis revealed that NRRL B-41294T and NRRL B-41327T were closely related to the group that includes B. licheniformis. In phenotypic characterization, both NRRL B-41294T and NRRL B-41327T were found to grow at temperatures of between 15 and 60 °C and tolerated up to 12 % NaCl (w/v). The predominant cellular fatty acids were anteiso-C15 : 0 and iso-C15 : 0, and peptidoglycan from cell walls contained meso-diaminopimelic acid. The DNA G+C content was 45.7 and 44.3 mol% for NRRL B-41327T and NRRL B-41294T, respectively. Furthermore, each strain had a unique carbon utilization pattern that distinguished it from its nearest phylogenetic neighbours. Based upon the consensus of phylogenetic and phenotypic analyses, we conclude that these strains represent two novel species within the genus Bacillus, for which the name Bacillus swezeyi sp. nov. is proposed, with type strain NRRL B-41294T (=CCUG 70177T), and the name Bacillus haynesii sp. nov. is proposed, with type strain NRRL B-41327T (=CCUG 70178T).

  13. Mycobacterium sarraceniae sp. nov. and Mycobacterium helvum sp. nov., isolated from the pitcher plant Sarracenia purpurea.

    Science.gov (United States)

    Tran, Phuong M; Dahl, John L

    2016-11-01

    Several fast- to intermediate-growing, acid-fast, scotochromogenic bacteria were isolated from Sarracenia purpurea pitcher waters in Minnesota sphagnum peat bogs. Two strains (DL734T and DL739T) were among these isolates. On the basis of 16S rRNA gene sequences, the phylogenetic positions of both strains is in the genus Mycobacterium with no obvious relation to any characterized type strains of mycobacteria. Phenotypic characterization revealed that neither strain was similar to the type strains of known species of the genus Mycobacterium in the collective properties of growth, pigmentation or fatty acid composition. Strain DL734T grew at temperatures between 28 and 32 °C, was positive for 3-day arylsulfatase production, and was negative for Tween 80 hydrolysis, urease and nitrate reduction. Strain DL739T grew at temperatures between 28 and 37 °C, and was positive for Tween 80 hydrolysis, urea, nitrate reduction and 3-day arylsulfatase production. Both strains were catalase-negative while only DL739T grew with 5 % NaCl. Fatty acid methyl ester profiles were unique for each strain. DL739T showed an ability to survive at 8 °C with little to no cellular replication and is thus considered to be psychrotolerant. Therefore, strains DL734T and DL739T represent two novel species of the genus Mycobacterium with the proposed names Mycobacterium sarraceniae sp. nov. and Mycobacterium helvum sp. nov., respectively. The type strains are DL734T (=JCM 30395T=NCCB 100519T) and DL739T (=JCM 30396T=NCCB 100520T), respectively.

  14. Cellulomonas aerilata sp. nov., isolated from an air sample.

    Science.gov (United States)

    Lee, Chang-Muk; Weon, Hang-Yeon; Hong, Seung-Beom; Jeon, Young-Ah; Schumann, Peter; Kroppenstedt, Reiner M; Kwon, Soon-Wo; Stackebrandt, Erko

    2008-12-01

    A Gram-positive, aerobic, motile, coccoid or short rod-shaped bacterium, 5420S-23(T), was isolated from an air sample collected in the Republic of Korea. According to phylogenetic analysis based on 16S rRNA gene sequences, strain 5420S-23(T) revealed 97.5, 97.3, 97.3 and 97.2 % similarity, respectively, to Cellulomonas biazotea DSM 20112(T), Cellulomonas cellasea DSM 20118(T), Cellulomonas fimi DSM 20113(T) and Cellulomonas chitinilytica X.bu-b(T). The peptidoglycan type of strain 5420S-23(T) was A4beta, containing l-ornithine-d-glutamic acid. The cell-wall sugars were galactose, glucose and xylose. The major fatty acids were anteiso-C(15 : 0) (49.7 %) and C(16 : 0) (20.0 %). The major menaquinone was MK-9(H(4)) and major polar lipids were diphosphatidylglycerol and phosphatidylglycerol. The DNA G+C content was 74 mol%. The results of DNA-DNA hybridization with strains of closely related Cellulomonas species, in combination with chemotaxonomic and physiological data, demonstrated that isolate 5420S-23(T) represents a novel Cellulomonas species, for which the name Cellulomonas aerilata sp. nov. is proposed, with strain 5420S-23(T) (=KACC 20692(T) =DSM 18649(T)) as the type strain.

  15. Myroides guanonis sp. nov., isolated from prehistoric paintings.

    Science.gov (United States)

    Tomova, Anna; Tomova, Iva; Vasileva-Tonkova, Evgenia; Lazarkevich, Irina; Stoilova-Disheva, Margarita; Lyutskanova, Dimitrinka; Kambourova, Margarita

    2013-11-01

    A novel psychrotolerant, strictly aerobic, non-motile, rod-shaped bacterial strain, designated IM13(T), was isolated from a sample taken from prehistoric guano paintings in Magura Cave, northwest Bulgaria and subjected to a polyphasic taxonomic study. Strain IM13(T) formed yellow colonies on LB agar plates and was Gram-staining-negative, heterotrophic and alkalitolerant. It grew optimally at pH 7.5 and 30 °C in the absence of NaCl. Phylogenetic analysis of the whole 16S rRNA gene revealed that strain IM13(T) branched with representatives of the genus Myroides with sequence similarity of 93-94 % with other species of the genus. The novel isolate contained iso-C15 : 0 (49.1 %), iso-C17 : 1ω9c (18.2 %) and iso-C17 : 0 3-OH (14.0 %) as dominant fatty acids. The DNA G+C content of strain IM13(T) was 33.5 mol%. Based on phylogenetic inference and phenotypic characteristics, it was concluded that strain IM13(T) represents a novel species of the genus Myroides, for which the name Myroides guanonis sp. nov. is proposed. The type strain is IM13(T) ( = DSM 26542(T) = NBIMCC 8736(T)).

  16. Thermus composti sp. nov., isolated from oyster mushroom compost.

    Science.gov (United States)

    Vajna, Balázs; Kanizsai, Szilvia; Kéki, Zsuzsa; Márialigeti, Károly; Schumann, Peter; Tóth, Erika M

    2012-07-01

    A Gram-stain-negative, rod-shaped bacterium (strain K-39(T)) was isolated from the thermophilic phase of the composting process for oyster mushroom substrate preparation. The strain grew at 40-80 °C (optimum, 65-75 °C), at pH 5-9 (optimum, pH 7), in media containing up to 1.5% (w/v) NaCl. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain K-39(T) formed a distinct lineage within the genus Thermus. Its closest cultivated relative was Thermus islandicus PRI 3838(T) (96.8% similarity). The DNA G+C content of strain K-39(T) was 71.3 mol%. The new strain could be differentiated from the related taxa by not being able to hydrolyse starch. The predominant fatty acids of strain K-39(T) were iso-C(17:0) and anteiso-C(17:0). Strain K-39(T) contained a lower amount of the fatty acid iso-C(15:0) as compared to related species of the genus Thermus. The predominant respiratory quinone of the new isolate was menaquinone MK-8. On the basis of a taxonomic study using a polyphasic approach, strain K-39(T) is considered to represent a novel species of the genus Thermus, for which the name Thermus composti sp. nov. is proposed. The type strain is K-39(T) (=DSM 21686(T)=NCAIM B 02340(T)).

  17. Devosia elaeis sp. nov., isolated from oil palm rhizospheric soil.

    Science.gov (United States)

    Mohd Nor, Muhammad Nuruddin; Sabaratnam, Vikineswary; Tan, Geok Yuan Annie

    2017-04-01

    A bacterial isolate, designated strain S37T, was isolated from the rhizosphere of oil palm (Elaeis guineensis). Strain S37T was found to be Gram-stain-negative, aerobic, motile and rod shaped. Based on 16S rRNA gene sequence analysis, strain S37T was most closely related to Devosia albogilva IPL15T (97.3 %), Devosia chinhatensis IPL18T (96.8 %) and Devosia subaequoris HST3-14T (96.5 %). The G+C content of the genomic DNA was 63.0 mol%, and dominant cellular fatty acids were summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c), 11-methyl C18 : 1ω7c and C16 : 0. The predominant isoprenoid quinone was ubiquinone-10 (Q-10), and the major polar lipids were phosphatidylglycerol, diphosphatidylglycerol, glycolipid and phospholipids. Based on the polyphasic taxonomic data, it is clear that strain S37T represents a novel species of the genus Devosia within the family Hyphomicrobiaceae, for which we propose the name Devosia elaeis sp. nov., with strain S37T (=TBRC 5145T=LMG 29420T) as the type strain.

  18. Acinetobacter plantarum sp. nov. isolated from wheat seedlings plant.

    Science.gov (United States)

    Du, Juan; Singh, Hina; Yu, Hongshan; Jin, Feng-Xie; Yi, Tae-Hoo

    2016-07-01

    Strain THG-SQM11(T), a Gram-negative, aerobic, non-motile, coccus-shaped bacterium, was isolated from wheat seedlings plant in P. R. China. Strain THG-SQM11(T) was closely related to members of the genus Acinetobacter and showed the highest 16S rRNA sequence similarities with Acinetobacter junii (97.9 %) and Acinetobacter kookii (96.1 %). DNA-DNA hybridization showed 41.3 ± 2.4 % DNA reassociation with A. junii KCTC 12416(T). Chemotaxonomic data revealed that strain THG-SQM11(T) possesses ubiquinone-9 as the predominant respiratory quinone, C18:1 ω9c, summed feature 3 (C16:1 ω7c and/or C16:1 ω6c), and C16:0 as the major fatty acids. The major polar lipids were found to be diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, and phosphatidylcholine. The DNA G+C content was 41.7 mol %. These data, together with phenotypic characterization, suggest that the isolate represents a novel species, for which the name Acinetobacter plantarum sp. nov. is proposed, with THG-SQM11(T) as the type strain (=CCTCC AB 2015123(T) =KCTC 42611(T)).

  19. Paenibacillus relictisesami sp. nov., isolated from sesame oil cake.

    Science.gov (United States)

    Shimoyama, Takefumi; Johari, Nurziha Binti; Tsuruya, Atsuki; Nair, Arun; Nakayama, Toru

    2014-05-01

    A facultatively anaerobic, Gram-stain-positive, rod-shaped bacterium, designated strain KB0549T, was isolated from sesame oil cake. Cells were motile, round-ended rods, and produced central or terminal spores. The cell wall peptidoglycan contained meso-diaminopimelic acid as the diamino acid. The major fatty acids were anteiso-C15:0 and anteiso-C17:0. The DNA G+C content of strain KB0549T was 51.9 mol%. On the basis of 16S rRNA gene sequence phylogeny, strain KB0549T was affiliated with the genus Paenibacillus in the phylum Firmicutes and was most closely related to Paenibacillus cookii with 97.4% sequence similarity. Strain KB0549T was physiologically differentiated from P. cookii by the high content of anteiso-C17:0, inability to grow at 50 °C, spore position, and negative Voges-Proskauer reaction. Based on these unique physiological and phylogenetic characteristics, it is proposed that the isolate represents a novel species, Paenibacillus relictisesami sp. nov.; the type strain is KB0549T (=JCM 18068T=DSM 25385T).

  20. Isolation, Purification, and Characterization of Fungal Laccase from Pleurotus sp.

    Directory of Open Access Journals (Sweden)

    Sunil S. More

    2011-01-01

    Full Text Available Laccases are blue copper oxidases (E.C. 1.10.3.2 benzenediol: oxygen oxidoreductase that catalyze the one-electron oxidation of phenolics, aromatic amines, and other electron-rich substrates with the concomitant reduction of O2 to H2O. They are currently seen as highly interesting industrial enzymes because of their broad substrate specificity. A positive strain was isolated and characterized as nonspore forming Basidiomycetes Pleurotus sp. Laccase activity was determined using ABTS as substrate. Laccase was purified by ionexchange and gel filtration chromatography. The purified laccase was a monomer showed a molecular mass of 40±1 kDa as estimated by SDS-PAGE and a 72-fold purification with a 22% yield. The optimal pH and temperature were 4.5 and 65°C, respectively. The Km and Vmax⁡ values are 250 (mM and 0.33 (μmol/min, respectively, for ABTS as substrate. Metal ions like CuSO4, BaCl2, MgCl2, FeCl2, ZnCl2 have no effect on purified laccase whereas HgCl2 and MnCl2 moderately decrease enzyme activity. SDS and sodium azide inhibited enzyme activity, whereas Urea, PCMB, DTT, and mercaptoethanol have no effect on enzyme activity. The isolated laccase can be used in development of biosensor for detecting the phenolic compounds from the effluents of paper industries.

  1. Burkholderia monticola sp. nov., isolated from mountain soil.

    Science.gov (United States)

    Baek, Inwoo; Seo, Boram; Lee, Imchang; Yi, Hana; Chun, Jongsik

    2015-02-01

    An ivory/yellow, Gram-stain-negative, short-rod-shaped, aerobic bacterial strain, designated JC2948(T), was isolated from a soil sample taken from Gwanak Mountain, Republic of Korea. 16S rRNA gene sequence analysis indicated that strain JC2948(T) belongs to the genus Burkholderia. The test strain showed highest sequence similarities to Burkholderia tropica LMG 22274(T) (97.6 %), Burkholderia acidipaludis NBRC 101816(T) (97.5 %), Burkholderia tuberum LMG 21444(T) (97.5 %), Burkholderia sprentiae LMG 27175(T) (97.4 %), Burkholderia terricola LMG 20594(T) (97.3 %) and Burkholderia diazotrophica LMG 26031(T) (97.1 %). Based on average nucleotide identity (ANI) values, the new isolate represents a novel genomic species as it shows less than 90 % ANI values with other closely related species. Also, other phylosiological and biochemical comparisons allowed the phenotypic differentiation of strain JC2948(T) from other members of the genus Burkholderia. Therefore, we suggest that this strain should be classified as the type strain of a novel species of the genus Burkholderia. The name Burkholderia monticola sp. nov. (type strain, JC2948(T) = JCM 19904(T) = KACC 17924(T)) is proposed. © 2015 IUMS.

  2. Bacillus solimangrovi sp. nov., isolated from mangrove soil.

    Science.gov (United States)

    Lee, Geun-Hye; Rhee, Moon-Soo; Chang, Dong-Ho; Kwon, Kae Kyoung; Bae, Kyung Sook; Yang, Seong-Hyun; Kim, Byoung-Chan

    2014-05-01

    Two novel bacterial strains, GH2-4T and GH2-5, were isolated from mangrove soil near the seashore of Weno island in Chuuk state, Micronesia, and were characterized by a polyphasic approach. The two strains were strictly aerobic, Gram-staining-positive, motile, endospore-forming rods that were catalase- and oxidase-positive. Colonies were circular, convex, stringy and transparent yellowish (GH2-4T) or opaque whitish (GH2-5). The 16S rRNA gene sequences of the two isolates were identical. The most closely related strains in terms of 16S rRNA gene sequence similarity were Bacillus kochii WCC 4582T, B. horneckiae DSM 23495T, B. azotoformans LMG 9581T, B. cohnii DSM 6307T and B. halmapalus DSM 8723T (95.6, 95.4, 95.4, 95.2 and 95.2% similarity, respectively). The partial groEL sequence of strain GH2-4T was identical to that of strain GH2-5 and showed Bacillus, for which the name Bacillus solimangrovi sp. nov. is proposed; the type strain is GH2-4T (=KCTC 33142T=JCM 18994T=DSM 27083T).

  3. Bacillus formosensis sp. nov., isolated from pesticide wastewater sample.

    Science.gov (United States)

    Lin, Shih-Yao; Hameed, Asif; Liu, You-Cheng; Hsu, Yi-Han; Lai, Wei-An; Yen, Wen-Shao; Young, Chiu-Chung

    2015-07-31

    A Gram-stain-positve, endospore-forming rod (designated as strain CC-LY275T) was isolated from pesticide wastewater sample. The isolate grew at temperature 20-45 ºС, pH 7.0-8.0 and tolerated 6 % (w/v) NaCl. The most closely related strains in terms of 16S rRNA gene sequence similarity were Bacillus horneckiae (97.1 %) and Bacillus oceanisediminis (96.8 %), respectively. The G + C content of the genomic DNA was 37.9 mol%. Strain CC-LY275T was determined to possess iso-C14:0, iso-C15:0 and anteiso-C15:0 as predominant fatty acids. The major polar lipid profile consisted of diphosphatidylglycerol, phosphatidylethanolamine and phosphatidylglycerol. Cell-wall peptidoglycan contained meso-diaminopimelic acid; menaquinone (MK-7) was the predominant respiratory quinone. According to the distinct phylogenetic, phenotypic and chemotaxonomic properties, the name Bacillus formosensis sp. nov. (type strain CC-LY275T =BCRC 80443T =JCM 18448T) is proposed.

  4. Bacillus formosensis sp. nov., isolated from pesticide wastewater.

    Science.gov (United States)

    Lin, Shih-Yao; Hameed, Asif; Liu, You-Cheng; Hsu, Yi-Han; Lai, Wei-An; Yen, Wen-Shao; Young, Chiu-Chung

    2015-11-01

    A Gram-stain-positive, endospore-forming rod (designated strain CC-LY275T) was isolated from a pesticide wastewater sample. The isolate grew at a temperature 20-45 °C, at pH 7.0-8.0 and tolerated NaCl 6 % (w/v). The most closely related strains in terms of 16S rRNA gene sequence similarity were Bacillus horneckiae (97.1 %) and Bacillus oceanisediminis (96.8 %), respectively. The G+C content of the genomic DNA was 37.9 mol%. Strain CC-LY275T was determined to possess iso-C14 : 0, iso-C15 : 0 and anteiso-C15 : 0 as predominant fatty acids. The major polar lipid profile consisted of diphosphatidylglycerol, phosphatidylethanolamine and phosphatidylglycerol. Cell-wall peptidoglycan contained meso-diaminopimelic acid; menaquinone (MK-7) was the predominant respiratory quinone. According to the distinct phylogenetic, phenotypic and chemotaxonomic properties, the name Bacillus formosensis sp. nov. (type strain CC-LY275T = BCRC 80443T = JCM 18448T) is proposed.

  5. Microbacterium murale sp. nov., isolated from an indoor wall.

    Science.gov (United States)

    Kämpfer, P; Schäfer, J; Lodders, N; Martin, K

    2012-11-01

    A Gram-positive rod, designated 01-Gi-001(T), was isolated from a wall colonized with moulds. The 16S rRNA gene sequence analysis clearly showed that the isolate belonged to the genus Microbacterium. On the basis of pairwise comparisons of 16S rRNA gene sequences, strain 01-Gi-001(T) was most closely related to Microbacterium hydrocarbonoxydans DSM 16089(T) (98.9% sequence similarity), Microbacterium profundi Shh49(T) (98.7%), Microbacterium phyllosphaerae DSM 13468(T) (98.3%) and Microbacterium foliorum DSM 12966(T) (98.1%). The diagnostic diamino acid of the peptidoglycan was ornithine. The major menaquinones detected were MK-13 and MK-12. The major polar lipids were diphosphatidylglycerol, phosphatidylglycerol, one unknown phospholipid and one unknown glycolipid. The major fatty acids were anteiso-C(15:0), iso-C(16:0) and anteiso-C(17:0), which were in agreement with those reported for other members of the genus Microbacterium. Physiological and biochemical characteristics and DNA-DNA relatedness between strain 01-Gi-001(T) and the type strains of its closest phylogenetic neighbours showed clear differences. For this reason, strain 01-Gi-001(T) (=DSM 22178(T)=CCM 7640(T)) is proposed as the type strain of a novel species, Microbacterium murale sp. nov.

  6. Actinomyces vulturis sp. nov., isolated from Gyps himalayensis.

    Science.gov (United States)

    Meng, Xiangli; Lu, Shan; Wang, Yiting; Lai, Xin-He; Wen, Yumeng; Jin, Dong; Yang, Jing; Bai, Xiangning; Zhang, Gui; Pu, Ji; Lan, Riuting; Xu, Jianguo

    2017-06-01

    Two strains of Gram-stain-positive, facultatively anaerobic, non-spore-forming short rods (VUL7T and VUL8) were isolated from rectal swabs of Old World vultures, namely Gyps himalayensis, in Tibet-Qinghai Plateau, China. Optimal growth occurred at 37 °C, pH 6-7, with 1 % (w/v) NaCl. Phylogenetic analysis based on 16S rRNA gene sequences classified the two strains to the genus Actinomyces, with highest 16S rRNA gene sequence similarity (95 %) to type strains of Actinomyces haliotis, Actinomyces radicidentis and Actinomyces urogenitalis. The major cellular fatty acids were C18 : 1ω9c and C16 : 0. MK-10(H4) was the major respiratory quinone. The genomic DNA G+C content of the isolate was 54.4 mol%. DNA-DNA hybridization values with the most closely related species ofthe genusActinomyces was 24.6 %. The two strains can be differentiated from the most closely related species such as A. haliotis, A. radicidentis, A. graevenitzii and A. urogenitalis by a list of carbohydrate fermentations and enzyme activities. On the basis of physiological, biochemical and phylogenetic analysis, strains VUL7T and VUL8 represent novel species of the genus Actinomyces, for which the name Actinomyces vulturis sp. nov. is proposed. The type strain is VUL7T (=CGMCC 4.7366T=DSM 103437T).

  7. Lactobacillus cerevisiae sp. nov., isolated from a spoiled brewery sample.

    Science.gov (United States)

    Koob, Jennifer; Jacob, Fritz; Wenning, Mareike; Hutzler, Mathias

    2017-09-01

    A Gram-stain-positive, non-motile, rod-shaped bacterium, designated TUM BP 140423000-2250T (=DSM 100836T=LMG 29073T), was isolated from spoiled beer. This bacterium did not form spores, and was catalase-negative and facultatively anaerobic. Its taxonomic position was determined in a polyphasic study. The 16S rRNA gene sequence similarity data showed that the strain belonged to the Lactobacillus genus with the nearest neighbours being Lactobacillus koreensis DCY50T (sequence similarity 99.5 %), Lactobacillus yonginensis THK-V8T (99.2 %) and Lactobacillus parabrevis LMG 11984T (98.7 %). Sequence comparisons of additional phylogenetic markers, pheS and rpoA, confirmed the 16S rRNA gene sequence tree topology. The maximum rpoA sequence similarity was 92.3 % with L. yonginensis THK-V8T. The DNA G+C content of the isolate was 50.0 mol%. The DNA-DNA relatedness showed that strain TUM BP 140423000-2250T could be clearly distinguished from L. koreensis DCY 50T (30.8±0.4 %) and L. yonginensis THK-V8T (23.6±5.9 %). The major fatty acids were C18 : 1ω9c, summed feature 7 (comprised of C19 : 0 cyclo ω10c/C19 : 1ω6c) and C16 : 0. Based on phenotypic and genotypic studies, the authors propose classifying the new isolate as a representative of a novel species of the genus Lactobacillus, Lactobacillus cerevisiae sp. nov. The type strain is deposited at the Research Centre Weihenstephan for Brewing and Food Quality as TUM BP 140423000-2250T (=DSM 100836T=LMG 29073T).

  8. Paenibacillus endophyticus sp. nov., isolated from nodules of Cicer arietinum.

    Science.gov (United States)

    Carro, Lorena; Flores-Félix, José David; Cerda-Castillo, Eugenia; Ramírez-Bahena, Martha-Helena; Igual, José M; Tejedor, Carmen; Velázquez, Encarna; Peix, Alvaro

    2013-12-01

    A bacterial strain, designated PECAE04(T), was isolated from root nodules of Cicer arietinum in Spain. Phylogenetic analysis based on 16S rRNA gene sequence placed the isolate into the genus Paenibacillus with its closest relative being Paenibacillus castaneae Ch-32(T) with 98.4 % 16S rRNA gene sequence similarity followed by Paenibacillus glycanilyticus DS-1(T), Paenibacillus prosopidis PW21(T), Paenibacillus xinjiangensis B538(T) and Paenibacillus catalpae D75(T) with similarities ranging from 97.9 to 96.8 %. DNA-DNA hybridization measurements showed values lower than 20 % between the strain PECAE04(T) and any of these species. The isolate was a Gram-stain-positive, motile, sporulating rod. Catalase and oxidase activities were positive. Aesculin was hydrolysed but casein and gelatin were not. Acetoin production, H2S production, nitrate reduction and urease and caseinase production were negative. Growth was supported by many carbohydrates and organic acids as carbon sources. MK-7 was the predominant menaquinone and anteiso-C15 : 0, iso-C16 : 0 and C16 : 0 were the major fatty acids. Major polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, a glycolipid, three phospholipids and an unidentified lipid. Meso-diaminopimelic acid was not detected in the peptidoglycan. The DNA G+C content was 52.9 mol%. Phylogenetic, chemotaxonomic and phenotypic analyses showed that strain PECAE04(T) should be considered to be a representative of a novel species of the genus Paenibacillus, for which the name Paenibacillus endophyticus sp. nov. is proposed. The type strain is PECAE04(T) ( = LMG 27297(T) = CECT 8234(T)).

  9. Virgibacillus kimchii sp. nov., a halophilic bacterium isolated from kimchi.

    Science.gov (United States)

    Oh, Young Joon; Jang, Ja-Young; Lim, Seul Ki; Kwon, Min-Sung; Lee, Jieun; Kim, NamHee; Shin, Mi-Young; Park, Hyo Kyeong; Seo, Myung-Ji; Choi, Hak-Jong

    2017-12-01

    A Gram-stain-positive, halophilic, rod-shaped, non-motile, spore forming bacterium, strain NKC1-2 T , was isolated from kimchi, a Korean fermented food. Comparative analysis based on 16S rRNA gene sequence demonstrated that the isolated strain was a species of the genus Virgibacillus. Strain NKC1-2 T exhibited high level of 16S rRNA gene sequence similarity with the type strains of Virgibacillus xinjiangensis SL6-1 T (96.9%), V. sediminis YIM kkny3 T (96.8%), and V. salarius SA-Vb1 T (96.7%). The isolate grew at pH 6.5-10.0 (optimum, pH 8.5-9.0), 0.0-25.0% (w/v) NaCl (optimum, 10-15% NaCl), and 15-50°C (optimum, 37°C). The major menaquinone in the strain was menaquinone-7, and the main peptidoglycan of the strain was meso-diaminopimelic acid. The predominant fatty acids of the strain were iso-C 14:0 , anteisio-C 15:0 , iso- C 15:0 , and iso-C 16:0 (other components were < 10.0%). The polar lipids consisted of diphosphatidylglycerol and phosphatidylglycerol. The genomic DNA G + C content of NKC1-2 T was 42.5 mol%. On the basis of these findings, strain NKC1-2 T is proposed as a novel species in the genus Virgibacillus, for which the name Virgibacillus kimchii sp. nov. is proposed (=KACC 19404 T =JCM 32284 T ). The type strain of Virgibacillus kimchii is NKC1-2T.

  10. Paenibacillus lupini sp. nov., isolated from nodules of Lupinus albus.

    Science.gov (United States)

    Carro, Lorena; Flores-Félix, José David; Ramírez-Bahena, Martha-Helena; García-Fraile, Paula; Martínez-Hidalgo, Pilar; Igual, José M; Tejedor, Carmen; Peix, Alvaro; Velázquez, Encarna

    2014-09-01

    A bacterial strain designated RLAHU15(T) was isolated from root nodules of Lupinus albus in Spain. Phylogenetic analyses based on 16S rRNA gene sequences placed the isolate in the genus Paenibacillus, with its closest relatives being Paenibacillus catalpae D75(T), Paenibacillus glycanilyticus DS-1(T), Paenibacillus endophyticus PECAE04(T) and Paenibacillus xinjiangensis B538(T) with 98.8 %, 98.9 %, 97.4 % and 97.4 % similarity, respectively. DNA-DNA hybridization studies showed values lower than 45 % between the strain RLAHU15(T) and any of these species. The isolate was a Gram-stain positive, motile and sporulating rod. Catalase activity was weak and oxidase activity was positive. Casein and starch were hydrolysed but gelatin was not. Growth was supported by many carbohydrates and organic acids as carbon sources. MK-7 was the only menaquinone detected and anteiso-C15 : 0 and iso-C16 : 0 were the major fatty acids. The major polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, three unidentified phospholipids and an unidentified lipid. meso-Diaminopimelic acid was detected in the peptidoglycan. The DNA G+C content was 54.4 mol%. Phylogenetic, chemotaxonomic and phenotypic analyses showed that strain RLAHU15(T) represents a novel species of the genus Paenibacillus, for which the name Paenibacillus lupini sp. nov. is proposed. The type strain is RLAHU15(T) ( = LMG 27296(T) = CECT 8235(T)). © 2014 IUMS.

  11. Nocardia shinanonensis sp. nov., isolated from a patient with endophthalmitis.

    Science.gov (United States)

    Matsumoto, Takehisa; Negishi, Tatsuya; Hamada, Moriyuki; Komaki, Hisayuki; Gonoi, Tohru; Yaguchi, Takashi

    2016-09-01

    A nocardioform strain IFM 11456T was isolated from the aqueous humor from a patient with endophthalmitis and was characterized to its taxonomic position. IFM 11456T contained arabinose, galactose and meso-diaminopimelic acid in whole-cell hydrolysates and mycolic acids that co-migrated with those from the type strain of Nocardiaasteroides. The acyl type of muramic acid was N-glycolyl. The diagnostic polar lipids were phosphatidylethanolamine, diphosphatidylglycerol and two unidentified glycolipids and the predominant menaquinone was MK-8(H4, ω-cycl.). These characteristics are typical of members of the genus Nocardia. Results of phylogenetic analyses based on 16S rRNA gene sequences indicated that the isolate represented a novel species of the genus Nocardia and was most closely related to the type strains of Nocardia mikamii JCM 15508T (98.1 %) and Nocardiaaobensis IFM 0372T (98.1 %). However, analysis of partial gyrB sequences showed that strain IFM 11456T had 90.2 % similarity to Nocardia concava IFM 0354T and 90 % to Nocardianiigatensis IFM 0330T. The DNA-DNA relatedness values for strain IFM 11456T compared with N. mikamii JCM 15508T, N. aobensisIFM 0372T and N. concava IFM 0354T ranged from 24.4 to 39.9 %. Phenotypic characteristics that differentiated IFM 11456T from phylogenetically related species were growth at 45 °C, utilization of citrate and growth with inositol as a sole carbon source. On the basis of this polyphasic study, the isolate represents a novel species within the genus Nocardia, for which the name Nocardia shinanonensis sp. nov. is proposed. The type strain is IFM 11456T (=NBRC 109590T=TBRC 5149T).

  12. Rhizobium oryziradicis sp. nov., isolated from rice roots.

    Science.gov (United States)

    Zhao, Juan-Juan; Zhang, Jun; Sun, Lei; Zhang, Rui-Jie; Zhang, Cai-Wen; Yin, Hua-Qun; Zhang, Xiao-Xia

    2017-04-01

    Two Gram-stain-negative, aerobic, rod-shaped endophytic bacterial strains, N19T and N11-2, were isolated from fresh rice (Oryza sativa) roots during investigation of the rice endophytic bacterial diversity. The 16S rRNA gene sequence results indicated that the similarity between strains N19T and N11-2 was 100 %. Both of them belong to the genus Rhizobium, with close similarity to Rhizobium taibaishanense CCNWSX 0483T (97.7 %), followed by Rhizobium vitis NCPPB 3554T (97.5 %). The sequence similarities of the housekeeping genes recA, gyrB and glnA between the novel isolates and members of the established species of the genus Rhizobium were less than 87 %. The DNA-DNA hybridization rates between strains N19T and N11-2 were 87.9 % using the initial renaturation rate method. Based on draft genome sequences, strain N19T showed 18.2 % and 19.6 % DNA-DNA hybridization values to R. taibaishanense CCNWSX 0483T and R. vitis S4, which demonstrated that these new isolates represent a novel species in the genus Rhizobium. The main cellular fatty acids were summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c). The DNA G+C content of strain N19T was 58.7 mol% (Tm). The polar lipid profile of N19T consisted of phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylcholine, an unknown lipid, two unknown aminolipids and an unidentified aminophospholipid. According to physiological and biochemical characteristics and genotypic data, strains N19T and N11-2 are considered to represent a novel species of the genus Rhizobium, for which the name Rhizobium oryziradicis sp. nov. is proposed, with N19T (=ACCC 19962T=KCTC 52413T) as the type strain.

  13. Growth kinetics and biodeterioration of polypropylene microplastics by Bacillus sp. and Rhodococcus sp. isolated from mangrove sediment.

    Science.gov (United States)

    Auta, H S; Emenike, C U; Jayanthi, B; Fauziah, S H

    2018-02-01

    Interest in the biodegradation of microplastics is due to their ubiquitous distribution, availability, high persistence in the environment and deleterious impact on marine biota. The present study evaluates the growth response and mechanism of polypropylene (PP) degradation by Bacillus sp. strain 27 and Rhodococcus sp. strain 36 isolated from mangrove sediments upon exposure to PP microplastics. Both bacteria strains were able to utilise PP microplastic for growth as confirmed by the reduction of the polymer mass. The weight loss was 6.4% by Rhodococcus sp. strain 36 and 4.0% by Bacillus sp. strain 27 after 40days of incubation. PP biodegradation was further confirmed using Fourier-transform infrared spectroscopy and scanning electron microscopy analyses, which revealed structural and morphological changes in the PP microplastics with microbial treatment. These analyses showed that the isolates can colonise, modify and utilise PP microplastics as carbon source. Copyright © 2017 Elsevier Ltd. All rights reserved.

  14. Marinomonas epiphytica sp. nov., isolated from a marine intertidal macroalga.

    Science.gov (United States)

    Ojha, Anup Kumar; Verma, Ashish; Pal, Yash; Bhatt, Deepak; Mayilraj, Shanmugam; Krishnamurthi, Srinivasan

    2017-08-01

    A novel Gram-stain-negative, aerobic marine bacterial strain, SAB-3T, was isolated from brown macroalgae (Dictyota sp.) growing in the Arabian sea, Goa, India. The strain grew optimally at 30 °C, with 2.0-4.0 % (w/v) NaCl and at pH 7.0 on marine agar medium. Strain SAB-3T was unable to hydrolyse aesculin and did not grow in the presence of rifamycin but showed resistance to antibiotics such as cefadroxil and co-trimoxazole. The major fatty acids were summed feature 8 (C18 : 1ω7c/C18 : 1ω6c), summed feature 3 (C16 : 1ω7c/C16 : 1ω6c) and C16 : 0, and Q-8 was the major ubiquinone. The major polar lipids were phosphatidylglycerol and phosphatidylethanolamine. The DNA G+C content was 41.0 mol%. 16S rRNA gene sequencing and phylogenetic analysis indicated that the strain was a member of the genus Marinomonas with Marinomonas aquiplantarum IVIA-Po-159T (97.6 % similarity), Marinomonas posidonica IVIA-Po-181T (97.5 %) and Marinomonas dokdonensis DSM 17202T (97.4 %) as the closest relatives. Whole genome relatedness determined through DNA-DNA hybridization revealed values of 40-50 % (below the 70 % threshold recommended for species delineation) with the above three species, thus confirming it as representing a distinct and novel species of the genus Marinomonas for which the name Marinomonas epiphytica sp. nov. is proposed. The type strain is SAB-3T (=JCM 31365T=KCTC 52293T=MTCC 12569T).

  15. A Newly Isolated Thermostable Lipase from Bacillus sp.

    Science.gov (United States)

    Shariff, Fairolniza Mohd; Rahman, Raja Noor Zaliha Raja Abd.; Basri, Mahiran; Salleh, Abu Bakar

    2011-01-01

    A thermophilic lipolytic bacterium identified as Bacillus sp. L2 via 16S rDNA was previously isolated from a hot spring in Perak, Malaysia. Bacillus sp. L2 was confirmed to be in Group 5 of bacterial classification, a phylogenically and phenotypically coherent group of thermophilic bacilli displaying very high similarity among their 16S rRNA sequences (98.5–99.2%). Polymerase chain reaction (PCR) cloning of L2 lipase gene was conducted by using five different primers. Sequence analysis of the L2 lipase gene revealed an open reading frame (ORF) of 1251 bp that codes for 417 amino acids. The signal peptides consist of 28 amino acids. The mature protein is made of 388 amino acid residues. Recombinant lipase was successfully overexpressed with a 178-fold increase in activity compared to crude native L2 lipase. The recombinant L2 lipase (43.2 kDa) was purified to homogeneity in a single chromatography step. The purified lipase was found to be reactive at a temperature range of 55–80 °C and at a pH of 6–10. The L2 lipase had a melting temperature (Tm) of 59.04 °C when analyzed by circular dichroism (CD) spectroscopy studies. The optimum activity was found to be at 70 °C and pH 9. Lipase L2 was strongly inhibited by ethylenediaminetetraacetic acid (EDTA) (100%), whereas phenylmethylsulfonyl fluoride (PMSF), pepstatin-A, 2-mercaptoethanol and dithiothreitol (DTT) inhibited the enzyme by over 40%. The CD spectra of secondary structure analysis showed that the L2 lipase structure contained 38.6% α-helices, 2.2% ß-strands, 23.6% turns and 35.6% random conformations. PMID:21686158

  16. Brucella papionis sp. nov., isolated from baboons (Papio spp.).

    Science.gov (United States)

    Whatmore, Adrian M; Davison, Nicholas; Cloeckaert, Axel; Al Dahouk, Sascha; Zygmunt, Michel S; Brew, Simon D; Perrett, Lorraine L; Koylass, Mark S; Vergnaud, Gilles; Quance, Christine; Scholz, Holger C; Dick, Edward J; Hubbard, Gene; Schlabritz-Loutsevitch, Natalia E

    2014-12-01

    Two Gram-negative, non-motile, non-spore-forming coccoid bacteria (strains F8/08-60(T) and F8/08-61) isolated from clinical specimens obtained from baboons (Papio spp.) that had delivered stillborn offspring were subjected to a polyphasic taxonomic study. On the basis of 16S rRNA gene sequence similarities, both strains, which possessed identical sequences, were assigned to the genus Brucella. This placement was confirmed by extended multilocus sequence analysis (MLSA), where both strains possessed identical sequences, and whole-genome sequencing of a representative isolate. All of the above analyses suggested that the two strains represent a novel lineage within the genus Brucella. The strains also possessed a unique profile when subjected to the phenotyping approach classically used to separate species of the genus Brucella, reacting only with Brucella A monospecific antiserum, being sensitive to the dyes thionin and fuchsin, being lysed by bacteriophage Wb, Bk2 and Fi phage at routine test dilution (RTD) but only partially sensitive to bacteriophage Tb, and with no requirement for CO2 and no production of H2S but strong urease activity. Biochemical profiling revealed a pattern of enzyme activity and metabolic capabilities distinct from existing species of the genus Brucella. Molecular analysis of the omp2 locus genes showed that both strains had a novel combination of two highly similar omp2b gene copies. The two strains shared a unique fingerprint profile of the multiple-copy Brucella-specific element IS711. Like MLSA, a multilocus variable number of tandem repeat analysis (MLVA) showed that the isolates clustered together very closely, but represent a distinct group within the genus Brucella. Isolates F8/08-60(T) and F8/08-61 could be distinguished clearly from all known species of the genus Brucella and their biovars by both phenotypic and molecular properties. Therefore, by applying the species concept for the genus Brucella suggested by the ICSP

  17. Jeotgalicoccus halophilus sp. nov., isolated from salt lakes.

    Science.gov (United States)

    Liu, Wen-Yan; Jiang, Lin-Lin; Guo, Chun-Jing; Yang, Su Sheng

    2011-07-01

    Two slightly halophilic bacterial strains, C1-52(T) and YD-9, were isolated from Daban and Aiding salt lakes in Xinjiang, China, respectively. The isolates were gram-positive, non-endospore-forming, non-motile, facultatively anaerobic cocci. Colonies were pale yellow, and a light pink, diffusible pigment was produced after a few additional days of incubation. The isolates grew optimally with 2-3 % (w/v) NaCl, at pH 7.5 and at 30-35 °C. The peptidoglycan type was L-Lys-Gly(3-4)-L-Ala(Gly). The menaquinones were MK-7 (83.2 %) and MK-6 (16.8 %). The major fatty acids (>10 %) were anteiso-C(15 : 0) and iso-C(15 : 0). The DNA G+C content of strains C1-52(T) and YD-9 was 41.2 and 41.0 mol%, respectively. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strains C1-52(T) and YD-9 were closely related to Jeotgalicoccus psychrophilus YKJ-115(T) (98.0 and 97.1 % 16S rRNA gene sequence similarity, respectively), followed by Jeotgalicoccus halotolerans YKJ-101(T) (97.1 and 96.8 %). Strains C1-52(T) and YD-9 shared, respectively, 20 and 11 % DNA-DNA relatedness with J. halotolerans JCM 11198(T) and 8 and 13 % with J. psychrophilus JCM 11199(T). DNA-DNA relatedness between the isolates was 91 %. On the basis of phenotypic and phylogenetic distinctiveness, strains C1-52(T) and YD-9 belonged to the same species, which should be placed in the genus Jeotgalicoccus as a novel species. The name Jeotgalicoccus halophilus sp. nov. is proposed, with the type strain C1-52(T) ( = CGMCC 1.8911(T)  = NBRC 105788(T)).

  18. Methylobacterium haplocladii sp. nov. and Methylobacterium brachythecii sp. nov., isolated from bryophytes.

    Science.gov (United States)

    Tani, Akio; Sahin, Nurettin

    2013-09-01

    Pink-pigmented, facultatively methylotrophic bacteria, strains 87e(T) and 99b(T), were isolated from the bryophytes Haplocladium microphyllum and Brachythecium plumosum, respectively. The cells of both strains were Gram-reaction-negative, motile, non-spore-forming rods. On the basis of 16S rRNA gene sequence similarity, strains 87e(T) and 99b(T) were found to be related to Methylobacterium organophilum ATCC 27886(T) (97.1% and 97.7%, respectively). Strains 87e(T) and 99b(T) showed highest 16S rRNA gene similarity to Methylobacterium gnaphalii 23e(T) (98.3 and 99.0%, respectively). The phylogenetic similarities to all other species of the genus Methylobacterium with validly published names were less than 97%. Major cellular fatty acids of both strains were C(18:1)ω7c and C(18:0). The results of DNA-DNA hybridization, phylogenetic analyses based on 16S rRNA and cpn60 gene sequences, fatty acid profiles, whole-cell matrix-assisted, laser-desorption/ionization time-of-flight mass spectrometry (MALDI-TOF/MS) analysis, and physiological and biochemical tests allowed genotypic and phenotypic differentiation of strains 87e(T) and 99b(T) from their phylogenetically closest relatives. We propose that strains 87e(T) and 99b(T) represent novel species within the genus Methylobacterium, for which the names Methylobacterium haplocladii sp. nov. (type strain 87e(T) =DSM 24195(T) =NBRC 107714(T)) and Methylobacterium brachythecii sp. nov. (type strain 99b(T) =DSM 24105(T) =NBRC 107710(T)) are proposed.

  19. Lactobacillus insicii sp. nov., isolated from fermented raw meat.

    Science.gov (United States)

    Ehrmann, Matthias A; Kröckel, Lothar; Lick, Sonja; Radmann, Pia; Bantleon, Annegret; Vogel, Rudi F

    2016-01-01

    The analysis of the bacterial microbiota of retain samples of pork salami revealed an isolate (strain TMW 1.2011T) that could neither be assigned to typical genera of starter organisms nor to any other known meat-associated species. Cells were Gram-stain-positive, short, straight rods occurring singly, in pairs or short chains. Phylogenetic analysis of the 16S rRNA gene sequence and specific phenotypic characteristics showed that strain TMW 1.2011T belonged to the phylogenetic Lactobacillus alimentarius group, and the closest neighbours were Lactobacillus nodensis JCM 14932T (97.8 % 16S rRNA gene sequence similarity), Lactobacillus tucceti DSM 20183T (97.4 %), 'Lactobacillus ginsenosidimutans' EMML 3041 (97.3 %), Lactobacillus versmoldensis DSM 14857T (96.9 %) and Lactobacillus furfuricola JCM 18764T (97.2 %). Similarities using partial gene sequences of the alternative chronometers pheS, dnaK and rpoA also support these relationships. DNA-DNA relatedness between the novel isolate and L. nodensis JCM 14932T, L. versmoldensis DSM 14857T and L. tucceti DSM 20183T, L. furfuricola JCM 18764T and 'L. ginsenosidimutans' EMML 3041 were below 70 % and the DNA G+C content was 36.3 mol%. The cell-wall peptidoglycan type is l-Lys-Gly-d-Asp. Based on phylogenetic, chemotaxonomic and physiological evidence, strain TMW 1.2011T represents a novel species of the genus Lactobacillus, for which the name Lactobacillus insicii sp. nov. is proposed. The type strain is TMW 1.2011T ( = CECT 8802T = DSM 29801T).

  20. Lactobacillus mixtipabuli sp. nov. isolated from total mixed ration silage.

    Science.gov (United States)

    Tohno, Masanori; Kitahara, Maki; Irisawa, Tomohiro; Ohmori, Hideyuki; Masuda, Takaharu; Ohkuma, Moriya; Tajima, Kiyoshi

    2015-06-01

    Using a polyphasic taxonomic approach, we investigated three bacterial strains - IWT30T, IWT8 and IWT75 - isolated from total mixed ration silage prepared in Hachimantai, Iwate, Japan. The isolates comprised Gram-stain positive, non-motile, non-spore-forming, catalase-negative, rod-shaped bacteria. Good growth occurred at 15-45 °C and at pH 4.0-7.5. Their major cellular fatty acids were C18:1ω9c and C19:1 cyclo 9,10.The G+C content of genomic DNA of strain IWT30T was 44.6 mol%. Comparative 16S rRNA gene sequence analysis showed that these novel strains belonged to the genus Lactobacillus. These strains shared 100 % 16S rRNA gene sequence similarity and were most closely related to the type strains of Lactobacillus silagei, Lactobacillus odoratitofui, Lactobacillus similis, Lactobacillus collinoides, Lactobacillus paracollinoides and Lactobacillus kimchicus, with sequence similarity values of 99.5, 98.8, 98.7, 97.8, 97.8 and 96.8 %, respectively. The level of DNA-DNA relatedness between these strains and their closest phylogenetic neighbours was less than 30 %. On the basis of additional phylogenetic analysis of pheS and rpoA gene sequences and phenotypic and chemotaxonomic characteristics, we conclude that these three strains represent a novel species of the genus Lactobacillus, for which we propose the name Lactobacillus mixtipabuli sp. nov. The type strain is IWT30T ( = JCM 19805T = DSM 28580T).

  1. Cellulomonas carbonis sp. nov., isolated from coal mine soil.

    Science.gov (United States)

    Shi, Zunji; Luo, Guosheng; Wang, Gejiao

    2012-08-01

    A Gram-positive, aerobic, motile, rod-shaped bacterium, designated strain T26(T), was isolated from subsurface soil of Tianjin coal mine, China. Colonies were yellow-white, convex, circular, smooth and non-transparent on R2A agar. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain T26(T) was closely related to members of the genus Cellulomonas and a member of the genus Actinotalea with 96.8-94.7% and 96.7% gene sequence similarities, respectively. The peptidoglycan type of strain T26(T) was A4β, containing l-ornithine-d-glutamic acid as the interpeptide bridge. The cell-wall sugars were rhamnose, galactose, xylose and inositol. The major fatty acids (>10%) were anteiso-C(15:0) (33.6%), anteiso-C(15:1) A (22.1%), C(16:0) (14.4%) and C(14:0) (12.1%). The predominant respiratory quinone was MK-9(H(4)) and the genomic DNA G+C content was 74.4 mol%. The major polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol-mannosides and phosphatidylinositol. Comparison of phenotypic and phylogenetic characteristics between strain T26(T) and related organisms revealed that the new isolate represented a novel species of the genus Cellulomonas, for which the name Cellulomonas carbonis sp. nov. is proposed. The type strain is T26(T) ( = CGMCC 1.10786(T) = KCTC 19824(T) = CCTCC AB2010450(T)).

  2. Emticicia aquatilis sp. nov., isolated from a freshwater sample.

    Science.gov (United States)

    Ngo, Hien T T; Trinh, Huan; Yang, Jung-Eun; Won, Kyung-Hwa; Chu, Dong-Hun; Kook, MooChang; Yi, Tae-Hoo

    2017-06-01

    A Gram-stain-negative, facultatively anaerobic, non-motile, rod-shaped and yellow-pigmented bacterium, designated strain THG-DN6.14T, was isolated from a freshwater sample near Donghaksa temple in Daejeon, South Korea. On the basis of the results of 16S rRNA gene sequence comparisons, THG-DN6.14T was found to be most closely related to Emticicia sediminis JBR12T (99.1 % sequence similarity), Emticicia oligotrophica DSM 17448T (97.6 %), Emticicia aquatica HMF2925T (96.5 %), and Emticicia ginsengisoliGsoil 085T (94.4 %). The DNA-DNA relatedness between THG-DN6.14T and its phylogenetically closest neighbours was below 65.0 %. The DNA G+C content was 43.3 mol%. The major polar lipids were found to be phosphatidylethanolamine, an unidentified glycolipid and an unidentified aminoglycolipid. The major fatty acids were identified as C16 : 0, iso-C15 : 0, iso-C17 : 0 3-OH, and summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c). The respiratory quinone was menaquinone MK-7. These data supported the affiliation of THG-DN6.14T to the genus Emticicia. THG-DN6.14Tcould be distinguished from related species of the genus Emticicia by physiological and biochemical tests. Therefore, the novel isolate represents a novel species, for which the name Emticicia aquatilis sp. nov. is proposed, with THG-DN6.14T (=KACC 18540T=CGMCC 1.15958T) as the type strain.

  3. Bifidobacterium faecale sp. nov., isolated from human faeces.

    Science.gov (United States)

    Choi, Jung-Hye; Lee, Kyung Min; Lee, Myung-Ki; Cha, Chang-Jun; Kim, Geun-Bae

    2014-09-01

    A novel strain, designated strain CU3-7(T), was isolated from faeces of a two-week-old baby. The isolate was Gram-staining-positive, anaerobic and rod-shaped. Results from 16S rRNA gene sequence analysis revealed that strain CU3-7(T) was phylogenetically affiliated with members of the genus Bifidobacterium. Strain CU3-7(T) showed the highest level of sequence similarity with Bifidobacterium adolescentis KCTC 3216(T) (98.4 %), followed by Bifidobacterium ruminantium KCTC 3425(T) (97.9 %). Analysis of hsp60 sequences showed that strain CU3-7(T) was closely related to B. adolescentis KCTC 3216(T) (94.0 %) and B. ruminantium KCTC 3425(T) (92.5 %). The DNA-DNA hybridization values with the closely related strains were all below the cut-off value for species delineation, 17.0 % with B. ruminantium KCTC 3425(T) and 14.9 % with B. adolescentis KCTC 3216(T). Fructose-6-phosphate phosphoketolase activity was detected. The predominant cellular fatty acids were C16 : 0 (27.7 %), C18 : 1ω9c (27.4 %) and C18 : 1ω9c dimethylacetate (15.5 %). The DNA G+C content was 58.6 mol%. On the basis of polyphasic taxonomy, strain CU3-7(T) should be classified as the type strain of a novel species within the genus Bifidobacterium, for which the name Bifidobacterium faecale sp. nov. is proposed ( = KACC 17904(T) = JCM 19861(T)). © 2014 IUMS.

  4. Paenibacillus residui sp. nov., isolated from urban waste compost.

    Science.gov (United States)

    Vaz-Moreira, Ivone; Figueira, Vânia; Lopes, Ana Rita; Pukall, Rüdiger; Spröer, Cathrin; Schumann, Peter; Nunes, Olga C; Manaia, Célia M

    2010-10-01

    Two bacterial strains, MC-246(T) and MC-247, were isolated from municipal urban waste compost and characterized by a polyphasic approach. Both isolates were Gram-stain-variable, endospore-forming rods that were catalase-, oxidase- and β-galactosidase-positive, and able to grow at 25-50°C and pH 7.0-9.0, with optimum growth at 37°C and pH 7. The predominant cellular fatty acids were anteiso-C₁₅:₀, iso-C₁₅:₀, iso-C₁₆: ₀, anteiso-C₁₇:₀ and iso-C₁₇:₀; the major respiratory quinone was menaquinone MK-7; the cell wall peptidoglycan was of type A1γ; and the DNA G+C content was 49 mol%. These characteristics, as well as data from 16S RNA gene sequence analysis, showed that these strains were affiliated with the genus Paenibacillus; the type strains of Paenibacillus ginsengarvi and Paenibacillus hodogayensis were among their closest neighbours (< 94.2 % sequence similarity). Nevertheless, the hypothesis that strains MC-246(T) and MC-247 could represent a novel species was supported by the low 16S rRNA gene sequence similarity values shared with other members of the genus Paenibacillus and by the observation of distinct biochemical and physiological traits. Strains MC-246(T) and MC-247 shared 99.6 % 16S rRNA gene sequence similarity and showed almost identical MALDI-TOF mass spectra, but could be distinguished at the phenotypic and genotypic level. However, DNA-DNA hybridization between strains MC-246(T) and MC-247 resulted in values above 70 % indicating that both organisms represent a single species, for which the name Paenibacillus residui sp. nov. is proposed; the type strain is MC-246(T) (=DSM 22072(T) =CCUG 57263(T)).

  5. Burkholderia megalochromosomata sp. nov., isolated from grassland soil.

    Science.gov (United States)

    Baek, Inwoo; Seo, Boram; Lee, Imchang; Lee, Kihyun; Park, Sang-Cheol; Yi, Hana; Chun, Jongsik

    2015-03-01

    A Gram-stain negative, rod-shaped, non-spore-forming, obligate aerobic bacterial strain, JC2949(T), was isolated from grassland soil in Gwanak Mountain, Seoul, Republic of Korea. Phylogenetic analysis, based on 16S rRNA sequences, indicated that strain JC2949(T) belongs to the genus Burkholderia, showing highest sequence similarities with Burkholderia grimmiae R27(T) (98.8 %), Burkholderia cordobensis LMG 27620(T) (98.6 %), Burkholderia jiangsuensis MP-1T(T) (98.6 %), Burkholderia zhejiangensis OP-1(T) (98.5 %), Burkholderia humi LMG 22934(T) (97.5 %), Burkholderia terrestris LMG 22937(T) (97.3 %), Burkholderia telluris LMG 22936(T) (97.2 %) and Burkholderia glathei ATCC 29195(T) (97.0 %). The major fatty acids of strain JC2949(T) were C18 : 1ω7c, summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c) and C16 : 0. Its predominant polar lipids were phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylglycerol and an unknown amino phospholipid. The dominant isoprenoid quinone was ubiquinone Q-8. The pairwise average nucleotide identity values between strain JC2949(T) and the genomes of 30 other species of the genus Burkholderia ranged from 73.4-90.4 %, indicating that the isolate is a novel genomic species within this genus. Based on phenotypic and chemotaxonomic comparisons, it is clear that strain JC2949(T) represents a novel species of the genus Burkholderia. We propose the name for this novel species to be Burkholderia megalochromosomata sp. nov. The type strain is JC2949(T) ( = KACC 17925(T) = JCM 19905(T)). © 2015 IUMS.

  6. Pigmentiphaga aceris sp. nov., isolated from tree sap.

    Science.gov (United States)

    Lee, Soon Dong

    2017-09-01

    Two Gram-stain-negative bacterial strains, SAP-32T and SAP-36, were isolated from sap drawn from the Acer pictum from Mount Halla in Jeju, Republic of Korea. The organisms were strictly aerobic, non-sporulating, motile rods and showed growth at 10-30 °C, pH 7-8 and with 0-2 % NaCl. The major isoprenoid quinone was Q-8. The predominant fatty acids were C16 : 0, cyclo-C17 : 0, summed feature 3 and C18 : 0. The polar lipids contained phosphatidylcholine, phosphatidylethanolamine, phosphatidylglycerol, an unknown aminophosphoglycolipid, an unknown glycolipid, an unknown phospholipid and two unknown lipids. The DNA G+C content was 64.4 mol%. The results of phylogenetic analyses based on 16S rRNA gene sequences indicated that SAP-32T and SAP-36 formed a distinct cluster with members of the genus Pigmentiphaga within the family Alcaligenaceae. Both strains showed 16S rRNA gene sequence similarity of 100 % to each other. The closest relatives of the isolates were Pigmentiphaga daeguensis (97.08 % sequence similarity), Pigmentiphaga kullae (97.01 %) and Pigmentiphaga litoralis (96.73 %). On the basis of data from phenotypic, chemotaxonomic and phylogenetic analyses, SAP-32T (=KCTC 52619T=DSM 104039T) and SAP-36 (=KCTC 52620=DSM 104072) represent members of a novel species of the genus Pigmentiphaga, for which the name Pigmentiphaga aceris sp. nov. is proposed.

  7. Lactobacillus colini sp. nov., isolated from Northern Bobwhite (Colinus virginianus).

    Science.gov (United States)

    Zhang, Michael Z; Yang, Ming; Su, Hongwen; Rollins, Dale; Zhang, Shuping

    2017-02-01

    Biochemical and molecular studies were performed on five unknown bacterial strains isolated from the intestinal contents of Northern Bobwhites (Colinus virginianus) collected from western Texas, USA. The strains were Gram-stain-positive, catalase-negative, non-spore-forming rods arranged in single cells, pairs or short chains. Colonies on Columbia blood agar are circular, flat, entire, approximately 0.5-1.5 mm in diameter and surrounded with a zone of alpha-haemolysis at after incubation for 48 h at 37 °C. Colonies on MRS agar are umbonate with irregular edge, opaque and approximately 1-1.5 mm in diameter after incubation for 48 h. The 16S rRNA gene sequences of the isolates were identical and the highest sequence similarity (97 %) was found to the type strains of Lactobacillus gasseri, L. johnsonii and L. taiwanensis. The strains were distinguishable from related species of the genus Lactobacilluson the basis of carbohydrate fermentation, enzymatic production and fatty acid profiles. The peptidoglycan type is l-Lys-d-Asp (A4α). The DNA G+C content is 35.6 mol%. Major cellular fatty acids are C14 : 0, C16 : 0 and C18 : 1 ω9c. Based on phenotypic, phylogenetic and chemotaxonomic information, the strains represent a novel species of the genus Lactobacillus for which the name Lactobacillus colini sp. nov. is proposed. The type strain is 111144 L1T (=DSM 101872T=KCTC 21086T).

  8. Bacillus gottheilii sp. nov., isolated from a pharmaceutical manufacturing site.

    Science.gov (United States)

    Seiler, Herbert; Wenning, Mareike; Schmidt, Verena; Scherer, Siegfried

    2013-03-01

    A novel Gram-staining-positive, rod-shaped, motile, strictly aerobic, endospore-forming bacterium, designated WCC 4585(T), was isolated from a pharmaceutical production line. The organism grew optimally at 30 °C, at pH 8 and in the presence of 0.5 % (w/v) NaCl. Oval endospores were formed subterminally and terminally in swollen sporangia. The cell-wall diamino acid was meso-diaminopimelic acid (type A1γ) and the genomic DNA G+C content was 38.7 mol%. The major menaquinone was MK-7. The cellular fatty acid profile contained major amounts of iso-C15 : 0, anteiso-C15 : 0 and anteiso-C17 : 0, and the cellular phospholipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and aminophospholipid. The isolate was most closely related to Bacillus oceanisediminis H2(T), Bacillus infantis SMC 4352-1(T), Bacillus firmus NCIMB 9366(T), Bacillus circulans ATCC 4513(T) and Bacillus horneckiae DSM 23495(T) with which it shared less than 98.0 % 16S rRNA gene sequence similarity. DNA-DNA relatedness values between strain WCC 4585(T) and five type strains of related species were ≤27 % and sequence similarity values based on groEL sequences were ≤88.7 %. On the basis of the characteristics presented, strain WCC 4585(T) is proposed to represent a novel species, Bacillus gottheilii sp. nov. The type strain is WCC 4585(T)( = DSM 23668(T) = CCUG 59876(T) = LMG 25856(T)).

  9. Actinoplanes subglobosus sp. nov., isolated from mixed deciduous forest soil.

    Science.gov (United States)

    Ngaemthao, Wipaporn; Chunhametha, Suwanee; Suriyachadkun, Chanwit

    2016-11-01

    A novel filamentous bacterial strain, A-T 5400T, which developed subglobose sporangia at the end of sporangiophores on substrate mycelia, was isolated from mixed deciduous forest soil collected in Thailand. The taxonomic position of this micro-organism was described using a polyphasic approach. The 16S rRNA gene sequence and phylogenetic analysis indicated that strain A-T 5400T belonged to the genus Actinoplanes and was most closely related to 'Actinoplanes hulinensis' NEAU-M9 (98.82 % 16S rRNA gene sequence similarity) and Actinoplanes philippinensis NBRC 13878T (98.75 %). The DNA-DNA relatedness values that distinguished the novel strain from the closest species were below 70 %. The cell-wall peptidoglycan contained meso-diaminopimelic acid. The whole-cell sugars were ribose, galactose, glucose and xylose. The predominant menaquinone was MK-9(H4). The diagnostic phospholipids were phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylglycerol and phosphatidylinositol. The predominant cellular fatty acids were unsaturated fatty acids C16 : 1, branched fatty acids iso-C16 : 0 and iso-C15 : 0. The G+C content of the genomic DNA was 71 mol%. Following evidence from phenotypic, chemotaxonomic and genotypic studies, the new isolate is proposed to represent a novel species of the genus Actinoplanes named Actinoplanes subglobosus sp. nov. The type strain is A-T 5400T (=BCC 42734T=TBRC 5832T=NBRC 109645T).

  10. Arcobacter lekithochrous sp. nov., isolated from a molluscan hatchery.

    Science.gov (United States)

    Diéguez, Ana L; Balboa, Sabela; Magnesen, Thorolf; Romalde, Jesús L

    2017-05-01

    Four bacterial strains, LFT 1.7T, LT2C 2.5, LT4C 2.8 and TM 4.6, were isolated from great scallop (Pecten maximus) larvae and tank seawater in a Norwegian hatchery and characterized by a polyphasic approach including determination of phenotypic, chemotaxonomic and genomic traits. All were Gram-stain-negative, motile rods, oxidase- and catalase-positive and required sea salts for growth. Major fatty acids present were summed feature 3 (C16 : 1ω7c/C16 : 1ω6c), summed feature 8 (C18 : 1ω7c or C18 : 1ω6c), C16 : 0, C14 : 0, summed feature 2 (C14 : 0 3-OH/iso-C16 : 1 I), C12 : 0 3-OH and C12 : 0. Strain LFT 1.7T contained menaquinone MK-6 as the sole respiratory quinone. Phylogenetic analysis based on 16S rRNA gene sequences indicated that all strains formed a distinct lineage within the genus Arcobacter with a low similarity to known species (94.77-95.32 %). The DNA G+C content was 28.7 mol%. Results of in silico DNA-DNA hybridization and average nucleotide identity confirmed that the isolates constitute a novel species of Arcobacter, for which the name Arcobacter lekithochrous sp. nov. is proposed. The type strain is LFT 1.7T (=CECT 8942T=DSM 100870T).

  11. Lactobacillus curtus sp. nov., isolated from beer in Finland.

    Science.gov (United States)

    Asakawa, Yuki; Takesue, Nobuchika; Asano, Shizuka; Shimotsu, Satoshi; Iijima, Kazumaru; Suzuki, Koji; Motoyama, Yasuo; Aizawa, Masayuki

    2017-10-01

    A Gram-stain-positive, catalase-negative and short-rod-shaped organism, designated VTT E-94560, was isolated from beer in Finland and deposited in the VTT culture collection as a strain of Lactobacillus rossiae. However, the results of 16S rRNA gene sequence analysis showed that VTT E-94560 was only related to Lactobacillus rossiae JCM 16176T with 97.0 % sequence similarity, lower than the 98.7 % regarded as the boundary for the species differentiation. Additional phylogenetic studies on the pheS gene, rpoA gene and 16S-23S rRNA internally transcribed spacer region further reinforced the taxonomically independent status of VTT E-94560 and its related Lactobacillus species including L. rossiae and Lactobacillus siliginis. Strain VTT E-94560 also exhibited several differences in its carbohydrate fermentation profiles from those related Lactobacillus species. In addition, DNA-DNA relatedness between VTT E-94560 and these two type strains was 4 % (L. rossiae JCM 16176T) and 12 % (L. siliginins JCM 16155T), respectively, which were lower than the 70 % cut-off for general species delineation, indicating that these three strains are not taxonomically identical at the species level. These studies revealed that VTT E-94560 represents a novel species, for which the name Lactobacillus curtus sp. nov. is proposed. The type strain is VTT E-94560T (=JCM 31185T).

  12. Rhizobium cellulosilyticum sp. nov., isolated from sawdust of Populus alba.

    Science.gov (United States)

    García-Fraile, Paula; Rivas, Raúl; Willems, Anne; Peix, Alvaro; Martens, Miet; Martínez-Molina, Eustoquio; Mateos, Pedro F; Velázquez, Encarna

    2007-04-01

    During a study of polysaccharide-hydrolysing bacteria present in different plant sources, two strains were isolated from pulverized decaying wood of Populus alba and classified in the genus Rhizobium on basis of their almost complete 16S rRNA gene sequences. Their closest phylogenetic relatives were Rhizobium galegae USDA 4128(T) and Rhizobium huautlense S02(T), with 98.2 and 98.1 % 16S rRNA gene sequence similarity, respectively. recA and atpD sequence analysis showed that these species have less than 88 and 92 % similarity, respectively, to the novel strains. In contrast to their closest phylogenetic relatives, the two strains showed strong cellulase activity on plates containing CM-cellulose as a carbon source. They were also distinguishable from these species on the basis of other phenotypic characteristics. The strains were able to induce ineffective nodules on Medicago sativa and the sequence of their nodD gene was phylogenetically close to that of Ensifer meliloti 1021 (99.6 % similarity). DNA-DNA hybridization values ranged from 10 to 22 % with respect to R. galegae USDA 4128(T) and 14 to 25 % with respect to R. huautlense S02(T), showing that the strains from this study belong to a novel species, for which the name Rhizobium cellulosilyticum sp. nov. is proposed. The type strain is ALA10B2(T) (=LMG 23642(T)=DSM 18291(T)=CECT 7176(T)).

  13. Burkholderia sprentiae sp. nov., isolated from Lebeckia ambigua root nodules.

    Science.gov (United States)

    De Meyer, Sofie E; Cnockaert, Margo; Ardley, Julie K; Maker, Garth; Yates, Ron; Howieson, John G; Vandamme, Peter

    2013-11-01

    Seven Gram-stain-negative, rod-shaped bacteria were isolated from Lebeckia ambigua root nodules and authenticated on this host. Based on the 16S rRNA gene phylogeny, they were shown to belong to the genus Burkholderia, with the representative strain WSM5005(T) being most closely related to Burkholderia tuberum (98.08 % sequence similarity). Additionally, these strains formed a distinct group in phylogenetic trees based on the housekeeping genes gyrB and recA. Chemotaxonomic data including fatty acid profiles and analysis of respiratory quinones supported the assignment of the strains to the genus Burkholderia. Results of DNA-DNA hybridizations, and physiological and biochemical tests allowed genotypic and phenotypic differentiation of our strains from the closest species of the genus Burkholderia with a validly published name. Therefore, these strains represent a novel species for which the name Burkholderia sprentiae sp. nov. (type strain WSM5005(T) = LMG 27175(T) = HAMBI 3357(T)) is proposed.

  14. Chryseobacterium taichungense sp. nov., isolated from contaminated soil.

    Science.gov (United States)

    Shen, Fo-Ting; Kämpfer, Peter; Young, Chiu-Chung; Lai, Wei-An; Arun, A B

    2005-05-01

    A bacterial strain (CC-TWGS1-8(T)) isolated from a tar-contaminated soil in Taiwan was studied in a detailed taxonomic study. The cells were Gram-negative, rod-shaped and non-spore-forming. Phylogenetic analyses using the 16S rRNA gene sequence of the strain clearly revealed an affiliation to the genus Chryseobacterium, the highest sequence similarities being to the type strain of Chryseobacterium indologenes (96.8 %), to Chryseobacterium gleum (96.8 %) and to Chryseobacterium joostei (96.4 %). The 16S rRNA gene sequence similarities to all other Chryseobacterium species were below 96 %. The major whole-cell fatty acids were 15 : 0 iso (35.4 %) and 17 : 0 iso 3OH (22.5 %). DNA-DNA hybridization values and the biochemical and chemotaxonomic properties demonstrate that strain CC-TWGS1-8(T) represents a novel species, for which the name Chryseobacterium taichungense sp. nov. is proposed. The type strain is CC-TWGS1-8(T) (= CCUG 50001(T) = CIP 108519(T)).

  15. Cellulomonas marina sp. nov., isolated from deep-sea water.

    Science.gov (United States)

    Zhang, Limin; Xi, Lijun; Qiu, Danheng; Song, Lei; Dai, Xin; Ruan, Jisheng; Huang, Ying

    2013-08-01

    A bacterial strain FXJ8.089(T) was isolated from deep-sea water collected from the southwest Indian Ocean (49° 39' E 37° 47' S) at a depth of 2800 m, and its taxonomic position was investigated by a polyphasic approach. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain FXJ8.089(T) belonged to the genus Cellulomonas and had the highest similarities with Cellulomonas oligotrophica (96.9 %) and Cellulomonas aerilata (96.6 %). It contained MK-9(H4) as the predominant menaquinone. The polar lipids were diphosphatidylglycerol and phosphatidylinositol mannosides. The cell-wall peptidoglycan type was A4β with an interpeptide bridge L-Orn-D-Glu. The cell-wall sugars were glucose, mannose and ribose. The DNA G+C content was 70.3 mol%. The strain also showed a number of physiological and biochemical characteristics that were distinct from the closely related species. Based on phenotypic and genotypic data, strain FXJ8.089(T) (= CGMCC 4.6945(T) = DSM 24960(T)) represents a novel species of the genus Cellulomonas, for which the name Cellulomonas marina sp. nov. is proposed.

  16. Streptomyces pharmamarensis sp. nov. isolated from a marine sediment.

    Science.gov (United States)

    Carro, Lorena; Zúñiga, Paz; de la Calle, Fernando; Trujillo, Martha E

    2012-05-01

    A Gram-stain-positive actinobacterium, strain PM267(T), was isolated from a marine sediment sample in the Mediterranean Sea. The novel strain produced extensively branched substrate and aerial hyphae that carried spiral spore chains. Substrate and aerial mycelia were cream-white and white, respectively. Diffusible pigments were not observed. 16S rRNA gene sequence analysis revealed that strain PM267(T) belonged to the genus Streptomyces and shared a gene sequence similarity of 97.1 % with Streptomyces artemisiae YIM 63135(T) and Streptomyces armeniacus JCM 3070(T). Values <97 % were obtained with other sequences representing members of the genus Streptomyces. The cell wall peptidoglycan contained ll-diaminopimelic acid. MK-9(H(8)) was the major menaquinone. The phospholipid pattern included phosphatidylethanolamine as diagnostic lipid (type II). Major fatty acids found were iso- and anteiso- fatty acids. The G+C content of the DNA was 71.2 mol%. The strain was halotolerant and was able to grow in the presence of 9 % (w/v) NaCl (with an optimum of 2 %). On the basis of these results and additional physiological data obtained in the present study, strain PM267(T) represents a novel species within the genus Streptomyces for which the name Streptomyces pharmamarensis sp. nov. is proposed (type strain PM267(T)  = CECT 7841(T)  = DSM 42032(T)).

  17. Marinomonas mangrovi sp. nov., isolated from mangrove sediment.

    Science.gov (United States)

    Zhang, De-Chao; Margesin, Rosa

    2015-05-01

    A Gram-stain-negative, Na(+)-requiring bacterial strain, designated B20-1(T), was isolated from soil of the root system of mangrove forest. Cells were curved rods and motile by means of a polar flagellum. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain B20-1(T) belonged to the genus Marinomonas , sharing highest sequence similarities with Marinomonas rhizomae IVIA-Po-145(T) (97.6%), Marinomonas dokdonensis DSW10-10(T) (97.0%) and Marinomonas foliarum IVIA-Po-155(T) (96.9%). The predominant cellular fatty acids of strain B20-1(T) were C10 : 0 3-OH, C18 : 1ω7c, summed feature 3 (C16 : 1ω7c and/or iso-C15 : 0 2-OH) and C16 : 0. Phosphatidylethanolamine and phosphatidylglycerol were identified as the predominant phospholipids. The predominant ubiquinone was Q-8. The genomic DNA G+C content of strain B20-1(T) was 46.6 mol%. On the basis of phenotypic characteristics, phylogenetic analysis and DNA-DNA relatedness, a novel species, Marinomonas mangrovi sp. nov., is proposed with B20-1(T) ( =DSM 28136(T) =LMG 28077(T)) as the type strain. © 2015 IUMS.

  18. Prevotella saccharolytica sp. nov., isolated from the human oral cavity.

    Science.gov (United States)

    Downes, Julia; Tanner, Anne C R; Dewhirst, Floyd E; Wade, William G

    2010-10-01

    Two strains of anaerobic, Gram-stain-negative bacilli isolated from the human oral cavity (D033B-12-2(T) and D080A-01) were subjected to a comprehensive range of phenotypic and genotypic tests and were found to be distinct from any previously described species. 16S rRNA gene sequence analysis revealed that the strains were related most closely to the type strain of Prevotella marshii (93.5 % sequence identity). The novel strains were saccharolytic and produced acetic acid and succinic acid as end products of fermentation. The principal cellular long-chain fatty acids were C₁₆ :₀), iso-C₁₄:₀, C₁₄:₀, anteiso-C₁₅:₀, iso-C₁₆ :₀ and C₁₆:₀) 3-OH. The G+C content of the DNA of strain D033B-12-2(T) was 44 mol%. Strains D033B-12-2(T) and D080A-01 are considered to represent a single novel species of the genus Prevotella, for which the name Prevotella saccharolytica sp. nov. is proposed. The type strain is D033B-12-2(T) (=DSM 22473(T) =CCUG 57944(T)).

  19. Prevotella colorans sp. nov., isolated from a human wound.

    Science.gov (United States)

    Buhl, Michael; Willmann, Matthias; Liese, Jan; Autenrieth, Ingo B; Marschal, Matthias

    2016-08-01

    A strain of obligately anaerobic, Gram-stain-negative and non-spore-forming rod-shaped bacterium was isolated from a human wound and characterized both phenotypically and genotypically. The strain was moderately saccharolytic and proteolytic. Phylogenetic analysis was based on full-length 16S rRNA gene sequence analysis and revealed the strain to represent a member of the genus Prevotella, but to be different from the described species, with the closest relationship to Prevotella bergensis and Prevotella multisaccharivorax. The genomic DNA G+C content was 43.2 mol%. The most abundant cellular long-chain fatty acids were 3-OH iso-C17 : 0, anteiso-C15 : 0 and iso-C15 : 0. In view of phenotypical and biochemical characteristics as well as gene sequencing, strain A1336T is considered to represent a novel species within the genus Prevotella, for which the name Prevotella colorans sp. nov. is proposed. The type strain is A1336T (=DSM 100333T =CCUG 67421T =CCOS 902T).

  20. Methylobacterium oxalidis sp. nov., isolated from leaves of Oxalis corniculata.

    Science.gov (United States)

    Tani, Akio; Sahin, Nurettin; Kimbara, Kazuhide

    2012-07-01

    A pink-pigmented, facultatively methylotrophic bacterium, strain 35a(T), was isolated from the leaves of Oxalis corniculata. Cells of strain 35a(T) were Gram-reaction-negative, motile, non-spore-forming rods. The highest 16S rRNA gene pairwise sequence similarities for strain 35a(T) were found with the strains of Methylobacterium iners 5317S-33(T) (96.7%), 'Methylobacterium soli' YIM 48816 (96.6%) and Methylobacterium jeotgali S2R03-9(T) (96.3%). 16S rRNA gene sequence similarities with the type strains of all other recognized species of the genus Methylobacterium were below 96%. Major cellular fatty acids were C(18:1)ω7c, C(18:0) and C(16:0). The results of DNA-DNA hybridization experiments, analysis of cpn60 gene sequences, fatty acid profiles, whole-cell MALDI-TOF/MS spectral pattern analysis, and physiological and biochemical tests allowed genotypic and phenotypic differentiation of strain 35a(T) from its nearest phylogenetic neighbours. Strain 35a(T) is therefore considered to represent a novel species within the genus Methylobacterium, for which the name Methylobacterium oxalidis sp. nov. is proposed. The type strain is 35a(T) (=DSM 24028(T)=NBRC 107715(T)).

  1. Methylobacterium tarhaniae sp. nov., isolated from arid soil.

    Science.gov (United States)

    Veyisoglu, Aysel; Camas, Mustafa; Tatar, Demet; Guven, Kiymet; Sazak, Anil; Sahin, Nevzat

    2013-08-01

    A reddish-orange-pigmented, Gram-stain-negative, aerobic, facultatively methylotrophic strain, N4211(T), isolated from arid soil, collected from Abuja, Nigeria, was analysed by using a polyphasic approach. Phylogenetic analysis, based on 16S rRNA gene sequences, showed that strain N4211(T) belonged to the genus Methylobacterium. Strain N4211(T) was most closely related to Methylobacterium aquaticum GR16(T) (98.56 %), Methylobacterium platani PMB02(T) (97.95 %) and Methylobacterium variabile GR3(T) (97.2 %), and the phylogenetic similarities to all other species of the genus Methylobacterium with validly published names were less than 97.0 %. The major ubiquinones detected were Q-10. The major fatty acids were summed feature 7 (C18 : 1 cis11/t9/t6). The DNA G+C content was 67.3 mol%. DNA-DNA relatedness of strain N4211(T) and the most closely related strains M. aquaticum DSM 16371(T) and M. platani KCTC 12901(T) were 60.0 and 48.2 %, respectively. On the basis of phenotypic, phylogenetic and DNA-DNA hybridization data, strain N4211(T) is assigned to a novel species of the genus Methylobacterium for which the name Methylobacterium tarhaniae sp. nov. is proposed. The type strain is N4211(T)( = KCTC 23615(T) = DSM 25844(T)).

  2. Methylobacterium dankookense sp. nov., isolated from drinking water.

    Science.gov (United States)

    Lee, Si-Won; Oh, Hyun-Woo; Lee, Kang-Hyun; Ahn, Tae-Young

    2009-12-01

    A pink-pigmented bacterium, designated SW08-7(T) was isolated from the drinking water of a water purifier. Cells were Gram-negative, rod-shaped, strictly aerobic, and non-spore-forming. It grew optimally at 25 degrees C, pH 6 approximately 7. Phylogenese analysis based on 16S rRNA gene sequence showed that strain SW08-7(T) belongs to the genus Methylobacterium. The highest 16S rRNA gene sequence similarities were found to Methylobacterium mesophilicum JCM 2829(T) (96.9%), Methylobacterium brachiatum B0021(T) (96.9%), Methylobacterium phyllosphaerae CBMB27(T) (96.6%), Methylobacterium radiotolerans JCM 2831(T) (96.6%), and Methylobacterium hispanicum GP34(T) (96.5%). DNA-DNA hybridization experiment revealed low-level (28.5%) of DNA-DNA relatedness between strain SW08-7(T) and Methylobacterium hispanicum. The genomic DNA G+C content was 68.9 mol% and the major isoprenoid quinone was Q-10. The major cellular fatty acid of strain SW08-7(T) was C(18:1) omega7c (79.8+/-2.1%). Results of phylogenetic, phenotypic, and biochemical analyses revealed that strain SW08-7(T) could be classified as representing a novel species of genus Methylobacterium, for which the name Methylobacterium dankookense sp. nov. is proposed. The type strain is SW08-7(T) (=KCTC 22512(T) =DSM 22415(1)).

  3. Methylobacterium gnaphalii sp. nov., isolated from leaves of Gnaphalium spicatum.

    Science.gov (United States)

    Tani, Akio; Sahin, Nurettin; Kimbara, Kazuhide

    2012-11-01

    A pink-pigmented, facultatively methylotrophic bacterium, strain 23e(T), was isolated from the leaves of Gnaphalium spicatum (cudweed). The cells of strain 23e(T) were Gram-reaction negative, motile and non-spore-forming rods. On the basis of 16S rRNA gene sequence similarities, strain 23e(T) was related to Methylobacterium organophilum ATCC 27886(T) (97.1%) and Methylobacterium marchantiae JT1(T) (97%), and the phylogenetic similarities to all other Methylobacterium species with validly published names were less than 97%. Major cellular fatty acids were C(18:1)ω7c, C(16:00) and C(18:0). The results of DNA-DNA hybridization, phylogenetic analyses based on 16S rRNA and cpn60 gene sequences, fatty acid profiles, whole-cell matrix-assisted laser desorption/ionization time of flight/MS analysis, physiological and biochemical tests allowed genotypic and phenotypic differentiation of strain 23e(T) from the phylogenetically closest relatives. We propose that strain 23e(T) represents a novel species within the genus Methylobacterium, for which the name Methylobacterium gnaphalii sp. nov. is proposed. The type strain is 23e(T) (=DSM 24027(T)=NBRC 107716(T)).

  4. Arcticibacter pallidicorallinus sp. nov. isolated from glacier ice.

    Science.gov (United States)

    Liu, Qing; Kim, Song-gun; Liu, Hong-can; Xin, Yu-hua; Zhou, Yu-guang

    2014-07-01

    A Gram-stain-negative, rod-shaped bacterium (strain Hh36(T)) was isolated from the No. 1 glacier in Xinjiang, north-west China. Colonies of strain Hh36(T) were pink, convex and round on PYG medium plates. Strain Hh36(T) was able to grow at 4-30 °C and pH 6.0-8.0. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain Hh36(T) was related to members of the genus Arcticibacter. The major cellular fatty acids of the novel strain were iso-C15 : 0, summed feature 3 (C16 : 1ω6c and/or C16 : 1ω7c) and iso-C17 : 0 3-OH. The G+C content of the genomic DNA was 44.0 mol%. On the basis of phenotypic characteristics and phylogenetic analysis, strain Hh36(T) is considered to represent a novel species of the genus Arcticibacter, for which the name Arcticibacter pallidicorallinus sp. nov. is proposed. The type strain is Hh36(T) ( = CGMCC 1.9313(T)  = KCTC 32542(T)). © 2014 Institute of Microbiology, Chinese Academy of Sciences.

  5. Hymenobacter frigidus sp. nov., isolated from a glacier ice core.

    Science.gov (United States)

    Gu, Zhengquan; Liu, Yongqin; Xu, Baiqing; Wang, Ninglian; Jiao, Nianzhi; Shen, Liang; Liu, Hongcan; Zhou, Yuguang; Liu, Xiaobo; Li, Jiule; Sun, Jia

    2017-10-01

    A psychrophilic, Gram-stain-negative, rod-shaped, red-pigmented bacterium, designated strain B1789T, was isolated from an ice core of Muztagh Glacier on the Tibetan Plateau in China. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain B1789T was related to members of the genus Hymenobacter and had highest sequence similarity with Hymenobacter antarcticus JCM 17217T (97.9 %). The major menaquinone was MK-7 and the major polar lipid was phosphatidylethanolamine. The predominant fatty acids were iso-C15 : 0, anteiso-C15 : 0 and summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c). The DNA G+C content was 59.4 mol%. In DNA-DNA hybridization tests, strain B1789T shared 42 % relatedness with H. antarcticus JCM 17217T. Based on the results of phenotypic and chemotaxonomic tests, strain B1789T was considered as representing a novel species of the genus Hymenobacter, for which the name Hymenobacter frigidus sp. nov. is proposed. The type strain is B1789T (=JCM 30595T=CGMCC 1.14966T).

  6. Chitinophaga vermicomposti sp. nov., with antifungal activity, isolated from vermicompost.

    Science.gov (United States)

    Yasir, Muhammad; Aslam, Zubair; Song, Geun Cheol; Bibi, Fehmida; Jeon, Che Ok; Chung, Young Ryun

    2010-01-01

    A Gram-negative, rod-shaped bacterial strain, YC6729T, was isolated from the vermicompost (VC) collected at Masan, Korea and its taxonomic position was investigated by a polyphasic taxonomic approach. Strain YC6729T grew optimally at 30 degrees C and at pH 6.5-8.5. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain YC6729T belongs to the genus Chitinophaga in the family Chitinophagaceae. Most closely related species are Chitinophaga terra KP01T (96.4 %), Chitinophaga ginsengisegetis Gsoil 040T (96.1 %) and Chitinophaga arvensicola IAM 12650T (96.1 %). Strain YC6729T contained MK-7 as the major menaquinone and homospermidine as the major polyamine. The major fatty acids of strain YC6729T C15:0 iso, C16:1omega5c and C17:0 iso 3-OH. The total DNA G+C content was 48.9 mol%. The phenotypic, chemotaxonomic and phylogenetic data showed that strain YC6729T represents a novel species of the genus Chitinophaga, for which the name Chitinophaga vermicomposti sp. nov. is proposed. The type strain is YC6729T (= KACC 13774T = DSM 22224T).

  7. Burkholderia dilworthii sp. nov., isolated from Lebeckia ambigua root nodules.

    Science.gov (United States)

    De Meyer, Sofie E; Cnockaert, Margo; Ardley, Julie K; Van Wyk, Ben-Erik; Vandamme, Peter A; Howieson, John G

    2014-04-01

    Three strains of Gram-stain-negative, rod-shaped bacteria were isolated from Lebeckia ambigua root nodules and authenticated on this host. Based on the 16S rRNA gene sequence phylogeny, they were shown to belong to the genus Burkholderia, with the representative strain WSM3556(T) being most closely related to Burkholderia caledonica LMG 23644(T) (98.70 % 16S rRNA gene sequence similarity) and Burkholderia rhynchosiae WSM3937(T) (98.50 %). Additionally, these strains formed a distinct group in phylogenetic trees of the housekeeping genes gyrB and recA. Chemotaxonomic data, including fatty acid profiles and analysis of respiratory quinones, supported the assignment of our strains to the genus Burkholderia. Results of DNA-DNA hybridizations, MALDI-TOF MS analysis and physiological and biochemical tests allowed genotypic and phenotypic differentiation of our strains from their nearest neighbour species. Therefore, these strains represent a novel species, for which the name Burkholderia dilworthii sp. nov. is proposed, with the type strain WSM3556(T) ( = LMG 27173(T) = HAMBI 3353(T)).

  8. Burkholderia rhynchosiae sp. nov., isolated from Rhynchosia ferulifolia root nodules.

    Science.gov (United States)

    De Meyer, Sofie E; Cnockaert, Margo; Ardley, Julie K; Trengove, Robert D; Garau, Giovanni; Howieson, John G; Vandamme, Peter

    2013-11-01

    Two strains of Gram-stain-negative, rod-shaped bacteria were isolated from root nodules of the South African legume Rhynchosia ferulifolia and authenticated on this host. Based on phylogenetic analysis of the 16S rRNA gene, strains WSM3930 and WSM3937(T) belonged to the genus Burkholderia, with the highest degree of sequence similarity to Burkholderia terricola (98.84 %). Additionally, the housekeeping genes gyrB and recA were analysed since 16S rRNA gene sequences are highly similar between closely related species of the genus Burkholderia. The results obtained for both housekeeping genes, gyrB and recA, showed the highest degree of sequence similarity of the novel strains towards Burkholderia caledonica LMG 19076(T) (94.2 % and 94.5 %, respectively). Chemotaxonomic data, including fatty acid profiles and respiratory quinone data supported the assignment of strains WSM3930 and WSM3937(T) to the genus Burkholderia. DNA-DNA hybridizations, and physiological and biochemical tests allowed genotypic and phenotypic differentiation of strains WSM3930 and WSM3937(T) from the most closely related species of the genus Burkholderia with validly published names. We conclude, therefore, that these strains represent a novel species for which the name Burkholderia rhynchosiae sp. nov. is proposed, with strain WSM3937(T) ( = LMG 27174(T) = HAMBI 3354(T)) as the type strain.

  9. Polyhydroxyalkanoate production from crude glycerol by newly isolated Pandoraea sp.

    Directory of Open Access Journals (Sweden)

    Fabrício Coutinho de Paula

    2017-04-01

    Full Text Available A new bacterial strain was isolated from Atlantic rainforest in Brazil for polyhydroxyalkanoate (PHA production utilizing crude glycerol from biodiesel industry (CG and it was identified as Pandoraea sp. MA03. Shake flask experiments were performed at 10–50 g L−1 carbon source and showed the best values of poly(3-hydroxybutyrate (P3HB production from CG cultivations compared to pure glycerol, with a polymer accumulation ranging from 49.0% to 63.6% cell dry weight (CDW. The results obtained from this study showed a positive effect of contaminant NaCl on P3HB synthesis up to 30 g L−1 CG. Poly(3-hydroxybutyrate-co-3-hydroxyvalerate [P(3HB-co-3HV] production was obtained from CG plus propionic acid with up to 25.9 mol% 3HV. Since it is interesting the utilization of CG for obtaining added-value products along with biodiesel, this study reported a novel and promising PHA-producing bacterial strain as an additional effort to enhance the viability of a sustainable industry based on biofuels and biopolymers.

  10. Saccharothrix ecbatanensis sp. nov., an actinobacterium isolated from soil.

    Science.gov (United States)

    Mohammadipanah, Fatemeh; Hamedi, Javad; Schumann, Peter; Spröer, Cathrin; Carmen Montero-Calasanz, María Del; Klenk, Hans-Peter

    2015-12-01

    A novel actinomycete, designated HM 537T, was isolated from soil in Hamedan Province, Iran. Cell-wall hydrolysates of strain HM 537T contained meso-diaminopimelic acid, and whole-cell hydrolysates contained ribose, glucose, galactose, rhamnose and traces of mannose. The main phospholipids were diphosphatidylglycerol, phosphatidylethanolamine, hydroxyphosphatidylethanolamine, phosphatidylinositol and an unknown phospholipid. MK-9(H4), an unknown MK and MK-10(H4) were the predominant menaquinones. The major fatty acids included iso-C16 : 0, iso-C15 : 0, iso-C16 : 1 G and 9(?)-methyl C16 : 0. Strain HM 537T had the highest 16S rRNA gene sequence similarity to Saccharothrix hoggarensis DSM 45457T (99.5 %) and Saccharothrix saharensis DSM 45456T (99.0 %). DNA-DNA hybridization studies showed relatedness values of 13.8 ± 3.3 % with S. hoggarensis DSM 45457T and 16.3 ± 3.5 % with S. saharensis DSM 45456T. Based on the results of phenotypic and genotypic studies, strain HM 537T represents a novel species of the genus Saccharothrix, for which the name Saccharothrix ecbatanensis sp. nov. is proposed. The type strain is HM 537T ( = DSM 45486T = UTMC 00537T = CCUG 63021T).

  11. Legionella saoudiensis sp. nov., isolated from a sewage water sample.

    Science.gov (United States)

    Bajrai, Leena Hussein; Azhar, Esam Ibraheem; Yasir, Muhammad; Jardot, Priscilla; Barrassi, Lina; Raoult, Didier; La Scola, Bernard; Pagnier, Isabelle

    2016-11-01

    A Gram-stain-negative, bacilli-shaped bacterial strain, LS-1T, was isolated from a sewage water sample collected in Jeddah, Saudi Arabia. The taxonomic position of strain LS-1T was investigated using a polyphasic taxonomic approach. Phylogenetic analysis based on 16S rRNA gene sequences and those of four other genes indicated that strain LS-1T belongs to the genus Legionella in the family Legionellaceae. Regarding the 16S rRNA gene, the most closely related species are Legionella rowbothamii LLAP-6T (98.6 %) and Legionella lytica L2T (98.5 %). The mip gene sequence of strain LS-1T showed 94 % sequence similarity with that of L. lytica L2T and 93 % similarity with that of L. rowbothamii LLAP-6T. Strain LS-1T grew optimally at a temperature of 32 °C on a buffered charcoal yeast extract (BCYE) agar plate in a 5 % CO2 atmosphere and had a flagellum. The combined phylogenetic, phenotypic and genomic sequence data suggest that strain LS-1T represents a novel species of the genus Legionella, for which the name Legionella saoudiensis sp. nov. is proposed. The type strain is LS-1T (=DSM 101682T=CSUR P2101T).

  12. Actinomyces gaoshouyii sp. nov., isolated from plateau pika (Ochotona curzoniae).

    Science.gov (United States)

    Meng, Xiangli; Wang, Yiting; Lu, Shan; Lai, Xin-He; Jin, Dong; Yang, Jing; Xu, Jianguo

    2017-09-01

    Two strains (pika_113T and pika_114) of a previously undescribed Actinomyces-like bacterium were recovered from the intestinal contents of plateau pika (Ochotona curzoniae) on the Tibet-Qinghai Plateau, China. Results from biochemical characterization indicated that the two strains were phenotypically homogeneous and distinct from other previously described species of the genus Actinomyces. Based on the comparison of 16S rRNA gene sequences and genome analysis, the bacteria were determined to be a hitherto unknown subline within the genus Actinomyces, being most closely related to type strains of Actinomyces denticolens and Actinomyces timonensis with a respective 97.2 and 97.1 % similarity in their 16S rRNA gene sequences. Phylogenetic analyses confirmed that pika_113T was well separated from any other recognized species of the genus Actinomyces and within the cluster with A. denticolens and A. timonensis. The genome of strain pika_113T displayed less than 42 % relatedness in DNA-DNA hybridization with all the available genomes of existing species of the genus Actinomyces in the NCBI database. Collectively, based on the phenotypic characteristics and phylogenetic analyses results, we propose the novel isolates as representatives of Actinomyces gaoshouyii sp. nov. The type strain of Actinomyces gaoshouyii is pika_113T (=CGMCC 4.7372T=DSM 104049T), with a genomic DNA G+C content of 71 mol%.

  13. Ferruginibacter yonginensis sp. nov., isolated from a mesotrophic artificial lake.

    Science.gov (United States)

    Lee, Beom-Il; Kang, Heeyoung; Kim, Haneul; Joung, Yochan; Joh, Kiseong

    2014-03-01

    A Gram-stain-negative, rod-shaped, aerobic and reddish-pigmented strain, designated HME8442(T), was isolated from a mesotrophic artificial lake. The strain grew optimally at 30 °C and pH 7 on R2A agar. The major fatty acid was iso-C15 : 0. The polar lipids were phosphatidylethanolamine, one unidentified aminolipid and three unidentified polar lipids. The predominant respiratory quinone was MK-7. The DNA G+C content was 35.8 mol%. Strain HME8442(T) was closely related to Ferruginibacter lapsinanis HU1-HG42(T) (94.4 % 16S rRNA gene sequence similarity) and Ferruginibacter alkalilentus HU1-GD23(T) (93.9 %). The phylogenetic tree based on 16S rRNA gene sequences showed that strain HME8442(T) formed a lineage within the genus Ferruginibacter. On the basis of the evidence presented in this study, strain HME8442(T) represents a novel species of the genus Ferruginibacter, for which the name Ferruginibacter yonginensis sp. nov. is proposed. The type strain is HME8442(T) ( = KACC 17314(T) = CECT 8289(T)).

  14. Thioclava arenosa sp. nov., isolated from sea sand.

    Science.gov (United States)

    Thongphrom, Chutimon; Kim, Jong-Hwa; Bora, Nagamani; Kim, Wonyong

    2017-06-01

    A Gram-staining-negative, non-spore-forming, non-motile, rod-shaped, facultatively anaerobe bacterial strain, designated CAU 1312T, was isolated from sea sand of Eurwangri beach, South Korea. The strain's taxonomic position was investigated using a polyphasic approach. CAU 1312T grew at temperatures from 20 to 40 °C, in the range of pH 6.0-9.0 and at salinities from 1-4 % (w/v). The results of phylogenetic analysis based on the 16S rRNA gene sequence revealed that CAU 1312T represented a member of the genus Thioclava and was most closely related to Thioclava atlantica 13D2W-2T (similarity 96.53 %). The strain contained Q-10 as the predominant menaquinone and summed feature 8 (C18 : 1ω7c/ω6c) as the major fatty acid. The polar lipids of CAU 1312T consisted of phosphatidylethanolamine, phosphatidylglycerol, two aminophospholipids, a phosphoglycolipid, and two unidentified phospholipids. The DNA G+C content was 64.7 mol%. On the basis of phenotypic and chemotaxonomic properties and phylogenetic inference, CAU 1312T is considered to represent a novel species of the genus Thioclava, for which the name Thioclava arenosa sp. nov. is proposed. The type strain is CAU 1312T(=KCTC 52190T=NBRC 111989T).

  15. Lactobacillus silagincola sp. nov. and Lactobacillus pentosiphilus sp. nov., isolated from silage.

    Science.gov (United States)

    Tohno, Masanori; Tanizawa, Yasuhiro; Irisawa, Tomohiro; Masuda, Takaharu; Sakamoto, Mitsuo; Arita, Masanori; Ohkuma, Moriya; Kobayashi, Hisami

    2017-09-01

    Three Gram-stain positive, non-motile, non-spore-forming, catalase-negative and rod-shaped bacterial strains (IWT5T, IWT25T and IWT140), isolated from silage, were investigated by using a polyphasic taxonomic approach. Strains IWT5T and IWT25T grew at 10-37 °C and 30-37 °C, and at pH 4.0-7.5 and 4.0-7.0, respectively. The G+C contents of genomic DNA of strains IWT5T and IWT25T were 43.2 and 44.4 mol%, respectively. Strains IWT5T and IWT25T contained C16 : 0, C18 : 1 ω9c and summed feature 7 (unknown 18.846/C19 : 1 ω6c/C19 : 0cyclo ω10c) as the major fatty acids. Strain IWT5T was most closely related to the type strains of Lactobacillus mixtipabuli (99.9 % 16S rRNA gene sequence similarity) and Lactobacillus silagei (99.5 %). For IWT25T, the 16S rRNA gene sequence similarities with the closely related neighbour type strains L. mixtipabuli and L. silagei were 99.5 and 99.5 %, respectively. The 16S rRNA gene sequence similarities among the three novel isolates were 99.5-99.9 %. The average nucleotide identities of strains IWT5T and IWT25T to other neighbours of the genus Lactobacillus were less than 82 % and the genomes of IWT25T and IWT140 shared 97.3 % average nucleotide identity, demonstrating that the three strains were allocated to two different novel species of the genus Lactobacillus. Together with multilocus sequence analysis, phenotypic and chemotaxonomic characteristics, strains IWT5T (=JCM 31144T=DSM 102973T) and IWT25T (=JCM 31145T=DSM 102974T) are proposed as the type strains of novel species of the genus Lactobacillus, with the names Lactobacillus silagincola sp. nov. and Lactobacillus pentosiphilus sp. nov., respectively.

  16. Halobacillus dabanensis sp. nov. and Halobacillus aidingensis sp. nov., isolated from salt lakes in Xinjiang, China.

    Science.gov (United States)

    Liu, W Y; Zeng, J; Wang, L; Dou, Y T; Yang, S S

    2005-09-01

    Two moderately halophilic spore-forming bacteria were isolated from salt lakes in the Xinjiang region of China. The two strains, designated AD-6(T) and D-8(T), were aerobic, Gram-positive, rod-shaped and motile by means of peritrichous flagella. Strains AD-6(T) and D-8(T) grew in the presence of 0.5-20% and 0.5-25% (w/v) NaCl in complex medium, respectively. Their cell-wall peptidoglycan was of the L-Orn-D-Asp type. The major menaquinone found in both strains was menaquinone-7 (MK-7). The fatty acid profile contained a large amount of branched fatty acids; the main fatty acids were anteiso-C(15:0), anteiso-C(17:0), iso-C(15:0) and iso-C(16:0). The DNA G+C content of strains D-8(T) and AD-6(T) was 41.4 and 42.2 mol%, respectively. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strains D-8(T) and AD-6(T) were located in the genus Halobacillus. Levels of 16S rRNA gene sequence similarity between the isolated strains and the type strains of Halobacillus species were in the range 96.2-99.5%. DNA-DNA relatedness values of 17.0-52.2% were found between the two strains and other Halobacillus species. The DNA-DNA relatedness value between D-8(T) and AD-6(T) was 50.6%. On the basis of phenotypic and chemotaxonomic properties, phylogenetic analysis and genomic distinctiveness, strains D-8(T) and AD-6(T) should be placed in the genus Halobacillus as two novel species, for which the names Halobacillus dabanensis sp. nov. (type strain=JCM 12772(T)=CGMCC 1.3704(T)) and Halobacillus aidingensis sp. nov. (type strain=JCM 12771(T)=CGMCC 1.3703(T)) are proposed, respectively.

  17. [Isolation of actinobacteria with antibiotic associated with soft coral Nephthea sp].

    Science.gov (United States)

    Ma, Liang; Zhang, Wenjun; Zhu, Yiguang; Wu, Zhengchao; Saurav, Kumar; Hang, Hui; Zhang, Changsheng

    2013-10-04

    The present study aims to isolate and identify actinobacteria associated with the soft coral Nephthea sp., and to isolate natural products from these actinobacteria under the guidance of PCR screening for polyketides synthase (PKS) genes. Eleven selective media were used to isolate actinobacteria associated with the soft coral Nephthea sp. collected from Yongxin Island. The isolated actinobacteria were classified on the basis of phylogenetic tree analysis of their 16S rRNA genes. Degenerated primers targeted on conserved KS (ketoacyl-synthase) domain of type I PKS genes were used to screen for potential isolates. The positive isolates were cultured in three different media to check their producing profiles. One bioactive strain that is rich in metabolites was subjected to larger scale fermentation for isolating bioactive natural products. A total of 20 strains were isolated from Nephthea sp., and were categorized into 3 genera including Streptomyces, Dietzia and Salinospora, among which 18 strains were positive in screening with type I PKS genes. Two bioactive compounds rifamycin S and rifamycin W were isolated and identified from Salinospora arenicola SH04. This is the first report of isolating indigenous marine actinobacteria Salinospora from the soft coral Nephthea sp. It provides an example of isolating bioactive secondary metabolites from cultivable actinobacteria associated with Nephthea sp. by PCR screening.

  18. A comparative study on phyllosphere nitrogen fixation by newly isolated Corynebacterium sp. & Flavobacterium sp. and their potentialities as biofertilizer.

    Science.gov (United States)

    Giri, S; Pati, B R

    2004-01-01

    A number of nitrogen fixing bacteria has been isolated from forest phyllosphere on the basis of nitrogenase activity. Among them two best isolates are selected and identified as Corynebacterium sp. AN1 & Flavobacterium sp. TK2 able to reduce 88 and 132 n mol of acetylene (10(8)cells(-1)h(-1)) respectively. They were grown in large amount and sprayed on the phyllosphere of maize plants as a substitute for nitrogenous fertilizer. Marked improvements in growth and total nitrogen content of the plant have been observed by the application of these nitrogen-fixing bacteria. An average 30-37% increase in yield was obtained, which is nearer to chemical fertilizer treatment. Comparatively better effect was obtained by application of Flavobacterium sp.

  19. Kinetics of petroleum oil biodegradation by a consortium of three protozoan isolates (Aspidisca sp., Trachelophyllum sp. and Peranema sp.

    Directory of Open Access Journals (Sweden)

    L. Kachieng’a

    2017-09-01

    Full Text Available Petroleum oil is a complex mixture of substances, the majority of which are hydrocarbons; the latter represent an extremely important and heterogeneous group of compounds that find their way into water resources by anthropogenic or natural ways. The majority of toxic hydrocarbon components of petroleum are biodegradable, where bioremediation using microbial species has become an integral process for the restoration of oil-polluted areas. In this study, three bioremediation processes, namely natural attenuation, nutrient supplementation by adding glucose and biostimulation by adding Tween® 80, were carried out in various petroleum hydrocarbon concentrations in polluted water media using a consortium of three protozoan isolates (Aspidisca sp., Trachelophyllum sp. and Peranema sp.. A first-order kinetics model was fitted to the biodegradation data to evaluate the biodegradation rate and to determine the corresponding half-life time. First-order kinetics satisfactorily described the biodegradation of the petroleum-based contaminants under abiotic conditions. The results showed an increase in the percentage removal of petroleum oil at the lower petroleum concentrations and a gradual percentage decrease in removing petroleum oil residues occurred when there was an increase in the initial concentrations of the petroleum oil: 39%, 27%, 22%, 12%, 10% for various petroleum oil concentrations of 50, 100, 150, 200, 250 mg/L, respectively. A similar trend was also observed in the glucose-supplemented culture media where the reduction was 45% and 78% for petroleum concentrations of 250 mg/L and 50 mg/L, respectively. Biodegradation of between 33 and 90% was achieved at a Tween® 80 concentration of between 50 mg/L and 250 mg/L. The degradation rate constants for the natural attenuation process ranged between ≥0 to ≤0.50, ≥0 to ≤0.35, ≥0 to ≤0.25, ≥0 to ≤ 0.14 and ≥ 0 to ≤0.11 for petroleum oil concentrations varying from 50, 100, 150

  20. Aneurinibacillus humi sp. nov., Isolated from Soil Collected in Ukraine.

    Science.gov (United States)

    Lee, Kalam; Lee, Sang Seob

    2016-02-01

    A novel bacterium, designated U33(T), was isolated from a soil sample collected in Mykhailyky, Poltavs'ka oblast, Ukraine. The bacterium was aerobic, Gram-positive, spore-forming, and consists of motile rods. The taxonomic position of strain U33(T) was studied by a polyphasic approach, and the results clearly showed that the phenotypic and chemotaxonomic properties are consistent with those of the genus Aneurinibacillus. The phylogenic analysis with 16S rRNA gene sequence of strains U33(T) showed the highest sequence similarity to those of Aneurinibacillus aneuriniticus ATCC 12856(T) (96.7 %), Aneurinibacillus migulanus DSM 2895(T) (96.7 %), Aneurinibacillus danicus NCIMB 13288(T) (95.8 %), and lower sequence similarity with other members of the genus Aneurinibacillus. Growth was observed at 20-55 °C (optimum, 37 °C) at pH 5.0-9.0 (optimum, pH 7) and with 0-5 % (w/v) NaCl (optimum, 2 % NaCl). The predominant menaquinone was MK-7 and the cell wall peptidoglycan consist of meso-diaminopimelic acid. The major cellular fatty acids are iso-C15:0 (58.0 %) and anteiso-C15:0 (13.2 %). The DNA G+C content of the strain U33(T) was 45.8 %. The physiological and chemotaxonomic characteristics distinguish strain U33(T) from the validly published species of genus Aneurinibacillus, and therefore, we consider this strain to represent a novel species of the genus Aneurinibacillus. The name Aneurinibaciilus humi sp. nov. is proposed with strain U33(T) (= KEMC7305-119(T) = JCM19865(T)) as the type strain.

  1. Gemmobacter straminiformis sp. nov., isolated from an artificial fountain.

    Science.gov (United States)

    Kang, Ji Young; Kim, Mi-Jung; Chun, Jeesun; Son, Kyung Pyo; Jahng, Kwang Yeop

    2017-10-12

    A Gram-stain-negative, non-motile and facultative anaerobic bacterium, designated CAM-8T, was isolated from an artificial fountain at Chonbuk National University, South Korea. The novel strain grew at 20-37 °C (optimum 25 °C), pH 5.5-7.0 (optimum 6.0) and with 0-2 % NaCl (optimum 0 %). Oxidase and catalase activities were positive. The cell morphology of strain CAM-8T was atypical rods 0.6-0.8 µm in width and 4.5-6.5 µm in length, with a peaked tip and sometimes a bulb shape. CAM-8T existed as single cells, and as pairs or chains of cells. The phylogenetic analysis of 16S rRNA gene sequences indicated that strain CAM-8T clustered with Gemmobacter nectariphilus JCM 11959T and Gemmobacter megaterium JCM 18498T within the genus Gemmobacter. The DNA G+C content of strain CAM-8T was 65.9 mol%. The respiratory quinone was ubiquinone Q-10. The major fatty acids were C18 : 1ω7c and/or C18 : 1ω6c. The polar lipids of strain CAM-8T consisted of phosphatidylethanolamine, phosphatidylglycerol, phosphatidylcholine, two uncharacterized phospholipids, an uncharacterized aminolipid, an uncharacterized glycolipid, an uncharacterized aminophospholipid and four uncharacterized lipids. On the basis of phenotypic, phylogenetic and chemotaxonomic data, strain CAM-8T (=KACC 19224T=JCM 31905T) is considered to represent a novel species of the genus Gemmobacter, for which the name Gemmobacter straminiformis sp. nov. is proposed.

  2. Sphingomonas frigidaeris sp. nov., isolated from an air conditioning system.

    Science.gov (United States)

    Lee, Yunho; Jeon, Che Ok

    2017-10-01

    A strictly aerobic Gram-stain-negative bacterium, designated strain KER25-10T, was isolated from a laboratory air conditioning system in South Korea. Cells were yellow-pigmented, non-motile rods showing catalase- and oxidase-positive reactions. The strain grew at pH 4.0-9.0 (optimum, pH 6.0-7.0) and 10-40 °C (optimum, 30 °C) and in the presence of 0-3 % (w/v) NaCl (optimum, 0 %). The G+C content of the genomic DNA was 65.1 mol%. Strain KER25-10T contained ubiquinone-10 (Q-10) as the predominant isoprenoid quinone and C16 : 0, C17 : 1ω6c, summed feature 3 (comprising C16 : 1ω7c and/or C16 : 1ω6c) and summed feature 8 (comprising C18 : 1ω7c and/or C18 : 1ω6c) as the major fatty acids. The major polar lipids were sphingoglycolipid, diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and phosphatidylcholine. Only spermidine was detected as the polyamine. Phylogenetic analysis based on 16S rRNA sequences indicated that strain KER25-10T formed a distinct phylogenetic lineage within the genus Sphingomonas of the family Sphingomonadaceae and the strain was most closely related to Sphingomonas kyeonggiense THG-DT81T with a 96.8 % 16S rRNA gene sequence similarity. On the basis of phenotypic, chemotaxonomic and molecular features, strain KER25-10T clearly represents a novel species of the genus Sphingomonas, for which the name Sphingomonas frigidaeris sp. nov. is proposed. The type strain is KER25-10T (=KACC 19285T=JCM 32053T).

  3. Mesorhizobium helmanticense sp. nov., isolated from Lotus corniculatus nodules.

    Science.gov (United States)

    Marcos-García, Marta; Menéndez, Esther; Ramírez-Bahena, Marta Helena; Mateos, Pedro F; Peix, Álvaro; Velazquez, Encarna; Rivas, Raúl

    2017-07-01

    In this study, three strains belonging to the genus Mesorhizobium, CSLC115NT, CSLC19N and CSLC37N, isolated from Lotus corniculatus nodules in Spain, were characterized. Their 16S rRNA gene sequences were closely related to those of Mesorhizobium metallidurans STM 2683T, Mesorhizobium tianshanense A-1BST, Mesorhizobium tarimense CCBAU 83306T, Mesorhizobium gobiense CCBAU 83330T and Mesorhizobium caraganae CCBAU 11299T with similarity values higher than 99.7 %. The analysis of concatenated recA and glnII genes showed that the most closely related type strains were M. metallidurans STM 2683T, M. tianshanense A-1BST and M. tarimense CCBAU 83306T with 96, 95 and 94 % similarity values in the recA gene and 95, 94 and 94 % in the glnII gene, respectively. M. metallidurans LMG 24485T, M. tianshanense USDA 3592T and M. tarimense LMG 24338T showed means of 44, 41 and 42 % DNA-DNA relatedness, respectively, with respect to strain CSLC115NT. The major fatty acids were those from summed feature 8 (C18 : 1ω7c/C18 : 1ω6c), C16 : 0 and C18 : 1ω7c 11-methyl. The results of phenotypic characterization support that the L. corniculatus nodulating strains analysed in this work belong to a novel species of the genus Mesorhizobium for which the name Mesorhizobium helmanticense sp. nov. is proposed, and the type strain is CSLC115NT (= LMG 29734T=CECT 9168T).

  4. Kordia antarctica sp. nov., isolated from Antarctic seawater.

    Science.gov (United States)

    Baek, Kiwoon; Choi, Ahyoung; Kang, Ilnam; Lee, Kiyoung; Cho, Jang-Cheon

    2013-10-01

    A Gram-staining-negative, chemoheterotrophic, yellow-pigmented, non-motile, flexirubin-negative, facultatively anaerobic bacterium, designated strain IMCC3317(T), was isolated from a coastal seawater sample from the Antarctic Penninsula. Optimal growth of strain IMCC3317(T) was observed at 20 °C, pH 8.0 and in the presence of 2-3 % NaCl. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain IMCC3317(T) belonged to the genus Kordia and was closely related to Kordia algicida OT-1(T) (96.7 % sequence similarity) and Kordia periserrulae IMCC1412(T) (96.1 % sequence similarity). The major fatty acids were 10-methyl C16 : 0 and/or iso-C16 : 1ω9c, iso-C17 : 0 3-OH, iso-C15 : 0 and anteiso-C15 : 0. The G+C content of the genomic DNA was 35.1 mol%. The strain contained menaquinone-6 (MK-6) as the respiratory quinone. The polar lipids detected in the strain were phosphatidylethanolamine and unknown aminophospholipids, aminolipids and polar lipids. On the basis of phylogenetic distinction and differential phenotypic characteristics, it is suggested that strain IMCC3317(T) ( = KCTC 32292(T) = NBRC 109401(T)) be assigned to the genus Kordia as the type strain of a novel species, for which the name Kordia antarctica sp. nov. is proposed.

  5. Micromonospora fulva sp. nov., isolated from forest soil.

    Science.gov (United States)

    Lee, Hyo-Jin; Whang, Kyung-Sook

    2017-06-01

    A novel actinobacterium, designated strain UDF-1T, was isolated from forest soil in Chungnam, South Korea, and its taxonomic position was investigated using a polyphasic approach. Strain UDF-1T formed a branched brownish-orange substrate mycelium with spherical or oval spores. No aerial mycelium was formed. Comparative 16S rRNA gene sequence analysis indicated that strain UDF-1T belongs to the genus Micromonospora, showing the highest sequence similarity to Micromonospora palomenae NEAU-CX1T (99.2 % 16S rRNA gene sequence similarity), 'Micromonospora maoerensis' NEAU-MES19 (99.0 %), Micromonospora endolithica DSM 44398T (98.8 %) and Micromonospora matsumotoense IMSNU 22003T (98.8 %). The predominant menaquinones of strain UDF-1T were MK-10 (H4) and MK-10 (H6). The cell wall contained meso-diaminopimelic acid and the whole-cell sugars were arabinose and xylose. The major polar lipids were phosphatidylinositol, diphosphatidylglycerol and phosphatidylethanolamine. The major cellular fatty acids were iso-C16 : 0, anteiso-C15 : 0 and iso-C15 : 0. The genomic DNA G+C content was 73.1 mol%. DNA-DNA relatedness between strain UDF-1T and closely related type strains in the genus Micromonospora was below 30 %. On the basis of the polyphasic analysis conducted in this study, strain UDF-1T represents a novel species of the genus Micromonospora, for which the name Micromonospora fulva sp. nov. is proposed. The type strain is UDF-1T (=KACC 18696T=NBRC 111826T).

  6. Hymenobacter profundi sp. nov., isolated from deep-sea water.

    Science.gov (United States)

    Sun, Jingjing; Xing, Mengxin; Wang, Wei; Dai, Fangqun; Liu, Junzhong; Hao, Jianhua

    2018-02-02

    A Gram-stain-negative, rod-shaped, red-pigmented, aerobic bacterium, strain M2 T , was isolated from a seawater sample collected from the western Pacific Ocean at a depth of 1000 m and characterized using polyphasic taxonomy. Strain M2 T was catalase-positive and oxidase-negative. Cells grew at 4-33 °C (optimum, 25 °C), at pH 6-9 (optimum, 7) and with 0-4 % (w/v) (optimum, 1 %) NaCl. Phylogenetic trees based on 16S rRNA gene sequences showed that strain M2 T was associated with the genus Hymenobacter. Strain M2 T showed the highest 16S rRNA gene sequence similarities to Hymenobacter actinosclerus CCUG 39621 T (95.7 %), Hymenobacter tibetensis XTM003 T (95.6 %) and Hymenobacter psychrotolerans Tibet-IIU11 T (95.2 %). The DNA G+C content was 59.98 mol%. Strain M2 T contained C16 : 1ω5c (25.0 %), iso-C15 : 0 (23.9 %) and summed feature 3 (C16 : 1ω6c and/or C16 : 1ω7c, 20.4 %) as major cellular fatty acids. The major quinone of strain M2 T was menaquinone 7 and the major polar lipid was phosphatidylethanolamine. The major polyamine of strain M2 T was sym-homospermidine. The phylogenetic analysis and physiological and biochemical data showed that strain M2 T should be classified as representing a novel species of the genus Hymenobacter, for which the name Hymenobacter profundi sp. nov. is proposed. The type strain is M2 T (=CCTCC AB 2017185 T =KCTC 62120 T ).

  7. Vibrio fujianensis sp. nov., isolated from aquaculture water.

    Science.gov (United States)

    Fang, Yujie; Chen, Aiping; Dai, Hang; Huang, Ying; Kan, Biao; Wang, Duochun

    2018-02-13

    A Gram-stain-negative, facultatively anaerobic strain, designated FJ201301 T , was isolated from aquaculture water collected from Fujian province, China. Phylogenetic analysis of 16S rRNA gene sequences indicated that strain FJ201301 T belonged to the genus Vibrio, formed a distinct cluster with Vibriocincinnatiensis ATCC 35912 T and shared the highest similarity with Vibriosalilacus CGMCC 1.12427 T . A 15 bp insertion found in the 16S rRNA gene was a significant marker that distinguished strain FJ201301 T from several phylogenetic neighbours (e.g. V. cincinnatiensis). Multilocus sequence analysis of eight genes (ftsZ, gapA, gyrB, mreB, pyrH, recA, rpoA and topA; concatenated 4135 bp sequence) showed that, forming a long and independent phylogenetic branch, strain FJ201301 T clustered with V. cincinnatiensis ATCC 35912 T , Vibrioinjenensis KCTC 32233 T and Vibriometschnikovii CIP 69.14 T clearly separated from V. salilacus CGMCC 1.12427 T . Furthermore, the highest in silico DNA-DNA hybridization and average nucleotide identity values between strain FJ201301 T and the closest related species were 26.3 and 83.1 % with V. cincinnatiensis ATCC 35912 T , less than the proposed cutoff levels for species delineation, i.e. 70 and 95 %, respectively. Biochemical, sequence and genomic analysis suggested the designation of strain FJ201301 T representing a novel species of the genus Vibrio, for which the name Vibrio fujianensis sp. nov. is proposed. The type strain is FJ201301 T (=DSM 104687 T =CGMCC 1.16099 T ).

  8. Paracoccus aestuarii sp. nov., isolated from tidal flat sediment.

    Science.gov (United States)

    Roh, Seong Woon; Nam, Young-Do; Chang, Ho-Won; Kim, Kyoung-Ho; Kim, Min-Soo; Shin, Kee-Sun; Yoon, Jung-Hoon; Oh, Hee-Mock; Bae, Jin-Woo

    2009-04-01

    A Gram-negative micro-organism, designated strain B7(T), was isolated from tidal flat sediment and subjected to a polyphasic taxonomic study involving morphological, physiological, biochemical and 16S rRNA gene sequence analyses. A phylogenetic analysis based on the 16S rRNA gene sequence indicated that strain B7(T) belonged to the genus Paracoccus and was closely related phylogenetically to Paracoccus marcusii MH1(T) (97.5 % sequence similarity), Paracoccus marinus KKL-A5(T) (97.5 %), Paracoccus haeundaensis BC74171(T) (97.3 %), Paracoccus carotinifaciens E-396(T) (97.3 %), Paracoccus homiensis DD-R11(T) (97.2 %), Paracoccus seriniphilus MBT-A4(T) (96.9 %) and other type strains of the genus Paracoccus (95.2-96.7 %). The G+C content of the genomic DNA and the major isoprenoid quinone of the type strain were 62.0 mol% and ubiquinone-10, respectively. The major fatty acid components were C(18 : 1)omega7c (68.9 %) and C(18 : 0) (18.1 %); this profile, with C(18 : 1)omega7c as the predominant fatty acid, was characteristic of members of the genus Paracoccus. The 16S rRNA gene sequence analysis, DNA-DNA hybridization studies and physiological and biochemical tests identified genotypic and phenotypic differences between strain B7(T) and recognized Paracoccus species. On the basis of these data, therefore, strain B7(T) represents a novel species of the genus Paracoccus, for which the name Paracoccus aestuarii sp. nov. is proposed. The type strain is B7(T) (=KCTC 22049(T)=DSM 19484(T)=JCM 15119(T)).

  9. Rhodovulum algae sp. nov., isolated from an algal mat.

    Science.gov (United States)

    Ramaprasad, E V V; Tushar, L; Dave, Bharti; Sasikala, Ch; Ramana, Ch V

    2016-09-01

    A reddish-brown-pigmented, phototrophic bacterium, designated strain JA877T, was isolated from a brown algae mat sample collected from Jalandhar beach, Gujarat, India. On the basis of the 16S rRNA gene sequence, strain JA877T belongs to the class Alphaproteobacteria and is closely related to the type strains Rhodovulum viride JA756T (99.0 %), Rhodovulum sulfidophilum Hansen W4T (98.9 %), Rhodovulumvisakhapatnamense JA181T (98.8 %),Rhodovulum kholense JA297T (97.5 %) and Rhodovulum salis JA746T (97.0). However, strain JA877T showed only 20-45 % relatedness with its phylogenetic neighbours and had a ∆Tm between 5.8 and 7.0 °C. The major respiratory quinone was ubiquinone-10 (Q10), and the polar lipid profile was composed of the major components phosphatidylglycerol, phosphatidylethanolamine, an unidentified phospholipid, two unidentified sulfolipids and five unidentified lipids. The major fatty acids were C18 : 1ω5c, C18 : 1ω7c/C18 : 1ω6c, C16 : 0 and C18 : 0. The DNA G+C content was 64.5 mol%. On the basis of 16S rRNA gene sequence analysis, physiological data, and chemotaxonomic and molecular differences, strain JA877T is significantly different from other species of the genus Rhodovulum and represents a novel species, for which the name Rhodovulum algae sp. nov. is proposed. The type strain is JA877T (=LMG 29228T= KCTC 42963T).

  10. Halomonas xiaochaidanensis sp. nov., isolated from a salt lake sediment.

    Science.gov (United States)

    Liu, Wen; Zhang, Guojing; Xian, Wendong; Yang, Jian; Yang, Lingling; Xiao, Min; Jiang, Hongchen; Li, Wen-Jun

    2016-10-01

    A short-rod-shaped moderately halophilic bacterium, designated CUG 00002(T), was isolated from the sediment of Xiaochaidan salt lake in Qinghai Province, China by using R2A medium. The cells were Gram-staining negative, aerobic, forming creamy and circular colonies with diameters of 2-3 mm on R2A agar when incubated at 30 °C for 3 days. 16S rRNA gene-based phylogenetic analysis indicated that strain CUG 00002(T) belonged to the genus Halomonas in the class Gammaproteobacteria, showing highest sequence similarity of 97.1 and 96.7 % to Halomonas mongoliensis Z-7009(T) (=DSM 17332=VKM B2353) and Halomonas shengliensis SL014B-85(T) (=CGMCC 1.6444(T)=LMG 23897(T)), respectively. The predominant isoprenoid quinone was ubiquinone-9 (Q9), and the major fatty acids were C16:0, summed feature 3 (comprising C16:1 ω7c and/or C16:1 ω6c) and summed feature 8 (comprising C18:1 ω7c or C18:1 ω6c). The genomic DNA G+C content of strain CUG 00002(T) was 61.8 mol%. The above characteristics were consistent with the placement of the organism in the genus Halomonas. The level of DNA-DNA relatedness between CUG 00002(T) and its most closely related strain H. mongoliensis Z-7009(T) was 41.0 ± 1.6 %. Based on the results of phenotypic, phylogenetic and biochemical analyses, strain CUG 00002(T) represents a novel species of the genus Halomonas, for which the name Halomonas xiaochaidanensis sp. nov. is proposed. The type strain is CUG 00002(T) (=CCTCC AB 2014152(T)=KCTC 42685(T)).

  11. Nonomuraea rhodomycinica sp. nov., isolated from peat swamp forest soil.

    Science.gov (United States)

    Sripreechasak, Paranee; Phongsopitanun, Wongsakorn; Supong, Khomsan; Pittayakhajonwut, Pattama; Kudo, Takuji; Ohkuma, Moriya; Tanasupawat, Somboon

    2017-06-01

    The taxonomic position of an actinomycete, strain NR4-ASC07T, isolated from a soil sample collected from Sirindhorn peat swamp forest, Narathiwat Province, Thailand, was clarified using a polyphasic approach. On the basis of morphological and chemotaxonomic characteristics, it was classified among the members of the genus Nonomuraea. It produced tightly closed spiral spore chains on aerial mycelium as well as forming a pseudosporangium. Whole-cell hydrolysates contained meso-diaminopimelic acid, glucose, ribose, madurose and mannose. The polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, hydroxyphosphatidylethanolamine, lyso-phosphatidylethanolamine, phosphatidylinositol, phosphatidylinositol mannosides, unknown ninhydrin-positive phosphoglycolipids and unknown glycolipid. Menaquiones were MK-9(H4), MK-9(H0), MK-9(H2), MK-10(H4) and MK-9(H6). Predominant cellular fatty acids were iso-C16 : 0, C17 : 0 10-methyl, C16 : 0, C17 : 1ω8c, C16 : 0 2-OH and iso-C15 : 0. The phylogenetic tree reconstructed on the basis of 16S rRNA gene sequences showed that the strain fell within the clade containing Nonomuraea muscovyensis FMN03T, Nonomuraea roseoviolacea subsp. roseoviolaceaNBRC 14098T and Nonomuraea roseoviolacea subsp. carminataNBRC 15903T. The DNA-DNA relatedness and phenotypic data supported that strain NR4-ASC07T was clearly distinguished from the closely related species and represents a novel species of the genus Nonomuraea for which the name Nonomuraea rhodomycinica sp. nov. is proposed. The type strain is NR4-ASC07T (=NBRC 112327T=TISTR 2465T).

  12. Bacillus oryzisoli sp. nov., isolated from rice rhizosphere.

    Science.gov (United States)

    Zhang, Xiao-Xia; Gao, Ju-Sheng; Zhang, Lei; Zhang, Cai-Wen; Ma, Xiao-Tong; Zhang, Jun

    2016-09-01

    The taxonomy of strain 1DS3-10T, a Gram-staining-positive, endospore-forming bacterium isolated from rice rhizosphere, was investigated using a polyphasic approach. Phylogenetic analysis based on 16S rRNA gene sequences demonstrated that the novel strain was grouped with established members of the genus Bacillus and appeared to be closely related to the type strains Bacillus benzoevorans DSM 5391T (97.9 %), Bacillus circulans DSM 11T (97.7 %), Bacillus novalis JCM 21709T (97.3 %), Bacillus soli JCM 21710T (97.3 %), Bacillus oceanisediminis CGMCC 1.10115T (97.3 %) and BacillusnealsoniiFO-92T (97.1 %). The fatty acid profile of strain 1DS3-10T, which showed a predominance of iso-C15 : 0 and anteiso-C15 : 0, supported the allocation of the strain to the genus Bacillus. The predominant menaquinone was MK-7 (100 %). The major polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol and unknown aminolipids. Cell-wall peptidoglycan contained meso-diaminopimelic acid. DNA-DNA hybridization values between strain 1DS3-10T and the type strains of closely related species were 25-33 %, which supported that 1DS3-10T represented a novel species in the genus Bacillus. The results of some physiological and biochemical tests also allowed the phenotypic differentiation of strain 1DS3-10T from the most closely related recognized species. On the basis of the phylogenetic and phenotypic evidence, strain 1DS3-10T represents a novel species of the genus Bacillus, for which the name Bacillus oryzisoli sp. nov. is proposed. The type strain of the novel species is 1DS3-10T (=ACCC 19781T=DSM 29761T).

  13. Massilia glaciei sp. nov., isolated from the Muztagh Glacier.

    Science.gov (United States)

    Gu, Zhengquan; Liu, Yongqin; Xu, Baiqing; Wang, Ninglian; Jiao, Nianzhi; Shen, Liang; Liu, Hongcan; Zhou, Yuguang; Liu, Xiaobo; Li, Jiule; Sun, Jia

    2017-10-01

    A Gram-stain-negative, rod-shaped, bacterial strain, B448-2T, was isolated from an ice core from the Muztagh Glacier, on the Tibetan Plateau. B448-2T grew optimally at pH 7.0 and 20 °C in the presence of 0-1.0 % (w/v) NaCl. The results of 16S rRNA gene sequence similarity analysis indicated that B448-2T was closely related to Massilia eurypsychrophila CGMCC 1.12828T, Rugamonas rubra CCM3730T and Duganella zoogloeoides JCM20729T at levels of 97.8, 97.7  and 97.3 %, respectively. The predominant fatty acids of B448-2T were summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c) and C16 : 0. The predominant isoprenoid quinone was Q-8. The major polar lipids were phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol. The genomic DNA G+C content of the strain was 66.1 mol%. In DNA-DNA hybridization tests, B448-2T shared 37.6 % DNA-DNA relatedness with Massilia eurypsychrophila CGMCC 1.12828T. On the basis of the results for phenotypic and chemotaxonomic characteristics, B448-2T was considered to represent a novel species of the genus Massilia, for which the name Massiliaglaciei sp. nov. is proposed. The type strain is B448-2T (=JCM 30271T=CGMCC 1.12920T).

  14. Rhodococcus psychrotolerans sp. nov., isolated from rhizosphere of Deschampsia antarctica.

    Science.gov (United States)

    Silva, Leonardo Jose; Souza, Danilo Tosta; Genuario, Diego Bonaldo; Hoyos, Harold Alexander Vargas; Santos, Suikinai Nobre; Rosa, Luiz Henrique; Zucchi, Tiago Domingues; Melo, Itamar Soares

    2017-11-15

    A novel actinobacterium, designated strain CMAA 1533(T), was isolated from the rhizosphere of Deschampsia antarctica collected at King George Island, Antarctic Peninsula. Strain CMAA 1533(T) was found to grow over a wide range of temperatures (4-28 °C) and pH (4-10). Macroscopically, the colonies were observed to be circular shaped, smooth, brittle and opaque-cream on most of the culture media tested. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain CMAA 1533(T) belongs to the family Nocardiaceae and forms a distinct phyletic line within the genus Rhodococcus. Sequence similarity calculations indicated that the novel strain is closely related to Rhodococcus degradans CCM 4446(T), Rhodococcus erythropolis NBRC 15567(T) and Rhodococcus triatomae DSM 44892(T) (≤ 96.9%). The organism was found to contain meso-diaminopimelic acid, galactose and arabinose in whole cell hydrolysates. Its predominant isoprenologue was identified as MK-8(H2) and the polar lipids as diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol and phosphatidylinositol mannosides. The major fatty acids were identified as Summed feature (C16:1 ω6c and/or C16:1 ω7c), C16:0, C18:1 ω9c and 10-methyl C18:0. The G+C content of genomic DNA was determined to be 65.5 mol%. Unlike the closely related type strains, CMAA 1533(T) can grow at 4 °C but not at 37 °C and was able to utilise adonitol and galactose as sole carbon sources. Based on phylogenetic, chemotaxonomic and physiological data, it is concluded that strain CMAA 1533(T) (= NRRL B-65465(T) = DSM 104532(T)) represents a new species of the genus Rhodococcus, for which the name Rhodococcus psychrotolerans sp. nov. is proposed.

  15. Acetobacter lambici sp. nov., isolated from fermenting lambic beer.

    Science.gov (United States)

    Spitaels, Freek; Li, Leilei; Wieme, Anneleen; Balzarini, Tom; Cleenwerck, Ilse; Van Landschoot, Anita; De Vuyst, Luc; Vandamme, Peter

    2014-04-01

    An acetic acid bacterium, strain LMG 27439(T), was isolated from fermenting lambic beer. The cells were Gram-stain-negative, motile rods, catalase-positive and oxidase-negative. Analysis of the 16S rRNA gene sequence revealed the strain was closely related to Acetobacter okinawensis (99.7 % 16S rRNA gene sequence similarity with the type strain of this species), A. ghanensis (99.6 %), A. syzygii (99.6 %), A. fabarum (99.4 %) and A. lovaniensis (99.2 %). DNA-DNA hybridization with the type strains of these species revealed moderate DNA-DNA hybridization values (31-45 %). Strain LMG 27439(T) was unable to grow on glycerol or methanol as the sole carbon source, on yeast extract with 10 % ethanol or on glucose-yeast extract medium at 37 °C. It did not produce acid from l-arabinose, d-galactose or d-mannose, nor did it produce 2-keto-d-gluconic acid, 5-keto-d-gluconic acid or 2,5-diketo-d-gluconic acid from d-glucose. It did not grow on ammonium as the sole nitrogen source and ethanol as the sole carbon source. These genotypic and phenotypic data distinguished strain LMG 27439(T) from established species of the genus Acetobacter, and therefore we propose this strain represents a novel species of the genus Acetobacter. The name Acetobacter lambici sp. nov. is proposed, with LMG 27439(T) ( = DSM 27328(T)) as the type strain.

  16. Massilia violacea sp. nov., isolated from riverbank soil.

    Science.gov (United States)

    Embarcadero-Jiménez, Salvador; Peix, Álvaro; Igual, José Mariano; Rivera-Orduña, Flor N; Tao Wang, En

    2016-02-01

    A bacterial strain designated CAVIOT was isolated during the course of a study of culturable bacteria in a riverbank soil sample from Tlaxcala, Mexico. The strain was subjected to a polyphasic taxonomic characterization. Strain CAVIOT was aerobic, Gram-stain-negative, non-spore-forming and rod-shaped. Colonies grown on R2A agar at 28 °C were pale violet, mucoid, rounded, smooth and glossy. The strain was motile and catalase- and oxidase-positive, and maximum growth temperature was 35 °C. Strain CAVIOT was classified within the genus Massilia as its 16S rRNA gene sequence was closely related to those of Massilia umbonata LP01T (97.5 % similarity), Massilia dura 16T (97.2 %) and Massilia plicata 76T (97.1 %). The predominant respiratory quinone was Q8. The major fatty acids were summed feature 3 (C16 : 1ω7c/C16 : 1ω6c), C16 : 0 and summed feature 8 (C18 : 1ω7c/C18 : 1ω6c). The predominant polar lipids were phosphatidylglycerol, phosphatidylethanolamine, diphosphatidylglycerol and an unknown phospholipid. The DNA G+C content was 65.0 mol% (Tm). DNA-DNA hybridization results showed values below 25 % with respect to the type strains of the closest related species. Therefore, strain CAVIOT can be differentiated from previously described species of the genus Massilia and represents a novel species, for which the name Massilia violacea sp. nov. is proposed. The type strain is CAVIOT ( = CECT 8897T = LMG 28941T).

  17. Terrimonas arctica sp. nov., isolated from Arctic tundra soil.

    Science.gov (United States)

    Jiang, Fan; Qiu, Xia; Chang, Xulu; Qu, Zhihao; Ren, Lvzhi; Kan, Wenjing; Guo, Youhao; Fang, Chengxiang; Peng, Fang

    2014-11-01

    A novel, Gram-stain-negative, aerobic, non-motile and rod-shaped bacterium, designated R9-86(T), was isolated from tundra soil collected near Ny-Ålesund, Svalbard Archipelago, Norway (78° N). Growth occurred at 4-28 °C (optimum, 22-25 °C) and at pH 6.0-9.0 (optimum, pH 7.0). Flexirubin-type pigments were absent. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain R9-86(T) belonged to the genus Terrimonas in the family Chitinophagaceae. 16S rRNA gene sequence similarities between strain R9-86(T) and the type strains of species of the genus Terrimonas with validly published names ranged from 93.7 to 95.0%. Strain R9-86(T) contained iso-C(15:1)-G (25.7%), iso-C(15:0) (24.5%), iso-C(17:0)-3OH (18.3%) and summed feature 3 (C(16:1)ω7c and/or C(16:1)ω6c, 8.7%) as its major cellular fatty acids; phosphatidylethanolamine and an unknown polar lipid as its main polar lipids, and MK-7 as its predominant respiratory quinone. The DNA G+C content was 48.4 mol%. On the basis of phenotypic, chemotaxonomic and phylogenetic data, strain R9-86(T) is considered to represent a novel species of the genus Terrimonas, for which the name Terrimonas arctica sp. nov. is proposed. The type strain is R9-86(T) ( =CCTCC AB 2011004(T) =NRRL B-59114(T)). © 2014 IUMS.

  18. Hymenobacter rubripertinctus sp. nov., isolated from Antarctic tundra soil.

    Science.gov (United States)

    Jiang, Fan; Danzeng, Wangmu; Zhang, Yuming; Zhang, Yan; Jiang, Li; Liu, Jia; Lu, Lu; Fan, Wei; Peng, Fang

    2018-02-01

    A red-pigmented, Gram-reaction-negative, aerobic, non-motile and rod-shaped bacterium, designated NY03-3-30 T , was isolated from a soil sample collected from Inexpressible Island, Northern Victoria Land of the Antarctic Ross Orogen, and subjected to a polyphasic taxonomic study. Growth occurred at 4-28 °C (optimum 20 °C) and at pH 6.0-9.0 (optimum pH 7.0). Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain NY03-3-30 T belonged to the genus Hymenobacter in the family Cytophagaceae. 16S rRNA gene sequence similarities between strain NY03-3-30 T and the type strains of Hymenobacter species with validly published names ranged from 92.7 to 96.2 %. Strain NY03-3-30 T contained summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c), iso-C15 : 0, C16 : 0, C16 : 1ω5c, anteiso-C15 : 0 and summed feature 4 (iso-C17 : 1-I and/or anteiso-C17 : 1-B) as major cellular fatty acids, MK-7 as the respiratory quinone and phosphatidylethanolamine as the main polar lipid. The DNA G+C content of strain NY03-3-30 T was 59.4 mol%. On the basis of phylogenetic, physiological and chemotaxonomic data, strain NY03-3-30 T is considered to represent a novel species of genus Hymenobacter, for which the name Hymenobacter rubripertinctus sp. nov. is proposed. The type strain is NY03-3-30 T (=CCTCC AB 2017095 T =KCTC 62163 T ).

  19. Spirosoma flavum sp. nov., isolated from Arctic tundra soil.

    Science.gov (United States)

    Zou, Rui; Zhang, Yumin; Zhou, Xueyin; Wang, Yang; Peng, Fang

    2017-12-01

    A yellow-pigmented strain, designated Y4AR-5 T , was characterized by using a polyphasic approach. The strain was isolated from a tundra soil from near Longyearbyen, Svalbard Islands, Norway. The cells were Gram-stain-negative, aerobic, rod-shaped and non-motile. Growth occurred at 4-28 °C (optimum 20 °C) and pH 6.0-9.0 (optimum pH 8.0) and with 0-0.5 % (w/v) NaCl (optimum 0 %). The major respiratory quinone was MK-7. The polar lipids were phosphatidylethanolamine (PE), an aminophospholipid (APL), a phospholipid (PL), an unidentified aminolipid (AL) and two unidentified lipids. The results of analysis of the 16S rRNA gene indicated that the novel strain was most closely related to members of the genus Spirosoma (96.2 % sequence similarity with Spirosoma endophyticum). The genomic DNA G+C content was 45.9 mol%. The major cellular fatty acids were summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c), C16 : 1ω5c, iso-C17 : 0 3-OH and iso-C15 : 0. On the basis of its phenotypic and genotypic properties, strain Y4AR-5 T should be classified as representing a novel species of the genus Spirosoma, for which the name Spirosomaflavum sp. nov. is proposed. The type strain is Y4AR-5 T (=CCTCC AB 2015352 T =KCTC 52490 T ).

  20. Rhizobium pseudoryzae sp. nov., isolated from the rhizosphere of rice.

    Science.gov (United States)

    Zhang, Xiaoxia; Sun, Lei; Ma, Xiaotong; Sui, Xin Hua; Jiang, Ruibo

    2011-10-01

    A Gram-stain-negative, aerobic, rod-shaped bacterium, designated strain J3-A127(T), was isolated from the roots of fresh rice plants (Oryza sativa). Cells were non-motile and no flagellum was detected. Comparison of 16S rRNA gene sequences indicated that the strain was phylogenetically related to species of the genus Rhizobium, with closest similarity to Rhizobium oryzae Alt 505(T) (96.4 %). The low levels of 16S rRNA gene sequence similarity (Rhizobium also indicated that it represented a separate species. The temperature range for growth was 10-40 °C (optimum around 28 °C) and the pH range was 6.0-11.0 (optimum pH 7.0-8.0). Strain J3-A127(T) tolerated NaCl concentrations up to 5.0 % (w/v). The strain was catalase- and oxidase-positive. The main cellular fatty acids were summed feature 8 (C(18 : 1)ω7c and/or C(18 : 1)ω6; 46.7 %). The DNA G+C content of strain J3-A127(T) was 59.5 mol%. Strain J3-A127(T) did not form any nodules on four different legumes and the nodD and nifH genes were not detected by PCR. According to physiological and biochemical characteristics and genotypic data, strain J3-A127(T) is considered to represent a novel species of the genus Rhizobium, for which the name Rhizobium pseudoryzae sp. nov. is proposed. The type strain is J3-A127(T) ( = ACCC 10380(T) = KCTC 23294(T)).

  1. Actinomyces liubingyangii sp. nov. isolated from the vulture Gypaetus barbatus.

    Science.gov (United States)

    Meng, Xiangli; Lu, Shan; Lai, Xin-He; Wang, Yiting; Wen, Yumeng; Jin, Dong; Yang, Jing; Xu, Jianguo

    2017-06-01

    Two strains (VUL4_1T and VUL4_2) of Gram-staining-positive, catalase-negative, non-spore-forming short rods were isolated from rectal swabs of Old World vultures (Gypaetus barbatus) in the Tibet-Qinghai Plateau, China. Analysis of morphological characteristics and biochemical tests indicated that the two strains closely resembled each other but were distinct from other species of the genus Actinomyces previously described. Based on the results of 16S rRNA gene sequence comparison and genome analysis, strains were determined to be members of the genus Actinomyces, closely related to the type strains of Actinomyces marimammalium (96.4 % 16S rRNA gene sequence similarity), Actinomyceshongkongensis (92.4 %), Actinomyceshordeovulneris (92.3 %) and Actinomycesnasicola (92.2 %), respectively. Optimal growth conditions were 37 °C, pH 6-7, with 1 % (w/v) NaCl. Strain VUL4_1T contained C18 : 1ω9c and C16 : 0 as the major cellular fatty acids and diphosphatidylglycerol as the major component of the polar lipids. The genomic DNA G+C content of VUL4_1T was 54.9 mol%. Strain VUL4_1T showed less than 70 % DNA-DNA relatedness with other species of the genus Actinomyces, further supporting strain VUL4_1T as a representative of a novel species. Based on the phenotypic data and phylogenetic inference, a novel species, Actinomyces liubingyangii sp. nov., is proposed with VUL4_1T (=CGMCC 4.7370T=DSM 104050T) as the type strain.

  2. Paenibacillus konkukensis sp. nov., isolated from animal feed.

    Science.gov (United States)

    Im, Wan-Taek; Yi, Kwon-Jung; Lee, Sang-Suk; Moon, Hyung In; Jeon, Che Ok; Kim, Dong-Woon; Kim, Soo-Ki

    2017-07-01

    A Gram-stain-positive, oxidase- and catalase-positive, aerobic, rod-shaped bacterium, designated strain SK-3146T, was isolated from animal feed. Phylogenetic analysis, based on 16S rRNA gene sequence comparisons, revealed that the strain formed a distinct lineage within the genus Paenibacillus that was closely related to Paenibacillusyunnanensis JCM 30953T (98.6 %), Paenibacillusvulneris CCUG 53270T (98.0 %) and Paenibacilluschinjuensis DSM 15045T (96.9 %). Cells were non-motile, endospore-forming and formed milky colonies on NA and R2A agar media. Growth of strain SK-3146T occurred at temperatures of 18-45 °C, at pH 6.0-9.5 and between 0.5-3.0 % NaCl (w/v). The major menaquinone was MK-7, with lesser amounts of MK-6 present. The cell wall peptidoglycan of strain SK-3146T contained meso-diaminopimelic acid. The major fatty acids were anteiso-C15 : 0 and iso-C16 : 0. The major polar lipids were diphosphatidylglycerol and phosphatidylethanolamine. The DNA G+C content was 53.8 mol% and the DNA-DNA hybridization relatedness values between strain SK-3146T and P.yunnanensis JCM 30953T and P.vulneris CCUG 53270T were 26.13±0.8 % and 38.7±0.6 %, respectively. The phenotypic, phylogenetic and chemotaxonomic results indicate that strain SK-3146T represents a novel species of the genus Paenibacillus, for which the name Paenibacillus konkukensis sp. nov. is proposed. The type strain is SK-3146T (=KACC 18876T=LMG 29568T).

  3. Rhizobium alvei sp. nov., isolated from a freshwater river.

    Science.gov (United States)

    Sheu, Shih-Yi; Huang, Hsing-Wei; Young, Chiu-Chung; Chen, Wen-Ming

    2015-02-01

    A bacterial strain designated TNR-22(T) was isolated from a freshwater river in Taiwan and characterized using a polyphasic taxonomic approach. Cells of strain TNR-22(T) were facultatively anaerobic, Gram-stain-negative, rod-shaped, motile by a single polar flagellum and formed cream-coloured colonies. Growth occurred at 4-45 °C (optimum, 25-30 °C), with 0-1.0 % (w/v) NaCl (optimum, 0.5 %) and at pH 7.0-8.0 (optimum, pH 7.0). Strain TNR-22(T) did not form nodules on Macroptilium atropurpureum. The nifH gene encoding denitrogenase reductase was not detected by PCR. The major fatty acids (>10 %) of strain TNR-22(T) were C18 : 1ω7c and C16 : 0. The DNA G+C content was 60.3 mol%. The polar lipid profile consisted of a mixture of phosphatidylethanolamine, phosphatidylglycerol, phosphatidylcholine, diphosphatidylglycerol, an uncharacterized aminoglycolipid and an uncharacterized phospholipid. Comparative analysis of 16S rRNA gene sequences showed that strain TNR-22(T) constituted a distinct branch within the genus Rhizobium, showing the highest level of sequence similarity with Rhizobium rosettiformans W3(T) (96.3 %). Phenotypic characteristics of the novel strain also differed from those of the most closely related species of the genus Rhizobium. On the basis of the genotypic, chemotaxonomic and phenotypic data, strain TNR-22(T) represents a novel species in the genus Rhizobium, for which the name Rhizobium alvei sp. nov. is proposed. The type strain is TNR-22(T) ( = BCRC 80408(T) = LMG 26895(T) = KCTC 23919(T)). © 2015 IUMS.

  4. Rhizobium rhizoryzae sp. nov., isolated from rice roots.

    Science.gov (United States)

    Zhang, Xiao-Xia; Tang, Xue; Sheirdil, Rizwan Ali; Sun, Lei; Ma, Xiao-Tong

    2014-04-01

    Two strains (J3-AN59(T) and J3-N84) of Gram-stain-negative, aerobic and rod-shaped bacteria were isolated from the roots of fresh rice plants. The 16S rRNA gene sequence similarity results showed that the similarity between strains J3-AN59(T) and J3-N84 was 100 %. Both strains were phylogenetically related to members of the genus Rhizobium, and they were most closely related to Rhizobium tarimense ACCC 06128(T) (97.43 %). Similarities in the sequences of housekeeping genes between strains J3-AN59(T) and J3-N84 and those of recognized species of the genus Rhizobium were less than 90 %. The polar lipid profiles of both strains were predominantly composed of phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylcholine and an unknown aminophospholipid. The major cellular fatty acids were summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c) and C16 : 0. The DNA G+C contents of J3-AN59(T) and J3-N84 were 55.7 and 57.1 mol%, respectively. The DNA-DNA relatedness value between J3-AN59(T) and J3-N84 was 89 %, and strain J3-AN59(T) showed 9 % DNA-DNA relatedness to R. tarimense ACCC 06128(T), the most closely related strain. Based on this evidence, we found that J3-AN59(T) and J3-N84 represent a novel species in the genus Rhizobium and we propose the name Rhizobium rhizoryzae sp. nov. The type strain is J3-AN59(T) ( = ACCC 05916(T) = KCTC 23652(T)).

  5. Ornithinimicrobium pekingense sp. nov., isolated from activated sludge.

    Science.gov (United States)

    Liu, Xing-Yu; Wang, Bao-Jun; Jiang, Cheng-Ying; Liu, Shuang-Jiang

    2008-01-01

    The bacterial strain LW6(T) was isolated from activated sludge of a wastewater treatment bioreactor. Cells of strain LW6(T) are Gram-positive, irregular, short rods and cocci, 0.5-0.8x1.0-1.6 microm. Colonies are light-yellow, smooth, circular and 0.2-1.0 mm in diameter after 3 days incubation. Strain LW6(T) is aerobic and heterotrophic. It grows at a temperature range of 26-38 degrees C and pH range of 6-9, with optimal growth at 33-37 degrees C and pH 7.8-8.2. The predominant cellular fatty acids of strain LW6(T) are iso-C(15:0) (38.9%) and iso-C(17:1)omega9c (18.8%). Strain LW6(T) has the major respiratory menaquinones MK-8(H(4)) and MK-8(H(2)) and polar lipids phosphatidylinositol, phosphatidylglycerol, diphosphatidylglycerol and unknown glycolipid/phospholipids. The cell wall peptidoglycan of strain LW6(T) contained the amino acids ornithine, lysine, glutamic acid, alanine, glycine and aspartic acid. Its molar DNA G+C content is 69 mol% (T(m)). Analysis of 16S rRNA gene sequences indicated that strain LW6(T) was related phylogenetically to members of the genus Ornithinimicrobium, with similarities ranging from 98.3 to 98.7%. The DNA-DNA relatedness of strain LW6(T) to Ornithinimicrobium humiphilum DSM 12362(T) and Ornithinimicrobium kibberense K22-20(T) was respectively 31.5 and 15.2%. Based on these results, it is concluded that strain LW6(T) represents a novel species of the genus Ornithinimicrobium, for which the name Ornithinimicrobium pekingense sp. nov. is proposed. The type strain is strain LW6(T) (=CGMCC 1.5362(T) =JCM 14001(T)).

  6. Pseudomonas turukhanskensis sp. nov., isolated from oil-contaminated soils.

    Science.gov (United States)

    Korshunova, Tatiana Y; Ramírez-Bahena, Martha-Helena; Chetverikov, Sergey P; Igual, Jose M; Peix, Álvaro; Loginov, Oleg

    2016-11-01

    A bacterial strain named IB1.1T was isolated in a screening of hydrocarbon-degrading bacteria from oil-contaminated soils on the territory of the Turukhansk District of Krasnoyarsk Krai, East Siberia, Russia. The 16S rRNA gene sequence had 98.7 % identity with respect to the closest phylogenetic relative, Pseudomonas granadensis F-278,770T, and the next most closely related species with 98.6 % similarity was Pseudomonaspunonensis, suggesting that IB1.1T should be classified within the genus Pseudomonas. The analysis of housekeeping genes rpoB, rpoD and gyrB showed similarities lower than 90 % in all cases with respect to the closest relatives, confirming its phylogenetic affiliation. The strain showed a polar flagellum. The respiratory quinone was Q9. The major fatty acids were 16 : 1ω7c/16 : 1ω6c (summed feature 3), 18 : 1ω7c and 16 : 0. The strain was oxidase- and catalase-positive, but the arginine dihydrolase system was not present. Nitrate reduction, urease and β-galactosidase production, and aesculin hydrolysis were negative. The temperature range for growth was 4-34 °C, and the strain could grow at pH 11. The DNA G+C content was 58.5 mol%. DNA-DNA hybridization results showed values of less than 30 % relatedness with respect to the type strains of the eight most closely related species. Therefore, the dataset of genotypic, phenotypic and chemotaxonomic data support the classification of strain IB1.1T into a novel species of the genus Pseudomonas, for which the name Pseudomonasturukhanskensis sp. nov. is proposed. The type strain is IB1.1T (=VKM B-2935T=CECT 9091T).

  7. Draft Genome Sequence of Micromonospora sp. Strain HK10, Isolated from Kaziranga National Park, India

    Science.gov (United States)

    Talukdar, Madhumita; Das, Dhrubajyoti; Borah, Chiranjeeta; Deka Boruah, Hari Prasanna; Bora, Tarun Chandra

    2016-01-01

    We report the 6.92-Mbp genome sequence of Micromonospora sp. HK10, isolated from soil samples collected from Kaziranga National Park, Assam, India. The full genome of strain Micromonospora sp. strain HK10 consists of 6,911,179 bp with 73.39% GC content, 6,196 protein-coding genes, and 86 RNAs. PMID:27516496

  8. Analysis of Kenyan isolates of Fusarium solani f. sp. phaseoli from ...

    African Journals Online (AJOL)

    Fusarium solani (Mart) f.sp. phaseoli (Burk) Synd. and Hans., is a plant pathogenic fungus that causes root rot in garden bean (Phaseolus vulgaris L.). To evaluate methods used in classifying strains of this pathogen, 52 Fusarium solani f.sp. phaseoli isolates from infected bean plants grown on different farms in Taita hills of ...

  9. Remediation of lead (Pb) by a novel Klebsiella sp. isolated from ...

    African Journals Online (AJOL)

    Remediation of lead (Pb) by a novel Klebsiella sp. isolated from tannery effluent of Ranipet, Vellore district. Anish Saini, Kumar M Rohini, Karthik Senan, Shakti Sagar, KE Vivekanandan, Osborne W Jabez ...

  10. Isolation of peridininol, an anti-spasmodic carotenoid pigment, from Zoanthus sp.

    Digital Repository Service at National Institute of Oceanography (India)

    Parameswaran, P.S.; Achuthankutty, C.T.

    A C37 carotenoid pigment, peridininol, isolated from a marine Zoanthus sp. exhibited promising anti-spasmodic activity against nicotine and serotonin in in vitro studies using guinea pig ileum. Its purification and structure are presented along...

  11. Allochromatium humboldtianum sp. nov., isolated from soft coastal sediments.

    Science.gov (United States)

    Serrano, Wilbert; Schrübbers, Jan; Amann, Rudolf; Fischer, Ulrich

    2015-09-01

    A novel purple sulfur bacterium, strain AX1YPE(T), was isolated from marine sediments sampled at 47 m depth in Callao Bay, Perú. Strain AX1YPE grew anaerobically, synthesizing bacteriochlorophyll a and carotenoid pigments of the spirilloxanthin series. Cells were Gram-stain-negative rods and actively motile by a polar flagellum. Strain AX1YPE was able to grow photolithoautotrophically with sulfide and thiosulfate as electron donors. This new phototrophic organism utilized ammonium salt, N2, urea and glutamate as nitrogen sources. Strain AX1YPE had a DNA base composition of 63.9 mol% G+C. Analysis of the 16S rRNA gene sequence indicated that strain AX1YPE clusters in a separate branch within the genus Allochromatium of the family Chromatiaceae. Strain AX1YPE showed 16S rRNA gene sequence similarities of 98.2% with Allochromatium vinosum DSM 180(T) and Allochromatium minutissimum DSM 1376(T), 98.1% with Allochromatium phaeobacterium JA144(T), 97.3% with Allochromatium renukae DSM 18713(T) and 96.8% with Allochromatium warmingiiDSM 173(T). DNA-DNA hybridization values to the type strains of its closest relatives, A. vinosum and A. minutissimum, were 59 and 64%, respectively. The predominant fatty acid of strain AX1YPE(T) was C18 : 1ω;7c and it notably possessed C20 : 1 as a minor component. PCR-based molecular typing (Box A1R and randomly amplified polymorphic DNA) produced a unique banding pattern for strain AX1YPE(T) in comparison with the type strains of A. vinosum and A. minutissimum. Based on data from this polyphasic taxonomic study, which also includes average nucleotide identity comparison of five concatenated housekeeping genes, strain AX1YPE(T) is considered to represent a novel species of the genus Allochromatium for which the name Allochromatiumhumboldtianum sp. nov. is proposed. The type strain is AX1YPE(T) ( = DSM 21881(T) = KCTC 15448(T)).

  12. Paenalcaligenes suwonensis sp. nov., isolated from spent mushroom compost.

    Science.gov (United States)

    Moon, Ji-Young; Lim, Jun-Muk; Ahn, Jae-Hyung; Weon, Hang-Yeon; Kwon, Soon-Wo; Kim, Soo-Jin

    2014-03-01

    A bacterial strain, ABC02-12(T), was isolated from spent mushroom compost, a waste product of button mushroom cultivation. Cells of the strain were Gram-stain-negative, catalase- and oxidase-positive, non-spore-forming, aerobic flagellated rods. Optimum growth occurred at 28 °C and pH 7.0. 16S rRNA gene sequence analysis showed that strain ABC02-12(T) shared the highest sequence similarities with Paenalcaligenes hominis CCUG 53761A(T) (96.0 %), Alcaligenes faecalis subsp. parafaecalis G(T) (95.7 %), Alcaligenes faecalis subsp. faecalis IAM 12369(T) (95.4 %) and Pusillimonas noertemannii BN9(T) (95.3 %). According to the phylogenetic tree, strain ABC02-12(T) formed a robust cluster with Paenalcaligenes hominis CCUG 53761A(T) and Paenalcaligenes hermetiae KBL009(T). The quinone system was ubiquinone Q-8 with minor amounts of Q-7. The major fatty acids (>5 % of total fatty acids) were C16 : 0, C16 : 1ω6c and/or C16 : 1ω7c (summed feature 3), C18 : 1ω7c and/or C18 : 1ω6c (summed feature 8), C17 : 0 cyclo, and iso-C16 : 1 I, C14 : 0 3-OH and/or an unknown fatty acid (summed feature 2). The polar lipids were phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol and an unknown aminolipid. Putrescine was the principal polyamine, with small amounts of 2-hydroxyputrescine and cadaverine. On the basis of the evidence presented in this study, strain ABC02-12(T) is a representative of a novel species within the genus Paenalcaligenes, for which the name Paenalcaligenes suwonensis sp. nov. is proposed. The type strain is ABC02-12(T) ( = KACC 16537(T) = NBRC 108927(T)).

  13. Streptococcus caviae sp. nov., isolated from guinea pig faecal samples.

    Science.gov (United States)

    Palakawong Na Ayudthaya, Susakul; Hilderink, Loes J; Oost, John van der; Vos, Willem M de; Plugge, Caroline M

    2017-05-01

    A novel cellobiose-degrading and lactate-producing bacterium, strain Cavy grass 6T, was isolated from faecal samples of guinea pigs (Cavia porcellus). Cells of the strain were ovalshaped, non-motile, non-spore-forming, Gram-stain-positive and facultatively anaerobic. The strain gr at 25-40 °C (optimum 37 °C) and pH 4.5-9.5 (optimum 8.0). Phylogenetic analysis based on 16S rRNA gene sequences showed that strain Cavy grass 6T belongs to the genus Streptococcus with its closest relative being Streptococcus devriesei CCUG 47155T with only 96.5 % similarity. Comparing strain Cavy grass 6T and Streptococcus devriesei CCUG 47155T, average nucleotide identity and level of digital DNA-DNA hybridization dDDH were only 86.9 and 33.3 %, respectively. Housekeeping genes groEL and gyrA were different between strain Cavy grass 6T and other streptococci. The G+C content of strain Cavy grass 6T was 42.6±0.3 mol%. The major (>10 %) cellular fatty acids of strain Cavy grass 6T were C16:0, C20 : 1ω9c and summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c). Strain Cavy grass 6T ferment a range of plant mono- and disaccharides as well as polymeric carbohydrates, including cellobiose, dulcitol, d-glucose, maltose, raffinose, sucrose, l-sorbose, trehalose, inulin and dried grass extract, to lactate, formate, acetate and ethanol. Based on phylogenetic and physiological characteristics, Cavy grass 6T can be distinguished from other members of the genus Streptococcus. Therefore, a novel species of the genus Streptococcus, family Streptococcaceae, order Lactobacillales is proposed, Streptococcuscaviae sp. nov. (type strain Cavy grass 6T=TISTR 2371T=DSM 102819T).

  14. Francisella guangzhouensis sp. nov., isolated from air-conditioning systems.

    Science.gov (United States)

    Qu, Ping-Hua; Chen, Shou-Yi; Scholz, Holger C; Busse, Hans-Jürgen; Gu, Quan; Kämpfer, Peter; Foster, Jeffrey T; Glaeser, Stefanie P; Chen, Cha; Yang, Zhi-Chong

    2013-10-01

    Four strains (08HL01032(T), 09HG994, 10HP82-6 and 10HL1960) were isolated from water of air-conditioning systems of various cooling towers in Guangzhou city, China. Cells were Gram-stain-negative coccobacilli without flagella, catalase-positive and oxidase-negative, showing no reduction of nitrate, no hydrolysis of urea and no production of H2S. Growth was characteristically enhanced in the presence of l-cysteine, which was consistent with the properties of members of the genus Francisella. The quinone system was composed of ubiquinone Q-8 with minor amounts of Q-9. The polar lipid profile consisted of the predominant lipids phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylglycerol, phosphatidylcholine, two unidentified phospholipids (PL2, PL3), an unidentified aminophospholipid and an unidentified glycolipid (GL2). The polyamine pattern consisted of the major compounds spermidine, cadaverine and spermine. The major cellular fatty acids were C10 : 0, C14 : 0, C16 : 0, C18 : 1ω9c and C18 : 1 3-OH. A draft whole-genome sequence of the proposed type strain 08HL01032(T) was generated. Comparative sequence analysis of the complete 16S and 23S rRNA genes confirmed affiliation to the genus Francisella, with 95 % sequence identity to the closest relatives in the database, the type strains of Francisella philomiragia and Francisella noatunensis subsp. orientalis. Full-length deduced amino acid sequences of various housekeeping genes, recA, gyrB, groEL, dnaK, rpoA, rpoB, rpoD, rpoH, fopA and sdhA, exhibited similarities of 67-92 % to strains of other species of the genus Francisella. Strains 08HL01032(T), 09HG994, 10HP82-6 and 10HL1960 exhibited highly similar pan-genome PCR profiles. Both the phenotypic and molecular data support the conclusion that the four strains belong to the genus Francisella but exhibit considerable divergence from all recognized Francisella species. Therefore, we propose the name Francisella guangzhouensis sp

  15. Pseudomonas guariconensis sp. nov., isolated from rhizospheric soil.

    Science.gov (United States)

    Toro, Marcia; Ramírez-Bahena, Martha-Helena; Cuesta, Maria José; Velázquez, Encarna; Peix, Alvaro

    2013-12-01

    We isolated a bacterial strain designated PCAVU11(T) in the course of a study of phosphate-solubilizing bacteria occurring in rhizospheric soil of Vigna unguiculata (L.) Walp. in Guárico state, Venezuela. The 16S rRNA gene sequence had 99.2 % sequence similarity with respect to the most closely related species, Pseudomonas taiwanensis, and 99.1 % with respect to Pseudomonas entomophila, Pseudomonas plecoglossicida and Pseudomonas monteilii, on the basis of which PCAVU11(T) was classified as representing a member of the genus Pseudomonas. Analysis of the housekeeping genes rpoB, rpoD and gyrB confirmed the phylogenetic affiliation and showed sequence similarities lower than 95 % in all cases with respect to the above-mentioned closest relatives. Strain PCAVU11(T) showed two polar flagella. The respiratory quinone was Q9. The major fatty acids were 16 : 0 (25.7 %), 18 : 1ω7c (20.4 %), 17 : 0 cyclo (11.5 %) and 16 : 1ω7c/15 : 0 iso 2-OH in summed feature 3 (10.8 %). The strain was oxidase-, catalase- and urease-positive, the arginine dihydrolase system was present but nitrate reduction, β-galactosidase production and aesculin hydrolysis were negative. Strain PCAVU11(T) grew at 44 °C and at pH 10. The DNA G+C content was 61.5 mol%. DNA-DNA hybridization results showed values lower than 56 % relatedness with respect to the type strains of the four most closely related species. Therefore, the results of genotypic, phenotypic and chemotaxonomic analyses support the classification of strain PCAVU11(T) as representing a novel species of the genus Pseudomonas, which we propose to name Pseudomonas guariconensis sp. nov. The type strain is PCAVU11(T) ( = LMG 27394(T) = CECT 8262(T)).

  16. Paracoccus pueri sp. nov., isolated from Pu'er tea.

    Science.gov (United States)

    Wang, Yu-Shuai; Yan, Zheng-Fei; Lin, Pei; Gao, Wei; Yi, Tae-Hoo

    2018-02-26

    A Gram-stain negative, aerobic, short rod-shaped, motile by flagella bacterial strain (THG-N2.35 T ), was isolated from Pu'er tea. Growth occurred at 10-40 °C (optimum 28 °C), at pH 4-7 (optimum 7) and at 0-5% NaCl (optimum 1%). Based on 16S rRNA gene sequence analysis, the near phylogenetic neighbours of strain THG-N2.35 T were identified as Paracoccus hibisci KACC 18632 T (99.0%), Paracoccus tibetensis CGMCC 1.8925 T (98.7%), Paracoccus beibuensis CGMCC 1.7295 T (98.2%), Paracoccus aestuarii KCTC 22049 T (98.2%), Paracoccus rhizosphaerae LMG 26205 T (98.1%), Paracoccus zeaxanthinifaciens ATCC 21588 T (97.1%), Paracoccus marcusii DSM 11574 T (97.0%). Levels of similarity between strain THG-N2.35 T and other Paracoccus species were lower than 97.0%. DNA-DNA hybridization values between strain THG-N2.35 T and P. hibisci KACC 18632 T , P. tibetensis CGMCC 1.8925 T , P. beibuensis CGMCC 1.7295 T , P. aestuarii KCTC 22049 T , P. rhizosphaerae LMG 26205 T , P. zeaxanthinifaciens ATCC 21588 T , P.marcusii DSM 11574 T were 47.5% (42.3%, reciprocal analysis), 36.1% (32.3%), 24.7% (22.1%), 19.2% (16.3%), 11.3% (8.8%), 11.1% (10.8%), 6.1% (5.8%), respectively. The DNA G+C content of strain THG-N2.35 T was 62.3 mol%. The polar lipids were diphosphatidylglycerol, phosphatidyl-N-methylethanolamine, phosphatidylethanolamine, phosphatidylglycerol and phosphatidylcholine. The quinone was ubiquinone-10 (Q-10). The major fatty acids were C 10:0 3OH, C 16:0 , C 18:0 and C 18:1 ω7ϲ. On the basis of the phylogenetic analysis, chemotaxonomic data, physiological characteristics and DNA-DNA hybridization data, strain THG-N2.35 T represent a novel species of the genus Paracoccus, for which the name Paracoccus pueri sp. nov. is proposed. The type strain is THG-N2.35 T (= KACC 18934 T  = CCTCC AB 2016177 T ).

  17. Porphyrobacter algicida sp. nov., an algalytic bacterium isolated from seawater.

    Science.gov (United States)

    Kristyanto, Sylvia; Lee, Sang Don; Kim, Jaisoo

    2017-11-01

    A novel Gram-stain-negative, yellow-pigmented, catalase- and oxidase-positive, non-endospore-forming, flagellated bacterium, designated strain Yeonmyeong 2-22 T , was isolated from surface seawater of Geoje Island, Republic of Korea. Strain Yeonmyeong 2-22 T showed algalytic activity against the seven strains tested: Cochlodinium polykrikoides, Chattonella marina, Heterosigma akashiwo, Scrippsiella trochoidea, Heterocapsa triquetra, Prorocentrum minimum and Skeletonema costatum. A taxonomic study was carried out based on a polyphasic approach to characterize the exact taxonomic position of strain Yeonmyeong 2-22 T . The bacterium was able to grow at 10-40 °C, at salinities from 0 to 9 %, at pH from 4.0 to 9.0 and was not able to degrade gelatin or casein. Phylogenetic analysis of 16S rRNA gene sequences revealed that strain Yeonmyeong 2-22 T was considered to represent a novel species of the genus Porphyrobacter, which belongs to the family Erythrobacteraceae, and was related most closely to Porphyrobacter dokdonensis DSW-74 T with 97.23 % 16S rRNA gene sequence similarity. The dominant cellular fatty acids of strain Yeonmyeong 2-22 T were C18 : 1ω7c (49.7 %), C16 : 0 (12.0 %) and 11-methyl C18 : 1ω7c (11.5 %), and ubiquinone-10 (Q-10) was the predominant respiratory lipoquinone. The genomic DNA G+C content of strain Yeonmyeong 2-22 T was calculated to be 63.0 mol%. Phenotypic characteristics of the novel strain also differed from other members of the genus Porphyrobacter. On the basis of polyphasic taxonomic data, strain Yeonmyeong 2-22 T represents as a novel species of the genus Porphyrobacter, for which the name of Porphyrobacter algicida sp. nov. is proposed. The type strain is Yeonmyeong 2-22 T (=KEMB 9005-328 T =JCM 31499 T ).

  18. Acinetobacter gandensis sp. nov. isolated from horse and cattle.

    Science.gov (United States)

    Smet, Annemieke; Cools, Piet; Krizova, Lenka; Maixnerova, Martina; Sedo, Ondrej; Haesebrouck, Freddy; Kempf, Marie; Nemec, Alexandr; Vaneechoutte, Mario

    2014-12-01

    We previously reported the presence of an OXA-23 carbapenemase in an undescribed species of the genus Acinetobacter isolated from horse dung at the Faculty of Veterinary Medicine, Ghent University, Belgium. Here we include six strains to corroborate the delineation of this taxon by phenotypic characterization, DNA-DNA hybridization, 16S rRNA gene and rpoB sequence analysis, % G+C determination, MALDI-TOF MS and fatty acid analysis. The nearly complete 16S rRNA gene sequence of strain UG 60467(T) showed the highest similarities with those of the type strains of Acinetobacter bouvetii (98.4 %), Acinetobacter haemolyticus (97.7 %), and Acinetobacter schindleri (97.2 %). The partial rpoB sequence of strain UG 60467(T) showed the highest similarities with 'Acinetobacter bohemicus' ANC 3994 (88.6 %), A. bouvetii NIPH 2281 (88.6 %) and A. schindleri CIP 107287T (87.3 %). Whole-cell MALDI-TOF MS analyses supported the distinctness of the group at the protein level. The predominant fatty acids of strain UG 60467(T) were C12 : 0 3-OH, C12 : 0, C16 : 0, C18 : 1ω9c and summed feature 3 (C16 : 1ω7c and/or iso-C15 : 0 2-OH). Strains UG 60467(T) and UG 60716 showed a DNA-DNA relatedness of 84 % with each other and a DNA-DNA relatedness with A. schindleri LMG 19576(T) of 17 % and 20 %, respectively. The DNA G+C content of strain UG 60467(T) was 39.6 mol%. The name Acinetobacter gandensis sp. nov. is proposed for the novel taxon. The type strain is UG 60467(T) ( = ANC 4275(T) = LMG 27960(T) = DSM 28097(T)). © 2014 IUMS.

  19. Altererythrobacter soli sp. nov., isolated from desert sand.

    Science.gov (United States)

    Zhao, Qi; Li, Hui-Ru; Han, Qing-Qing; He, Ao-Lei; Nie, Cong-Yuan; Wang, Suo-Min; Zhang, Jin-Lin

    2017-02-01

    An alkaliphilic strain designed MN-1T was isolated from a desert sand sample collected from Tengger desert, north-western China. To delineate its taxonomic position, this Gram-stain-negative, rod-shaped, strictly aerobic bacterium was subjected to a polyphasic taxonomic study. Growth was observed at temperatures from 4 to 37 °C (optimum 30-32 °C), at salinities from 0 to 2 % (optimum 1 %) and at pH from 6.5 to 12.0 (optimum 7.0-9.0). Phylogenetic analysis based on 16S rRNA gene sequencing showed that strain MN-1T was a member of the genus Altererythrobacterbut could be distinguished from recognized species of this genus. Compared to the reference strains, the novel strain was flagellated and motile by means of polar flagella. The predominant respiratory quinone was ubiquinone-10 and the major polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, sphingoglycolipid, phosphatidylglycerol, phosphatidylcholine, one unidentified glycolipid, one unidentified phospholipid and four unidentified lipids. The predominant fatty acids were C18 : 1ω7c, summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c) and C16 : 0. These chemotaxonomic traits were in agreement with the characteristics of the genus Altererythrobacter. Strain MN-1T was most closely related to Altererythrobacter xinjiangensis S3-63T (96.9 % 16S rRNA gene sequence similarity), followed by Altererythrobacter dongtanensis JM27T (96.4 %) and Altererythrobacter marinus H32T (96.1 %). The G+C content of the genomic DNA of strain MN-1T was 67.0 mol%. On the basis of data from this polyphasic taxonomic study, strain MN-1T is proposed as the type strain of a novel species of the genus Altererythrobacter, named as Altererythrobacter soli sp. nov. (=KCTC 52135T=MCCC 1K02066T).

  20. Bacillus praedii sp. nov., isolated from purplish paddy soil.

    Science.gov (United States)

    Liu, Bo; Liu, Guo-Hong; Sengonca, Cetin; Schumann, Peter; Wang, Jie-Ping; Zhu, Yu-Jing; Liu, Qin-Ying; Wang, Ming-Kuang

    2017-08-01

    A Gram-stain-positive, rod-shaped, endospore-forming, aerobic bacterium, designated strain FJAT-25547T, was isolated from the purplish paddy soil collected from Linshan Township, Yanting Prefecture of Sichuan Province in PR China (31° 16' N 105° 27' E). Growth was achieved aerobically at temperatures between 15 and 40 °C (optimum 30 °C), with between 0 and 10.0 % NaCl (w/v) (optimum 4 %) and in the range of pH 5.0-12.0 (optimum pH 9.0). The cell-wall peptidoglycan contained meso-diaminopimelic acid, and the main isoprenoid quinone was MK-7. The major fatty acids were iso-C15 : 0 (55.4 %), anteiso-C15 : 0 (22.2 %), iso-C16 : 0 (5.1 %) and iso-C14 : 0 (6.5 %). The main polar lipids were diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain FJAT-25547T was a member of the genus Bacillus and was most closely related to Bacillus horneckiae DSM 23495T (97.7 % similarity), Bacillus eiseniae A1-2T (97.5 %), Bacillus mesophilum IITR-54T (97.2 %) and Bacillus kochii WCC 4582T (97.0 %). The average nucleotide identity value between strain FJAT-25547T and the type strain of the most closely related species, B. horneckiae DSM 23495T, was 77.7 %, less than the proposed cut-off value of 96.0 % for differentiating species within the genus. The in silico DNA-DNA hybridization value of strain FJAT-25547T with the most closely related species was 22.7 %, Bacillus for which the name Bacillus praedii sp. nov. (type strain FJAT-25547T=CCTCC AB 2015208T=DSM 101002T) is proposed.

  1. Novosphingobium piscinae sp. nov., isolated from a fish culture pond.

    Science.gov (United States)

    Sheu, Shih-Yi; Chen, Zih-Han; Chen, Wen-Ming

    2016-03-01

    A bacterial strain designated SLH-16T was isolated from a fish culture pond in Taiwan and characterized using a polyphasic taxonomic approach. Cells of strain SLH-16T were Gram-stain-negative, aerobic, motile rods that were covered by large capsules and formed yellow colonies. Growth occurred at 20-40 °C (optimum, 37-40 °C), at pH 4.0-9.0 (optimum, pH 5.0-6.0) and with 0-0.5 % (w/v) NaCl (optimum, 0 %). Phylogenetic analyses based on 16S rRNA gene sequences showed that strain SLH-16T belonged to the genus Novosphingobium and was related most closely to Novosphingobium taihuense T3-B9T with sequence similarity of 97.3 %. The major fatty acids (>10 %) of strain SLH-16T were C18 : 1ω7c, summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c) and C16 : 0. The major 2-hydroxy fatty acid was C14 : 0 2-OH. The polar lipid profile consisted of phosphatidylglycerol, phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylmonomethylethanolamine, phosphatidyldimethylethanolamine, sphingoglycolipid, phosphatidylcholine and several uncharacterized lipids. The major polyamine was spermidine. The major isoprenoid quinone was Q-10. The DNA G+C content was 65.2 mol%. The DNA-DNA hybridization value for strain SLH-16T and the type strain of N. taihuense was less than 43.2 %. Phenotypic characteristics of the novel strain also differed from those of the closest related species of the genus Novosphingobium. On the basis of the genotypic, chemotaxonomic and phenotypic data, strain SLH-16T represents a novel species in the genus Novosphingobium, for which the name Novosphingobium piscinae sp. nov. is proposed. The type strain is SLH-16T ( = BCRC 80888T = LMG 28418T = KCTC 42194T).

  2. Sphingomonas antarctica sp. nov., isolated from Antarctic tundra soil.

    Science.gov (United States)

    Huang, Yao; Wei, Ziyan; Danzeng, Wangmu; Kim, Myong Chol; Zhu, Guoxin; Zhang, Yumin; Liu, Zuobing; Peng, Fang

    2017-10-01

    Strain 200 T , isolated from a soil sample taken from Antarctic tundra soil around Zhongshan Station, was found to be a Gram-stain-negative, yellow-pigmented, catalase-positive, oxidase-negative, non-motile, non-spore-forming, rod-shaped and aerobic bacterium. Strain 200 T grew optimally at pH 7.0 and in the absence of NaCl on R2A. Its optimum growth temperature was 20 °C. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain 200 T belonged to the genus Sphingomonas. Strain 200 T showed the highest sequence similarities to Sphingomonas kyeonggiense THG-DT81 T (95.1 %) and Sphingomonas molluscorum KMM 3882 T (95.1 %). Chemotaxonomic analysis showed that strain 200 T had characteristics typical of members of the genus Sphingomonas. Ubiquinone 10 was the predominant respiratory quinone and sym-homospermidine was the polyamine. The major polar lipids were sphingoglycolipid, phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol and phosphatidylcholine. The G+C content of the genomic DNA was determined to be 60.9 mol%. Strain 200 T contained C16 : 0 (31.6 %), summed feature 8 (comprising C18 : 1ω7c and/or C18 : 1ω6c, 22.7 %), summed feature 3 (comprising C16 : 1ω7c and/or C16 : 1ω6c, 11.2 %), C18 : 0 (7.8 %) and C14 : 0 2OH (6.7 %) as the major cellular fatty acids. On the basis of phylogenetic analysis, and physiological and biochemical characterization, strain 200 T should be classified as representing a novel species of the genus Sphingomonas, for which the name Sphingomonasantarctica sp. nov. is proposed. The type strain is 200 T (=CCTCC AB 2016064 T =KCTC 52488 T ).

  3. Lutimaribacter marinistellae sp. nov., isolated from a starfish.

    Science.gov (United States)

    Zhang, Yanfeng; Tang, Peiping; Xu, Yong; Fang, Wei; Wang, Xiaotang; Fang, Zemin; Xiao, Yazhong

    2016-09-01

    A taxonomic study was carried out on a Gram-staining-negative bacterium, strain SF-12T, isolated from an unidentified starfish living in Sanya, PR China. Cells of SF-12T were non-spore-forming rods, 0.5-0.8 µm wide, 2.2-2.5 µm long and motile by means of flagella. SF-12T was facultatively anaerobic, heterotrophic, oxidase- and catalase-positive. Growth of SF-12T occurred at 15-38 °C (optimum, 30 °C), at pH 6.5-8.5 (optimum, pH 7.0), and in the presence of 2.0-7.0 % (w/v) NaCl (optimum, 3.0-4.0 %). The predominant fatty acids of SF-12T were C18 : 1ω7c and/or C18 : 1ω6c. Ubiquinone 10 was the sole respiratory quinone of SF-12T. The major polar lipids of SF-12T were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, three unknown aminolipids, and seven unknown phospholipids. The DNA G+C content was 61 mol%. SF-12T showed the highest 16S rRNA gene sequence similarity to Lutimaribacter pacificus W11-2BT (96.06 %), followed by Cribrihabitans neustonicus CC-AMHB-3T (96.02 %), Lutimaribacter saemankumensis SMK-117T (96.0 %), Cribrihabitans marinus CZ-AM5T (95.92 %), Lutimaribacter litoralis KU5D5T (95.92 %) and other species of the family Rhodobacteraceae(<95.9 %). However, phylogenetic trees based on 16S rRNA gene sequences showed that SF-12T formed a lineage with members of the genus Lutimaribacter in the trees. On the basis of phenotypic, chemotaxonomic and phylogenetic analyses, SF-12T is considered to represent a novel species of the genus Lutimaribacter, for which the name Lutimaribacter marinistellae sp. nov. is proposed. The type strain is SF-12T (=MCCC 1K01154T=KCTC 42911T).

  4. Nocardia heshunensis sp. nov., an actinomycete isolated from soil.

    Science.gov (United States)

    Huang, Jian-Rong; Ming, Hong; Duan, Yan-Yan; Li, Shuai; Zhang, Ling-Yu; Ji, Wei-Li; Zhao, Zhuo-Li; Meng, Xiao-Lin; Li, Wen-Jun; Nie, Guo-Xing

    2017-09-01

    A novel Gram-stain-positive, aerobic, non-motile and acid-fast actinomycete strain, designated CFH S0067T, was isolated from a soil sample collected from Heshun old town in Tengchong, Yunnan province, in south-west PR China. The taxonomic position of strain CFH S0067T was studied in detail using a polyphasic approach. Phylogenetic analysis, based on 16S rRNA gene sequences, revealed that strain CFH S0067T belongs to the genus Nocardia and is closely related to Nocardia concava JCM 12351T (99.3 % similarity), forming a separated branch with this type strain. However, the strain shared 96.0 % gyrB gene sequence similarity with N. concava JCM 12351T. Furthermore, DNA-DNA hybridization showed 56.5±0.6 % DNA relatedness between the novel strain and N. concava JCM 12351T. The whole-cell hydrolysates contained meso-diaminopimelic acid (type IV) and arabinose, galactose, fructose and mannose. The major polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol, phosphatidylinositol mannoside and one unidentified lipid. Strain CFH S0067T contained MK-8 (H4ω-cycl) as the predominant menaquinone. C16 : 0, summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c), C18 : 1ω9c and C18 : 0 10-methyl (TBSA) were the major cellular fatty acids. Mycolic acids were also detected. The G+C content of the genomic DNA was determined to be 66.9 mol%. A combination of the low DNA-DNA hybridization values and phenotypic properties demonstrated that strain CFH S0067Tis clearly distinguishable from its most closely related strain, N. concava JCM 12351T. On the basis of this polyphasic study, it is concluded that strain CFH S0067T should be considered to represent a novel species of the genus Nocardia, for which the name Nocardia heshunensis sp. nov. is proposed. The type strain is CFH S0067T (=DSM 46764T=JCM 30085T).

  5. Rhizobium paknamense sp. nov., isolated from lesser duckweeds (Lemna aequinoctialis).

    Science.gov (United States)

    Kittiwongwattana, Chokchai; Thawai, Chitti

    2013-10-01

    A Gram-stain-negative, rod-shaped bacterium was isolated and designated strain L6-8(T) during a study of endophytic bacterial communities in lesser duckweed (Lemna aequinoctialis). Cells of strain L6-8(T) were motile with peritrichous flagella. The analysis of the nearly complete 16S rRNA gene sequence indicated that strain L6-8(T) was phylogenetically related to species of the genus Rhizobium. Its closest relatives were Rhizobium borbori DN316(T) (97.6 %), Rhizobium oryzae Alt 505(T) (97.3 %) and Rhizobium pseudoryzae J3-A127(T) (97.0 %). The sequence similarity analysis of housekeeping genes recA, glnII, atpD and gyrB showed low levels of sequence similarity (Rhizobium with validly published names. The pH range for growth was 4.0-9.0 (optimum 6.0-7.0), and the temperature range for growth was 20-45 °C (optimum 30 °C). Strain L6-8(T) tolerated NaCl up to 2 % (w/v) (optimum 1 % NaCl). The predominant components of cellular fatty acids were C19 : 0 cyclo ω8c (31.32 %), summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c; 25.39 %) and C16 : 0 (12.03 %). The DNA G+C content of strain L6-8(T) was 60.4 mol% (Tm). nodC and nifH were not amplified in strain L6-8(T). DNA-DNA relatedness between strain L6-8(T) and R. borbori DN316(T), R. oryzae Alt505(T) and R. pseudoryzae J3-A127(T) was between 11.2 and 18.3 %. Based on the sequence similarity analyses, phenotypic, biochemical and physiological characteristics and DNA-DNA hybridization, strain L6-8(T) could be readily distinguished from its closest relatives and represents a novel species of the genus Rhizobium, for which the name Rhizobium paknamense sp. nov. is proposed. The type strain is L6-8(T) ( = NBRC 109338(T) = BCC 55142(T)).

  6. Rhizobium ipomoeae sp. nov., isolated from a water convolvulus field.

    Science.gov (United States)

    Sheu, Shih-Yi; Chen, Zih-Han; Young, Chiu-Chung; Chen, Wen-Ming

    2016-04-01

    A bacterial strain, designated shin9-1T, was isolated from a water sample taken from a water convolvulus field in Taiwan and characterized using a polyphasic taxonomical approach. Cells of strain shin9-1T were aerobic, Gram-stain-negative, rod-shaped and surrounded by a thick capsule and formed cream-coloured colonies. Growth occurred at 10-45 °C (optimum, 30 °C), with 0-3.0% NaCl (optimum, 0.5%) and at pH 7.0-9.0 (optimum, pH 7.0). Strain shin9-1T did not form nodules on a legume plant, Macroptilium atropurpureum, and the nodulation genes nodA, nodC and the nitrogenase reductase gene nifH were not detected by PCR. Phylogenetic analyses based on 16S rRNA and three housekeeping gene sequences (recA, atpD and rpoB) showed that strain shin9-1T belonged to the genus Rhizobium. Strain shin9-1T had the highest level of 16S rRNA gene sequence similarity with respect to Rhizobium daejeonense L61T (97.6 %). The major fatty acid of strain shin9-1T was C18:1ω7c. The polar lipid profile consisted of phosphatidylethanolamine, phosphatidylglycerol, phosphatidylcholine, diphosphatidylglycerol, phosphatidylmonomethylethanolamine and several uncharacterized lipids. The DNA G+C content was 58.3 mol%. The DNA-DNA relatedness of strain shin9-1T with respect to recognized species of the genus Rhizobium was less than 70%. Phenotypic characteristics of the novel strain also differed from those of the most closely related species of the genus Rhizobium. On the basis of the phylogenetic inference and phenotypic data, strain shin9-1T should be classified as a representative of a novel species, for which the name Rhizobium ipomoeae sp. nov. is proposed. The type strain is shin9-1T (=LMG 27163T=KCTC 32148T).

  7. Flavobacterium xueshanense sp. nov. and Flavobacterium urumqiense sp. nov., two psychrophilic bacteria isolated from glacier ice.

    Science.gov (United States)

    Dong, Kun; Liu, Hongcan; Zhang, Jianli; Zhou, Yuguang; Xin, Yuhua

    2012-05-01

    Two Gram-stain-negative, rod-shaped bacteria, designated strains Sr22(T) and Sr25(T), were isolated from water of melted ice from the China No.1 glacier, Xinjiang Uygur Autonomous Region, China. Cells formed yellow, circular, convex colonies. 16S rRNA gene sequence analysis indicated that strains Sr22(T) and Sr25(T) belong to the genus Flavobacterium, sharing ≤99.1  and ≤99.6 % similarity, respectively, with the type strains of recognized species of the genus. Strain Sr22(T) shared highest 16S rRNA gene sequence similarity with Flavobacterium tiangeerense CGMCC 1.6847(T) (98.6 %), Flavobacterium fryxellicola LMG 22022(T) (98.1 %) and Flavobacterium omnivorum CGMCC 1.2747(T) (99.1 %). Strain Sr25(T) shared highest similarity with Flavobacterium sinopsychrotolerans CGMCC 1.8704(T) (98.5 %), Flavobacterium degerlachei NBRC 102677(T) (98.4 %) and Flavobacterium xinjiangense CGMCC 1.2749(T) (99.5 %). The predominant fatty acids of strain Sr22(T) were iso-C(15 : 1) G (6.01 %), iso-C(15 : 0) (8.93 %), iso-C(16 : 1) H (12.68 %), iso-C(16 : 0) (10.4 %), C(15 : 1)ω6c (8.97 %), C(17 : 1)ω6c (5.96 %), iso-C(16 : 0) 3-OH (11.14 %) and summed feature 3 (comprising C(16 : 1)ω7c and/or C(16 : 1)ω6c, 12.33 %). The major fatty acids of strain Sr25(T) were iso-C(15 : 0) (10.8 %), anteiso-C(15 : 0) (5.23 %), C(15 : 1)ω6c (11.79 %), C(17 : 1)ω6c (5.43 %), iso-C(16 : 0) 3-OH (7.04 %) and summed feature 3 (20.42 %). The genomic DNA G+C contents of strains Sr22(T) and Sr25(T) were 37.2 and 35.1 mol%. On the basis of differential phenotypic and phylogenetic characteristics, these strains are considered to represent two novel species of the genus Flavobacterium, for which the names Flavobacterium xueshanense sp. nov. (type strain Sr22(T)  = CGMCC 1.9227(T)  = NBRC 106479(T)) and Flavobacterium urumqiense sp. nov. (type strain Sr25(T)  = CGMCC 1.9230(T)  = NBRC 106480

  8. Marinobacter salarius sp. nov. and Marinobacter similis sp. nov., isolated from sea water.

    Directory of Open Access Journals (Sweden)

    Hooi Jun Ng

    Full Text Available Two non-pigmented, motile, Gram-negative marine bacteria designated R9SW1T and A3d10T were isolated from sea water samples collected from Chazhma Bay, Gulf of Peter the Great, Sea of Japan, Pacific Ocean, Russia and St. Kilda Beach, Port Phillip Bay, the Tasman Sea, Pacific Ocean, respectively. Both organisms were found to grow between 4 °C and 40 °C, between pH 6 to 9, and are moderately halophilic, tolerating up to 20% (w/v NaCl. Both strains were found to be able to degrade Tween 40 and 80, but only strain R9SW1T was found to be able to degrade starch. The major fatty acids were characteristic for the genus Marinobacter including C16:0, C16:1ω7c, C18:1ω9c and C18:1ω7c. The G+C content of the DNA for strains R9SW1T and A3d10T were determined to be 57.1 mol% and 57.6 mol%, respectively. The two new strains share 97.6% of their 16S rRNA gene sequences, with 82.3% similarity in the average nucleotide identity (ANI, 19.8% similarity in the in silico genome-to-genome distance (GGD, 68.1% similarity in the average amino acid identity (AAI of all conserved protein-coding genes, and 31 of the Karlin's genomic signature dissimilarity. A phylogenetic analysis showed that R9SW1T clusters with M. algicola DG893T sharing 99.40%, and A3d10T clusters with M. sediminum R65T sharing 99.53% of 16S rRNA gene sequence similarities. The results of the genomic and polyphasic taxonomic study, including genomic, genetic, phenotypic, chemotaxonomic and phylogenetic analyses based on the 16S rRNA, gyrB and rpoD gene sequence similarities, the analysis of the protein profiles generated using MALDI-TOF mass spectrometry, and DNA-DNA relatedness data, indicated that strains R9SW1T and A3d10(T represent two novel species of the genus Marinobacter. The names Marinobacter salarius sp. nov., with the type strain R9SW1(T ( =  LMG 27497(T  =  JCM 19399(T  =  CIP 110588(T  =  KMM 7502(T and Marinobacter similis sp. nov., with the type strain A3d10(T (

  9. Antimicrobial activity of Streptomyces sp. isolated from the gulf of ...

    African Journals Online (AJOL)

    Forty-nine Streptomyces isolates were recovered from sediment samples in the gulf of Aqaba/Jordan. All isolates were tested for antimicrobial activity against Gram positive bacteria, Gram negative bacteria, and yeast. Twenty eight Streptomyces isolates were active against at least one of the tested strains. The majority of ...

  10. Novel urease-negative Helicobacter sp. 'H. enhydrae sp. nov.' isolated from inflamed gastric tissue of southern sea otters.

    Science.gov (United States)

    Shen, Zeli; Batac, Francesca; Mannion, Anthony; Miller, Melissa A; Bakthavatchalu, Vasudevan; Ho, Calvin; Manning, Sean; Paster, Bruce J; Fox, James G

    2017-02-08

    A total of 31 sea otters Enhydra lutris nereis found dead or moribund (and then euthanized) were necropsied in California, USA. Stomach biopsies were collected and transected with equal portions frozen or placed in formalin and analyzed histologically and screened for Helicobacter spp. in gastric tissue. Helicobacter spp. were isolated from 9 sea otters (29%); 58% (18 of 31) animals were positive for helicobacter by PCR. The Helicobacter sp. was catalase- and oxidase-positive and urease-negative. By electron microscopy, the Helicobacter sp. had lateral and polar sheathed flagella and had a slightly curved rod morphology. 16S and 23S rRNA sequence analyses of all 'H. enhydrae' isolates had similar sequences, which clustered as a novel Helicobacter sp. closely related to H. mustelae (96-97%). The genome sequence of isolate MIT 01-6242 was assembled into a single ~1.6 Mb long contig with a 40.8% G+C content. The annotated genome contained 1699 protein-coding sequences and 43 RNAs, including 65 genes homologous to known Helicobacter spp. and Campylobacter spp. virulence factors. Histological changes in the gastric tissues extended from mild cystic degeneration of gastric glands to severe mucosal erosions and ulcers. Silver stains of infected tissues demonstrated slightly curved bacterial rods at the periphery of the gastric ulcers and on the epithelial surface of glands. The underlying mucosa and submucosa were infiltrated by low numbers of neutrophils, macrophages, and lymphocytes, with occasional lymphoid aggregates and well-defined lymphoid follicles. This is the second novel Helicobacter sp., which we have named 'H. enhydrae', isolated from inflamed stomachs of mustelids, the first being H. mustelae from a ferret.

  11. Analysis of Kenyan isolates of Fusarium solani f. sp. phaseoli from ...

    African Journals Online (AJOL)

    Analysis of Kenyan isolates of Fusarium solani f. sp. phaseoli from common bean using colony characteristics, pathogenicity and microsatellite DNA. ... All the isolates showed high variability in aerial mycelial growth, mycelia texture, pigmentation (mycelia colour) when cultured on potato dextrose agar medium, and conidial ...

  12. Aspergillus pragensis sp nov discovered during molecular reidentification of clinical isolates belonging to Aspergillus section Candidi

    DEFF Research Database (Denmark)

    Lyskova, Pavlina; Hubka, Vit; Kolarik, Miroslav

    2014-01-01

    The identity of nine clinical isolates recovered from Czech patients and presumptively identified as Aspergillus sp. section Candidi based on colony morphology was revised using sequences of beta-tubulin, calmodulin gene sequence, and internal transcribed spacer rDNA. Six isolates were from suspe...

  13. Molecular characterization of Uzbekistan isolates of fusarium oxysporum f. sp. vasinfectum

    Science.gov (United States)

    A collection of isolates of Fusarium oxysporum f.sp. vasinfectum (FOV) from cotton in Uzbekistan was characterized based on a candidate gene sequencing approach. As a first step, cotton seedlings were artificially infected with eight randomly selected unknown FOV isolates from the collection, FOV st...

  14. Kocuria indica sp nov., isolated from sediment sample

    Digital Repository Service at National Institute of Oceanography (India)

    Dastager, S.G.; Tang, S.K.; Krishnamurthi, S.; Lee, J.C.; Li, W.-J.

    characteristics, strain NIO-1021T represents a novel species of the genus Kocuria, for which the name Kocuria indica sp. nov. is proposed, with type strain NIO-1021T(=NCIM 5455T= DSM 25126T =CCTCC AA 209050T) as the type strain...

  15. Mucilaginibacter terrae sp nov., isolated from Antarctic soil

    Czech Academy of Sciences Publication Activity Database

    Sedláček, I.; Pantůček, R.; Králová, S.; Mašlaňová, I.; Holochová, P.; Staňková, E.; Sobotka, Roman; Barták, M.; Busse, H.-J.; Švec, P.

    2017-01-01

    Roč. 67, č. 10 (2017), s. 4002-4007 ISSN 1466-5026 R&D Projects: GA MŠk(CZ) LO1416 Institutional support: RVO:61388971 Keywords : Mucilaginibacter terrae sp nov. * James ross island * Antarctic Subject RIV: EE - Microbiology, Virology Impact factor: 2.134, year: 2016

  16. Identification and antifungal activity of Streptomyces sp. S72 isolated ...

    African Journals Online (AJOL)

    The test of antifungal activity for several pathogens fungi causing invasive aspergillosis and systemic candidiasis revealed that the Streptomyces sp. S72 was a good moderate antifungal compound producer against Aspergillus fumigatus and Candida albicans, and had no activity against Aspergillus flavus, Aspergillus ...

  17. Metschnikowia chrysoperlae sp. nov., Candida picachoensis sp. nov. and Candida pimensis sp. nov., isolated from the green lacewings Chrysoperla comanche and Chrysoperla carnea (Neuroptera: Chrysopidae).

    Science.gov (United States)

    Suh, Sung-Oui; Gibson, Cara M; Blackwell, Meredith

    2004-09-01

    Fourteen yeast isolates comprising three taxa were cultured from digestive tracts of adult Chrysoperla species (Neuroptera: Chrysopidae) and their eggs. The yeast taxa were distinguished based on an estimated molecular phylogeny, DNA sequences and traditional taxonomic criteria. The new yeasts are closely related to Metschnikowia pulcherrima but are sufficiently distinguished by sequence comparison of rRNA gene sequences to consider them as novel species. Here, three novel species are described and their relationships with other taxa in the Saccharomycetes are discussed. Metschnikowia chrysoperlae sp. nov. (type strain, NRRL Y-27615T = CBS 9803T) produced needle-shaped ascospores and was the only teleomorph found. Large numbers of chlamydospores similar to those observed in M. pulcherrima were also produced. The other two novel species are asexual yeasts, Candida picachoensis sp. nov. (type strain, NRRL Y-27607T = CBS 9804T) and Candida pimensis sp. nov. (type strain, NRRL Y-27619T = CBS 9805T), sister taxa of M. chrysoperlae and M. pulcherrima. A specialized relationship between yeasts and lacewing hosts may exist, because the yeasts were isolated consistently from lacewings only. Although M. chrysoperlae was isolated from eggs and adult lacewings, suggesting the possibility of vertical transmission, no yeast was isolated from larvae.

  18. Salt stress tolerance of methylotrophic bacteria Methylophilus sp. and Methylobacterium sp. isolated from coal mine spoils.

    Science.gov (United States)

    Giri, Deen Dayal; Kumar, Ajay; Shukla, Prabhu Nath; Singh, Ritu; Singh, P K; Pandey, Kapil Deo

    2013-01-01

    Two methylotrophic strains of Bina coalmine spoil BNV7b and BRV25 were identified based on physiological traits and 16S rDNA sequence as Methylophilus and Methylobacterium species.' The strains exhibited similar carbon utilization but differed in N utilization and their response to the metabolic inhibitors. Methylophilus sp. was less tolerant to salt stress and it viability declined to one tenth within 4 h of incubation in 2M NaCI due to membrane damage and leakage of the intracellular electrolytes as evident from malondiaaldehyde (MDA) assay. In 200 mM NaCI, they exhibited increased superoxide dismutase (SOD), catalase (CAT) and ascorbate peroxidase (APX) activity while in 500 mM NaCI, enzyme activities declined in Methylophilus sp. and increased in Methylobacterium sp. Among exogenously applied osmoprotectants proline was most efficient; however, polyols (mannitol, sorbitol and glycerol) also supported growth under lethal NaCI concentration.

  19. Microbulbifer gwangyangensis sp. nov. and Microbulbifer pacificus sp. nov., isolated from marine environments.

    Science.gov (United States)

    Jeong, Sang Hyeon; Yang, Sung-Hyun; Jin, Hyun Mi; Kim, Jeong Myeong; Kwon, Kae Kyoung; Jeon, Che Ok

    2013-04-01

    Two novel Gram-stain-negative, chemoheterotrophic and strictly aerobic bacteria, strains GY2(T) and SPO729(T), were isolated from a tidal flat at Gwangyang Bay in Korea and a marine sponge sample from the Pacific Ocean, respectively. The two strains were halotolerant, catalase- and oxidase-positive, and non-motile rods. Optimum temperature and pH for growth of both strains were observed to be 35 °C and pH 7.0-7.5, but optimum salinity for strain SPO729(T) [2-3 % (w/v)] was slightly higher than that for strain GY2(T) (1-2 %). The major cellular fatty acids of both strains were C16 : 0, iso-C15 : 0, iso-C17 : 0, iso-C17 : 1ω9c, C18 : 1ω7c, iso-C11 : 0 and iso-C11 : 0 3-OH. The genomic DNA G+C contents of strains GY2(T) and SPO729(T) were 55.1 and 57.9 mol%, respectively, and ubiquinone 8 (Q-8) was detected as the sole respiratory quinone from the two strains. Phylogenetic analysis based on 16S rRNA gene sequences showed that strains GY2(T) and SPO729(T) formed tight phyletic lineages with members of the genus Microbulbifer. Strain GY2(T) was closely related to Microbulbifer okinawensis ABABA23(T) (98.2 %), strain SPO729(T) (98.0 %) and Microbulbifer donghaiensis CN85(T) (97.0 %); strain SPO729(T) was closely related to M. okinawensis ABABA23(T) (98.3 %) and M. donghaiensis CN85(T) (98.2 %). The DNA-DNA relatedness values of strain GY2(T) with M. okinawensis ABABA23(T), strain SPO729(T) and M. donghaiensis CN85(T) were 40.0±2.1 %, 13.1±3.9 % and 16.2±5.8 %, respectively, whereas those of strain SPO729(T) with M. okinawensis ABABA23(T) and M. donghaiensis CN85(T) were 48.0±4.0 % and 34.6±9.3 %, respectively. On the basis of phenotypic and molecular features, it is concluded that the two strains GY2(T) and SPO729(T) represent two novel species of the genus Microbulbifer, for which the names Microbulbifer gwangyangensis sp. nov. and Microbulbifer pacificus are proposed; the type strains are GY2(T) (

  20. Extraction methods of Amaranthus sp. grain oil isolation.

    Science.gov (United States)

    Krulj, Jelena; Brlek, Tea; Pezo, Lato; Brkljača, Jovana; Popović, Sanja; Zeković, Zoran; Bodroža Solarov, Marija

    2016-08-01

    Amaranthus sp. is a fast-growing crop with well-known beneficial nutritional values (rich in protein, fat, dietary fiber, ash, and minerals, especially calcium and sodium, and containing a higher amount of lysine than conventional cereals). Amaranthus sp. is an underexploited plant source of squalene, a compound of high importance in the food, cosmetic and pharmaceutical industries. This paper has examined the effects of the different extraction methods (Soxhlet, supercritical fluid and accelerated solvent extraction) on the oil and squalene yield of three genotypes of Amaranthus sp. grain. The highest yield of the extracted oil (78.1 g kg(-1) ) and squalene (4.7 g kg(-1) ) in grain was obtained by accelerated solvent extraction (ASE) in genotype 16. Post hoc Tukey's HSD test at 95% confidence limit showed significant differences between observed samples. Principal component analysis (PCA) and cluster analysis (CA) were used for assessing the effect of different genotypes and extraction methods on oil and squalene yield, and also the fatty acid composition profile. Using coupled PCA and CA of observed samples, possible directions for improving the quality of product can be realized. The results of this study indicate that it is very important to choose both the right genotype and the right method of extraction for optimal oil and squalene yield. © 2015 Society of Chemical Industry. © 2015 Society of Chemical Industry.

  1. Isolation and characterization of diesel degrading bacteria, Sphingomonas sp. and Acinetobacter junii from petroleum contaminated soil

    Science.gov (United States)

    Zhang, Qiuzhuo; Wang, Duanchao; Li, Mengmeng; Xiang, Wei-Ning; Achal, Varenyam

    2014-03-01

    Two indigenous bacteria of petroleum contaminated soil were characterized to utilize diesel fuel as the sole carbon and energy sources in this work. 16S rRNA gene sequence analysis identified these bacteria as Sphingomonas sp. and Acinetobacter junii. The ability to degrade diesel fuel has been demonstrated for the first time by these isolates. The results of IR analyses showed that Sphingomonas sp. VA1 and A. junii VA2 degraded up to 82.6% and 75.8% of applied diesel over 15 days, respectively. In addition, Sphingomonas sp. VA1 possessed the higher cellular hydrophobicities of 94% for diesel compared to 81% by A. junii VA2. The isolates Sphingomonas sp. VA1 and A. junii VA2 exhibited 24% and 18%, respectively emulsification activity. This study reports two new diesel degrading bacterial species, which can be effectively used for bioremediation of petroleum contaminated sites.

  2. Characterization of spaC-type Erysipelothrix sp. isolates causing systemic disease in ornamental fish.

    Science.gov (United States)

    Pomaranski, E K; Reichley, S R; Yanong, R; Shelley, J; Pouder, D B; Wolf, J C; Kenelty, K V; Van Bonn, B; Oliaro, F; Byrne, B; Clothier, K A; Griffin, M J; Camus, A C; Soto, E

    2017-07-14

    Since 2012, low-to-moderate mortality associated with an Erysipelothrix sp. bacterium has been reported in ornamental fish. Histological findings have included facial cellulitis, necrotizing dermatitis and myositis, and disseminated coelomitis with abundant intralesional Gram-positive bacterial colonies. Sixteen Erysipelothrix sp. isolates identified phenotypically as E. rhusiopathiae were recovered from diseased cyprinid and characid fish. Similar clinical and histological changes were also observed in zebrafish, Danio rerio, challenged by intracoelomic injection. The Erysipelothrix sp. isolates from ornamental fish were compared phenotypically and genetically to E. rhusiopathiae and E. tonsillarum isolates recovered from aquatic and terrestrial animals from multiple facilities. Results demonstrated that isolates from diseased fish were largely clonal and divergent from E. rhusiopathiae and E. tonsillarum isolates from normal fish skin, marine mammals and terrestrial animals. All ornamental fish isolates were PCR positive for spaC, with marked genetic divergence (ornamental fish isolates and other Erysipelothrix spp. isolates. This study supports previous work citing the genetic variability of Erysipelothrix spp. spa types and suggests isolates from diseased ornamental fish may represent a genetically distinct species. © 2017 John Wiley & Sons Ltd.

  3. Candida halmiae sp. nov., Geotrichum ghanense sp. nov. and Candida awuaii sp. nov., isolated from Ghanaian cocoa fermentations

    DEFF Research Database (Denmark)

    Nielsen, Dennis Sandris; Jakobsen, Mogens; Jespersen, Lene

    2010-01-01

    During an investigation of the microbiology of Ghanaian cocoa fermentations, a number of yeast isolates with unusual pheno- and genotypic properties representing three possible novel species were isolated. Members of Group A divided by multilateral budding and ascospores were not produced. Group B...

  4. Aspergillus saccharolyticus sp. nov., a new black Aspergillus species isolated in Denmark

    DEFF Research Database (Denmark)

    Sørensen, Annette; Lübeck, Peter S.; Lübeck, Mette

    2011-01-01

    A novel species, Aspergillus saccharolyticus sp. nov., belonging to the Aspergillus section Nigri group is described. This species was isolated in Denmark from treated hardwood. Its taxonomic status was determined using a polyphasic taxonomic approach including phenotypic (morphology and extrolite...... Aspergillus species that is morphologically similar to Aspergillus japonicus and Aspergillus aculeatus, but has a totally different extrolite profile compared to any known Aspergillus species. The type strain of A. saccharolyticus sp. nov. is CBS 127449T ( = IBT 28509T)....

  5. Antibiotic susceptibility profiles of Mycoplasma sp. 1220 strains isolated from geese in Hungary

    OpenAIRE

    Gr?zner, D?nes; Kreizinger, Zsuzsa; Sulyok, Kinga M.; R?nai, Zsuzsanna; Hrivn?k, Veronika; Turcs?nyi, Ibolya; J?nosi, Szil?rd; Gyuranecz, Mikl?s

    2016-01-01

    Background Mycoplasma sp. 1220 can induce inflammation primarily in the genital and respiratory tracts of waterfowl, leading to serious economic losses. Adequate housing and appropriate antibiotic treatment are promoted in the control of the disease. The aim of the present study was to determine the in vitro susceptibility to thirteen different antibiotics and an antibiotic combination of thirty-eight M. sp. 1220 strains isolated from geese and a duck in several parts of Hungary, Central Euro...

  6. Whole genome sequence of Oscheius sp. TEL-2014 entomopathogenic nematodes isolated from South Africa.

    Science.gov (United States)

    Lephoto, Tiisetso E; Mpangase, Phelelani T; Aron, Shaun; Gray, Vincent M

    2016-03-01

    We present the annotation of the draft genome sequence of Oscheius sp. TEL-2014 (Genbank accession number KM492926). This entomopathogenic nematode was isolated from grassland in Suikerbosrand Nature Reserve near Johannesburg in South Africa. Oscheius sp. Strain TEL has a genome size of 110,599,558 bp and a GC content of 42.24%. The genome sequence can be accessed at DDBJ/EMBL/GenBank under the accession number LNBV00000000.

  7. Antifungal Activity of Jasminum sambac against Malassezia sp. and Non-Malassezia sp. Isolated from Human Skin Samples

    Directory of Open Access Journals (Sweden)

    Jacinta Santhanam

    2014-01-01

    Full Text Available Malassezia sp. causes skin diseases such as pityriasis versicolor, folliculitis, and atopic dermatitis. The present study aims to evaluate the antifungal activity of J. sambac or Arabian jasmine, a flowering plant abundant in the Southeast Asia against Malassezia sp. using disc diffusion and broth microdilution method. The methanol extract and essential oil from the flowers and leaves of J. sambac were, respectively, prepared using solvent extraction and hydrodistillation process. Skin samples from individuals with dandruff were cultured on Sabouraud dextrose agar overlaid with olive oil. The fungi that grew were observed microscopically, tested with Tween assimilation test, and cultured on CHROMagar (the chromogenic media pioneer to identify Malassezia sp. Out of 5 skin samples, only 2 Malassezia sp. isolates were identified based on morphology and their ability to assimilate Tween. The inhibition zones of methanol extract of flowers and leaves of J. sambac and essential oil of flowers showed potential for antifungal activity with inhibition zones of 11.10 ± 1.92, 12.90 ± 1.68, and 13.06 ± 0.26 mm, respectively, and minimum inhibitory concentration (MIC values of 80 mg/mL to 160 mg/mL and 50%, respectively. In conclusion, J. sambac may be used as an alternative treatment against Malassezia-associated skin infections.

  8. Candida materiae sp. nov., a yeast species isolated from rotting wood in the Atlantic Rain Forest.

    Science.gov (United States)

    Barbosa, Anne C; Cadete, Raquel M; Gomes, Fátima C O; Lachance, Marc-André; Rosa, Carlos A

    2009-08-01

    Three strains of a novel yeast species, Candida materiae sp. nov., were isolated from rotting wood in an Atlantic rain forest site in Brazil. Analysis of the sequences of the D1/D2 domains of the large-subunit rDNA showed that this species belonged to the Spathaspora clade and was related to Candida jeffriesii and Spathaspora passalidarum. Unlike C. jeffriesii and S. passalidarum, C. materiae sp. nov. did not ferment xylose. The type strain of C. materiae sp. nov. is UFMG-07-C15.1BT (=CBS 10975T=CBMAI 956T).

  9. Bullera vrieseae sp. nov., a tremellaceous yeast species isolated from bromeliads.

    Science.gov (United States)

    Landell, Melissa Fontes; Brandão, Luciana R; Safar, Silvana V B; Gomes, Fatima C O; Félix, Ciro R; Santos, Ana Raquel O; Pagani, Danielle M; Ramos, Jesus P; Broetto, Leonardo; Mott, Tamí; Vainstein, Marilene H; Valente, Patricia; Rosa, Carlos A

    2015-08-01

    Two independent surveys of yeasts associated with different bromeliads in different Brazilian regions led to the proposal of a novel yeast species, Bullera vrieseae sp. nov., belonging to the Tremellales clade (Agaricomycotina, Basidiomycota). Analysis of the sequences in the internal transcribed spacer (ITS) region and D1/D2 domain of the LSU rRNA gene suggested affinity to a phylogenetic lineage that includes Bullera miyagiana and Bullera sakaeratica. Six isolates of the novel species were obtained from different bromeliads and regions in Brazil. Sequence analysis of the D1/D2 domains of the large subunit of the rRNA gene showed that the novel species differs from B. miyagiana and B. sakaeratica by 85 and 64 nt substitutions, respectively and by more than 75 nt substitutions in the ITS region. Phenotypically, Bullera vrieseae sp. nov. can be distinguished from both species based on the assimilation of meso-erythritol, which was negative for B. vrieseae sp. nov. but positive for the others, assimilation of d-glucosamine, which was positive for B. vrieseae sp. nov. but negative for B. miyagiana and of l-sorbose, which was negative for B. vrieseae sp. nov. but positive for B. sakaeratica. The novel species Bullera vrieseae sp. nov. is proposed to accommodate these isolates. The type strain of Bullera vrieseae sp. nov. is UFMG-CM-Y379T (BRO443T; ex-type CBS 13870T).

  10. Aeromonas aquariorum sp. nov., isolated from aquaria of ornamental fish

    National Research Council Canada - National Science Library

    Martinez-Murcia, A. J; Saavedra, M. J; Mota, V. R; Maier, T; Stackebrandt, E; Cousin, S

    2008-01-01

    ...-bt.com During a survey to determine the prevalence of Aeromonas strains in water and skin of imported ornamental fish, 48 strains presumptively identified as Aeromonas were isolated but they could...

  11. Aspergillus uvarum sp. nov., an uniseriate black Aspergillus species isolated from grapes in Europe

    DEFF Research Database (Denmark)

    Perrone, Giancarlo; Varga, János; Susca, Antonia

    2008-01-01

    A novel species, Aspergillus uvarum sp. nov., is described within Aspergillus section Nigri. This species can be distinguished from other black aspergilli based on internal transcribed spacers (ITS), beta-tubulin and calmodulin gene sequences, by AFLP analysis and by extrolite profiles. Aspergillus...... uvarum sp. nov. isolates produced secalonic acid, common to other Aspergillus japonicus-related taxa, and geodin, erdin and dihydrogeodin, which are not produced by any other black aspergilli. None of the isolates were found to produce ochratoxin A. The novel species is most closely related to two...... atypical strains of Aspergillus aculeatus, CBS 114.80 and CBS 620.78, and was isolated from grape berries in Portugal, Italy, France, Israel, Greece and Spain. The type strain of Aspergillus uvarum sp. nov. is IMI 388523(T)=CBS 127591(T)= ITEM 4834(T)= IBT26606(T)....

  12. The Newly Isolated Endophytic Fungus Paraconiothyrium sp. LK1 Produces Ascotoxin

    Directory of Open Access Journals (Sweden)

    Sang-Mo Kang

    2012-01-01

    Full Text Available We have isolated five endophytic fungi from the roots of Capsicum annuum, Cucumis sativus and Glycine max. The culture filtrates (CF of these endophytes were screened on dwarf mutant rice (Waito-C and normal rice (Dongjin-byeo. Endophyte CAC-1A significantly inhibited the growth of Waito-C and Dongjin-byeo. Endophyte CAC-1A was identified as Paraconiothyrium sp. by sequencing the ITS rDNA region and phylogenetic analysis. The ethyl acetate fraction of Paraconiothyrium sp. suppressed the germination of Lactuca sativa and Echinochloa crus-galli seeds. The ethyl acetate fraction of the endophyte was subjected to bioassay-guided isolation and we obtained the phytotoxic compound ascotoxin (1 which was characterized through NMR and GC/MS techniques. Ascotoxin revealed 100% inhibitory effects on seed germination of Echinochloa crus-galli. Compound (1 was isolated for the first time from Paraconiothyrium sp.

  13. Nocardiopsis potens sp. nov., isolated from household waste.

    Science.gov (United States)

    Yassin, A F; Spröer, C; Hupfer, H; Siering, C; Klenk, H-P

    2009-11-01

    The taxonomic position of an actinomycete, designated strain IMMIB L-21(T), was determined using a polyphasic taxonomic approach. The organism, which had phenotypic properties consistent with its classification in the genus Nocardiopsis, formed a distinct clade in the 16S rRNA gene sequence tree together with the type strain of Nocardiopsis composta, but was readily distinguished from this species using DNA-DNA relatedness and phenotypic data. The genotypic and phenotypic data show that the organism represents a novel species of the genus Nocardiopsis, for which the name Nocardiopsis potens sp. nov. is proposed. The type strain is IMMIB L-21(T) (=DSM 45234(T)=CCUG 56587(T)).

  14. Perkinsus sp. infections and in vitro isolates from Anadara trapezia (mud arks) of Queensland, Australia.

    Science.gov (United States)

    Dang, Cécile; Dungan, Christopher F; Scott, Gail P; Reece, Kimberly S

    2015-02-10

    Perkinsus sp. protists were found infecting Anadara trapezia mud ark cockles at 6 sites in Moreton Bay, Queensland, Australia, at prevalences of 4 to 100% during 2011 as determined by surveys using Ray's fluid thioglycollate medium. Perkinsus sp. lesions were found among gill and visceral connective tissues in histological samples from several cockles, where basophilic, eccentrically vacuolated Perkinsus sp. signet ring trophozoites and proliferating, Perkinsus sp. schizont cells were documented. Two Perkinsus sp. isolates were propagated in vitro during August 2013 from gill tissues of a single infected A. trapezia cockle from Wynnum in Moreton Bay. DNA from those isolate cells amplified universally by a Perkinsus genus-specific PCR assay, and rDNA-internal transcribed spacer sequences respectively grouped them with P. olseni and P. chesapeaki in phylogenetic analyses. This is the first report of P. chesapeaki in Australia, and the first report of a P. chesapeaki in vitro isolate from an Australian mollusc host. Although P. olseni was originally described in 1981 as a pathogen of abalone in South Australia, and has subsequently been identified as a prevalent pathogen of numerous other molluscs worldwide, this is also the first report of a P. olseni-like in vitro isolate from an Australian mollusc host.

  15. Ballistosporomyces changbaiensis sp. nov. and Ballistosporomyces bomiensis sp. nov., two novel species isolated from shrub plant leaves.

    Science.gov (United States)

    Han, Pei-Jie; Li, Ai-Hua; Wang, Qi-Ming; Bai, Feng-Yan

    2016-07-01

    Four strains, CB 266(T), CB 272, XZ 44D1(T) and XZ 49D2, isolated from shrub plant leaves in China were identified as two novel species of the genus Ballistosporomyces by the sequence analysis of the small subunit of ribosomal RNA (SSU rRNA), the D1/D2 domains of the large subunit of rRNA (LSU rRNA) and internal transcribed spacer (ITS) + 5.8S rRNA region, and physiological comparisons. Ballistosporomyces changbaiensis sp. nov. (type strain CB 266(T) = CGMCC 2.02298(T) = CBS 10124(T), Mycobank number MB 815700) and Ballistosporomyces bomiensis sp. nov. (type strain XZ 44D1(T) = CGMCC 2.02661(T) = CBS 12512(T), Mycobank number MB 815701) are proposed to accommodate these two new species.

  16. Wickerhamomyces queroliae sp. nov. and Candida jalapaonensis sp. nov., two yeast species isolated from Cerrado ecosystem in North Brazil.

    Science.gov (United States)

    Rosa, Carlos A; Morais, Paula B; Lachance, Marc-André; Santos, Renata O; Melo, Weilan G P; Viana, Rodney H O; Bragança, Marcos A L; Pimenta, Raphael S

    2009-05-01

    Two novel yeast species, Wickerhamomyces queroliae sp. nov. and Candida jalapaonensis sp. nov., were isolated, respectively, from larvae of Anastrepha mucronata (Diptera: Tephritidae) collected from ripe fruit of Peritassa campestris ('Bacupari', Hippocrateaceae) and from flowers of Centropogon cornutus (Campanulaceae) in the Cerrado ecosystem of the state of Tocantins, Brazil. Analysis of the D1/D2 large-subunit rRNA gene sequences placed W. queroliae in the Wickerhamomyces clade near Wickerhamomyces ciferri and Candida silvicultrix. Candida jalapaonensis belongs to the Wickerhamiella clade and is related to Candida drosophilae. The type strain of Wickerhamomyces queroliae is UFMG-05-T200.1(T) (=CBS 10936(T)=NRRL Y-48478(T)) and the type strain of Candida jalapaonensis is UFMG-03-T210(T) (=CBS 10935(T)=NRRL Y-48477(T)).

  17. Wickerhamiella dulcicola sp. nov. and Wickerhamiella cachassae sp. nov., yeasts isolated from cachaça fermentation in Brazil.

    Science.gov (United States)

    Badotti, Fernanda; Silva, Pollyana A B; Mendonça, Michelle C; Gomes, Fatima C O; Morais, Paula B; Lachance, Marc-André; Rosa, Carlos A

    2013-03-01

    Six strains of two novel yeast species were isolated from sugar-cane juice and fermentation vats of cachaça production in Brazil. The sequences of the D1/D2 domains of the large-subunit rRNA gene showed that these species belong to the Wickerhamiella clade, and their closest described relative in terms of sequence similarity is Candida (iter. nom. Wickerhamiella) drosophilae. The type strain of Wickerhamiella cachassae sp. nov. is UFMG-D5L7(T) ( = CBS 12587(T)  = CBMAI 1469(T)) and the type strain of Wickerhamiella dulcicola sp. nov. is UFMG-TOL15(T) ( = CBS 12588(T)  = CBMAI 1468(T)).

  18. Acetobacter okinawensis sp. nov., Acetobacter papayae sp. nov., and Acetobacter persicus sp. nov.; novel acetic acid bacteria isolated from stems of sugarcane, fruits, and a flower in Japan.

    Science.gov (United States)

    Iino, Takao; Suzuki, Rei; Kosako, Yoshimasa; Ohkuma, Moriya; Komagata, Kazuo; Uchimura, Tai

    2012-01-01

    Eleven strains of acetic acid bacteria were isolated from stems of sugarcane, fruits, and a flower in Japan. The isolates were separated into three groups, Groups I, II, and III, in the genus Acetobacter according to phylogenetic analysis based on 16S rRNA sequences. The isolates had sequence similarities of 99.8-100% within the Group, 99.3-99.6% to those of the type strains of each related Acetobacter species, and less than 98.4% to those of the type strains of other Acetobacter species. Genomic DNA G+C contents of Groups I, II, and III were 59.2-59.4, 60.5-60.7, and 58.7-58.9 mol%, respectively. The isolates in the Group showed high values of DNA-DNA relatedness to each other, but low values less than 46% to the type strains of related Acetobacter species. A good correlation was found between the three Groups and groups based on DNA G+C contents and DNA-DNA relatedness. All the strains had Q-9 as the main component, and Q-8 and Q-10 as minor components. The isolates in the three Groups did not completely match with any Acetobacter species on catalase reaction, the production of ketogluconic acids from D-glucose, growth on ammoniac nitrogen with ethanol (Hoyer-Frateur medium and Frateur modified Hoyer medium), growth on 30% (w/v) D-glucose, growth in 10% (v/v) ethanol, or DNA G+C contents. On the basis of phylogenetic relationships in the genus Acetobacter and chemosystematic and phenotypic characteristics, the three Groups were regarded as novel species in the genus Acetobacter. Acetobacter okinawensis sp. nov. is proposed for Group I, Acetobacter papayae sp. nov. for Group II, and Acetobacter persicus sp. nov. for Group III.

  19. Nocardia inohanensis sp. nov., Nocardia yamanashiensis sp. nov. and Nocardia niigatensis sp. nov., isolated from clinical specimens

    National Research Council Canada - National Science Library

    Kageyama, Akiko; Yazawa, Katsukiyo; Nishimura, Kazuko; Mikami, Yuzuru

    2004-01-01

    ...-u.ac.jp Comparative 16S rDNA studies on six strains of actinomycete isolated from clinical specimens revealed that they belong to the genus Nocardia and are closely related to Nocardia seriolae , Nocardia...

  20. Polyunsaturated fatty acids production by Schizochytrium sp. isolated from mangrove

    Directory of Open Access Journals (Sweden)

    K.W. Fan

    2003-09-01

    Full Text Available Five Schizochytrium strains (N-1, N-2, N-5, N-6, and N-9 were isolated from fallen, senescent leaves of mangrove tree (Kandelia candel in Hong Kong. The fungi were cultivated in glucose yeast extract medium containing 60 g of glucose, 10 g of yeast extract and 1 L of 15‰ artificial seawater, initial pH 6.0, with shaking for 52 hr at 25ºC. Biomass yields of 5 isolates ranged from 10.8 to 13.2 g/l. Isolate N-2 yielding the highest dried cell mass at 13.2 g/l and isolate N-9 grew poorly with 10.8 g/l of biomass. EPA (Eicosapentaenoic acid, 20:5n-3 yield was low in most strains, while DHA (Docosahexaenoic acid, 22:6n-3 was high on the same medium. The contents of DHA in biomass varied: 174.9, 203.6, 186.1, 171.3 and 157.9 mg/g of dried-biomass for Schizochytrium isolate N-1, N-2, N-5, N-6, and N-9, respectively. Isolate N-2 had the highest proportion of DHA in fatty acid profile with 15:0, 28.7%; 16:0, 21.3%; 18:0, 0.9%; 18:3, 0.2%; 20:4, 0.3%; 20:5, 0.9%; 22:4, 6.7%; 22:6, 36.1%; and others, 9.3%. The salinity range for growth of Schizochytrium isolates was from 0-30‰ with optimum salinity for growth between 20-30‰.

  1. Candida amazonensis sp. nov., an ascomycetous yeast isolated from rotting wood in the Amazonian forest.

    Science.gov (United States)

    Cadete, Raquel M; Melo, Monaliza A; Lopes, Mariana R; Pereira, Gilmara M D; Zilli, Jerri E; Vital, Marcos J S; Gomes, Fátima C O; Lachance, Marc-André; Rosa, Carlos A

    2012-06-01

    Five strains of a novel yeast species were isolated from rotting wood samples collected in an Amazonian forest site in the state of Roraima, northern Brazil. The sequences of the D1/D2 domains of the large subunit of the rRNA gene showed that this species belongs to the Scheffersomyces clade and is related to Candida coipomoensis, Candida lignicola and Candida queiroziae. The novel species Candida amazonensis sp. nov. is proposed to accommodate these isolates. The type strain of C. amazonensis sp. nov. is UFMG-HMD-26.3(T) ( = CBS 12363(T) = NRRL Y-48762(T)).

  2. Candida halmiae sp. nov., Geotrichum ghanense sp. nov. and Candida awuaii sp. nov., isolated from Ghanaian cocoa fermentations.

    Science.gov (United States)

    Nielsen, Dennis S; Jakobsen, Mogens; Jespersen, Lene

    2010-06-01

    During an investigation of the microbiology of Ghanaian cocoa fermentations, a number of yeast isolates with unusual pheno- and genotypic properties representing three possible novel species were isolated. Members of Group A divided by multilateral budding and ascospores were not produced. Group B strains produced true hyphae and ascospores were not produced. Group C representatives divided by budding and formed chains and star-like aggregates. Ascospores were not produced. Sequence analysis of the 26S rRNA gene (D1/D2 region) revealed that the Group A isolates were phylogenetically most closely related to Saturnispora mendoncae (gene sequence similarity 92.4 %), Saturnispora besseyi (88.8 %), Saturnispora saitoi (88.8 %) and Saturnispora ahearnii (88.3 %). Members of Group B were most closely related to representatives of the genera Dipodascus and Galactomyces and the asporogenous genus Geotrichum, but in all cases with 26S rRNA gene (D1/D2 region) similarities below 87 %. For Group C, the most closely related species were Candida rugopelliculosa (92.4 %), Pichia occidentalis (91.6 %) and Pichia exigua (91.9 %). The very low gene sequence similarities obtained for the three groups of isolates clearly indicated that they represented novel species. Repetitive Palindromic PCR (Rep-PCR) of the isolates and their closest phylogenetic relatives confirmed that the new isolates belonged to previously undescribed species. In conclusion, based on the genetic and phenotypic results, the new isolates were considered to represent three novel species, for which the names Candida halmiae (group A, type strain G3(T)=CBS 11009(T)=CCUG 56721(T)); Geotrichum ghanense (group B, type strain G6(T)=CBS 11010(T)=CCUG 56722(T)) and Candida awuaii (group C, type strain G15(T)=CBS 11011(T)=CCUG 56723(T)) are proposed.

  3. Arthrobacter enclensis sp. nov., isolated from sediment sample

    Digital Repository Service at National Institute of Oceanography (India)

    Dastager, S.G.; Qin, L.; Tang, S.K.; Krishnamurthi, S.; Lee, J.C.; Li, W.J.

    A novel bacterial strain designated as NIO-1008(T) was isolated from marine sediments sample in Chorao Island India. Cells of the strains were gram positive and non-motile, displayed a rod-coccus life cycle and formed cream to light grey colonies...

  4. Roseovarius azorensis sp. nov., isolated from seawater at Espalamaca, Azores

    Digital Repository Service at National Institute of Oceanography (India)

    Rajasabapathy, R.; Mohandass, C.; Dastager, S.G.; Liu, Q.; Khieu, T.-N.; Son, C.K.; Li, W.-J.; Colaco, A.

    .L. masc. adj. azorensis, after the portug. Islas dos Azores, pertaining to the Azorean Islands, the source of the sample from which the type strain was isolated). Gram-negative, rod shaped (0.6–0.8 × 1.3–2.0 μm), motile by gliding and non-spore forming...

  5. Degradation of morpholine by Mycobacterium sp. isolated from ...

    African Journals Online (AJOL)

    Jane

    2011-08-08

    Aug 8, 2011 ... isolated from contaminated wastewater collected from. Egypt ... waste waters is of environmental interest. Unfortunately, ..... Haworth et al., 1983) and acute toxicity of morpholine for. Pseudomonas was 310 to 8700 mg/l (International. Programme on Chemical Safety, 1996). The toxic con- centration was ...

  6. Algoriphagus shivajiensis sp. nov., isolated from Cochin back water, India

    Digital Repository Service at National Institute of Oceanography (India)

    AnilKumar, P.; Bhumika, V.; Ritika, C.; VijayaBhaskar, Y; Priyashanth, P.; Aravind, R.; Bindu, E.; Srinivas, T

    Novel orange-pigmented, Gram-negative, rod-shaped, non-motile bacteria, designated strains NIO-S3 sup(T) and NIO-S4, were isolated from a water sample collected from Cochin back waters, Thanneermukkom and Arookutty, Kerala, India. Both strains were...

  7. Pectinatus sottaceto sp. nov., isolated from commercial pickle spoilage tank

    Science.gov (United States)

    A strictly anaerobic, Gram-stain-negative, non-spore-forming, motile bacterium, designated strain FSRU B0405^T, was isolated from a commercial pickle spoilage tank and characterized by biochemical, physiological and molecular biological methods. Analyses of the 16S rRNA gene sequence of strain FSRU ...

  8. Paraliobacillus sediminis sp. nov., isolated from East China sea sediment

    Science.gov (United States)

    A Gram-strain-positive, facultatively anaerobic, motile, endospore-forming, moderately halophilic bacterium, designated strain 126C4**T, was isolated from sediment of the East China Sea. The strain was catalase-positive and oxidase-negative. Optimal growth occurred at 28–30 deg C, pH 7.0–7.5 and in ...

  9. Arcobacter cibarius sp nov., isolated from broiler carcasses

    DEFF Research Database (Denmark)

    Houf, K.; On, Stephen L.W.; Coenye, T.

    2005-01-01

    .0%) and Arcobacter nitrofigilis (95.0%). The levels of similarity to Campylobacter and Helicobacter species were below 88 and 87%, respectively. The isolates could be distinguished from other Arcobacter species by the following biochemical tests: catalase, oxidase and urease activities; reduction of nitrate; growth...

  10. Isolation of Pichia manshurica protoplast from Dahlia sp plant

    Directory of Open Access Journals (Sweden)

    Wijanarka Wijanarka

    2014-02-01

    Full Text Available Isolation of protoplasts is an important step in the fusion process. Protoplasts are cells that have eliminated the cell wall, but the cell membranes and organs can still function properly. Pichia manshurica is one of indogenous yeast that derived from Dahlia €™s plants. The success rate protoplast isolation was determined by various factors, include the age of the culture and the used of lytic enzymes. The purpose of this research is to get the perfect age of yeast culture that is ready to be harvested and also to get the appropriate concentration of Glucanex lytic enzymes which used for protoplast isolation. The yeast of Pichia manshurica grown on YPD broth medium and growth observed in turbidimetry. Observation of the growth of yeasts performed every 6 hours for 42 hours. Glucanex lytic enzyme concentration used for the isolation of protoplasts is 0 mg / mL (L0 = control, 2 mg / mL (L2 and 4 mg / mL (L4. The results showed that the age of the culture is right and ready for harvest at the age of 24 hours and Glucanex lytic enzyme concentration of 4 mg / mL (L4 is able to produce the best of protoplasts at 7.2 x 1010.

  11. Incidence and pathogenicity profile of Listeria sp. isolated from food ...

    African Journals Online (AJOL)

    Listeria species were isolated from all samples except the pork and goat meat samples. The highest incidence (100%) was observed in the soil and surface swab samples, respectively, followed by the vegetable samples (85%) and the beef samples (80%). Only Listeria monocytogenes and Listeria ivanovii were pathogenic ...

  12. Description of ‘Blautia phocaeensis’ sp. nov. and ‘Lachnoclostridium edouardi’ sp. nov., isolated from healthy fresh stools of Saudi Arabia Bedouins by culturomics

    Directory of Open Access Journals (Sweden)

    S.I. Traore

    2017-09-01

    Full Text Available We report here the main characteristics of ‘Blautia phocaeensis’ strain Marseille-P3441 sp. nov. and ‘Lachnoclostridium edouardi’ strain Marseille-P3397 sp. nov., that were isolated from a faecal specimen of a 42-year-old female Saudi Bedouin. We used a bacterial culturomics approach combined with taxono-genomics.

  13. ‘Prevotella ihumii’ sp. nov. and ‘Varibaculum timonense’ sp. nov., two new bacterial species isolated from a fresh human stool specimen

    Directory of Open Access Journals (Sweden)

    E. Guilhot

    2017-07-01

    Full Text Available Here we report the main characteristics of ‘Prevotella ihumii’ sp. nov., CSUR-P3385T and ‘Varibaculum timonense’ sp. nov., CSUR-P3369T isolated in September 2016 from a fresh stool sample of healthy French volunteer woman.

  14. ASSESSMENT OF Trichoderma ISOLATES FOR VIRULENCE EFFICACY ON Fusarium oxysporum F. sp. Phaseoli

    Directory of Open Access Journals (Sweden)

    Jane Otadoh

    2010-10-01

    Full Text Available Trichoderma has been widely studied for their biocontrol ability, but their use as biocontrol agents in agriculture is limited due to the unpredictable efficiency which is affected by biotic and abiotic factors in soil. Isolates of Trichoderma from Embu soils were evaluated for their ability to control Fusarium oxysporum f. sp. phaseoli., in vitro and promote seedling growth in the greenhouse. Bioassays were run using dual cultures and diffusible compound production analysis. The Trichoderma isolates significantly (p

  15. Efficacy of medicinal essential oils against pathogenic Malassezia sp. isolates.

    Science.gov (United States)

    Khosravi, A R; Shokri, H; Fahimirad, S

    2016-03-01

    The purposes of this study were to evaluate the distribution pattern and population size of Malassezia species in dogs with atopic dermatitis (AD) and the inhibitory efficacy of Zataria multiflora, Thymus kotschyanus, Mentha spicata, Artemisia sieberi, Rosmarinus officinalis and Heracleum persicum essential oils against pathogenic Malassezia isolates. The samples were collected from 5 different anatomical sites of 33 atopic dogs and cultured onto modified Dixon agar (MDA) and Sabouraud dextrose agar (SDA) media. The essential oil extraction was performed by steam distillation using Clevenger system. Anti-Malassezia efficacy of medicinal essential oils and standard drugs was evaluated using broth microdilution method. A total of 103 yeast colonies were isolated from dogs with AD. Eight different Malassezia species were identified as follows: Malassezia pachydermatis (81.4%), M. globosa (7.8%), M. restricta (3.9%), M. sloofiae (2.9%), M. furfur (1%), M. nana (1%), M. obtusa (1%) and M. sympodialis (1%). The most and least infected sites were: anal (21.2%) and ear (10.6%) respectively. M. pachydermatis was the most frequent Malassezia species isolated from both skin and mucosa of dogs with AD. Antifungal susceptibility test revealed the inhibitory efficacy of essential oils on pathogenic Malassezia isolates with minimum inhibitory concentration (MIC(90)) values ranging from 30 to 850 μg/mL. Among the tested oils, Z. multiflora and T. kotschyanus exhibited the highest inhibitory effects (Pessential oils of Z. multiflora and T. kotschyanus showed strong antifungal activity against pathogenic Malassezia species tested. Copyright © 2015 Elsevier Masson SAS. All rights reserved.

  16. Pectobacterium polaris sp. nov., isolated from potato (Solanum tuberosum).

    Science.gov (United States)

    Dees, Merete Wiken; Lysøe, Erik; Rossmann, Simeon; Perminow, Juliana; Brurberg, May Bente

    2017-10-25

    The genus Pectobacterium, which belongs to the bacterial family Enterobacteriaceae, contains numerous species that cause soft rot diseases in a wide range of plants. The species Pectobacterium carotovorum is highly heterogeneous, indicating a need for re-evaluation and a better classification of the species. PacBio was used for sequencing of two soft-rot-causing bacterial strains (NIBIO1006 T and NIBIO1392), initially identified as P. carotovorumstrains by fatty acid analysis and sequencing of three housekeeping genes (dnaX, icdA and mdh). Their taxonomic relationship to other Pectobacterium species was determined and the distance from any described species within the genus Pectobacterium was less than 94 % average nucleotide identity (ANI). Based on ANI, phylogenetic data and genome-to-genome distance, strains NIBIO1006 T , NIBIO1392 and NCPPB3395 are suggested to represent a novel species of the genus Pectobacterium, for which the name Pectobacterium polaris sp. nov. is proposed. The type strain is NIBIO1006 T (=DSM 105255 T =NCPPB 4611 T ).

  17. Isolation of a novel uric-acid-degrading microbe Comamonas sp. BT ...

    Indian Academy of Sciences (India)

    2014-10-20

    Oct 20, 2014 ... blood samples by the biosensor and satisfactory results were obtained. [Ghosh T and Sarkar P 2014 Isolation of a novel uric-acid-degrading microbe Comamonas sp. BT UA and rapid biosensing of uric acid from extracted uricase enzyme. J. Biosci. 39 805–819] DOI 10.1007/s12038-014-9476-2. 1.

  18. Pacaella massiliensis gen. nov., sp. nov., a new bacterial species isolated from the human gut

    Directory of Open Access Journals (Sweden)

    S. Ndongo

    2017-03-01

    Full Text Available Herein, we report the main characteristics of a new species named Pacaella massiliensis gen. nov., sp. nov., strain Marseille-P2670T (CSUR P2670 that was isolated from the gut microbiota of a 45-year-old French patient.

  19. Analysis of Kenyan isolates of Fusarium solani f. sp. phaseoli from ...

    African Journals Online (AJOL)

    STORAGESEVER

    2008-06-03

    Jun 3, 2008 ... 1Department of Plant Science and Crop Protection, Faculty of Agriculture, University of Nairobi, P.O Box 30197-00100,. Nairobi ... pathogen, 52 Fusarium solani f.sp. phaseoli isolates from infected bean plants grown on different farms in Taita hills ... including Mexico, Brazil, Colombia, Peru, Ecuador, Chile,.

  20. Biodegradation of microcystin by a new Bacillus sp. isolated from a ...

    African Journals Online (AJOL)

    A new strain of Bacillus sp. was isolated from a Saudi eutrophic lake containing toxic cyanobacterial blooms. Based on phylogenetic analysis of the 16S rRNA gene sequence, the new strain most likely belonged to the genus Bacillus with a similarity of 81%. Using polymerase chain reaction (PCR), AMRI- 03 strain was ...

  1. Methylobacterium sp. isolated from a Finnish paper machine produces highly pyruvated galactan exopolysaccharide.

    NARCIS (Netherlands)

    Verhoef, R.P.; Waard, de P.; Schols, H.A.; Siika-aho, M.; Voragen, A.G.J.

    2003-01-01

    The slime-forming bacterium Methylobacterium sp. was isolated from a Finnish paper machine and its exopolysaccharide (EPS) was produced on laboratory scale. Sugar compositional analysis revealed a 100% galactan (EPS). However, FT-IR showed a very strong peak at 1611 cm-1 showing the presence of

  2. Complete Genome Sequence of Methylobacterium sp. Strain AMS5, an Isolate from a Soybean Stem

    OpenAIRE

    Minami, Tomoyuki; Ohtsubo, Yoshiyuki; Anda, Mizue; Nagata, Yuji; Tsuda, Masataka; Mitsui, Hisayuki; Sugawara, Masayuki; Minamisawa, Kiwamu

    2016-01-01

    Nonrhizobial Methylobacterium spp. inhabit the phyllosphere of a wide variety of plants. We report here the complete genome sequence of Methylobacterium sp. AMS5, which was isolated from a soybean stem. The information is useful for understanding the molecular mechanisms of the interaction between nonrhizobial Methylobacterium spp. and plants.

  3. Genome sequence of Pseudomonas sp. strain PAMC 25886, isolated from alpine glacial cryoconite.

    Science.gov (United States)

    Shin, Seung Chul; Kim, Su Jin; Hong, Soon Gyu; Ahn, Do Hwan; Lee, Yung Mi; Lee, Hyoungseok; Lee, Jungeun; Park, Hyun

    2012-04-01

    Pseudomonas spp. have shown characteristics of efficiently metabolizing environmental pollutants and also producing exopolysaccharides known as biofilms. Here we present the draft genome sequence of Pseudomonas sp. strain PAMC 25886, which was isolated from glacier cryoconite in the Alps mountain permafrost region and which may provide further insight into biodegradative and/or biofilm-producing mechanisms in a cold environment.

  4. Genome sequence of Janthinobacterium sp. strain PAMC 25724, isolated from alpine glacier cryoconite.

    Science.gov (United States)

    Kim, Su Jin; Shin, Seung Chul; Hong, Soon Gyu; Lee, Yung Mi; Lee, Hyoungseok; Lee, Jungeun; Choi, In-Geol; Park, Hyun

    2012-04-01

    The draft genome of Janthinobacterium sp. strain PAMC 25724, which is a violacein-producing psychrotolerant bacterium, was determined. The strain was isolated from glacier cryoconite of the Alps mountain permafrost region. The sequence will allow identification and characterization of the genetic determination of its cold-adaptive properties.

  5. Isolation and characterization of mesotrione-degrading Bacillus sp. from soil

    Energy Technology Data Exchange (ETDEWEB)

    Batisson, Isabelle [Laboratoire Microorganismes, Genome et Environnement, UMR 6023 CNRS, Universite Blaise-Pascal, 63177 Aubiere Cedex (France)], E-mail: isabelle.batisson@univ-bpclermont.fr; Crouzet, Olivier [Laboratoire Microorganismes, Genome et Environnement, UMR 6023 CNRS, Universite Blaise-Pascal, 63177 Aubiere Cedex (France); Besse-Hoggan, Pascale; Sancelme, Martine [Laboratoire de Synthese et Etude de Systemes a Interet Biologique, UMR 6504 CNRS, Universite Blaise-Pascal, 63177 Aubiere Cedex (France); Mangot, Jean-Francois; Mallet, Clarisse; Bohatier, Jacques [Laboratoire Microorganismes, Genome et Environnement, UMR 6023 CNRS, Universite Blaise-Pascal, 63177 Aubiere Cedex (France)

    2009-04-15

    Dissipation kinetics of mesotrione, a new triketone herbicide, sprayed on soil from Limagne (Puy-de-Dome, France) showed that the soil microflora were able to biotransform it. Bacteria from this soil were cultured in mineral salt solution supplemented with mesotrione as sole source of carbon for the isolation of mesotrione-degrading bacteria. The bacterial community structure of the enrichment cultures was analyzed by temporal temperature gradient gel electrophoresis (TTGE). The TTGE fingerprints revealed that mesotrione had an impact on bacterial community structure only at its highest concentrations and showed mesotrione-sensitive and mesotrione-adapted strains. Two adapted strains, identified as Bacillus sp. and Arthrobacter sp., were isolated by colony hybridization methods. Biodegradation assays showed that only the Bacillus sp. strain was able to completely and rapidly biotransform mesotrione. Among several metabolites formed, 2-amino-4-methylsulfonylbenzoic acid (AMBA) accumulated in the medium. Although sulcotrione has a chemical structure closely resembling that of mesotrione, the isolates were unable to degrade it. - A Bacillus sp. strain isolated from soil was able to completely and rapidly biotransform the triketone herbicide mesotrione.

  6. Phthalide and isocoumarin derivatives produced by an Acremonium sp. isolated from a mangrove Rhizophora apiculata.

    Science.gov (United States)

    Rukachaisirikul, Vatcharin; Rodglin, Aekkachai; Sukpondma, Yaowapa; Phongpaichit, Souwalak; Buatong, Jirayu; Sakayaroj, Jariya

    2012-05-25

    Nine new fungal metabolites, one phthalide derivative, acremonide (1), and eight isocoumarin derivatives, acremonones A-H (2-9), were isolated from the mangrove-derived fungus Acremonium sp. PSU-MA70 together with 10 known compounds. Their structures were determined by NMR analysis. The known 8-deoxytrichothecin and trichodermol exhibited moderate antifungal activity against Candida albicans and Cryptococcus neoformanns, respectively.

  7. Isolation and purification of alkaline keratinase from Bacillus sp. 50-3

    African Journals Online (AJOL)

    A new alkaline keratinase extracted from Bacillus sp. 50-3 was isolated and purified in this study. Solid ammonium sulfate was selected to precipitate the enzyme. Its proper adding mass was also determined. Through solid ammonium sulfate precipitation and liquid chromatography via the DEAE-Sephadex-A50 column ...

  8. Jeotgalibaca porci sp. nov. and Jeotgalibaca arthritidis sp. nov., isolated from pigs, and emended description of the genus Jeotgalibaca.

    Science.gov (United States)

    Zamora, Leydis; Pérez-Sancho, Marta; Domínguez, Lucas; Fernández-Garayzábal, Jose Francisco; Vela, Ana Isabel

    2017-05-01

    Biochemical and molecular genetic studies were performed on two novel Gram-stain-positive, catalase-negative, coccus-shaped organisms isolated from liquid joint samples of two pigs. The micro-organisms were not identified as members of a recognized species based on results of cellular, morphological and biochemical tests. 16S rRNA gene sequence comparison studies allowed their identification as members of the genus Jeotgalibaca, but the organisms were different to Jeotgalibaca dankookensis, the single species of the genus. The two micro-organisms shared 96.3 and 96.9 % 16S rRNA gene sequence similarity values with their nearest phylogenetic relative, J. dankookensis. The novel bacterial isolates were distinguished from J. dankookensis using biochemical tests. Based on both phenotypic and phylogenetic findings, it is proposed that the unknown bacteria be classified as representatives of two novel species of the genus Jeotgalibaca, Jeotgalibaca porci sp. nov. and Jeotgalibaca arthritidis sp. nov. The type strain of Jeotgalibaca porcisp. nov. is 1804-02T (=CECT 9156T=CCUG 69148T) and that of Jeotgalibaca arthritidissp. nov. is 1805-02T (=CECT 9157T=CCUG 69147T).

  9. Psychrobacter salsus sp. nov. and Psychrobacter adeliensis sp. nov. isolated from fast ice from Adelie Land, Antarctica.

    Science.gov (United States)

    Shivaji, S; Reddy, G S N; Raghavan, P U M; Sarita, N B; Delille, Daniel

    2004-11-01

    Nine psychrotolerant bacteria were isolated from fast ice in the middle of Geologie Archipelago, Adelie Land, Antarctica and were categorized into two groups, based on their SDS-PAGE profiles. Representatives from each of the two groups, namely strains DD 48T and SJ 14T exhibited phenotypic and chemotaxonomic characteristics confirming to the genus Psychrobacter. The 16S rRNA gene sequence indicated that the two isolates are closely related to each other and to the already reported fifteen species of Psychrobacter. Detailed studies on the phenotypic characteristics, chemotaxonomic properties and phylogenetic analysis of strains DD 48T and SJ 14T indicated that they are distinctly different from each other and the reported species of Psychrobacter. At the DNA-DNA hybridisation level, the two species exhibit less than 70% similarity. Thus, strains DD 48T and SJ 14T are identified as new species of the genus Psychrobacter for which the names Psychrobacter salsus sp. nov. and Psychrobacter adeliensis sp. nov. respectively are proposed.

  10. Herbaspirillum canariense sp. nov., Herbaspirillum aurantiacum sp. nov. and Herbaspirillum soli sp. nov., isolated from volcanic mountain soil, and emended description of the genus Herbaspirillum.

    Science.gov (United States)

    Carro, Lorena; Rivas, Raúl; León-Barrios, Milagros; González-Tirante, María; Velázquez, Encarna; Valverde, Angel

    2012-06-01

    Three Gram-negative, motile and slightly curved rod-shaped bacteria, strains SUEMI03(T), SUEMI08(T) and SUEMI10(T), were isolated from an old volcanic mountain soil on Tenerife (Canary Islands). The three strains were related phylogenetically to Herbaspirillum seropedicae. 16S rRNA gene sequence similarity was 99.2-99.6 % among strains SUEMI03(T), SUEMI08(T) and SUEMI10(T), which presented 97.5, 97.8 and 97.7 % identity, respectively, with respect to H. seropedicae DSM 6445(T). The three strains grew optimally in TSB at 28 °C and contained summed features 3 (C(16:1)ω6c and/or C(16:1)ω7c) and 8 (C(18:1)ω6c and/or C(18:1)ω7c) and C(16:0) as major cellular fatty acids. The DNA G+C contents of strains SUEMI03(T), SUEMI08(T) and SUEMI10(T) were 61.6, 60.4 and 61.9 mol%, respectively. Strains SUEMI03(T), SUEMI08(T) and SUEMI10(T) presented less than 60 % interstrain DNA relatedness and less than 30 % relatedness with respect to H. seropedicae DSM 6445(T). In spite of their common geographical origin, the three strains isolated in this study presented several phenotypic differences, presenting phenotypic profiles highly divergent from that of H. seropedicae. Therefore, we propose that the strains isolated in this study represent three novel species of the genus Herbaspirillum, named Herbaspirillum canariense sp. nov. (type strain SUEMI03(T) = LMG 26151(T) = CECT 7838(T)), Herbaspirillum aurantiacum sp. nov. (type strain SUEMI08(T) = LMG 26150(T) = CECT 7839(T)) and Herbaspirillum soli sp. nov. (type strain SUEMI10(T) = LMG 26149(T) = CECT 7840(T)).

  11. Lactobacillus apinorum sp. nov., Lactobacillus mellifer sp. nov., Lactobacillus mellis sp. nov., Lactobacillus melliventris sp. nov., Lactobacillus kimbladii sp. nov., Lactobacillus helsingborgensis sp. nov. and Lactobacillus kullabergensis sp. nov., isolated from the honey stomach of the honeybee Apis mellifera

    National Research Council Canada - National Science Library

    Olofsson, Tobias C; Alsterfjord, Magnus; Nilson, Bo; Butler, Eile; Vásquez, Alejandra

    2014-01-01

    .... The microbiota was composed of several phylotypes of Bifidobacterium and Lactobacillus. 16S rRNA gene sequence analyses and phenotypic and genetic characteristics revealed that the phylotypes isolated represent seven novel species...

  12. Rhizobium helianthi sp. nov., isolated from the rhizosphere of sunflower.

    Science.gov (United States)

    Wei, Xuexin; Yan, Shouwei; Li, Dai; Pang, Huancheng; Li, Yuyi; Zhang, Jianli

    2015-12-01

    A Gram-stain-negative, non-spore-forming, rod-shaped and aerobic bacterium, designated Xi19T, was isolated from a soil sample collected from the rhizosphere of sunflower (Helianthus annuus) in Wuyuan county of Inner Mongolia, China and was characterized taxonomically by using a polyphasic approach. Phylogenetic analysis based on 16S rRNA gene sequences indicated that the novel isolate was related to species of the genus Rhizobium, sharing the greatest 16S rRNA gene sequence similarity with Rhizobium rhizoryzae J3-AN59T (98.4 %), followed by Rhizobium pseudoryzae J3-A127T (97.4 %). There were low similarities ( Rhizobium. DNA-DNA hybridization values between strain Xi19T and the most related strain Rhizobium rhizoryzae J3-AN59T were low. The major cellular fatty acids of strain Xi19T were C16 : 0, summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c) and C19 : 0 cyclo ω8c. Q-10 was identified as the predominant ubiquinone and the major polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and phosphatidylcholine. The DNA G+C content of strain Xi19T was 60.2 mol%. On the basis of physiological and biochemical characteristics, coupled with genotypic data obtained in this work, strain Xi19T represents a novel species of the genus Rhizobium, for which the name Rhizobium helianthi is proposed. The type strain is Xi19T ( = CGMCC 1.12192T = KCTC 23879T).

  13. Thiophaeococcus fuscus sp. nov., isolated from a lagoon.

    Science.gov (United States)

    Divyasree, B; Lakshmi, K V N S; Sasikala, Ch; Ramana, Ch V

    2014-08-01

    A brown-coloured bacterium, designated strain JA633(T), was purified from a photoheterotrophic enrichment culture obtained from black sand of a lagoon. Cells of strain JA633(T) were coccoid-spherical, Gram-stain-negative and motile by means of polar flagella. Strain JA633(T) had an obligate requirement for NaCl and could tolerate up to 4% (w/v) NaCl. Internal photosynthetic membranes were present as vesicles. Photo-organoheterotrophy was the only growth mode observed. Strain JA633(T) contained bacteriochlorophyll a and a major (>85%) unidentified carotenoid of the spirilloxanthin series. Thiamine and p-aminobenzoic acid were required for growth. Major fatty acids were C(18 : 1)ω7c/C(18 : 1)ω6c, C(16 : 0) and C(16 : 1)ω7c/C(16 : 1)ω6c. Diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphotidylcholine and an unknown aminophospholipid were the major polar lipids in strain JA633(T). The DNA G+C content of strain JA633(T) was 64.5 mol%. Strain JA633(T) shared highest 16S rRNA gene sequence similarity with the type strains of Thiorhodococcus kakinadensis (96.9%), Thiophaeococcus mangrovi (96.3%) and Thiorhodococcus bheemlicus (96.2%), which belonged to the class Gammaproteobacteria. However, phylogenetic analysis based on 16S rRNA gene sequences showed that strain JA633(T) formed a separate clade along with Thiophaeococcus mangrovi JA304(T) whereas the members of the genus Thiorhodococcus remained as two distinct phylogenetic lineages. Based on morphological, physiological, chemotaxonomic and molecular evidence, strain JA633(T) was significantly different from the type strain of Thiophaeococcus mangrovi of the family Chromatiaceae. It is thus proposed that the strain be classified as a representative of a novel species, for which the name Thiophaeococcus fuscus sp. nov. is proposed. The type strain is JA633(T) ( = KCTC 15337(T) = NBRC 109958(T)). © 2014 IUMS.

  14. Subtype analysis of Blastocystis sp. isolates from asymptomatic individuals in an urban community in the Philippines

    Science.gov (United States)

    Adao, Davin Edric V.; Dela Serna, Ace O.; Belleza, Maria Luz B.; Bolo, Nicole R.; Rivera, Windell L.

    2016-10-01

    Blastocystis sp. is a commonly reported enteric protistan parasite in faecal specimens with a worldwide distribution afflicting both humans and a wide range of animals. The aim of this study is to characterize the subtypes (STs) of Blastocystis sp. isolates from asymptomatic individuals in an urban community in Pateros, Metro Manila, Philippines. The 600-bp small subunit ribosomal RNA (SSU rRNA) barcoding region of Blastocystis sp. isolates was amplified and sequenced using the primers RD5 and BhRDr. Subtypes were identified by uploading the sequences onto the Basic Local Alignment and Search Tool (BLAST) websites, the Blastocystis Subtype (18S) and Sequence Typing (MLST) Database and by construction of a phylogenetic tree. Twenty-nine (29) out of 35 individuals were detected positive for Blastocystis sp. ST3 is the most common among the three STs detected (65.5%), followed by ST1 (31.0%) and ST4 (3.44%). This study showed that DNA barcoding can serve as a helpful tool to investigate the diversity of Blastocystis sp. in the Philippines.

  15. Sinobacterium norvegicum sp . nov., a new species isolated from scallop (Pecten maximus.

    Directory of Open Access Journals (Sweden)

    Anita Jacobsen

    2014-06-01

    The results of analysis of DNA-DNA hybridization confirmed that these isolates constitute a new and differentiated cluster within the genus Sinobacterium. The predominant fatty acids were C16: 0, C16: 1 ω7c/C16: 1 ω6c and C18: 1 ω7c. The G + C content of the new isolates is 52.2 ± 1 mol%. Based on phenotypic and phylogenetic characteristics, the seven isolates represent a new species for which the name Sinobacterium norvegicum sp. nov. is proposed, with strain 3CM4T (= CECT 8267T = CAIM 1884T as the type strain.

  16. Bioactive secondary metabolites from the endophytic fungus Chaetomium sp. isolated from Salvia officinalis growing in Morocco

    Directory of Open Access Journals (Sweden)

    Ebel R.

    2009-01-01

    Full Text Available This study reports the chemical investigation and cytotoxic activity of the secondary metabolites produced by the endophytic fungus Chaetomium sp. isolated from Salvia officinalis growing in Morocco. This plant was collected from the Beni-Mellal Mountain in Morocco and belongs to the Lamiaceae family and is named in Morocco “Salmia”. The endophytic fungus Chaetomium sp. was isolated from the tissues of the stem of this plant. The fungal strain was identified by PCR. The crude organic extract of the fungal strain was proven to be active when tested for cytotoxicity against L5178Y mouse lymphoma cells. Chemical investigation of the secondary metabolites showed that cochliodinol is the main component beside isocochliodinol. The structures of the isolated compounds were determined on the basis of NMR analysis (1H, 13C, COSY and HMBC as well as by mass spectrometry using ESI (Electron Spray Ionisation as source.

  17. Physico-chemical and techno-functional properties of proteins isolated from the green microalgae Tetraselmis sp.

    NARCIS (Netherlands)

    Schwenzfeier, A.

    2013-01-01

    In this thesis, the mild isolation of an algae soluble protein isolate (ASPI) and the characterisation of its techno-functional properties are described. The ASPI was isolated from the green microalgae Tetraselmis sp. by beadmilling and subsequent anion exchange adsorption. The isolate obtained

  18. Identification of the main toxins isolated from Fusarium oxysporum f. sp. pisi race 2 and their relation with isolates' pathogenicity.

    Science.gov (United States)

    Bani, Moustafa; Rispail, Nicolas; Evidente, Antonio; Rubiales, Diego; Cimmino, Alessio

    2014-03-26

    Fusarium oxysporum f. sp. pisi (Fop) is a pathogen of field pea inducing severe vascular wilt worldwide. Plant resistance to races 1, 5, and 6, producing wilt symptoms, is conferred by a single dominant gene, while resistance to race 2, which gives near-wilt symptoms, have been recently showed to be quantitative. Among the virulence factors reported to play a role in the infection process, toxin production is one of the best studied. Thus, five race 2 isolates have been investigated for toxin production in vitro and their relation to isolates' pathogenicity. All the isolates produced different amounts of fusaric and 9,10-dehydrofusaric acids. The content of the two toxins has been quantitated and correlated with the pathogenicity and aggressiveness of isolates on field pea. Results suggested that toxin production is an important determinant of Fop race 2 pathogenicity.

  19. Paenibacillus panaciterrae sp. nov., isolated from ginseng-cultivated soil.

    Science.gov (United States)

    Nguyen, Ngoc-Lan; Kim, Yeon-Ju; Hoang, Van-An; Kang, Jong-Pyo; Singh, Priyanka; Yang, Deok-Chun

    2015-11-01

    A novel bacterium, designated DCY95T, was isolated from ginseng-cultivated soil in Quang Nam province, Vietnam. On the basis of 16S rRNA and gyrB gene sequence analysis, this isolate was assigned to the genus Paenibacillus and found to be closely related to Paenibacillus sacheonensis SY01T (97.1 % 16S rRNA gene sequence similarity) and Paenibacillus taihuensis THMBG22T (96.4 %). The partial gyrB gene of DCY95T possessed 69.6-83.9 % sequence identity to those of other members of the genus Paenibacillus. Strain DCY95T was Gram-reaction-negative, catalase-negative, oxidase-positive, strictly aerobic, rod-shaped and motile by means of peritrichous flagella. Ellipsoidal free spores or subterminal endospores were produced in sporangia. MK-7 was the diagnostic menaquinone. The cell-wall peptidoglycan contained meso-diamonopimelic acid as the diamino acid. Whole-cell sugars comprised ribose, mannose and glucose. The major cellular fatty acids were anteiso-C15 : 0, iso-C16 : 0 and C16 : 0. The major polar lipids were phosphatidylethanolamine, phosphatidylglycerol, three unidentified aminophospholipids, and two unidentified phospholipids. The genomic DNA G+C content was 60.7 ± 0.9 mol%. Phenotypic and chemotaxonomic results placed strain DCY95T within the genus Paenibacillus. However, DNA-DNA relatedness values between strain DCY95T and P. sacheonensis KACC 14895T or P. taihuensis NBRC 108766T were lower than 36 %. The low DNA relatedness data in combination with phylogenetic and (GTG)5-PCR analyses, as well as biochemical tests, indicated that strain DCY95T could not be assigned to any recognized species. In conclusion, the results in this study support the classification of strain DCY95T as a representative of a novel species within the genus Paenibacillus, for which the name Paenibacillus panaciterrae is proposed. The type strain is DCY95T ( = KCTC 33581T = DSM 29477T).

  20. Rhizobium petrolearium sp. nov., isolated from oil-contaminated soil.

    Science.gov (United States)

    Zhang, Xiaoxia; Li, Baoming; Wang, Haisheng; Sui, Xinhua; Ma, Xiaotong; Hong, Qing; Jiang, Ruibo

    2012-08-01

    Two Gram-negative, aerobic, rod-shaped bacteria, designated strains SL-1(T) and F11, which had the ability to decompose polycyclic aromatic hydrocarbons (PAHs), were isolated from soil samples contaminated by oil. The cells were motile by polar or lateral flagella. According to comparison of 16S rRNA gene sequences, strains SL-1(T) and F11 were identical and showed the greatest degree of similarity (96.8%) to both Rhizobium oryzae Alt505(T) and Rhizobium mesosinicum CCBAU 25010(T); however, only Rhizobium oryzae with SL-1(T) and F11 formed a separate clade. There were low similarities (Rhizobium. The bacteria grew at temperatures of 10-40 °C with an optimum of 30 °C. The pH range for growth was 6.0-10.0 and optimum pH was 7.0-8.0. Growth occurred at NaCl concentrations up to 3.0% (w/v). They were catalase- and oxidase-positive. The main cellular fatty acids were summed feature 8 (18:1ω7c and/or 18:1ω6c) and 16:0. The DNA G+C content was 62.2 mol%. Strain SL-1(T) showed 29 and 0% DNA-DNA relatedness, respectively, with the most related strains R. oryzae Alt505(T) and R. mesosinicum CCBAU 25010(T) according to phylogenic analysis of the 16S rRNA gene. According to physiological and biochemical characteristics and genotypic data obtained in this work, the bacteria represent a novel species of the genus Rhizobium, and the name Rhizobium petrolearium is proposed. The type strain is SL-1(T) ( = ACCC 11238(T) = KCTC 23288(T)) and it could nodulate Medicago sativa in nodulation tests.

  1. Isolation and characterization of chitinase from soil fungi, Paecilomyces sp.

    Directory of Open Access Journals (Sweden)

    Methanee Homthong

    2016-07-01

    Full Text Available Chitinolytic fungal strains were isolated from soil in Thailand. They were screened as chitinase producers by testing their shrimp shell digestion ability on potato dextrose agar plates. The chitinase activity was tested with colloidal chitin in culture medium C and basal medium. There was greater activity in culture medium C than in the basal medium. The results of sodium dodecyl sulfate-polyacrylamide gel electrophoresis analysis from the culture filtrate of medium C showed three protein bands at about 40 kDa, 46 kDa and 56 kDa. The chitinase gene was sequenced from genomic DNA. The obtained sequence consisted of 713 bp upstream, a 1499 bp open reading frame that was interrupted by three introns and 1698 bp downstream sequences. The intron lengths were 63 bp, 57 bp and 110 bp, respectively. The sequence was found to be the most similar to the chitinase gene of Paecilomyces lilacinus (EF183511. Pairwise alignment of the 1499 bp and P. lilacinus resulted in 72.5% DNA sequence identity, while alignment of the 1269 bp coding sequence and P. lilacinus resulted in 78.5% cDNA sequence identity and 83.5% amino acid sequence identity. The protein structure contained two conserved domains of the putative substrate binding site (S-I-G-G and catalytic domain (D-G-I-D-L-D-W-E, suggesting that this fungal chitinase belonged to the glycosyl hydrolases family 18 chitinase (GH18. Phylogenetic analysis of the chitinase gene from the nematopathogenic fungi suggested that this chitinase sequence was class V chitinase.

  2. Antifungal activity of indigenous bacillus sp. isolate Q3 against marshmallow mycobiota

    Directory of Open Access Journals (Sweden)

    Jošić Dragana Lj.

    2011-01-01

    Full Text Available Marshmallow is a host of a number of saprophytic and parasitic fungi in Serbia. The seeds of marshmallow are contaminated with fungi from different genera, especially Alternaria and Fusarium, which significantly reduced seed germination and caused seedling decay. In this study we investigate antagnonism of indigenous Bacillus sp. isolate Q3 against marshmallow mycopopulation. Bacillus sp. Q3 was isolated from maize rhizosphere, characterized by polyphasic approch and tested for plant growth promoting treats. Bacillus sp. Q3 produced antifungal metabolites with growth inhibition activity against numerous fungi in dual culture: 61.8% of Alternaria alternata, 74.8% of Myrothecium verrucaria and 33.6% of Sclerotinia sclerotiorum. That effect could be caused by different antifungal metabolites including siderophores, hydrolytic enzymes, organic acids and indole acetic acid (IAA. Suppression of natural marshmallow seed infection by Q3 isolate was observed. The seeds were immersed in different concentrations of bacterial suspension during 2h and their infections by phytopathogenic fungi were estimated. The results showed significant reduction of seed infection by Alternaria spp. The presented results indicate possible application of this isolate as promising biological agent for control of marshmallow seed pathogenic fungi.

  3. Isolation and identification of biocontrol agent Streptomyces rimosus M527 against Fusarium oxysporum f. sp. cucumerinum.

    Science.gov (United States)

    Lu, Dandan; Ma, Zheng; Xu, Xianhao; Yu, Xiaoping

    2016-08-01

    Actinomycetes have received considerable attention as biocontrol agents against fungal plant pathogens and as plant growth promoters. In this study, a total of 320 actinomycetes were isolated from various habitats in China. Among which, 77 strains have been identified as antagonistic activities against Fusarium oxysporum f. sp. cucumerinum which usually caused fusarium wilt of cucumber. Of these, isolate actinomycete M527 not only displayed broad-spectrum antifungal activity but also showed the strongest antagonistic activity against the spore germination of F. oxysporum f. sp. cucumerinum. In pot experiments, the results indicated that isolate M527 could promote the shoot growth and prevent the development of the disease on cucumber caused by F. oxysporum f. sp. cucumerinum. The control efficacy against seedling fusarium wilt of cucumber after M527 fermentation broth root-irrigation was up to 72.1% as compared to control. Based on 16S rDNA sequence analysis, the isolate M527 was identified as Streptomyces rimosus. © 2016 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

  4. Application of Oligonucleotide Microarrays for Bacterial Source Tracking of Environmental Enterococcus sp. Isolates

    Directory of Open Access Journals (Sweden)

    John S. Furey

    2005-04-01

    Full Text Available In an effort towards adapting new and defensible methods for assessing and managing the risk posed by microbial pollution, we evaluated the utility of oligonucleotide microarrays for bacterial source tracking (BST of environmental Enterococcus sp. isolates derived from various host sources. Current bacterial source tracking approaches rely on various phenotypic and genotypic methods to identify sources of bacterial contamination resulting from point or non-point pollution. For this study Enterococcus sp. isolates originating from deer, bovine, gull, and human sources were examined using microarrays. Isolates were subjected to Box PCR amplification and the resulting amplification products labeled with Cy5. Fluorescent-labeled templates were hybridized to in-house constructed nonamer oligonucleotide microarrays consisting of 198 probes. Microarray hybridization profiles were obtained using the ArrayPro image analysis software. Principal Components Analysis (PCA and Hierarchical Cluster Analysis (HCA were compared for their ability to visually cluster microarray hybridization profiles based on the environmental source from which the Enterococcus sp. isolates originated. The PCA was visually superior at separating origin-specific clusters, even for as few as 3 factors. A Soft Independent Modeling (SIM classification confirmed the PCA, resulting in zero misclassifications using 5 factors for each class. The implication of these results for the application of random oligonucleotide microarrays for BST is that, given the reproducibility issues, factor-based variable selection such as in PCA and SIM greatly outperforms dendrogram-based similarity measures such as in HCA and K-Nearest Neighbor KNN.

  5. Degradation of dibenzofuran via multiple dioxygenation by a newly isolated Agrobacterium sp. PH-08.

    Science.gov (United States)

    Le, T T; Murugesan, K; Nam, I-H; Jeon, J-R; Chang, Y-S

    2014-03-01

    To demonstrate the biodegradation of dibenzofuran (DF) and its structural analogs by a newly isolated Agrobacterium sp. PH-08. To assess the biodegradation potential of newly isolated Agrobacterium sp. PH-08, various substrates were evaluated as sole carbon sources in growth and biotransformation experiments. ESI LC-MS/MS analysis revealed the presence of angular degrading by-products as well as lateral dioxygenation metabolites in the upper pathway. The metabolites in the lower pathway also were detected. In addition, the cometabolically degraded daughter compounds of DF-related compounds such as BP and dibenzothiophene (DBT) in dual substrate degradation were observed. Strain PH-08 exhibited the evidence of meta-cleavage pathway as confirmed by the activity and gene expression of catechol-2,3-dioxygenase. Newly isolated bacterial strain, Agrobacterium sp. PH-08, grew well with and degraded DF via both angular and lateral dioxygenation as demonstrated by metabolites identified through ESI LC-MS/MS and GC-MS analyses. The other heterocyclic pollutants were also cometabolically degraded. Few reports have described the complete degradation of DF by a cometabolic lateral pathway. Our study demonstrates the novel results that the newly isolated strain utilized the DF as a sole carbon source and mineralized it via multiple dioxygenation. © 2013 The Society for Applied Microbiology.

  6. Bifidobacterium myosotis sp. nov., Bifidobacterium tissieri sp. nov. and Bifidobacterium hapali sp. nov., isolated from faeces of baby common marmosets (Callithrix jacchus L.).

    Science.gov (United States)

    Michelini, Samanta; Oki, Kaihei; Yanokura, Emiko; Shimakawa, Yasuhisa; Modesto, Monica; Mattarelli, Paola; Biavati, Bruno; Watanabe, Koichi

    2016-01-01

    In a previous study on bifidobacterial distribution in New World monkeys, six strains belonging to the Bifidobacteriaceae were isolated from faecal samples of baby common marmosets (Callithrix jacchus L.). All the isolates were Gram-positive-staining, anaerobic, asporogenous and fructose-6-phosphate phosphoketolase-positive. Comparative analysis of 16S rRNA gene sequences revealed relatively low levels of similarity (maximum identity 96 %) to members of the genus Bifidobacterium, and placed the isolates in three independent clusters: strains of cluster I (MRM_5.9T and MRM_5.10) and cluster III (MRM_5.18T and MRM_9.02) respectively showed 96.4 and 96.7 % 16S rRNA gene sequence similarity to Bifidobacterium callitrichos DSM 23973T, while strains of cluster II (MRM_8.14T and MRM_9.14) showed 95.4 % similarity to Bifidobacterium stellenboschense DSM 23968T. Phylogenetic analysis of partial hsp60 and clpC gene sequences supported an independent phylogenetic position of each cluster from each other and from the related type strains B. callitrichos DSM 23973T and B. stellenboschense DSM 23968T. Clusters I, II and III respectively showed DNA G+C contents of 64.9-65.1, 56.4-56.7 and 63.1-63.7 mol%. The major cellular fatty acids of MRM_5.9T were C14 : 0, C16 : 0 and C18 : 1ω9c dimethylacetal, while C16 : 0 was prominent in strains MRM_5.18T and MRM_8.14T, followed by C18 : 1ω9c and C14 : 0. Biochemical profiles and growth parameters were recorded for all the isolates. Based on the data provided, the clusters represent three novel species, for which the names Bifidobacterium myosotis sp. nov. (type strain MRM_5.9T = DSM 100196T = JCM 30796T), Bifidobacterium hapali sp. nov. (type strain MRM_8.14T = DSM 100202T = JCM 30799T) and Bifidobacterium tissieri sp. nov. (type strain MRM_5.18T = DSM 100201T = JCM 30798T) are proposed.

  7. Marichromatium litoris sp. nov. and Marichromatium chrysaorae sp. nov. isolated from beach sand and from a jelly fish (Chrysaora colorata).

    Science.gov (United States)

    Shivali, K; Ramana, V Venkata; Ramaprasad, E V V; Sasikala, Ch; Ramana, Ch V

    2011-12-01

    Three strains (JA349(T), JA553(T), JA439) of phototrophic sulphur bacteria were isolated from marine habitats of India. 16S rRNA gene sequence of the three strains clustered phylogenetically with members of the genus Marichromatium of the family Chromatiaceae belonging to the class Gammaproteobacteria. All the strains shared highest sequence similarity with the type strains of Marichromatium spp. (96-99% sequence similarity) and the new strains were characterized based on polyphasic taxonomy. Strains JA349(T) and JA553(T) can be distinguished from closest relative species of the genus Marichromatium with respect to distinct differences in cellular polar lipids, fatty acids and carbon/nitrogen sources utilization. Both strains were distinctly related (<50% based on DNA-DNA hybridization) with the type strains of the genus Marichromatium. Multilocus Sequence Analysis (MLSA) of the concatenated five protein coding genes (fusA, pufM, dnaK, recA, soxB) along with internal transcribed spacer (ITS; 16S-23S rRNA) had sequence similarity of less than 92% with the type strains of Marichromatium spp. Distinct phenotypic, chemotaxonomic and molecular differences allow the separation of strains JA349(T) and JA553(T) into new species of the genus Marichromatium for which, we propose the names Marichromatium litoris sp. nov. and Marichromatium chrysaorae sp. nov., respectively. Copyright © 2011 Elsevier GmbH. All rights reserved.

  8. Streptococcus tangierensis sp. nov. and Streptococcus cameli sp. nov., two novel Streptococcus species isolated from raw camel milk in Morocco.

    Science.gov (United States)

    Kadri, Zaina; Vandamme, Peter; Ouadghiri, Mouna; Cnockaert, Margo; Aerts, Maarten; Elfahime, El Mostafa; Farricha, Omar El; Swings, Jean; Amar, Mohamed

    2015-02-01

    Biochemical and molecular genetic studies were performed on two unidentified Gram-stain positive, catalase and oxidase negative, non-hemolytic Streptococcus-like organisms recovered from raw camel milk in Morocco. Phenotypic characterization and comparative 16S rRNA gene sequencing demonstrated that the two strains were highly different from each other and that they did not correspond to any recognized species of the genus Streptococcus. Phylogenetic analysis based on 16S rRNA gene sequences showed the unidentified organisms each formed a hitherto unknown sub-line within the genus Streptococcus, displaying a close affinity with Streptococcus moroccensis, Streptococcus minor and Streptococcus ovis. DNA G+C content determination, MALDI-TOF mass spectrometry and biochemical tests demonstrated the bacterial isolates represent two novel species. Based on the phenotypic distinctiveness of the new bacteria and molecular genetic evidence, it is proposed to classify the two strains as Streptococcus tangierensis sp. nov., with CCMM B832(T) (=LMG 27683(T)) as the type strain, and Streptococcus cameli sp. nov., with CCMM B834(T) (=LMG 27685(T)) as the type strain.

  9. Geotrichum siamensis sp. nov. and Geotrichum phurueaensis sp. nov., two asexual arthroconidial yeast species isolated in Thailand.

    Science.gov (United States)

    Kaewwichian, Rungluk; Yongmanitchai, Wichien; Srisuk, Nantana; Fujiyama, Kazuhito; Limtong, Savitree

    2010-03-01

    Two asexual arthroconidial yeast strains, TM3-44(T) and LYSM5(T), were isolated, respectively, from estuarine water in a mangrove forest and soil in a terrestrial forest in Thailand. Analysis of the D1/D2 domains of the large-subunit rRNA gene sequences revealed that strain TM3-44(T) differed from the closest species in terms of pairwise sequence similarity, Dipodascus albidus, by 11.7% nucleotide substitutions, while strain LYSM5(T) was closest to Galactomyces geotrichum with only 2.9% nucleotide substitutions. The phylogenetic tree further demonstrated that strain TM3-44(T) was at a distant position from the closest species, D. albidus, and other related species in the Dipodascus clade, while strain LYSM5(T) clustered with G. geotrichum, it closest relative in the Galactomyces clade. The phenotypic characteristics of the two strains were typical of the genus Geotrichum. On the basis of the above findings, strain TM3-44(T) was assigned as a novel species of Geotrichum, for which the name Geotrichum siamensis sp. nov. is proposed. The type strain is TM3-44(T) (BCC 29903(T)=NBRC 104880(T)=CBS 10929(T)). Strain LYSM5(T) represented another novel species of Geotrichum, which was named Geotrichum phurueaensis sp. nov. The type strain is LYSM5(T) (BCC 34756(T)=NBRC 105674(T)=CBS 11418(T)).

  10. Lactobacillus apinorum sp. nov., Lactobacillus mellifer sp. nov., Lactobacillus mellis sp. nov., Lactobacillus melliventris sp. nov., Lactobacillus kimbladii sp. nov., Lactobacillus helsingborgensis sp. nov., and Lactobacillus kullabergensis sp. nov., isolated from the honey stomach of the honeybee Apis mellifera.

    OpenAIRE

    Olofsson, Tobias; Alsterfjord, Magnus; Nilson, Bo; Butler, Éile; Vasquez, Alejandra

    2014-01-01

    We discovered a symbiotic lactic acid bacterial (LAB) microbiota in the honey stomach of the honeybee Apis mellifera. The microbiota was composed of several phylotypes of Bifidobacterium and Lactobacillus. 16S ribosomal ribonucleic acid (rRNA) gene analyses and phenotypic and genetic characteristics revealed that the Lactobacillus phylotypes isolated represent seven novel species. One is grouped with Lactobacillus kunkeei and the others belong to the Lactobacillus buchneri and Lactobacillus d...

  11. Clostridium clariflavum sp. nov. and Clostridium caenicola sp. nov., moderately thermophilic, cellulose-/cellobiose-digesting bacteria isolated from methanogenic sludge.

    Science.gov (United States)

    Shiratori, Hatsumi; Sasaya, Kinuyo; Ohiwa, Hitomi; Ikeno, Hironori; Ayame, Shohei; Kataoka, Naoaki; Miya, Akiko; Beppu, Teruhiko; Ueda, Kenji

    2009-07-01

    Two novel anaerobic, moderately thermophilic and cellulose-/cellobiose-digesting bacteria, EBR45(T) and EBR596(T), were isolated from anaerobic sludge of a cellulose-degrading methanogenic bioreactor. Phylogenetic analysis based on 16S rRNA gene sequences indicated that these strains belonged to cluster III within the low-G+C-content Gram-positive bacteria. The close relatives of EBR45(T) were Clostridium straminisolvens DSM 16021(T) (sequence identity, 94.6 %) and Clostridium thermocellum DSM 1237(T) (93.4 %). The closest relative of EBR596(T) was Clostridium stercorarium DSM 8532(T) (95.9 %). Both isolates were rod-shaped sporulators, growing optimally at 60 degrees C. EBR45(T) was Gram-staining-reaction-variable and non-motile, formed bright-yellow colonies on solid media, and grew on a relatively narrow range of carbohydrates including cellulose and cellobiose. EBR596(T) was Gram-staining-reaction-negative and motile, formed glossy white colonies and grew on cellobiose and various carbohydrates except cellulose. Major fatty acid compositions were 16 : 0 iso, 16 : 0 and 16 : 0 dimethylacetal (strain EBR45(T)) and 15 : 0 iso, 16 : 0 iso, 15 : 0 anteiso and 17 : 0 anteiso (strain EBR596(T)). The DNA G+C contents were 36.9 mol% (EBR45(T)) and 51.1 mol% (EBR596(T)). Based on the phenotypic and phylogenetic data and genomic distinctiveness, strains EBR45(T) and EBR596(T) represent two novel species, for which the names Clostridium clariflavum sp. nov. (type strain EBR45(T) =DSM 19732(T) =NBRC 101661(T)) and Clostridium caenicola sp. nov. (type strain EBR596(T) =DSM 19027(T) =NBRC 102590(T)) are proposed.

  12. Methylobacterium trifolii sp. nov. and Methylobacterium thuringiense sp. nov., methanol-utilizing, pink-pigmented bacteria isolated from leaf surfaces.

    Science.gov (United States)

    Wellner, S; Lodders, N; Glaeser, S P; Kämpfer, P

    2013-07-01

    Three pink-pigmented, aerobic, Gram-stain-negative, rod-shaped and facultatively methylotrophic strains were isolated from the phyllosphere of Trifolium repens and Cerastium holosteoides. 16S rRNA gene sequence analysis support the affiliation of all strains to the genus Methylobacterium. The closest relatives of strains C34(T) and T5 were Methylobacterium gnaphalii 23e(T) (98.0 and 98.5 % sequence similarity, respectively) and Methylobacterium organophilum JCM 2833(T) (97.0 and 97.2 %, respectively). Strain TA73(T) showed the highest sequence similarities to Methylobacterium marchantiae JT1(T) and Methylobacterium bullatum F3.2(T) (both 97.9 %), followed by Methylobacterium phyllosphaerae CBMB27(T) and Methylobacterium brachiatum DSM 19569(T) (both 97.8 %), Methylobacterium cerastii C15(T) and Methylobacterium radiotolerans JCM 2831(T) (both 97.7 %). The major components in the fatty acid profiles were C18 : 1ω7c, C16 : 0 and one unknown fatty acid for strain TA73(T) and C18 : 1ω7c, C16 : 1ω7c/iso-C15 : 0 2-OH, C18 : 0 and C16 : 0 for strains C34(T) and T5. Physiological and biochemical analysis, including DNA-DNA hybridization, revealed clear differences between the investigated strains and their closest phylogenetic neighbours. DNA-DNA hybridization studies also showed high similarities between strains C34(T) and T5 (59.6-100 %). Therefore, the isolates represent two novel species within the genus Methylobacterium, for which the names Methylobacterium trifolii sp. nov. (type strain TA73(T) = LMG 25778(T) = CCM 7786(T)) and Methylobacterium thuringiense sp. nov. (type strain C34(T) = LMG 25777(T) = CCM 7787(T)) are proposed.

  13. VIRULANCE FACTOR OF Staphylococcus sp. ISOLATED FROM SUBCLINICAL MASTITIS IN ETTAWA GRADE GOAT’S MILK IN SLEMAN REGENCY -YOGYAKARTA

    Directory of Open Access Journals (Sweden)

    W. Suwito

    2014-09-01

    Full Text Available Stapphylococcus sp., is bacteria that caused subclinical mastitis in Ettawa Grade (EG goat. Thepurpose of this study was to determine virulance factor Stapphylococcus sp., which was isolated fromsubclinical mastitis EG goat’s milk in Sleman regency, Yogyakarta. A total of 7 isolate Stapphylococcussp., were isolated from subclinical mastitis EG goat’s milk were determinated by several virulancefactors such as haemolysin, clumping factor, and coagulase. Haemolysin was determinated by culture inblood agar plate and incubated in the temperature of 37°C for 24 hours. Clumping factor wasdeterminated by mixing the rabbit plasma with Stapphylococcus sp., in the glass objects. Coagulase wasdeterminated by mixing the rabbit plasma and broth culture of Stapphylococcus sp. After incubated inthe temperature of 37°C for 24 hours in tube, then the gel formation was observed. Haemolytic type ßwas yielded from 5 isolate Stapphylococcus sp., whereas 2 isolates were not haemolytic. Clumpingfactor and coagulase were produced from 2 isolate Stapphylococcus sp. This study showed that not all ofStapphylococcus sp., isolate causing subclinical mastitis in EG goat have virulance factor.

  14. Isolation and characterization of a high-efficiency erythromycin A-degrading Ochrobactrum sp. strain.

    Science.gov (United States)

    Zhang, Weiwei; Qiu, Lina; Gong, Aijun; Yuan, Xiaotao

    2017-01-30

    In this work, Erythromycin A(EA)- degrading bacteria was isolated from the contaminated soil obtained from a pharmaceutical factory in China. The isolate designated as strain WX-J1 was identified as Ochrobactrum sp. by sequence analysis of its 16S rDNA gene. It can grow in a medium containing EA as the sole source of carbon and its optimal growth pH and temperature were 6.5 and 32°C, respectively. Under these conditions, when the initial Erythromycin A concentration was 100mg·L-1, 97% of Erythromycin A has been degraded. HPLC-MS analyses indicated that Erythromycin A degradation produced intermediates contained the following three substances: 3-depyranosyloxy erythromycin A, 7,12-dyhydroxy-6-deoxyerythronolide B, 6-deoxyerythronolide B and propionaldehyde. Since Erythromycin A-degrading Ochrobactrum sp. strain rapidly degraded Erythromycin A, this strain might be useful for bioremediation purposes. Copyright © 2016 Elsevier Ltd. All rights reserved.

  15. Isolation of Fusarium sp. from a claw of a dog with onychomycosis.

    Science.gov (United States)

    Namitome, Kazuko; Kano, Rui; Sekiguchi, Maiko; Iwasaki, Toshiroh; Kaneshima, Takashi; Nishifuji, Koji

    2011-07-01

    An 8-year-old male Golden Retriever had lameness and claw abnormality in the second digit of the left forelimb. Radiography revealed osteomyelitis in the distal phalanx bone of the affected limb. Microscopic examination of the claw revealed numerous hyphae in the claw matrix. Fungal DNA fragments coding the ribosomal internal transcribed spacer region (ITS) were detected from the claw matrix as well as fungal colonies of the clinical isolates by PCR. Nucleotide sequencing revealed that the amplicons shared > 99% homology with Fusarium sp. Therapy including oral itraconazole resulted in regrowth of a new claw, in which no hyphae were detected. To the authors' knowledge, this is the first case report of canine onychomycosis in which Fusarium sp. was isolated from the affected claw.

  16. MORPHOLOGICAL IDENTIFICATION OF DIAPORTHE/PHOMOPSIS SP. ISOLATED FROM XANTHIUM ITALICUM

    Directory of Open Access Journals (Sweden)

    Draženka Jurković

    2007-12-01

    Full Text Available Diaporthe/Phomopsis sp. was isolated from Xanthium italicum (Italian cockleburr for the first time in Eastern Croatia during 2004 year. As Diaporthe/Phomopsis species are known as pathogens of soybean, sunflower and other arable crops, it is important to study alternative hosts as a possible source of inoculum from an epidemiological point of view. This paper describes symptoms of infection on X. italicum, pathogen morphological and cultural characters on potato-dextrose agar (PDA, biometrical values of reproductive structures (pycnidia, beta conidia, perithecia, asci and ascospores of naturally infected plants and of cultures grown on PDA. Results obtained from undertaken studies indicate that our Phomopsis sp. isolates from X. italicum belong to the group of P. helianthi.

  17. Agrobacterium larrymoorei sp. nov., a pathogen isolated from aerial tumours of Ficus benjamina.

    Science.gov (United States)

    Bouzar, H; Jones, J B

    2001-05-01

    Tumorigenic Agrobacterium strains isolated from tumours growing on pruned branches of Ficus benjamina have previously been shown to have unique opine metabolism and sufficient 16S rRNA sequence differences to suggest that they belong to a new species. DNA-DNA hybridization results confirmed that these strains represent a new species and Agrobacterium larrymoorei sp. nov. (type strain ATCC 51759T = CFBP 5473T = NCPPB 4096T) is proposed as the name for the species.

  18. Antifungal agents from Pseudallescheria boydii SNB-CN73 isolated from a Nasutitermes sp. termite.

    Science.gov (United States)

    Nirma, Charlotte; Eparvier, Véronique; Stien, Didier

    2013-05-24

    Defense mutualisms between social insects and microorganisms have been described in the literature. The present article describes the discovery of a Pseudallescheria boydii strain isolated from Nasutitermes sp. The microbial symbiont produces two antifungal metabolites: tyroscherin and N-methyltyroscherin, a compound not previously described in the literature. Methylation of tyroscherin has confirmed the structure of N-methyltyroscherin. Both compounds are effective antifungal agents with favorable selectivity indices for Candida albicans and Trichophyton rubrum.

  19. Isolation and Structural Elucidation of Chondrosterins F–H from the Marine Fungus Chondrostereum sp.

    Directory of Open Access Journals (Sweden)

    Wen-Jian Lan

    2013-02-01

    Full Text Available The marine fungus Chondrostereum sp. was collected from a soft coral of the species Sarcophyton tortuosum from the South China Sea. Three new compounds, chondrosterins F–H (1, 4 and 5, together with three known compounds, incarnal (2, arthrosporone (3, and (2E-decene-4,6,8-triyn-1-ol (6, were isolated. Their structures were elucidated primarily based on NMR and MS data. Incarnal (2 exhibited potent cytotoxic activity against various cancer cell lines.

  20. Kazachstania rupicola sp. nov., a yeast species isolated from water tanks of a bromeliad in Brazil.

    Science.gov (United States)

    Safar, Silvana Vilas Boas; Gomes, Fátima C O; Marques, Andréa R; Lachance, Marc-André; Rosa, Carlos A

    2013-03-01

    Two isolates of a novel yeast species were obtained from water tanks (phytotelmata) of the bromeliad Vriesea minarum collected in a tableland ('campo rupestre') ecosystem in Brazil. The sequences of the D1/D2 domains of the large-subunit rRNA gene showed that this species is related to Kazachstania exigua and others, from which it differs by 8-10 nucleotide substitutions. The novel species Kazachstania rupicola sp. nov. is proposed to accommodate these isolates. The type strain is UFMG-BRO-80(T) ( = CBS 12684(T)  = CBMAI 1466(T)).

  1. Isolation and application of Gordonia sp. JC11 for removal of boat lubricants.

    Science.gov (United States)

    Chanthamalee, Jirapat; Luepromchai, Ekawan

    2012-01-01

    Boat lubricants are continuously released into the marine environment and thereby cause chronic oil pollution. This study aims to isolate lubricant-degrading microorganisms from Thai coastal areas as well as to apply a selected strain for removal of boat lubricants. Ten microorganisms in the genera of Gordonia, Microbacterium, Acinetobacter, Pseudomonas, Brucella, Enterococcus and Candida were initially isolated by crude oil enrichment culture techniques. The lubricant-removal activity of these isolates was investigated with mineral-based lubricants that had been manufactured for the 4-stroke diesel engines of fishing boats. Gordonia sp. JC11, the most effective strain was able to degrade 25-55% of 1,000 mg L(-1) total hydrocarbons in six tested lubricants, while only 0-15% of the lubricants was abiotically removed. The bacterium had many characteristics that promoted lubricant degradation such as hydrocarbon utilization ability, emulsification activity and cell surface hydrophobicity. For bioaugmentation treatment of lubricant contaminated seawater, the inoculum of Gordonia sp. JC11 was prepared by immobilizing the bacterium on polyurethane foam (PUF). PUF-immobilized Gordonia sp. JC11 was able to remove 42-56% of 100-1,000 mg L(-1) waste lubricant No. 2 within 5 days. This lubricant removal efficiency was higher than those of free cells and PUF without bacterial cells. The bioaugmentation treatment significantly increased the number of lubricant-degrading microorganisms in the fishery port seawater microcosm and resulted in rapid removal of waste lubricant No. 2.

  2. Pantoea hericii sp. nov., Isolated from the Fruiting Bodies of Hericium erinaceus.

    Science.gov (United States)

    Rong, Chengbo; Ma, Yuanwei; Wang, Shouxian; Liu, Yu; Chen, Sanfeng; Huang, Bin; Wang, Jing; Xu, Feng

    2016-06-01

    Three Gram-negative, facultatively anaerobic bacterial isolates were obtained from the fruiting bodies of the edible mushroom Hericium erinaceus showing symptoms of soft rot disease in Beijing, China. Sequences of partial 16S rRNA gene placed these isolates in the genus Pantoea. Multilocus sequence analysis based on the partial sequences of atpD, gyrB, infB and rpoB revealed P. eucalypti and P. anthophila as their closest phylogenetic relatives and indicated that these isolates constituted a possible novel species. DNA-DNA hybridization studies confirmed the classification of these isolates as a novel species and phenotypic tests allowed for differentiation from the closest phylogenetic neighbours. The name Pantoea hericii sp. nov. [Type strain LMG 28847(T) = CGMCC 1.15224(T) = JZB 2120024(T)] is proposed.

  3. Streptomyces iconiensis sp. nov. and Streptomyces smyrnaeus sp. nov., two halotolerant actinomycetes isolated from a salt lake and saltern.

    Science.gov (United States)

    Tatar, Demet; Guven, Kiymet; Spröer, Cathrin; Klenk, Hans-Peter; Sahin, Nevzat

    2014-09-01

    The taxonomic positions of two novel actinomycetes, designated strains BNT558(T) and SM3501(T), were established by using a polyphasic approach. The organisms had chemical and morphological features that were consistent with their classification in the genus Streptomyces. The whole-cell hydrolysates of the two strains contained ll-diaminopimelic acid as the diagnostic diamino acid. The predominant menaquinones were MK-9(H6) and MK-9(H8) for strain BNT558(T) and MK-9(H8) and MK-9(H6) for strain SM3501(T). Major fatty acids of the strains were anteiso-C15 : 0, anteiso-C17 : 0 and iso-C16 : 0. The polar lipid profile of strain BNT558(T) contained diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol, one unidentified glycolipid and one unidentified aminophospholipid, while that of strain SM3501(T) consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, phosphatidylethanolamine, three unidentified atypical aminolipids, one unidentified aminolipid and two unidentified glycolipids. The G+C contents of the genomic DNA were 70.2 and 69.6 mol% for strains BNT558(T) and SM3501(T), respectively. 16S rRNA gene sequence data supported the classification of the isolates in the genus Streptomyces and showed that they formed two distinct branches within the genus. Based on almost-complete 16S rRNA gene sequences, strain BNT558(T) was related most closely to Streptomyces albiaxialis NRRL B-24327(T) and strain SM3501(T) was related most closely to Streptomyces cacaoi subsp. cacaoi NBRC 12748(T). DNA-DNA relatedness between each of the isolates and its closest phylogenetic neighbours showed that they belonged to distinct species. The two isolates were readily distinguished from one another and from the type strains of the other species classified in the genus Streptomyces based on a combination of phenotypic and genotypic properties. Based on the genotypic and phenotypic evidence, strains BNT558(T) and SM3501(T) belong to two

  4. Impacts of varying light regimes on phycobiliproteins of Nostoc sp. HKAR-2 and Nostoc sp. HKAR-11 isolated from diverse habitats.

    Science.gov (United States)

    Kannaujiya, Vinod K; Sinha, Rajeshwar P

    2015-11-01

    The adaptability of cyanobacteria in diverse habitats is an important factor to withstand harsh conditions. In the present investigation, the impacts of photosynthetically active radiation (PAR; 400-700 nm), ultraviolet-B (UV-B; 280-315 nm), and PAR + UV-B radiations on two cyanobacteria viz., Nostoc sp. HKAR-2 and Nostoc sp. HKAR-11 inhabiting diverse habitats such as hot springs and rice fields, respectively, were studied. Cell viability was about 14 % in Nostoc sp. HKAR-2 and Nostoc sp. HKAR-11 after 48 h of UV-B exposure. PAR had negligible negative impact on the survival of both cyanobacteria. The continuous exposure of UV-B and PAR + UV-B showed rapid uncoupling, bleaching, fragmentation, and degradation in both phycocyanin (C-PC) and phycoerythrin (C-PE) subunits of phycobiliproteins (PBPs). Remarkable bleaching effect of C-PE and C-PC was not only observed with UV-B or PAR + UV-B radiation, but longer period (24-48 h) of exposure with PAR alone also showed noticeable negative impact. The C-PE and C-PC subunits of the rice field isolate Nostoc sp. HKAR-11 were severely damaged in comparison to the hot spring isolate Nostoc sp. HKAR-2 with rapid wavelength shifting toward shorter wavelengths denoting the bleaching of both the accessory light harvesting pigments. The results indicate that PBPs of the hot spring isolate Nostoc sp. HKAR-2 were more stable under various light regimes in comparison to the rice field isolate Nostoc sp. HKAR-11 that could serve as a good source of valuable pigments to be used in various biomedical and biotechnological applications.

  5. Spiribacter aquaticus sp. nov., a novel member of the genus Spiribacter isolated from a saltern.

    Science.gov (United States)

    León, María José; Aldeguer-Riquelme, Borja; Antón, Josefa; Sánchez-Porro, Cristina; Ventosa, Antonio

    2017-08-01

    A moderately halophilic bacterium, designated strain SP30T, was isolated from a solar saltern located in Santa Pola, Alicante, on the East coast of Spain. It was a Gram-stain-negative, strictly aerobic bacterium, able to grow in 7.5-25 % (w/v) NaCl and optimally in 12.5 % (w/v) NaCl. Phylogenetic analyses, based on 16S rRNA gene sequences, showed that the novel isolate is a member of the genus Spiribacter, with the most closely related species being Spiribacter roseus SSL50T (99.9 % sequence similarity) and Spiribacter curvatus UAH-SP71T (99.4 % sequence similarity). The 16S rRNA gene sequence similarity with the type species Spiribacter salinus M19-40T was 96.6 %. The DNA-DNA relatedness value between strain SP30T and S. roseus SSL50T and S. curvatus UAH-SP71T was 40 and 55 %, respectively; these values are lower than the 70 % threshold accepted for species delineation. The major fatty acids were C16:0, C18 : 1ω7c, C19 : 0 cyclo ω8c and C12 : 0. Similarly to other species of the genus Spiribacter, strain SP30Twas observed as curved rods and spiral cells. Metabolic versatility was reduced to the utilization of a few organic compounds as the sole carbon and energy sources, as with other members of Spiribacter. However, it differed in terms of colony pigmentation (brownish-yellow instead of pink) and in having a higher growth rate. Based on these data and on the phenotypic, genotypic and chemotaxonomic characterization, we propose the classification of strain SP30T as a novel species within the genus Spiribacter, with the name Spiribacter aquaticus sp. nov. The type strain is SP30T (=CECT 9238T=LMG 30005T).

  6. Three new asexual arthroconidial yeasts, Geotrichum carabidarum sp. nov., Geotrichum histeridarum sp. nov., and Geotrichum cucujoidarum sp. nov., isolated from the gut of insects.

    Science.gov (United States)

    Suh, Sung-Oui; Blackwell, Meredith

    2006-02-01

    Twenty arthroconidial yeasts were isolated from the digestive tract of basidiome-feeding beetles and lepidopteran larvae. All of the yeasts reproduced only asexually by arthroconidia and some by endo- or blastoconidia as well. Based on the comparisons of sequences in ribosomal RNA genes and other taxonomic characteristics, the yeasts were identified as three unknown Geotrichum species. The three new species are described as Geotrichum carabidarum (NRRL Y-27727T), G. histeridarum (NRRL Y-27729T), and G. cucujoidarum (NRRL Y-27731T). Phylogenetic analyses from ribosomal DNA sequences showed that members of the genus Geotrichum and related arthroconidial yeast taxa were divided into two major clades: (1) Dipodascus and Galactomyces with Geotrichum anamorphs including all the new species; and (2) Magnusiomyces with Saprochaete anamorphs. G. cucujoidarum formed a subclade with G. fermentans and Geotrichum sp. Y-5419, while the two closely related species, G. carabidarum and G. histeridarum, represent a new basal subclade in the clade of Geotrichum and its teleomorphs.

  7. sp

    African Journals Online (AJOL)

    Vihar

    adopted as the first line drug. SP has few untoward effects if used carefully in therapeutic doses. Nausea, vomiting, generalized body weakness; diarrhea, skin rashes and hematological reactions are some of the associated side effects. The drug can cause severe skin reactions such as Steven Johnson's syndrome. This.

  8. Deinococcus metallilatus sp. nov. and Deinococcus carri sp. nov., isolated from a car air-conditioning system.

    Science.gov (United States)

    Kim, Dong-Uk; Lee, Hyosun; Lee, Ji-Hyeong; Ahn, Jae-Hyung; Lim, Sangyong; Jeong, Sunwook; Park, So Yoon; Seong, Chi Nam; Ka, Jong-Ok

    2015-09-01

    Two bacterial strains, designated MA1002(T) and MA1003(T), were isolated from the air-conditioning system of a car. Cells of both strains were Gram-reaction-positive, non-motile, non-spore-forming coccoids, catalase- and oxidase-positive and UV-radiation resistant. The major fatty acids of strain MA1002(T) were iso-C17 : 0 and iso-C15 : 0 and those of strain MA1003(T) were iso-C16 : 0 and iso-C16 : 1 H. The polar lipid profile of MA1002(T) contained phosphatidylethanolamine, two unidentified phosphoglycolipids, an unidentified phospholipid, an unidentified aminophospholipid, an unidentified aminolipid and an unidentified lipid. MA1003(T) had three unidentified phosphoglycolipids, six unidentified phospholipids, two unidentified glycolipids and two unidentified polar lipids as the polar lipids. The G+C contents of the genomic DNA of MA1002(T) and MA1003(T) were 70.5 and 76.0 mol%, respectively. MK-8 was the predominant respiratory quinone for both strains. 16S rRNA gene sequence analysis showed that strain MA1002(T) was phylogenetically related to Deinococcus apachensis DSM 19763(T), D. geothermalis DSM 11300(T), D. aerius TR0125(T) and D. aetherius ST0316(T) (92.9, 92.6, 92.0 and 91.9% sequence similarity, respectively), and MA1003(T) showed the highest sequence similarity to Deinococcus hopiensis KR-140(T) (92.9%) and D. xinjiangensis X-82(T) (91.4%). The results of genotypic and phenotypic characterizations showed that both strains could be distinguished from phylogenetically related species, and that the strains represented novel species within the genus Deinococcus, for which we propose the names Deinococcus metallilatus sp. nov. (type strain MA1002(T) = KACC 17964(T) = NBRC 110141(T)) and Deinococcus carri sp. nov. (type strain is MA1003(T) = KACC 17965(T) = NBRC 110142(T)).

  9. Genome Sequence of Streptomyces sp. H-KF8, a Marine Actinobacterium Isolated from a Northern Chilean Patagonian Fjord.

    Science.gov (United States)

    Undabarrena, Agustina; Ugalde, Juan Antonio; Castro-Nallar, Eduardo; Seeger, Michael; Cámara, Beatriz

    2017-02-09

    Streptomyces sp. H-KF8 is a fjord-derived marine actinobacterium capable of producing antimicrobial activity. Streptomyces sp. H-KF8 was isolated from sediments of the Comau fjord, located in the northern Chilean Patagonia. Here, we report the 7.7-Mb genome assembly, which represents the first genome of a Chilean marine actinobacterium. Copyright © 2017 Undabarrena et al.

  10. Isolation, purification and characterization of xylanase produced by Arthrobacter sp. MTCC 5214 when grown in solid-state fermentation

    Digital Repository Service at National Institute of Oceanography (India)

    Khandeparker, R.; Bhosle, N.B.

    Thermoalkalophilic Arthrobacter sp. produced extracellular xylanase, when wheat bran, rice husk, rice bran and bagassae were used as carbon source under solid-state fermentation (SSF). The xylanase enzyme was isolated by ammonium sulfate (80...

  11. Haematospirillum jordaniae gen. nov., sp. nov., isolated from human blood samples.

    Science.gov (United States)

    Humrighouse, B W; Emery, B D; Kelly, A J; Metcalfe, M G; Mbizo, J; McQuiston, J R

    2016-04-01

    A Gram-negative, aerobic, motile, spiral-shaped bacterium, strain H5569(T), was isolated from a human blood sample. Phenotypic and molecular characteristics of the isolate were investigated. Optimal growth was found to occur at 35 °C under aerobic conditions on Heart Infusion Agar supplemented with 5 % rabbit blood. The major fatty acids present in the cells were identified as C16:0, C16:1ω7c and C18:1ω7c. The predominant respiratory quinone was found to be ubiquinone-Q10. The G+C content of genomic DNA for strain H5569(T) was found to be 49.9 %. Based on 16S rRNA gene sequence analysis results, 13 additional isolates were also analysed in this study. Phylogenetic analysis based on 16S rRNA gene sequences revealed that the organism, represented by strain H5569(T), forms a distinct lineage within the family Rhodospirillaceae, closely related to two Novispirillum itersonii subspecies (93.9-94.1 %) and two Caenispirillum sp. (91.2-91.6 %). Based on these results, the isolate H5569(T) is concluded to represent a new genus and species for which the name Haematospirillum jordaniae gen. nov., sp. nov. is proposed. The type strain is H5569(T) (=DSM(T) 28903 = CCUG 66838(T)).

  12. Actinomyces succiniciruminis sp. nov. and Actinomyces glycerinitolerans sp. nov., two novel organic acid-producing bacteria isolated from rumen.

    Science.gov (United States)

    Palakawong N A, Susakul; Pristaš, Peter; Hrehová, Ludmila; Javorský, Peter; Stams, Alfons J M; Plugge, Caroline M

    2016-10-01

    Two bacterial strains, Am4 and G10 were isolated from rumen fluid of different ruminants: cow (Holstein-Friesian) and sheep (Slovenskè merino), respectively. They were isolated from different hosts and regions, but showed 99.2% similarity of the 16S rRNA genes. Both strains are versatile and ferment various sugars to mainly succinate and lactate and small amounts of acetate and formate. The 16S rRNA sequences of Am4 and G10 revealed that they belonged to the genus Actinomyces, and are related to Actinomyces ruminicola JCM 13352(T) with 97.0% and 97.4% similarity, respectively. DDH showed strain Am4 and G10 had only 55.8 and 43.3% similarity with the Actinomyces ruminicola JCM 13352(T), and had 69.9% similarity among each other. Comparing strain Am4 and G10, gANI value and dDDH were 92.9% and 68.6%, respectively. Additionally, AAI between the strains was 95.8%. MLSA of housekeeping genes showed difference of metG and pheS. The G+C% contents of strain Am4 and G10 were 69.8% and 68.5%, respectively. MK-10(H4) was the principal quinone for strain Am4 (82%) and G10 (91%) with small amounts of MK-10(H8) and MK-10(H6) for both strains. Only MK-9(H4) was detected in strain Am4. MALDI-TOF analysis of protein profiles also revealed that Am4 and G10 are different from each other and from Actinomyces ruminicola JCM 13352(T). Based on phylogenetic and physiological characteristics, together with genome comparison and MLSA we propose two novel species in the genus Actinomyces: Actinomyces succiniciruminis sp. nov. (type strain Am4(T)=TISTR 2317(T)=DSM 10376(T)) and Actinomyces glycerinitolerans sp. nov. (type strain G10(T)=TISTR 2318(T)=DSM 10377(T)). Copyright © 2016 The Authors. Published by Elsevier GmbH.. All rights reserved.

  13. Mycobacterium minnesotense sp. nov., a photochromogenic bacterium isolated from sphagnum peat bogs.

    Science.gov (United States)

    Hannigan, Geoffrey D; Krivogorsky, Bogdana; Fordice, Daniel; Welch, Jacqueline B; Dahl, John L

    2013-01-01

    Several intermediate-growing, photochromogenic bacteria were isolated from sphagnum peat bogs in northern Minnesota, USA. Acid-fast staining and 16S rRNA gene sequence analysis placed these environmental isolates in the genus Mycobacterium, and colony morphologies and PCR restriction analysis patterns of the isolates were similar. Partial sequences of hsp65 and dnaJ1 from these isolates showed that Mycobacterium arupense ATCC BAA-1242(T) was the closest mycobacterial relative, and common biochemical characteristics and antibiotic susceptibilities existed between the isolates and M. arupense ATCC BAA-1242(T). However, compared to nonchromogenic M. arupense ATCC BAA-1242(T), the environmental isolates were photochromogenic, had a different mycolic acid profile and had reduced cell-surface hydrophobicity in liquid culture. The data reported here support the conclusion that the isolates are representatives of a novel mycobacterial species, for which the name Mycobacterium minnesotense sp. nov. is proposed. The type strain is DL49(T) (=DSM 45633(T) = JCM 17932(T) = NCCB 100399(T)).

  14. Chromobacterium sphagni sp. nov., an insecticidal bacterium isolated from Sphagnum bogs.

    Science.gov (United States)

    Blackburn, Michael B; Farrar, Robert R; Sparks, Michael E; Kuhar, Daniel; Mitchell, Ashaki; Gundersen-Rindal, Dawn E

    2017-09-01

    Sixteen isolates of Gram-reaction-negative, motile, violet-pigmented bacteria were isolated from Sphagnum bogs in West Virginia and Maine, USA. 16S rRNA gene sequences and fatty acid analysis revealed a high degree of relatedness among the isolates, and genome sequencing of two isolates, IIBBL 14B-1T and IIBBL 37-2 (from West Virginia and Maine, respectively), revealed highly similar genomic sequences. The average nucleotide identity (gANI) calculated for these two isolates was found to be in excess of 99 %, but did not exceed 88 % when comparing either isolate with genomic sequences of Chromobacterium violaceum ATCC 12472T, C. haemolyticum DSM 19808T, C. piscinae ND17, C. subtsugae PRAA4-1T, C. vaccinii MWU205T or C. amazonense CBMAI 310T. Collectively, gANI and 16S rRNA gene sequence comparisons suggested that isolates IIBBL 14B-1T and IIBBL 37-2 were most closely related to C. subtsugae, but represented a distinct species. We propose the name Chromobacterium sphagni sp. nov. for this taxon; the type strain is IIBBL 14B-1T (=NRRL B-67130T=JCM 31882T).

  15. Cyanobacterial photosynthesis under sulfidic conditions: insights from the isolate Leptolyngbya sp. strain hensonii

    Science.gov (United States)

    Hamilton, Trinity L; Klatt, Judith M; de Beer, Dirk; Macalady, Jennifer L

    2018-01-01

    We report the isolation of a pinnacle-forming cyanobacterium isolated from a microbial mat covering the sediment surface at Little Salt Spring—a flooded sinkhole in Florida with a perennially microoxic and sulfidic water column. The draft genome of the isolate encodes all of the enzymatic machinery necessary for both oxygenic and anoxygenic photosynthesis, as well as genes for methylating hopanoids at the C-2 position. The physiological response of the isolate to H2S is complex: (i) no induction time is necessary for anoxygenic photosynthesis; (ii) rates of anoxygenic photosynthesis are regulated by both H2S and irradiance; (iii) O2 production is inhibited by H2S concentrations as low as 1 μM and the recovery rate of oxygenic photosynthesis is dependent on irradiance; (iv) under the optimal light conditions for oxygenic photosynthesis, rates of anoxygenic photosynthesis are nearly double those of oxygenic photosynthesis. We hypothesize that the specific adaptation mechanisms of the isolate to H2S emerged from a close spatial interaction with sulfate-reducing bacteria. The new isolate, Leptolyngbya sp. strain hensonii, is not closely related to other well-characterized Cyanobacteria that can perform anoxygenic photosynthesis, which further highlights the need to characterize the diversity and biogeography of metabolically versatile Cyanobacteria. The isolate will be an ideal model organism for exploring the adaptation of Cyanobacteria to sulfidic conditions. PMID:29328062

  16. Virulence, resistance, and genetic relatedness of Escherichia coli and Klebsiella sp. isolated from mule foals

    Directory of Open Access Journals (Sweden)

    V.C. Carneiro

    Full Text Available ABSTRACT Respiratory diseases are common in young horses but little is known about such infections in mule foals. This study aimed to characterize Escherichia coli and Klebsiella sp. isolated from tracheal wash (TW and fecal samples (FS of mule foals, with or without cytological evidence of respiratory disease. Strains were analyzed against 13 antimicrobials, for presence of Extended spectrum beta-lactamase (ESBL, and virulence genes. Phylogrouping and Randomic (RAPD-PCR profiles were used to evaluate their genetic relatedness. E. coli strains from TW and FS showed greatest resistance to tetracycline, while Klebsiella strains were mainly resistant to ampicillin; multidrug resistance and ESBL production were also detected. The blaCTX gene prevailed among the E. coli isolates, while the blaSHV gene was more frequently found in K. pneumoniae. The fimH gene was detected in most of the isolates and multiple virulence factors were identified in three E. coli isolates. Most of the E. coli isolates belonged to the B1 phylogroup, but B2 strains displayed more virulence genes. The RAPD assay revealed genetic diversity among strains and was able to distinguish FS isolates from TW isolates. Knowledge of the bacteria associated with the respiratory tract of mule foals is important in the treatment of sick animals.

  17. Properties of Desulfovibrio carbinolicus sp. nov. and Other Sulfate-Reducing Bacteria Isolated from an Anaerobic-Purification Plant

    OpenAIRE

    Nanninga, Henk J.; Gottschal, Jan C.

    1987-01-01

    Several sulfate-reducing microorganisms were isolated from an anaerobic-purification plant. Four strains were classified as Desulfovibrio desulfuricans, Desulfovibrio sapovorans, Desulfobulbus propionicus, and Desulfovibrio sp. The D. sapovorans strain contained poly-β-hydroxybutyrate granules and seemed to form extracellular vesicles. A fifth isolate, Desulfovibrio sp. strain EDK82, was a gram-negative, non-spore-forming, nonmotile, curved organism. It was able to oxidize several substrates,...

  18. Isolation and Characterization of a Novel Electrogenic Bacterium, Dietzia sp. RNV-4.

    Directory of Open Access Journals (Sweden)

    Natalia J Sacco

    Full Text Available Electrogenic bacteria are organisms that can transfer electrons to extracellular electron acceptors and have the potential to be used in devices such as bioelectrochemical systems (BES. In this study, Dietzia sp. RNV-4 bacterium has been isolated and identified based on its biochemical, physiological and morphological characteristics, as well as by its 16S rRNA sequence analysis. Furthermore, the current density production and electron transfer mechanisms were investigated using bioelectrochemical methods. The chronoamperometric data showed that the biofilm of Dietzia sp. RNV-4 grew as the current increased with time, reaching a maximum of 176.6 ± 66.1 mA/m2 at the end of the experiment (7 d; this highly suggests that the current was generated by the biofilm. The main electron transfer mechanism, indicated by the cyclic voltammograms, was due to secreted redox mediators. By high performance liquid chromatography, canthaxanthin was identified as the main compound involved in charge transfer between the bacteria and the solid electrodes. Dietzia sp. RNV-4 was used as biological material in a microbial fuel cell (MFC and the current density production was 299.4 ± 40.2 mA/m2. This is the first time that Dietzia sp. RNV-4 has been electrochemically characterized and identified as a new electrogenic strain.

  19. Scenedesmus sp. NJ-1 isolated from Antarctica: a suitable renewable lipid source for biodiesel production.

    Science.gov (United States)

    Chen, Zhuo; Gong, Yangmin; Fang, Xiantao; Hu, Hanhua

    2012-11-01

    Microalgal lipids are promising alternative feedstocks for biodiesel production. Scenedesmus sp. NJ-1, an oil-rich freshwater microalga isolated from Antarctica, was identified to be a suitable candidate to produce biodiesel in this study. This strain could grow at temperatures ranging from 4 to 35 °C. With regular decrease in nitrate concentration in the medium, large quantities of triacylglycerols accumulated under batch culture conditions detected by thin layer chromatography and BODIPY 505/515 fluorescent staining. Scenedesmus sp. NJ-1 achieved the average biomass productivity of 0.105 g l⁻¹ d⁻¹ (dry weight) and nearly the highest lipid content (35 % of dry cell weight) was reached at day 28 in the batch culture. Neutral lipids accounted for 78 % of total lipids, and C18:1 (n-9), C16:0 were the major fatty acids in total lipids, composing 37 and 20 % of total fatty acids of Scenedesmus sp. NJ-1 grown for 36 days, respectively. These results suggested that Scenedesmus sp. NJ-1 was a good source of microalgal oils for biodiesel production.

  20. Endophytic Nocardiopsis sp. from Zingiber officinale with both antiphytopathogenic mechanisms and antibiofilm activity against clinical isolates.

    Science.gov (United States)

    Sabu, Rohini; Soumya, K R; Radhakrishnan, E K

    2017-06-01

    Novel and potential antimicrobial compounds are essential to tackle the frequently emerging multidrug-resistant pathogens and also to develop environment friendly agricultural practices. In the current study, endophytic actinomycetes from rhizome of Zingiber officinale were explored in terms of its diversity and bioactive properties. Fourteen different organisms were isolated, identified and screened for activity against Pythium myriotylum and human clinical pathogens. Among these, Nocardiopsis sp. ZoA1 was found to have highest inhibition with excellent antibacterial effects compared to standard antibiotics. Remarkable antibiofilm property was also shown by the extract of ZoA1. Its antifungal activity against Pythium and other common phytopathogens was also found to be promising as confirmed by scanning electron microscopic analysis. By PCR-based sequence analysis of phz E gene, the organism was confirmed for the genetic basis of phenazine biosynthesis. Further GC-MS analysis of Nocardiopsis sp. revealed the presence of various compounds including Phenol, 2,4-bis (1,1-dimethylethyl) and trans cinnamic acid which can have significant role in the observed result. The current study is the first report on endophytic Nocardiopsis sp. from ginger with promising applications. In vivo treatment of Nocardiopsis sp. on ginger rhizome has revealed its inhibition towards the colonization of P. myriotylum which makes the study to have promises to manage the severe diseases in ginger like rhizome rot.

  1. Genetic and Pathogenic Variability of Fusarium oxysporum f. sp. cepae Isolated from Onion and Welsh Onion in Japan.

    Science.gov (United States)

    Sasaki, Kazunori; Nakahara, Katsuya; Tanaka, Shuhei; Shigyo, Masayoshi; Ito, Shin-ichi

    2015-04-01

    Fusarium oxysporum f. sp. cepae causes Fusarium basal rot in onion (common onion) and Fusarium wilt in Welsh onion. Although these diseases have been detected in various areas in Japan, knowledge about the genetic and pathogenic variability of F. oxysporum f. sp. cepae is very limited. In this study, F. oxysporum f. sp. cepae was isolated from onion and Welsh onion grown in 12 locations in Japan, and a total of 55 F. oxysporum f. sp. cepae isolates (27 from onion and 28 from Welsh onion) were characterized based on their rDNA intergenic spacer (IGS) and translation elongation factor-1α (EF-1α) nucleotide sequences, vegetative compatibility groups (VCGs), and the presence of the SIX (secreted in xylem) homologs. Phylogenetic analysis of IGS sequences showed that these isolates were grouped into eight clades (A to H), and 20 onion isolates belonging to clade H were monophyletic and assigned to the same VCG. All the IGS-clade H isolates possessed homologs of SIX3, SIX5, and SIX7. The SIX3 homolog was located on a 4 Mb-sized chromosome in the IGS-clade H isolates. Pathogenicity tests using onion seedlings showed that all the isolates with high virulence were in the IGS-clade H. These results suggest that F. oxysporum f. sp. cepae isolates belonging to the IGS-clade H are genetically and pathogenically different from those belonging to the other IGS clades.

  2. Isolation and characterization of a plant growth-promoting rhizobacterium, Serratia sp. SY5.

    Science.gov (United States)

    Koo, So-Yeon; Cho, Kyung-Suk

    2009-11-01

    The role of plant growth-promoting rhizobacteria (PGPR) in the phytoremediation of heavy-metal-contaminated soils is important in overcoming its limitations for field application. A plant growth-promoting rhizobacterium, Serratia sp. SY5, was isolated from the rhizoplane of barnyard grass (Echinochloa crus-galli) grown in petroleum and heavy-metal-contaminated soil. This isolate has shown capacities for indole acetic acid production and siderophores synthesis. Compared with a non-inoculated control, the radicular root growth of Zea mays seedlings inoculated with SY5 can be increased by 27- or 15.4-fold in the presence of 15 mg-Cd/l or 15 mg-Cu/l, respectively. The results from hydroponic cultures showed that inoculation of Serratia sp. SY5 had a favorable influence on the initial shoot growth and biomass of Zea mays under noncontaminated conditions. However, under Cd-contaminated conditions, the inoculation of SY5 significantly increased the root biomass of Zea mays. These results indicate that Serratia sp. SY5 can serve as a promising microbial inoculant for increased plant growth in heavy-metal-contaminated soils to improve the phytoremediation efficiency.

  3. Indonesian honey protein isolation Apis dorsata dorsata and Tetragonula sp. as antibacterial and antioxidant agent

    Science.gov (United States)

    Sahlan, Muhamad; Damayanti, Vina; Azizah, Nurul; Hakamada, Kazuaki; Yohda, Masafumi; Hermansyah, Heri; Wijanarko, Anondho; Rohmatin, Etin

    2018-02-01

    Honey is a natural product that has many properties and been widely used for many theurapeutic purposes. Research on honey has been very rapid but not yet for Indonesia. Like local Indonesian honey Apis dorsata dorsata and Tetragonula sp. which has been widely consumed by the public but not yet known for certain efficacy of each content. The function of honey as antibacterial and antioxidant has not been specifically explained by the components contained in honey. Protein is one of the content of honey that turned out to have activity as an antibacterial and antioxidant in certain types of honey because of it antimicrobial peptide. Testing of honey activity as antibacterial and antioxidant through several stages including isolation, SDS-PAGE analysis, Bradford test, antibacterial activity test with well diffusion method and antioxidant activity test by DPPH method. Bacteria used were gram-positive bacteria Staphylococcus aureus and gram negative Escherichia coli. After some experiment finally got protein isolation method that is in the form of further concentration using Millipore membrane for honey Tetragonula sp. and membrane filtration dot blot for honey Apis dorsata dorsata. The Bradford assay showed that Apis dorsata dorsata honey contains protein honey Tetragonula sp. has a protein content of 97 µg / ml. The characteristic profile of molecular weight of the protein showed honey Tetragonula sp. has 3 protein bands composed of 52, 96 - 61,9 kDa, 63,35 - 65,92 kDa and 86,16 - 91,4 kDa, whereas Apis dorsata dorsata honey has 5 protein bands consisting of 45,2 - 46,6 kDa, 50,2 - 50,9 kDa, 62,5 - 62,9 kDa, 73,1 - 73,9 kDa, 83,9 - 86,9 kDa. Isolate honey protein Apis dorsata dorsata has no antioxidant and antibacterial activity (Staphylococcus aureus and Escherichia coli), whereas honey protein isolates Tetragonula sp. has antibacterial activity against Escherichia coli.

  4. Amylase production by endophytic fungi Cylindrocephalum sp. isolated from medicinal plant Alpinia calcarata (Haw. Roscoe

    Directory of Open Access Journals (Sweden)

    V. H. Sunitha.

    2012-09-01

    Full Text Available Amylases are among the most important enzymes used in modern biotechnology particularly in the process involving starch hydrolysis. Fungal amylase has large applications in food and pharmaceutical industries. Considering these facts, endophytic fungi isolated from the plant Alpinia calcarata (Haw. Roscoe were screened for amylolytic activity on glucose yeast extract peptone agar (GYP medium. Among thirty isolates of endophytic fungi, isolate number seven identified as Cylindrocephalum sp. (Ac-7 showed highest amylolytic activity and was taken for further study. Influence of various physical and chemical factors such as pH, temperature, carbon and nitrogen sources on amylase production in liquid media were studied. The maximal amylase production was found to be at 30ºC and at pH 7.0 of the growth medium. Among the various carbon and nitrogen sources tested, maltose at 1.5% and Sodium nitrate at 0.3% respectively gave optimum amylase production.

  5. Cellulomonas xylanilytica sp. nov., a cellulolytic and xylanolytic bacterium isolated from a decayed elm tree.

    Science.gov (United States)

    Rivas, Raúl; Trujillo, Martha E; Mateos, P F; Martínez-Molina, E; Velázquez, Encarna

    2004-03-01

    A Gram-positive, aerobic, non-motile bacterium was isolated from a decayed elm tree. Phylogenetic analysis based on 16S rDNA sequences revealed 99.0 % similarity to Cellulomonas humilata. Chemotaxonomic data that were determined for this isolate included cell-wall composition, fatty acid profiles and polar lipids; the results supported the placement of strain XIL11(T) in the genus Cellulomonas. The DNA G+C content was 73 mol%. The results of DNA-DNA hybridization with C. humilata ATCC 25174(T), in combination with chemotaxonomic and physiological data, demonstrated that isolate XIL11(T) should be classified as a novel Cellulomonas species. The name Cellulomonas xylanilytica sp. nov. is proposed, with strain XIL11(T) (=LMG 21723(T)=CECT 5729(T)) as the type strain.

  6. Metabolites from an endophytic fungus sphaceloma sp. LN-15 isolated from the leaves of Melia azedarach.

    Science.gov (United States)

    Zhang, An-Ling; He, Li-Ying; Gao, Jin-Ming; Xu, Xu; Li, Shi-Qing; Bai, Ming-Sheng; Qin, Jian-Chun

    2009-08-01

    Two new natural compounds, a symmetrical disulfide dimer didodecyl 3,3''-dithiodipropionate (1) and a pregnane steroid 5,16-pregnadien-3beta-ol-20-one acetate (2), were isolated together with two known compounds, ergosta-4,6,8(14),22-tetraen-3-one (3) and ergosterol peroxide (4), from the ethyl acetate soluble extract of fermentation broth of an endophytic fungus, Sphaceloma sp. LN-15 isolated from the leaves of Melia azedarach L. and grown in pure culture. Their structures were determined on the basis of spectroscopic methods including 1D and 2D nuclear magnetic resonance spectroscopy (NMR) experiments and by mass spectrometric measurements (MS). These fungal metabolites were isolated for the first time from the genus Sphaceloma. The structure of 1 was also confirmed by chemical synthesis.

  7. Quorum Sensing Activity of Mesorhizobium sp. F7 Isolated from Potable Water

    Directory of Open Access Journals (Sweden)

    Pei-Ling Yong

    2014-01-01

    Full Text Available We isolated a bacterial isolate (F7 from potable water. The strain was identified as Mesorhizobium sp. by 16S rDNA gene phylogenetic analysis and screened for N-acyl homoserine lactone (AHL production by an AHL biosensor. The AHL profile of the isolate was further analyzed using high resolution triple quadrupole liquid chromatography mass spectrometry (LC/MS which confirmed the production of multiple AHLs, namely, N-3-oxo-octanoyl-L-homoserine lactone (3-oxo-C8-HSL and N-3-oxo-decanoyl-L-homoserine lactone (3-oxo-C10-HSL. These findings will open the perspective to study the function of these AHLs in plant-microbe interactions.

  8. Endophytic Phoma sp. isolated from medicinal plants promote the growth of Zea mays

    Directory of Open Access Journals (Sweden)

    ASHWINI KEDAR

    2014-11-01

    Full Text Available Kedar A, Rathod D, Yadav A, Agarkar G, Rai M. 2014. Endophytic Phoma sp. isolated from medicinal plants promote the growth of Zea mays. Nusantara Bioscience 6: 132-139. Fungal endophytes are reported as rich sources of valuable secondary metabolites and could be used as bio-fertilizers. In the present study, we report growth promotion potential of two Phoma species isolated from Tinospora cordifolia and Calotropis procera on maize. The fungal endophytes enhanced growth in inoculated maize plants compared to non-inoculated plants. The main aim of this work was to assess the growth promotion activity of endophytic Phoma species on maize isolated from T. cordifolia and C. procera.

  9. Enhanced bioconversion of ethylene glycol to glycolic acid by a newly isolated Burkholderia sp. EG13.

    Science.gov (United States)

    Gao, Xiaoxin; Ma, Zhengfei; Yang, Limin; Ma, Jiangquan

    2014-10-01

    Burkholderia sp. EG13 with high ethylene glycol-oxidizing activity was isolated from soil, which could be used for the synthesis of glycolic acid from the oxidation of ethylene glycol. Using the resting cells of Burkholderia sp. EG13 as biocatalysts, the optimum reaction temperature and pH were 30 °C and 6.0, respectively. After 24 h of biotransformation, the yield of glycolic acid from 200 mM ethylene glycol was 98.8 %. Furthermore, an integrated bioprocess for the production of glycolic acid which involved in situ product removal (ISPR) was investigated. Using fed-batch method with ISPR, a total of 793 mM glycolic acid has been accumulated in the reaction mixture after the 4th feed.

  10. High biohydrogen yielding Clostridium sp. DMHC-10 isolated from sludge of distillery waste treatment plant

    Energy Technology Data Exchange (ETDEWEB)

    Kamalaskar, Leena B.; Dhakephalkar, P.K.; Meher, K.K.; Ranade, D.R. [Microbial Sciences Division, Agharkar Research Institute, G.G. Agarkar Road, Pune 411004 (India)

    2010-10-15

    A mesophilic high hydrogen producing strain DMHC-10 was isolated from a lab scale anaerobic reactor being operated on distillery wastewater for hydrogen production. DMHC-10 was identified as Clostridium sp. on the basis of 16S rRNA gene sequencing. Various medium components (carbon and nitrogen sources) and environmental factors (initial pH, temperature of incubation) were optimized for hydrogen production by Clostridium sp. DMHC-10. The strain, in late exponential growth phase, showed maximum hydrogen production (3.35 mol-H{sub 2} mol{sup -1} glucose utilized) at 37 C, pH 5.0 in a medium supplemented with organic nitrogen source. Butyric acid to acetic acid ratio was ca. 2.3. Hydrogen production declined when organic nitrogen was replaced with inorganic nitrogen. (author)

  11. Ogataea mangiferae sp. nov., a methylotrophic yeast isolated from mango leaves.

    Science.gov (United States)

    Santos, Ana Raquel O; Faria, Elisa S; Lachance, Marc-André; Rosa, Carlos A

    2015-06-01

    Five strains of a novel methanol-assimilating yeast species were isolated from mango (Mangifera indica) leaves collected at the campus of the Federal University of Minas Gerais in Brazil. The sequences of the internal transcribed spacer (ITS) region and the D1/D2 domains of the large subunit of the rRNA gene showed that this species belongs to the Ogataea clade and is related to O. allantospora, O. chonburiensis, O. dorogensis, O. kodamae, O. paradorogensis and Candida xyloterini (Ogataea clade). The novel species differs in the D1/D2 domains of the large subunit of the rRNA gene by 12 to 40 substitutions from these Ogataea species. The name Ogataea mangiferae sp. nov. is proposed for this novel species. The type strain of Ogataea mangiferae sp. nov. is UFMG-CM-Y253T ( = CBS 13492T). The Mycobank number is MB 811646.

  12. Sphingobacterium corticis sp. nov., isolated from bark of Populus × euramericana.

    Science.gov (United States)

    Li, Yong; Xu, Guan-Tang; Chang, Ju-Pu; Guo, Li-Min; Yang, Xu-Qi; Piao, Chun-Gen

    2017-10-01

    A Gram-stain negative, aerobic, non-motile bacterial strain, 23D10-4-9(T), was isolated from symptomatic canker bark tissue of Populus × euramericana. The isolate grew between 4 and 35 °C, with optimal growth occurring at 25 °C. The species was positive for catalase and negative for oxidase activity. Nitrate was not reduced to nitrite. It showed activities toward β-galactosidase and β-glucosidase. Citrate was not utilized. Acid was produced from d-glucose. The major fatty acids were iso-C15 : 0, C16 : 1ω7c and iso-C17 : 0 3-OH. The main polar lipid profiles of the novel isolate included phosphatidylethanolamine, phospholipids and seven unknown lipids. The predominant menaquinone of the novel isolate was MK-7. The DNA G+C content was 40.6 mol%. 16S rRNA gene data revealed that the novel isolate shares the greatest sequence similarity with Sphingobacterium populi 7Y-4(T) (96.1 %). Based on phenotypic and genotypic characteristics, the isolate represents a novel species within the genus Sphingobacterium, for which the name Sphingobacteriumcorticis sp. nov. is proposed. The type strain is 23D10-4-9(T) (=CFCC 12640(T)=KCTC 42248(T)).

  13. Antagonistic activity of marine sponge associated Streptomyces sp. against isolated fish pathogens

    Directory of Open Access Journals (Sweden)

    G. Palani Selvan

    2012-10-01

    Full Text Available Objective: To investigate the antibacterial potential of the marine actinomycetes isolated from sponge samples. Methods: Thirty six marine sponge samples were collected from Palk Strait and further used for actinomycetes isolation by using serial dilution. The antibacterial activity was carried out by using cross streak assay method. Moreover, most potential strain also subjected to MIC and MBC techniques and the isolated potential strain was identified by molecular tools. Results: The maximum counts (26 x 102 CFU/g were observed in the month of May and minimum counts (1 x 102 CFU/g were noticed in April. A total of 21 actinomycetes were isolated and their antibacterial potential was assessed by using cross streak method. Among the 21 actinomycetes, the ACT-21 showed sensitivity against all the isolated fish pathogens. Further, the MIC and MBC results reveal that, the ACT-21 showed sensitivity at the concentration ranged between 500 毺 g/ mL-1 500 毺 g/mL. The phylogenetic analysis suggested that, the potential isolate ACT-21 (accession no: JF899543 showed maximum similarity index (>98% with Streptomyces sp. Conclusions: It is concluded from present study that, the crude extracts of sponge associated actinomycetes could be used as an effective antibacterial agent for the management of disease free fish culture system.

  14. Mechanism of thorium biosorption by the cells of the soil fungal isolate Geotrichum sp. dwc-1

    Energy Technology Data Exchange (ETDEWEB)

    Ding, Congcong; Feng, Su [Sichuan Univ., Chengdu (China). Key Laboratory of Biological Resource and Ecological Environment; Li, Xiaolong [Sichuan Univ., Chengdu (China). Key Laboratory of Radiation Physics and Technology; and others

    2014-04-01

    In order to understand the impact of microorganisms on the fate of thorium in soils, we investigated the thorium biosorption behavior and the corresponding mechanisms by the cells of Geotrichum sp. dwc-1, one of the dominant species of fungal group isolated from 3.5 m depth soil layer in Southwest China. It was observed that fast thorium adsorption onto cells of G. sp. dwc-1 could take place, with a high distribution coefficient K{sub d} (0.93 mL/mg) obtained, when Geotrichum sp. dwc-1and thorium concentrations were 5 g/L and 10 mg/L, respectively. The thorium biosorption behavior was dependent on the pH value, and the lower pH could disrupt cell membrane of G. sp. dwc-1. At pH 1, thorium was accumulated in the cytoplasmic region of the cells. When pH was higher than 1, thorium was adsorbed on the cell surface of G. sp. dwc-1, like in periplasmic region or in the outer membrane. FTIR study combined with biosorption experiments further indicated that the thorium distribution and binding behavior on cell surface were associated with amino, hydroxyl groups and phosphate or sulphur functional groups, and might also be governed by electrostatic interaction. Moreover, PIXE and EPBS showed that ion-exchange mechanism contributed to the thorium biosorption process, in which the tetravalent thorium ions replaced smaller counter-ions (K{sup +}, Ca{sup 2+} and Fe{sup 3+}) occuring on the cell surface. (orig.)

  15. Genetically distinct isolates of Spirocerca sp. from a naturally infected red fox (Vulpes vulpes) from Denmark.

    Science.gov (United States)

    Al-Sabi, Mohammad Nafi Solaiman; Hansen, Mette Sif; Chriél, Mariann; Holm, Elisabeth; Larsen, Gitte; Enemark, Heidi Larsen

    2014-09-15

    Spirocerca lupi causes formation of nodules that may transform into sarcoma in the walls of aorta, esophagus and stomach of infected canids. In February 2013, post mortem examination of a red fox (Vulpes vulpes) hunted in Denmark revealed the presence of several nodules containing adult worms of Spirocerca sp. in the stomach and the omentum. The nodules largely consisted of fibrous tissue with infiltration of mononuclear cells, neutrophilic granulocytes and macrophages with hemosiderin deposition. Parasitological examination by three copromicroscopic methods, sedimentation, flotation with saturated sugar-salt solution, and sieving failed to detect eggs of Spirocerca sp. in feces collected from the colon. This is the first report of spirocercosis in Denmark, and may have been caused by a recent introduction by migrating paratenic or definitive host. Analysis of two overlapping partial sequences of the cox1 gene, from individual worms, revealed distinct genetic variation (7-9%) between the Danish worms and isolates of S. lupi from Europe, Asia and Africa. This was confirmed by phylogenetic analysis that clearly separated the Danish worms from other isolates of S. lupi. The distinct genetic differences of the current worms compared to other isolates of S. lupi may suggest the presence of a cryptic species within Spirocerca. Copyright © 2014 Elsevier B.V. All rights reserved.

  16. Halomonas qijiaojingensis sp. nov. and Halomonas flava sp. nov., two moderately halophilic bacteria isolated from a salt lake.

    Science.gov (United States)

    Chen, Chao; Shi, Rong; Liu, Bing-Bing; Zhang, Yun-Jiao; Sun, Hong-Zhuan; Li, Chang-Tian; Tang, Shu-Kun; Zhang, Li-Li; Li, Wen-Jun

    2011-10-01

    Two moderately halophilic, Gram-negative, rod-shaped bacteria, designated YIM 93003(T) and YIM 94343(T), were isolated from a salt lake in Xinjiang province, north-west China. The two strains YIM 93003(T) and YIM 94343(T) grew at 20-40°C, pH 6-9, 0.5-24% (w/v) NaCl and at 20-40°C, pH 6-9, 0.5-23% (w/v) NaCl, respectively. No growth occurred in absence of NaCl. Phylogenetic analyses based on 16S rRNA gene sequences showed that strains YIM 93003(T) and YIM 94343(T) were phylogenetically affiliated to the genus Halomonas and exhibited sequence similarity of 97.5% and 97.4% to the type strain Halomonas anticariensis DSM 16096(T), respectively. The strains possessed chemotaxonomic markers that were consistent with their classification in the genus Halomonas (Q-9 as predominant respiratory quinine; C18:1ω7c, C16:0 and C16:1 ω7c/iso-C15:02-OH as the major fatty acids). The DNA-DNA hybridization values for strains YIM 93003(T) and YIM 94343(T), YIM 93003(T) and DSM 16096(T), YIM 94343(T) and DSM 16096(T) were 38.1 ± 3.0, 18.3 ± 4.7, and 20.8 ± 4.6%, respectively. The G+C contents of the strains YIM 93003(T) and YIM 94343(T) were 63.4 and 64.0 mol%, respectively. Based on comparative analysis of physiological, biochemical and chemotaxonomic data, including low DNA-DNA hybridization results, two novel species, Halomonas qijiaojingensis sp. nov., and Halomonas flava sp. nov., are proposed. The type strains are YIM 93003(T) (=CCTCC AB 208133(T) =KCTC 22228(T)) and YIM 94343(T) (=CCTCC AB 2010382(T) =KCTC 23356(T)), respectively.

  17. Isolation and identification of a novel alginate-degrading bacterium, Ochrobactrum sp.

    Directory of Open Access Journals (Sweden)

    Xiao-wei Zhao

    2008-03-01

    Full Text Available An alginate-degrading bacterium, identified as Ochrobactrum sp. on the basis of 16S rDNA gene sequencing, was isolated from brown algal samples collected from the waters in close vicinity to the Dongtou Isles in the East China Sea. The strain, designated WZUH09-1, is a short rod, gram-negative, obligatory aerobic, grows under the following conditions: 5-40oC, pH 3-9, and 0-2 times of the seawater concentration, and is able to depolymerize alginates with higher enzyme activity than that of others reported so far.

  18. Toxic polyketides produced by Fusarium sp., an endophytic fungus isolated from Melia azedarach.

    Science.gov (United States)

    Yang, Sheng-Xiang; Gao, Jin-Ming; Zhang, Qiang; Laatsch, Hartmut

    2011-03-15

    A new isocoumarin derivative named fusariumin (1), together with two known related resorcylic acid lactones aigialomycin D (2) and pochonin N (3), has been isolated from the cultures of Fusarium sp. LN-10, an endophytic fungus originated from the leaves of Melia azedarach. Their structures were established on the basis of extensive spectroscopic analyzes including 1D- and 2D- NMR ((1)H-(1)H COSY, HSQC, HMBC, and NOESY) experiments. Compounds 1-3 displayed significant growth inhibitory activity against the brine shrimp (Artemia salina). Copyright © 2010 Elsevier Ltd. All rights reserved.

  19. Kurtzmanomyces shapotouensis sp. nov., an anamorphic, basidiomycetous yeast isolated from desert soil crusts.

    Science.gov (United States)

    Zhang, Tao; Jia, Rong-Liang; Zhang, Yu-Qin; Liu, Hong-Yu; Su, Jing; Yu, Li-Yan

    2013-10-01

    Two yeast strains isolated from soil crusts in the Shapotou region of Tengger Desert (north-western China) were grouped in the genus Kurtzmanomyces based on morphological characteristics. rRNA gene sequence analyses (including the D1/D2 domain of the large subunit rRNA gene and internal transcribed spacer region) indicated that these two strains represented a novel species of the genus Kurtzmanomyces, for which the name Kurtzmanomyces shapotouensis sp. nov. is proposed (type strain: CPCC 300020(T) = DSM 26579(T) = CBS 12707(T)). The MycoBank number of the novel species is MB 804959.

  20. Chromones from the endophytic fungus Pestalotiopsis sp. isolated from the chinese mangrove plant Rhizophora mucronata.

    Science.gov (United States)

    Xu, Jing; Kjer, Julia; Sendker, Jandirk; Wray, Victor; Guan, Huashi; Edrada, Ruangelie; Lin, Wenhan; Wu, Jun; Proksch, Peter

    2009-04-01

    Six new chromones, named pestalotiopsones A-F (1-6), and the known derivative 7-hydroxy-2-(2-hydroxypropyl)-5-methylchromone (7) were obtained from the mycelia and culture filtrate of the mangrove endophytic fungus Pestalotiopsis sp., which was isolated from leaves of the Chinese Mangrove plant Rhizophora mucronata. Their structures were elucidated on the basis of spectroscopic data. Pestalotiopsones A-F are chromones having both an alkyl side chain substituted at C-2 and a free or substituted carboxyl group at C-5. Compound 6 exhibited moderate cytotoxicity against the murine cancer cell line L5178Y, whereas the other investigated compounds proved to be inactive.

  1. Streptococcus oriloxodontae sp. nov., isolated from the oral cavities of elephants.

    Science.gov (United States)

    Shinozaki-Kuwahara, Noriko; Saito, Masanori; Hirasawa, Masatomo; Takada, Kazuko

    2014-11-01

    Two strains were isolated from oral cavity samples of healthy elephants. The isolates were Gram-positive, catalase-negative, coccus-shaped organisms that were tentatively identified as a streptococcal species based on the results of biochemical tests. Comparative 16S rRNA gene sequence analysis suggested classification of these organisms in the genus Streptococcus with Streptococcus criceti ATCC 19642(T) and Streptococcus orisuis NUM 1001(T) as their closest phylogenetic neighbours with 98.2 and 96.9% gene sequence similarity, respectively. When multi-locus sequence analysis using four housekeeping genes, groEL, rpoB, gyrB and sodA, was carried out, similarity of concatenated sequences of the four housekeeping genes from the new isolates and Streptococcus mutans was 89.7%. DNA-DNA hybridization experiments suggested that the new isolates were distinct from S. criceti and other species of the genus Streptococcus. On the basis of genotypic and phenotypic differences, it is proposed that the novel isolates are classified in the genus Streptococcus as representatives of Streptococcus oriloxodontae sp. nov. The type strain of S. oriloxodontae is NUM 2101(T) ( =JCM 19285(T) =DSM 27377(T)). © 2014 IUMS.

  2. Bacillus kochii sp. nov., isolated from foods and a pharmaceuticals manufacturing site.

    Science.gov (United States)

    Seiler, Herbert; Schmidt, Verena; Wenning, Mareike; Scherer, Siegfried

    2012-05-01

    Three Gram-staining-positive, strictly aerobic, motile, catalase-positive, endospore-forming rods, designated WCC 4582(T), WCC 4581 and WCC 4583, were isolated from two different food sources and a pharmaceuticals production site. The three isolates were highly similar in their 16S rRNA gene sequences (100 % similarity) and groEL sequences (99.2-100 % similarity), Fourier-transform infrared spectroscopic fingerprints and other features tested. The isolates were most closely related to Bacillus horneckiae; the isolates and the type strain of B. horneckiae shared 97.6 % and 89.6 % 16S rRNA gene and groEL sequence similarities, respectively. The organisms grew optimally at 30 °C, at pH 7 and in the presence of 0.5 % (w/v) NaCl. The cell-wall peptidoglycan of WCC 4582(T) contained meso-diaminopimelic acid (A1γ) and the genomic DNA G+C content was 36.4 mol%. DNA-DNA relatedness between strain WCC 4582(T) and B. horneckiae NRRL B-59162(T) was 17 %. The three isolates are considered to represent a novel species of the genus Bacillus, for which the name Bacillus kochii sp. nov. is proposed. The type strain is WCC 4582(T) ( = DSM 23667(T) = CCUG 59877(T) = LMG 25855(T)).

  3. Albirhodobacter marinus gen. nov., sp. nov., a member of the family Rhodobacteraceae isolated from sea shore water of Visakhapatnam, India

    Digital Repository Service at National Institute of Oceanography (India)

    Nupur; Bhumika, V.; Srinivas, T.N.R.; AnilKumar, P.

    , Sheu SY, Chen CA, Wang JT, Chen WM (2011) Paracoccus isoporae sp. nov., isolated from the reef-building coral Isopora palifera. Int J Syst Evol Microbiol 61:1138–1143 Collins MD, Pirouz T, Goodfellow M, Minnikin DE (1977) Distribution of menaquinones... non-photosynthetic member of the class Alphaproteobacteria isolated from seawater. Int J Syst Evol Microbiol 58:282–285 Liu ZP, Wang BJ, Liu XY, Dai X, Liu YH, Liu SJ (2008) Paracoccus halophilus sp. nov., isolated from marine sediment of the South...

  4. [Isolation, identification and characterization of a microcystin-degrading bacterium Paucibacter sp. strain CH].

    Science.gov (United States)

    You, Di-Jie; Chen, Xiao-Guo; Xiang, Hui-Yi; Ouyang, Liao; Yang, Bing

    2014-01-01

    A bacterium capable of degrading microcystin (MC), strain CH, was isolated from the sediment of Lake Chaohu, China. Strain CH was tentatively identified as Paucibacter sp. based on the analysis of 16S rRNA gene sequences. Paucibacter sp. strain CH can use microcystin LR (MCLR) as the sole carbon and energy sources, and 11.6 microg x mL(-1) of MCLR was degraded to below the detection limit within 10 hours with the first-order reaction rate constant of 0.242 h(-1). The optimum temperature and initial pH for MC degradation were 25-30 degrees C and pH 6-9, respectively. A novel intermediate product containing the Adda residue was detected during the degradation of MCLR, which is different from those produced by strain ACM-3962, and Adda was recognized as the final product of the degradation process. Furthermore, no homologue to any of the four genes, mlrA, mlrB, mlrC and mlrD previously associated with the degradation of MCLR by strain ACM-3962 was found in strain CH. These findings suggest that Paucibacter sp. strain CH mighe degrade MC through a different pathway from that of strain ACM-3962.

  5. Alishewanella aestuarii sp. nov., isolated from tidal flat sediment, and emended description of the genus Alishewanella.

    Science.gov (United States)

    Roh, Seong Woon; Nam, Young-Do; Chang, Ho-Won; Kim, Kyoung-Ho; Kim, Min-Soo; Oh, Hee-Mock; Bae, Jin-Woo

    2009-02-01

    A Gram-negative strain, B11(T), was isolated from tidal flat sediment in Yeosu, Republic of Korea. Strain B11(T) did not require NaCl for growth and grew between 18 and 44 degrees C. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain B11(T) was associated with the genus Alishewanella and was closely related to the type strain of Alishewanella fetalis (98.3 % similarity). Within the phylogenetic tree, the novel isolate shared a branching point with A. fetalis. Analysis of 16S rRNA gene sequences and DNA-DNA relatedness, as well as physiological and biochemical tests, indicated genotypic and phenotypic differences between strain B11(T) and the type strain of A. fetalis. Thus, strain B11(T) is proposed as a representative of a novel species, Alishewanella aestuarii sp. nov.; the type strain is B11(T) (=KCTC 22051(T) =DSM 19476(T)).

  6. Isolation and expression of enolase gene in Fusarium oxysporum f. sp. lycopersici.

    Science.gov (United States)

    Macías-Sánchez, Karla Lizbeth; García-Soto, Jesús; Roncero, M Isabel G; Hernández-Monjaraz, Wendy; Caudillo-Pérez, César; Martínez-Cadena, Ma Guadalupe

    2015-01-01

    Fusarium oxysporum f. sp. lycopersici is a fungus responsible for the tomato disease known as fusariosis. Enolase, which is the enzyme that catalyzes the reaction of 2-phosphoglycerate to phosphoenolpyruvate, is present during glycolysis. Enolase genes have been isolated from bacteria and fungi, among other organisms. In this research, a large portion of the enolase, eno, gene sequence was isolated from F. oxysporum and compared with those of other microorganisms, revealing a similarity of 51-69 %. We analyzed the copy number of the eno gene and determined that only a single copy is present in F. oxysporum, as in several fungi, such as Candida albicans and Aspergillus oryzae. We also detected the expression of the eno gene by reverse transcription-polymerase chain reaction during in vitro growth under two growth conditions where glucose was used as the carbon source, and we observed the same eno gene expression levels under both growth conditions.

  7. Prevotella dentasini sp. nov., a black-pigmented species isolated from the oral cavity of donkeys.

    Science.gov (United States)

    Takada, Kazuko; Hayashi, Kazuhiko; Sato, Yutaka; Hirasawa, Masatomo

    2010-07-01

    Four strains (NUM 1903(T), NUM 1904, NUM 1912 and NUM 1925) that were obligately anaerobic, pigmented, Gram-negative-staining rods were isolated from the oral cavity of donkeys. These strains were analysed using the Rapid ID 32A, API 20A and API ZYM systems, by DNA-DNA hybridization with other related species and by 16S rRNA gene sequencing. 16S rRNA gene sequence analysis showed that each of the new isolates was a member of the genus Prevotella and related to Prevotella multiformis PPPA21(T), showing about 93 % sequence similarity. Based on phylogenetic and phenotypic evidence, it is proposed that the four strains are representatives of a novel species, for which the name Prevotella dentasini sp. nov. is proposed. The type strain is NUM 1903(T) (=JCM 15908(T)=DSM 22229(T)).

  8. Nocardia kroppenstedtii sp. nov., an actinomycete isolated from a lung transplant patient with a pulmonary infection.

    LENUS (Irish Health Repository)

    Jones, Amanda L

    2014-03-01

    A novel actinomycete, strain N1286(T), isolated from a lung transplant patient with a pulmonary infection, was provisionally assigned to the genus Nocardia. The strain had chemotaxonomic and morphological properties typical of members of the genus Nocardia and formed a distinct phyletic line in the Nocardia 16S rRNA gene tree. Isolate N1286(T) was most closely related to Nocardia farcinica DSM 43665(T) (99.8% gene sequence similarity) but could be distinguished from the latter by the low level of DNA-DNA relatedness. These strains were also distinguishable on the basis of a broad range of phenotypic properties. It is concluded that strain N1286(T) represents a novel species of the genus Nocardia for which the name Nocardia kroppenstedtii sp. nov. is proposed. The type strain is N1286(T) ( = DSM 45810(T) = NCTC 13617(T)).

  9. Sugiyamaella xylanicola sp. nov., a xylan-degrading yeast species isolated from rotting wood.

    Science.gov (United States)

    Morais, Camila G; Lara, Carla A; Marques, Susana; Fonseca, Cesar; Lachance, Marc-André; Rosa, Carlos A

    2013-06-01

    Four strains of a novel yeast species were isolated from rotting-wood samples in an Atlantic rainforest site in the state of Minas Gerais, Brazil. These yeasts were obtained from enrichments using yeast nitrogen base (YNB)-d-xylose or YNB-xylan media. The novel yeast species produces bacilliform ascospores typical of the genus Sugiyamaella, and its closest described relative in terms of sequence similarity is Candida (iter. nom. Sugiyamaella) marionensis. The yeast is able to grow in medium with xylan as sole carbon source and produces extracellular enzymes with xylanolytic activities. The novel species Sugiyamaella xylanicola sp. nov. is proposed to accommodate these isolates. The type strain is UFMG-CA-32.1(T) (=CBS 12683(T) =CBMAI 1467(T)).

  10. Isolation and characterization of α,β-unsaturated γ-lactono-hydrazides from Streptomyces sp.

    Science.gov (United States)

    Le Goff, Géraldine; Martin, Marie-Thérèse; Servy, Claudine; Cortial, Sylvie; Lopes, Philippe; Bialecki, Anne; Smadja, Jacqueline; Ouazzani, Jamal

    2012-05-25

    Two novel α,β-unsaturated γ-lactono-hydrazides, geralcin A (2) and geralcin B (3), were isolated from Streptomyces sp. LMA-545. This unusual scaffold consists of the condensation of alkyl-hydrazide with an α,β-unsaturated γ-lactone, 3-(5-oxo-2H-furan-4-yl)propanoic acid (1), which was isolated from the same broth culture. Amberlite XAD-16 solid-phase extraction was used during the cultivation step, and the trapped compounds (1-3) were eluted from the resin with methanol. The structures were elucidated using (1)H, (13)C, and (15)N NMR spectroscopic analysis and high-resolution mass spectrometry. Geralcin B (3) was cytotoxic against MDA231 breast cancer cells with an IC(50) of 5 μM.

  11. Spencermartinsiella silvicola sp. nov., a yeast species isolated from rotting wood.

    Science.gov (United States)

    Morais, Camila G; Lara, Carla A; Oliveira, Evelyn S; Péter, Gábor; Dlauchy, Dénes; Rosa, Carlos A

    2016-02-01

    Three strains of a new xylanase-producing yeast species were isolated from rotting wood samples collected in the Atlantic Rain Forest of Brazil. The sequences of the internal transcribed spacer region and D1/D2 domains of the large subunit of the rRNA gene showed that this novel yeast species belongs to the genus Spencermartinsiella, and its closest relatives among recognized species are Spencermartinsiella europaea and Spencermartinsiella ligniputridi. A novel species, named Spencermartinsiella silvicola sp. nov., is proposed to accommodate these isolates. The type strain is UFMG-CM-Y274T ( = CBS 13490T). The MycoBank number is MB 813053. In addition, Candida cellulosicola is reassigned to the genus Spencermartinsiella as a new combination.

  12. Actinomyces naturae sp. nov., the first Actinomyces sp. isolated from a non-human or animal source.

    Science.gov (United States)

    Rao, Jyoti U; Rash, Brian A; Nobre, M Fernanda; da Costa, Milton S; Rainey, Fred A; Moe, William M

    2012-01-01

    naturae sp. nov. is proposed. This is the first Actinomyces species isolated from an environmental rather than human or animal sources. The type strain of Actinomyces naturae is BL-79(T) (= CCUG 56698(T) = NRRL B-24670(T)).

  13. Comparative genomic analysis of phylogenetically closely related Hydrogenobaculum sp. isolates from Yellowstone National Park.

    Science.gov (United States)

    Romano, Christine; D'Imperio, Seth; Woyke, Tanja; Mavromatis, Konstantinos; Lasken, Roger; Shock, Everett L; McDermott, Timothy R

    2013-05-01

    We describe the complete genome sequences of four closely related Hydrogenobaculum sp. isolates (≥ 99.7% 16S rRNA gene identity) that were isolated from the outflow channel of Dragon Spring (DS), Norris Geyser Basin, in Yellowstone National Park (YNP), WY. The genomes range in size from 1,552,607 to 1,552,931 bp, contain 1,667 to 1,676 predicted genes, and are highly syntenic. There are subtle differences among the DS isolates, which as a group are different from Hydrogenobaculum sp. strain Y04AAS1 that was previously isolated from a geographically distinct YNP geothermal feature. Genes unique to the DS genomes encode arsenite [As(III)] oxidation, NADH-ubiquinone-plastoquinone (complex I), NADH-ubiquinone oxidoreductase chain, a DNA photolyase, and elements of a type II secretion system. Functions unique to strain Y04AAS1 include thiosulfate metabolism, nitrate respiration, and mercury resistance determinants. DS genomes contain seven CRISPR loci that are almost identical but are different from the single CRISPR locus in strain Y04AAS1. Other differences between the DS and Y04AAS1 genomes include average nucleotide identity (94.764%) and percentage conserved DNA (80.552%). Approximately half of the genes unique to Y04AAS1 are predicted to have been acquired via horizontal gene transfer. Fragment recruitment analysis and marker gene searches demonstrated that the DS metagenome was more similar to the DS genomes than to the Y04AAS1 genome, but that the DS community is likely comprised of a continuum of Hydrogenobaculum genotypes that span from the DS genomes described here to an Y04AAS1-like organism, which appears to represent a distinct ecotype relative to the DS genomes characterized.

  14. Photobacterium piscicola sp. nov., isolated from marine fish and spoiled packed cod.

    Science.gov (United States)

    Figge, Marian J; Cleenwerck, Ilse; van Uijen, Astrid; De Vos, Paul; Huys, Geert; Robertson, Lesley

    2014-07-01

    Five isolates from marine fish (W3(T), WM, W1S, S2 and S3) and three isolates misclassified as Photobacterium phosphoreum, originating from spoiled modified atmosphere packed stored cod (NCIMB 13482 and NCIMB 13483) and the intestine of skate (NCIMB 192), were subjected to a polyphasic taxonomic study. Phylogenetic analysis of 16S rRNA gene sequences showed that the isolates were members of the genus Photobacterium. Sequence analysis using the gapA, gyrB, pyrH, recA and rpoA loci showed that these isolates formed a distinct branch in the genus Photobacterium, and were most closely related to Photobacterium aquimaris, Photobacterium kishitanii, Photobacterium phosphoreum and Photobacterium iliopiscarium. The luxA gene was present in isolates W3(T), WM, W1S, S2 and S3 but not in NCIMB 13482, NCIMB 13483 and NCIMB 192. AFLP and (GTG)5-PCR fingerprinting indicated that the eight isolates represented at least five distinct genotypes. DNA-DNA hybridizations revealed 89% relatedness between isolate W3(T) and NCIMB 192, and values below 70% with the type strains of the phylogenetically closest species, P. iliopiscarium LMG 19543(T), P. kishitanii LMG 23890(T), P. aquimaris LMG 26951(T) and P. phosphoreum LMG4233(T). The strains of this new taxon could also be distinguished from the latter species by phenotypic characteristics. Therefore, we propose to classify this new taxon as Photobacterium piscicola sp. nov., with W3(T) (=NCCB 100098(T)=LMG 27681(T)) as the type strain. Copyright © 2014 Elsevier GmbH. All rights reserved.

  15. Sulfitobacter pacificus sp. nov., isolated from the red alga Pyropia yezoensis.

    Science.gov (United States)

    Fukui, Youhei; Abe, Mahiko; Kobayashi, Masahiro; Satomi, Masataka

    2015-05-01

    Three Gram-negative, aerobic, halophilic bacterial strains, SCM2-10(T), SCM-4, and 14C-6, were isolated from the algal medium of the red alga Pyropia yezoensis (previously classified as Porphyra yezoensis) grown in laboratory experiments. Phylogenetic analysis based on 16S rRNA gene sequences revealed that the organisms with high similarities to the three isolates are Sulfitobacter geojensis MM-124(T) (98.7%), Sulfitobacter noctilucicola NB-77(T) (98.7%), Sulfitobacter noctilucae NB-68(T) (98.6%), Sulfitobacter mediterraneus CH-B427(T) (97.6%), and Sulfitobacter porphyrae SCM-1(T) (97.6%), and that the three isolates belong to the genus Sulfitobacter, within the class Alphaproteobacteria. The DNA G+C contents of the three isolates were found to be in the range of 56.5-57.1 mol%. DNA-DNA hybridization experiments demonstrated that the genomic relatedness between strain SCM2-10(T) and type strains of other Sulfitobacter species was in the range of 6.2-27.1%. The predominant respiratory quinone of the three isolates was identified as ubiquinone-10. The dominant polar lipids in the three isolates were found to be phosphatidylcholine, phosphatidylethanolamine, phosphatidylglycerol, and an unidentified amino lipid. The major fatty acid in the three isolates is C(18:1)ω7c. Strain SCM2-10(T) demonstrated unique phenotypic characteristics, which differed from those of type strains of other Sulfitobacter species. Based on the phylogenetic, genetic, phenotypic, and chemotaxonomic data, we propose a novel species of the genus Sulfitobacter, which we named as Sulfitobacter pacificus sp. nov. The type strain of this species is strain SCM2-10(T) (=LMG 27113(T) = NBRC 109915(T)).

  16. A neutral lipase applicable in biodiesel production from a newly isolated Streptomyces sp. CS326.

    Science.gov (United States)

    Cho, Seung Sik; Park, Da Jeong; Simkhada, Jaya Ram; Hong, Joon Hee; Sohng, Jae Kyung; Lee, Oh Hyung; Yoo, Jin Cheol

    2012-01-01

    In an attempt to isolate a biocatalyst able to catalyze biodiesel production from microbial source, Streptomyces sp. CS326 was screened from hundreds of soil isolates collected from various parts of Korea. In 16S rRNA sequence analysis, the strain showed high degree of similarity with Streptomyces xanthocidicus (99.79%); therefore, it is classified as Streptomyces sp. CS326. An extracellular lipase produced by the strain (LP326) was purified using a single step gel permeation chromatography on Sepharose CL-6B. Molecular weight of LP326 was estimated to be 17,000 Da by SDS-PAGE. The activity was optimum at 40 °C and pH 7.0 and was stable at pH 5.0-8.0 and below 50 °C. It preferred p-nitrophenyl palmitate (C16), a long chain substrate; and K (m) and V (max) for the substrate were determined to be 0.24 mM and 4.6 mM/min mg, respectively. First 10 N-terminal amino acid sequences were APDLVALQSE, which are different from so far reported lipases. LP326 catalyzed biodiesel production using methanol and various oils; therefore, the enzyme can be applicable in the field of biofuel.

  17. Isolation and characterization of a biosurfactant-producing Fusarium sp. BS-8 from oil contaminated soil.

    Science.gov (United States)

    Qazi, Muneer A; Kanwal, Tayyaba; Jadoon, Muniba; Ahmed, Safia; Fatima, Nighat

    2014-01-01

    This study reports characterization of a biosurfactant-producing fungal isolate from oil contaminated soil of Missa Keswal oil field, Pakistan. It was identified as Fusarium sp. BS-8 on the basis of macroscopic and microscopic morphology, and 18S rDNA gene sequence homology. The biosurfactant-producing capability of the fungal isolates was screened using oil displacement activity, emulsification index assay, and surface tension (SFT) measurement. The optimization of operational parameters and culture conditions resulted in maximum biosurfactant production using 9% (v/v) inoculum at 30°C, pH 7.0, using sucrose and yeast extract, as carbon and nitrogen sources, respectively. A C:N ratio of 0.9:0.1 (w/w) was found to be optimum for growth and biosurfactant production. At optimal conditions, it attained lowest SFT (i.e., 32 mN m(-1) ) with a critical micelle concentration of ≥ 1.2 mg mL(-1) . During 5 L shake flask fermentation experiments, the biosurfactant productivity was 1.21 g L(-1) pure biosurfactant having significant emulsifying index (E24 , 70%) and oil-displacing activity (16 mm). Thin layer chromatography and Fourier transform infrared spectrometric analyses indicated a lipopeptide type of the biosurfactant. The Fusarium sp. BS-8 has substantial potential of biosurfactant production, yet it needs to be fully characterized with possibility of relatively new class of biosurfactants. © 2014 American Institute of Chemical Engineers.

  18. In vitro and in vivo antitumor activity of crude extracts obtained from Brazilian Chromobacterium sp isolates

    Energy Technology Data Exchange (ETDEWEB)

    Menezes, C.B.A.; Silva, B.P. [Universidade Estadual de Campinas, Centro Pluridisciplinar de Pesquisas Químicas, Biológicas e Agrícolas, Campinas, SP (Brazil); Universidade de São Paulo, Interunidades em Biotecnologia, São Paulo, SP (Brazil); Sousa, I.M.O.; Ruiz, A.L.T.G.; Spindola, H.M. [Universidade Estadual de Campinas, Centro Pluridisciplinar de Pesquisas Químicas, Biológicas e Agrícolas, Campinas, SP (Brazil); Cabral, E.; Eberlin, M.N. [Instituto de Química, Universidade Estadual de Campinas, Laboratório Thomson Mass Spectrometry, Campinas, SP (Brazil); Tinti, S.V.; Carvalho, J.E. [Universidade Estadual de Campinas, Centro Pluridisciplinar de Pesquisas Químicas, Biológicas e Agrícolas, Campinas, SP (Brazil); Foglio, M.A.; Fantinatti-Garboggini, F. [Universidade Estadual de Campinas, Centro Pluridisciplinar de Pesquisas Químicas, Biológicas e Agrícolas, Campinas, SP (Brazil); Universidade de São Paulo, Interunidades em Biotecnologia, São Paulo, SP (Brazil)

    2012-10-23

    Natural products produced by microorganisms have been an important source of new substances and lead compounds for the pharmaceutical industry. Chromobacterium violaceum is a Gram-negative β-proteobacterium, abundant in water and soil in tropical and subtropical regions and it produces violacein, a pigment that has shown great pharmaceutical potential. Crude extracts of five Brazilian isolates of Chromobacterium sp (0.25, 2.5, 25, and 250 µg/mL) were evaluated in an in vitro antitumor activity assay with nine human tumor cells. Secondary metabolic profiles were analyzed by liquid chromatography and electrospray ionization mass spectrometry resulting in the identification of violacein in all extracts, whereas FK228 was detected only in EtCE 308 and EtCE 592 extracts. AcCE and EtCE 310 extracts showed selectivity for NCI/ADR-RES cells in the in vitro assay and were evaluated in vivo in the solid Ehrlich tumor model, resulting in 50.3 and 54.6% growth inhibition, respectively. The crude extracts of Chromobacterium sp isolates showed potential and selective antitumor activities for certain human tumor cells, making them a potential source of lead compounds. Furthermore, the results suggest that other compounds, in addition to violacein, deoxyviolacein and FK228, may be involved in the antitumor effect observed.

  19. Quorum sensing activity of a Kluyvera sp. isolated from a Malaysian waterfall.

    Science.gov (United States)

    Yunos, Nina Yusrina Muhamad; Tan, Wen-Si; Mohamad, Nur Izzati; Tan, Pui-Wan; Adrian, Tan-Guan-Sheng; Yin, Wai-Fong; Chan, Kok-Gan

    2014-05-08

    In many species of bacteria, the quorum sensing mechanism is used as a unique communication system which allows them to regulate gene expression and behavior in accordance with their population density. N-Acylhomoserine lactones (AHLs) are known as diffusible autoinducer molecules involved in this communication network. This finding aimed to characterize the production of AHL of a bacterial strain ND04 isolated from a Malaysian waterfall. Strain ND04 was identified as Kluyvera sp. as confirmed by molecular analysis of its 16S ribosomal RNA gene sequence. Kluyvera sp. is closely related to the Enterobacteriaceae family. Chromobacterium violaceum CV026 was used as a biosensor to detect the production of AHL by strain ND04. High resolution triple quadrupole liquid chromatography-mass spectrometry analysis of strain ND04 showed our isolate produced two AHLs which are N-(3-oxohexanoyl)homoserine lactone (3-oxo-C6 HSL) and N-3-oxo-octanoyl-L-homoserine lactone (3-oxo-C8 HSL).

  20. Quorum Sensing Activity of a Kluyvera sp. Isolated from a Malaysian Waterfall

    Directory of Open Access Journals (Sweden)

    Nina Yusrina Muhamad Yunos

    2014-05-01

    Full Text Available In many species of bacteria, the quorum sensing mechanism is used as a unique communication system which allows them to regulate gene expression and behavior in accordance with their population density. N-Acylhomoserine lactones (AHLs are known as diffusible autoinducer molecules involved in this communication network. This finding aimed to characterize the production of AHL of a bacterial strain ND04 isolated from a Malaysian waterfall. Strain ND04 was identified as Kluyvera sp. as confirmed by molecular analysis of its 16S ribosomal RNA gene sequence. Kluyvera sp. is closely related to the Enterobacteriaceae family. Chromobacterium violaceum CV026 was used as a biosensor to detect the production of AHL by strain ND04. High resolution triple quadrupole liquid chromatography-mass spectrometry analysis of strain ND04 showed our isolate produced two AHLs which are N-(3-oxohexanoylhomoserine lactone (3-oxo-C6 HSL and N-3-oxo-octanoyl-L-homoserine lactone (3-oxo-C8 HSL.

  1. Description of Acinetobacter populi sp. nov. isolated from symptomatic bark of Populus x euramericana canker.

    Science.gov (United States)

    Li, Yong; Chang, Jupu; Guo, Li-min; Wang, Hai-Ming; Xie, Shou-jiang; Piao, Chun-gen; He, Wei

    2015-12-01

    Five Gram-negative, non-motile, rod-shaped bacterial strains were isolated from cankers of Populus x euramericana collected from different locations in Puyang city, Henan Province, China. The five strains were characterized by nutritional and physiological testing and DNA sequence analysis. Haemolysis was not observed on agar media supplemented with sheep erythrocytes. The strains could be distinguished from members of most species of the genus Acinetobacter by their inability to assimilate L-arginine and benzoate. The five strains formed a single branch in phylogenetic trees based on 16S rRNA, gyrB and rpoB individual gene sequence analysis,indicating that they all belonged to a single taxon within the genus Acinetobacter. DNA-DNA hybridization results indicated that the five isolates represented to a single species that was separate from Acinetobacter puyangensis. On the basis of the phenotypic, genotypic and phylogenetic characteristics, the five strains are considered to represent a novel species of the genus Acinetobacter, for which the name Acinetobacter populi sp. nov. is proposed. The typestrain of A. populi sp. nov. is PBJ7T (CFCC 11170T=KCTC 42272T).

  2. Cyberlindnera xylosilytica sp. nov., a xylitol-producing yeast species isolated from lignocellulosic materials.

    Science.gov (United States)

    Cadete, Raquel M; Cheab, Monaliza A M; Santos, Renata O; Safar, Silvana V B; Zilli, Jerri E; Vital, Marcos J S; Basso, Luiz C; Lee, Ching-Fu; Kurtzman, Cletus P; Lachance, Marc-André; Rosa, Carlos A

    2015-09-01

    Independent surveys of yeasts associated with lignocellulosic-related materials led to the discovery of a novel yeast species belonging to the Cyberlindnera clade (Saccharomycotina, Ascomycota). Analysis of the sequences of the internal transcribed spacer (ITS) region and the D1/D2 domains of the large subunit rRNA gene showed that this species is related to C. japonica, C. maesa and C. easanensis. Six isolates were obtained from different sources, including rotting wood, tree bark and sugar cane filter cake in Brazil, frass from white oak in the USA and decayed leaf in Taiwan. A novel species is suggested to accommodate these isolates, for which the name C. xylosilytica sp. nov. is proposed. The type strain of C. xylosilytica sp. nov. is NRRL YB-2097(T) ( = CBS 13984(T) = UFMG-CM-Y347(T)) and the allotype is UFMG-CM-Y409 ( = CBS 14083). The novel species is heterothallic and complementary mating types are represented by the type and allotype strains. The MycoBank number is MB 811428.

  3. Isolation and Characterization of Acrylamidase from Arthrobacter sp. DBV1 and Its Ability to Biodegrade Acrylamide.

    Science.gov (United States)

    Bedade, Dattatray K; Singhal, Rekha S

    2017-06-01

    Although acrylamide finds diverse industrial applications, its presence in the environment is hazardous due to its carcinogenic, neurotoxic, and teratogenic properties. In spite of the general toxicity of acrylamide in the monomer form, some microorganisms are able to use it as a source of energy by catabolizing it to ammonia and acrylic acid by means of acrylamidase (EC 3.5.1.4). The present work reports on a novel soil isolate as an acrylamide-degrading bacteria. Based on biochemical characterization and 16S ribosomal RNA (rRNA) gene sequence, the bacterial strain was identified as Gram-positive Arthrobacter sp. DBV1. The optimum growth conditions were found to be temperature (30 °C) and pH 6.0 to 7.0. Evaluation of the effect of concentration of acrylamide (10-50 mM) incorporated into minimal medium showed maximum growth of Arthrobacter sp. DBV1 at 30 mM acrylamide. The biodegradation of acrylamide was confirmed by HPLC analysis. Acrylamidase was isolated and characterized for temperature and pH optima, substrate specificity by using different amides, and the effect of different activators/inhibitors such as metal ions and amino acids. These finding suggests that the strain could be attractive for biodegradation of acrylamide from the environment and also possibly from foods containing preformed acrylamide.

  4. Biodegradation of PAHs by Burkholderia sp. VITRSB1 Isolated from Marine Sediments

    Directory of Open Access Journals (Sweden)

    T. Revathy

    2015-01-01

    Full Text Available The polycyclic aromatic hydrocarbons (PAHs pollution to the environment is a major threat to the living organisms, and hence the degradation of these PAHs is necessary. Studies on PAHs degrading bacteria have focussed on terrestrial microbes and the potential of marine derived microbes is undermined. Herein we report the isolation and characterization of PAHs degrading Burkholderia sp. from lagoon sediments collected at the Southern coast of India. The strain was Gram negative, rod-shaped, motile, and ∼2–5 μm in length. Based on the phylogenetic data the strain was identified as Burkholderia and designated as VITRSB1. Initial PAHs degradation ability of the strain was assessed using basal salt medium supplemented with diesel, kerosene, toluene, aniline, naphthalene, and phenol. The strain was found to be effectively degrading kerosene, diesel, toluene, and aniline even at higher concentration (1%. However, naphthalene and aniline were degraded only at lower concentration (0.1% and phenol, camphor, and DAP inhibited the growth of the strain. Furthermore, the degraded end products of the PAHs were determined using FTIR. Notably, none of the end products were found to be toxic to the biosphere. Our results indicate that the isolated Burkholderia sp. could be a prospective candidate for the effective degradation of selective PAHs.

  5. Boron bioremoval by a newly isolated Chlorella sp. and its stimulation by growth stimulators.

    Science.gov (United States)

    Taştan, Burcu Ertit; Duygu, Ergin; Dönmez, Gönül

    2012-01-01

    It has been well documented that excess concentrations of boron (B) causes toxic effects on many of the environmental systems. Although Chlorella sp. has been studied to remove pollutants from water, its capacity to remove B has not been investigated yet. Boron removal levels of newly isolated Chlorella sp. were investigated in BG 11 media with stimulators as triacontanol (TRIA) and/or sodium bicarbonate (NaHCO(3)) and without them, to test if they could increase the removal efficiency by increasing biomass. The assays were performed to determine the effect of different medial compositions, B concentrations, pH and biomass concentrations onto removal efficiency. Boron removal was investigated at 5-10 mg/L range at pH 8 in different medial compositions and maximum removal yield was found as 32.95% at 5.45 mg/L B in media with TRIA and NaHCO(3). The effect of different pH values on the maximum removal yield was investigated at pH 5-9, and the optimum pH was found again 8. The interactive effect of biomass concentration and B removal yield was also investigated at 0.386-1.061 g wet weight/L biomass. The highest removal yield was found as 38.03% at the highest biomass range. This study highlights the importance of using new isolate Chlorella sp. as a new biomaterial for B removal process of waters containing B. Copyright © 2011 Elsevier Ltd. All rights reserved.

  6. Extracellular Synthesis of Silver Nanoparticles by Ralstonia sp. SM8 Isolated from the Sarcheshmeh Copper Mine

    Directory of Open Access Journals (Sweden)

    Morahem Ashengroph

    2014-04-01

    Full Text Available Introduction: The biological synthesis of nanoparticles has gained enormous importance due to the development of clean and environmentally-friendly processes. Silver is highly toxic to microbial cells, Nevertheless, it has been reported that several microorganisms are silver resistance and corroborate the microbial reduction of water soluble Ag+ to Ag0 nanoparticles. In this study, native strains of bacteria screen for use as biocatalysts for extracellular synthesis of silver nanoparticles. Materials and methods: Eight different strains of bacteria exhibiting high silver tolerance were isolated from collecting soil samples from copper and gold mines and characterized using morphological observations and preliminary biochemical tests. The bacterial strains in the presence of 1 g/l Ag+ solution at pH 7 were incubated at 28º C for 48 h in an orbital shaker. The silver nanoparticles formation was investigated by visual observations (changing the color of the reaction solution, spectroscopic techniques and microscopic observations. Results: Among the 8 strains giving high Ag+ tolerance, the strain SM8, isolated from the Sarcheshmeh Copper Mine, Kerman, showed the capability of promoting the formation extracellular Ag nanoparticles. The strain was selected and identified as Ralstonia sp. SM8 (GenBank accession number KF264453 based on morphological and biochemical characteristics and its molecular phylogenetic analysis. Results obtained by visual observations, spectral data achieved from UV–vis, XRD spectrum and SEM micrographs revealed the extracellular formation of spherical silver nanoparticles in the size range of 20-50 nm with the culture supernatants of Ralstonia sp. SM8. Discussion and conclusion: Based on the results obtained, fast and extracellular synthesis of silver nanoparticles, without the need for complicated extraction steps, can be taken by using the culture supernatants of Ralstonia sp. SM8. The current study is the first report

  7. Thermococcus guaymasensis sp. nov. and Thermococcus aggregans sp. nov., two novel thermophilic archaea isolated from the Guaymas Basin hydrothermal vent site.

    Science.gov (United States)

    Canganella, F; Jones, W J; Gambacorta, A; Antranikian, G

    1998-10-01

    Thermococcus strains TYST and TYT isolated from the Guaymas Basin hydrothermal vent site and previously described were compared by DNA-DNA hybridization analysis with the closest Thermococcus species in terms of physiology and nutritional aspects. On the basis of the new data and taking into consideration the molecular, physiological and morphological traits published previously, it is proposed that strains TYT and TYST should be classified as new species named Thermococcus aggregans sp. nov. and Thermococcus guaymasensis sp. nov., respectively. The type strain of T. aggregans is strain TYT (= DSM 10597T) and the type strain of T. guaymasensis is strain TYST (= DSM 11113T).

  8. Enterobacter pulveris sp. nov., isolated from fruit powder, infant formula and an infant formula production environment.

    Science.gov (United States)

    Stephan, Roger; Van Trappen, Stefanie; Cleenwerck, Ilse; Iversen, Carol; Joosten, Han; De Vos, Paul; Lehner, Angelika

    2008-01-01

    Six Gram-negative, facultatively anaerobic, non-spore-forming, coccoid rod-shaped isolates were obtained from fruit powder (n=3), infant formula (n=2) and an infant formula production environment (n=1) and investigated in a polyphasic taxonomic study. Comparative 16S rRNA gene sequence analysis combined with rpoB gene sequence analysis allocated the isolates to the family Enterobacteriaceae. The highest rpoB gene sequence similarities (91.2-95.8%) were obtained with Enterobacter helveticus, Enterobacter radicincitans, Enterobacter turicensis and Enterobacter sakazakii and the phylogenetic branch formed by these species was supported by a high bootstrap value. Biochemical data revealed that the isolates could be differentiated from their nearest neighbours by their ability to utilize melibiose, sucrose, D-arabitol, mucate and 1-O-methyl-alpha-galactopyranoside and their negative reactions for D-sorbitol utilization and the Voges-Proskauer test. On the basis of the phylogenetic analyses, DNA-DNA hybridization data, and unique physiological and biochemical characteristics, it is proposed that the isolates represent a novel species of the genus Enterobacter, Enterobacter pulveris sp. nov. The type strain is 601/05(T) (=LMG 24057(T)=DSM 19144(T)).

  9. Enterococcus bulliens sp. nov., a novel lactic acid bacterium isolated from camel milk.

    Science.gov (United States)

    Kadri, Zaina; Spitaels, Freek; Cnockaert, Margo; Praet, Jessy; El Farricha, Omar; Swings, Jean; Vandamme, Peter

    2015-11-01

    Four lactic acid bacteria isolates obtained from fresh dromedary camel milk produced in Dakhla, a city in southern Morocco, were characterised in order to determine their taxonomic position. The four isolates had highly similar MALDI-TOF MS and RAPD fingerprints and identical 16S rRNA gene sequences. Comparative sequence analysis revealed that the 16S rRNA gene sequence of the four isolates was most similar to that of Enterococcus sulfureus ATCC 49903(T) and Enterococcus italicus DSM 15952(T) (99.33 and 98.59% similarity, respectively). However, sequence analysis of the phenylalanyl-tRNA synthase (pheS), RNA polymerase (rpoA) and ATP synthase (atpA) genes revealed that the taxon represented by strain LMG 28766(T) was well separated from E. sulfureus LMG 13084(T) and E. italicus LMG 22039(T), which was further confirmed by DNA-DNA hybridization values that were clearly below the species demarcation threshold. The novel taxon was easily differentiated from its nearest neighbour species through sequence analysis of protein encoding genes, MALDI-TOF mass spectrometry and multiple biochemical tests, but had a similar percentage G+C content of about 39%. We therefore propose to formally classify these isolates as Enterococcus bulliens sp. nov., with LMG 28766(T) (=CCMM B1177(T)) as the type strain.

  10. Fusaroside, a unique glycolipid from Fusarium sp., an endophytic fungus isolated from Melia azedarach.

    Science.gov (United States)

    Yang, Sheng-Xiang; Wang, Hong-Peng; Gao, Jin-Ming; Zhang, Qiang; Laatsch, Hartmut; Kuang, Yi

    2012-01-28

    Fusaroside (1), a unique trehalose-containing glycolipid composed of the 4-hydroxyl group of a trehalose unit attached to the carboxylic carbon of a long-chain fatty acid, was isolated from the organic extract of fermentation broths of an endophytic fungus, Fusarium sp. LN-11 isolated from the leaves of Melia azedarach. Six known compounds, phalluside (2), (9R*,10R*,7E)-6, 9,10-trihydroxyoctadec-7-enoic acid (3), porrigenic acid (4), (9Z)-2,3-dihydroxypropyl octadeca-9-enoate (5), cerevisterol (6) and ergokonin B (7), were also isolated from this fungus. The glycolipid contains a rare branched long-chain fatty acid (C(20:4)) with a conjugated diene moiety and a conjugated ketone moiety. The structure of the new compound 1 was elucidated by spectroscopic methods (1D and 2D NMR experiments, MS) and chemical degradations. The metabolites 1-5 were shown to have moderate to weak active against the brine shrimp larvae. To our knowledge, this is the first report of isolation of the first representative of a new family of glycolipids from natural sources.

  11. Campylobacter geochelonis sp. nov. isolated from the western Hermann's tortoise (Testudo hermanni hermanni).

    Science.gov (United States)

    Piccirillo, Alessandra; Niero, Giulia; Calleros, Lucía; Pérez, Ruben; Naya, Hugo; Iraola, Gregorio

    2016-09-01

    During a screening study to determine the presence of species of the genus Campylobacter in reptiles, three putative strains (RC7, RC11 and RC20T) were isolated from different individuals of the western Hermann's tortoise (Testudo hermanni hermanni). Initially, these isolates were characterized as representing Campylobacterfetus subsp. fetus by multiplex PCR and partial 16S rRNA gene sequence analysis. Further whole- genome characterization revealed considerable differences compared to other Campylobacter species. A polyphasic study was then undertaken to determine the exact taxonomic position of the isolates. The three strains were characterized by conventional phenotypic tests and whole genome sequencing. We generated robust phylogenies that showed a distinct clade containing only these strains using the 16S rRNA and atpA genes and a set of 40 universal proteins. Our phylogenetic analysis demonstrates their designation as representing a novel species and this was further confirmed using whole- genome average nucleotide identity within the genus Campylobacter (~80 %). Compared to most Campylobacter species, these strains hydrolysed hippurate, and grew well at 25 °C but not at 42 °C. Phenotypic and genetic analyses demonstrate that the three Campylobacter strains isolated from the western Hermann's tortoise represent a novel species within the genus Campylobacter, for which the name Campylobactergeochelonis sp. nov. is proposed, with RC20T (=DSM 102159T=LMG 29375T) as the type strain.

  12. Brevibacterium pityocampae sp. nov., isolated from caterpillars of Thaumetopoea pityocampa (Lepidoptera, Thaumetopoeidae).

    Science.gov (United States)

    Kati, Hatice; Ince, Ikbal Agah; Demir, Ismail; Demirbag, Zihni

    2010-02-01

    This work deals with the taxonomic study of a bacterium, strain Tp12(T), isolated from caterpillars of the pine processionary moth (Thaumetopoea pityocampa Denis & Schiffermüller, 1775; Lepidoptera, Thaumetopoeidae). The isolate was assigned to the genus Brevibacterium on the basis of a polyphasic taxonomic study, including morphological and biochemical characteristics, 16S rRNA gene sequence analysis, fatty acid analysis and DNA G+C content. The highest 16S rRNA gene sequence similarity to this isolate was approximately 96 %, with the type strains of Brevibacterium album and Brevibacterium samyangense. Cellular fatty acids of the isolate are of the branched type, with the major components being anteiso-C(15 : 0) and anteiso-C(17 : 0). The DNA G+C content was 69.8 mol%. Although the strain was related to B. album and B. samyangense according to 16S rRNA gene sequence analysis, it differed from any known species of Brevibacterium. Based on this evidence, the novel species Brevibacterium pityocampae sp. nov. is proposed, with strain Tp12(T) (=DSM 21720(T) =NCCB 100255(T)) as the type strain.

  13. Isolation and characterization of Rhizobium sp. strain YS-1r that degrades lignin in plant biomass.

    Science.gov (United States)

    Jackson, C A; Couger, M B; Prabhakaran, M; Ramachandriya, K D; Canaan, P; Fathepure, B Z

    2017-04-01

    The aim of this work was to isolate novel lignin-degrading organisms. Several pure cultures of bacteria that degrade lignin were isolated from bacterial consortia developed from decaying biomass. Among the isolates, Rhizobium sp. strain YS-1r (closest relative of Rhizobium petrolearium strain SL-1) was explored for its lignin-degrading ability. Microcosm studies showed that strain YS-1r was able to degrade a variety of lignin monomers, dimers and also native lignin in switchgrass and alfalfa. The isolate demonstrated lignin peroxidase (LiP) activity when grown on alkali lignin, p-anisoin, switchgrass or alfalfa, and only negligible activity was measured in glucose-grown cells suggesting inducible nature of the LiP activity. Analysis of the strain YS-1r genome revealed the presence of a variety of genes that code for various lignin-oxidizing, H 2 O 2 -producing as well as polysaccharide-hydrolysing enzymes. This study shows both the genomic and physiological capability of bacteria in the genus Rhizobium to metabolize lignin and lignin-like compounds. This is the first detailed report on the lignocellulose-degrading ability of a Rhizobium species and thus this study expands the role of alpha-proteobacteria in the degradation of lignin. The organism's ability to degrade lignin is significant since Rhizobia are widespread in soil, water and plant rhizospheres and some fix atmospheric nitrogen and also have the ability to degrade aromatic hydrocarbons. © 2017 The Society for Applied Microbiology.

  14. Five novel Wickerhamomyces- and Metschnikowia-related yeast species, Wickerhamomyces chaumierensis sp. nov., Candida pseudoflosculorum sp. nov., Candida danieliae sp. nov., Candida robnettiae sp. nov. and Candida eppingiae sp. nov., isolated from plants

    NARCIS (Netherlands)

    Groenewald, Marizeth; Robert, Vincent; Smith, Maudy Th

    On the basis of nucleotide divergences in the D1/D2 domain of the 26S rRNA gene and the internal transcribed spacers (ITS) domain of the rRNA gene, five novel yeast species, Wickerhamomyces chaumierensis sp. nov. (CBS 8565(T)  = JCM 17246(T)), Candida pseudoflosculorum sp. nov. (CBS 8584(T)  = JCM

  15. Rhizobium skierniewicense sp. nov., isolated from tumours on chrysanthemum and cherry plum.

    Science.gov (United States)

    Puławska, Joanna; Willems, Anne; Sobiczewski, Piotr

    2012-04-01

    Three isolates of Gram-negative, rod-shaped, non-spore-forming bacteria were recovered from galls on chrysanthemum (Chrysanthemum L.; Ch11T, Ch12) and cherry plum (Prunus cerasifera var. divaricata; AL9.3). All three isolates were able to cause crown galls on various plant species. Phylogenetic analysis based on 16S rRNA gene sequences indicated that the three isolates were probably identical (100% sequence similarity) and closely related to Rhizobium rubi (99.6 %), Rhizobium radiobacter (98.7 %) and Rhizobium larrymoorei (98.1 %). Similar analysis based on the housekeeping genes glnA, gyrB and rpoB also indicated that the novel isolates were identical and closely related to R. rubi. The major cellular fatty acids of strain Ch11T were C18:1ω7c (62.1 %), summed feature 2 (comprising C12:0 aldehyde, iso-C16:1 I and/or C14:0 3-OH; 10.8 %), summed feature 3 (comprising C16:1ω7c and/or iso-C15:0 2-OH; 7.7 %) and C10:0 3-OH (7.5 %). However, the DNA-DNA relatedness between Ch11T and R. rubi LMG 156T was only 48 % and, unlike phylogenetically related established Rhizobium species, the novel isolates were able to utilize β-hydroxybutyric acid but not L-fucose. Based on the phylogenetic and phenotypic evidence, the isolates are considered to represent a single novel species of the genus Rhizobium, for which the name Rhizobium skierniewicense sp. nov. is proposed; the type strain is Ch11T (=LMG 26191T=CFBP 7420T).

  16. Pathogenicity of Aeromonas hydrophila isolated from the Malaysian Sea against coral (Turbinaria sp.) and sea bass (Lates calcarifer).

    Science.gov (United States)

    Hamid, Rahimi; Ahmad, Asmat; Usup, Gires

    2016-09-01

    A study was carried out to determine the pathogenicity (hemolytic activity) on corals (Turbinaria sp.) and sea bass (Lates calcarifer) of Aeromonas hydrophila from water, sediment, and coral. Samples were collected from coastal water and coral reef areas. One hundred and sixty-two isolates were successfully isolated. Out of 162, 95 were from seawater, 49 from sediment, and 18 from coral. Sixteen isolates were picked and identified. Isolates were identified using a conventional biochemical test, the API 20NE kit, and 16S rRNA nucleotide sequences. Hemolytic activity was determined. Out of 16 isolates, 14 isolates were β-hemolytic and two isolates were non-hemolytic. Corals infected with A. hydrophila suffered bleaching. Similar effect was observed for both hemolytic and non-hemolytic isolates. Intramuscular injection of A. hydrophila into sea bass resulted in muscular bleeding and death. Higher infection rates were obtained from hemolytic compared to non-hemolytic strains of A. hydrophila isolates.

  17. Antitumor compounds from Streptomyces sp. KML-2, isolated from Khewra salt mines, Pakistan.

    Science.gov (United States)

    Aftab, Usman; Zechel, David L; Sajid, Imran

    2015-10-14

    Actinomycetes are gram positive bacteria with high G + C content in their DNA and are capable of producing variety of secondary metabolites. Many of these metabolites possess different biological activities and have the potential to be developed as therapeutic agents. The aim of the present study was to screen actinomycetes inhabiting halophilic environment such as Khewra salt mines present in Pakistan for cytotoxic and antitumor compounds. An actiomycetes strain designated as Streptomyces sp. KML-2 was isolated from a saline soil of Khewra salt mines, Pakistan. The strain Streptomyces sp. KML-2 showed 84 % cytotoxic activity against larvae of Artemia salina. In the screening phase, the strain exhibited significant antitumor activity with IC50 values of 12, 48 and 56 µg/ml against Hela, MDBK and Vero cell lines, respectively. After that extract from 20 l fermentation was used to purify secondary metabolites by several chromatographic techniques. Structure elucidation of isolated compounds revealed that it is highly stable producer of Chromomycin SA (1) and 1-(1H-indol-3-yl)-propane-1,2,3-triol (2). Both of the isolated compounds showed significant antitumor activity against Hela and MCF-7 cancer cell lines (IC50 values 8.9 and 7.8 µg/ml against Hela; 12.6 and 0.97 µg/ml against MCF-7, respectively). The 16S rRNA gene sequence (1437 bp) of the strain confirm its identity (99 %) with Streptomyces griseus. From this research work we were successful in isolating two potent antitumor compounds, Chromomycin SA and 1-(1H-indol-3-yl)-propane-1,2,3-triol from Streptomyces KML-2 strain, isolated from Khewra salt mine. As such this is the second report which confirms that S. griseus can produce Chromomycin SA without introducing any mutagenesis in its biosynthesizing gene cluster and isolated indole derivative is being reported first time from any member of actinomycetes group with having novel antitumor activity against Hela and MCF-7 cells. Nucleotide sequences

  18. Complete genome sequence of Burkholderia sp. strain PAMC28687, a potential octopine-utilizing bacterium isolated from Antarctica lichen.

    Science.gov (United States)

    Han, So-Ra; Yu, Sang-Cheol; Ahn, Do-Hwan; Park, Hyun; Oh, Tae-Jin

    2016-05-20

    We report the complete genome sequence of Burkholderia sp. PAMC28687, which was isolated from the Antarctica lichen Useea sp., for better understanding of its catabolic traits in utilizing octopine as a source of carbon/nitrogen between Burkholderia and lichen. The genome consists of three circular chromosomes with five circular plasmids for the total 6,881,273bp sized genome with a G+C content of 58.14%. Copyright © 2016 Elsevier B.V. All rights reserved.

  19. Isolation of poxvirus from debilitating cutaneous lesions on four immature grackles (Quiscalus sp.)

    Science.gov (United States)

    Docherty, D.E.; Long, R.I.R.; Flickinger, Edward L.; Locke, L.N.

    1991-01-01

    Poxvirus was isolated from nodules on four immature grackles (Quiscalus sp.) collected in two residential areas of Victoria, Texas. All of the birds were emaciated and had nodules on the eyelids, bill, legs, toes, and areas of the skin on the wings, neck, and ventral abdomen. These pox nodules were extensive and probably interfered with both sight and flight. The preliminary diagnosis was confirmed by virus isolation, histopathology, and electron microscopy. Poxvirus was isolated on the chorioallantoic membrane of embryonated hen's eggs and in Muscovy duck embryo fibroblast cell culture. Phaenicia calliphoridae (blowfly) larvae were found in one of the pox nodules, raising the possibility of mechanical transmission of the virus by contaminated adult blowfiles. /// Se aisl?? virus de viruela a partir de n??dulos presentes en cuatro estorninos inmaduros (Quiscalus sp.) capturados en dos ?!reas residenciales de Victoria, Texas. Las cuatro aves estaban emaciadas y presentaron n??dulos en los p?!rpados, pico, patas, dedos, y algunas ?!reas de la piel de las alas, cuello, y regi??n inferior del abdomen. Estos n??dulos producidos por viruela eran extensos y probablemente interfirieron con la visi??n y el vuelo. El diagn??stico presuntivo fue confirmado mediante aislamiento viral, histopatolog?-a, y microscop?-a electr??nica. Se aisl?? el virus de viruela en la membrana corioalantoidea de huevos embrionados de gallina y en cultivos celulares de fibroblasto de embri??n de pato. Se encontraron larvas de mosca azul (Phaenicia calliphoridae) en uno de los n??dulos de viruela, increment?!ndose as?- la posibilidad de transmisi??n mec?!nica del virus mediante moscas adultas contaminadas.

  20. ISOLATION AND GROWTH OF DINOFLAGELLATE, Scrippsiella sp. AND DIATOM, Melosira cf. moniliformis IN CONTROLLED CONDITIONS

    Directory of Open Access Journals (Sweden)

    Wa Iba

    2014-06-01

    Full Text Available The growth of the dinoflagellate, Scrippsiella sp. from Narragansett Bay, USA and the chain-forming benthic diatom, Melosira cf. moniliformis from Kendari Bay, Indonesia was evaluated under optimized laboratory conditions to investigate potential new candidates for shrimp aquaculture hatchery feeds. Isolation of microalgae was performed using capillary pipets in f/8-Si for Scrippsiella sp. and f/2 for M. cf. moniliformis. Isolated cells were placed in an incubator with a photoperiod of 12:12 hour (light : dark cycle, at light intensities of 62-89 μmol photons.m-2.s and at temperature of 20oC. Microalgae cells were cultured in 150-mL Erlenmeyer flasks containing 100 mL of f/2-Si medium for Scrippsiella spin triplicates and in 50-mL culture tubes containing 20 mL of f/2 medium for M. cf. moniliformis in four replicates. The cells in culture flasks were used in cell counting experiments while those in tubes were for fluorometer trials. Growth evaluation was conducted every 2-3 days. The diatom, M. cf. moniliformis was in logarithmic phase when observed at 2 to 7 days after inoculation and showed a high growth rate (μ = 0.52 day-1 and high division rate (k = 0.76 day-1, 1 division every 1.3 days. Logarithmic phase of Scrippsiella in culture flasks was started on day 7 to 30 (μ = 0.17 day-1 and k = 0.25 day-1 or 1 division every 4 days. In culture tubes, Scrippsiella sp. reached logarithmic phase at day 21 to 47 (μ = 0.12 day-1 and k = 0.18 day-1, 1 division every 5.65 days. This study indicates that M. cf. moniliformis can be used for aquaculture hatcheries feed but further study for the nutrition composition is needed. Scrippsiella sp. is potentially toxic for aquaculture at high densities, therefore they should be assessed carefully if used for aquaculture feeds.

  1. Nocardia vulneris sp. nov., isolated from wounds of human patients in North America.

    Science.gov (United States)

    Lasker, Brent A; Bell, Melissa; Klenk, Hans-Peter; Spröer, Cathrin; Schumann, Cathrin; Schumann, Peter; Brown, June M

    2014-09-01

    isolates were resistant to ciprofloxacin, clarithromycin and imipenem but were susceptible to amikacin, amoxicillin/clavulanate, linezolid and trimethoprim/sulfamethoxazole. The results of our polyphasic analysis suggest the new isolates obtained from wound infections represent a novel species within the genus Nocardia, for which the name Nocardia vulneris sp. nov. is proposed, with strain W9851T (= DSM 45737T = CCUG 62683T = NBRC 108936T) as the type strain.

  2. Biodegradation of cyanide using Serratia sp. isolated from contaminated soil of gold mine in Takab

    Directory of Open Access Journals (Sweden)

    Mojtaba Mohseni

    2014-07-01

    Full Text Available   Introduction : Cyanide is a toxic and hazardous compound for all organisms which is produced enormously by human being and causes the environment pollution. Biodegradation is the best method for cyanide elimination in industrial wastewater. The aims of this study were isolation of cyanide degrading bacteria from contaminated soil and investigation of their ability for cyanide degradation.   Materials and methods: After soil samples collection, enrichment of cyanide degrading bacteria was performed in a minimal medium containing 0.5 mM potassium cyanide. The ability of isolated bacterium to utilize the cyanide as sole carbon and nitrogen source was investigated. Cyanide degradation and ammonium production was determined in growth medium using picric acid and Nessler’s regent methods. Toxicity effect of different cyanide compounds on bacterial growth was determined using minimum inhibitory concentration. In addition, the ability of the isolated bacterium to utilize different cyanide compounds was investigated . Identification of the isolate was undertaken using morphological, physiological and biochemical characteristics and molecular analysis .   Results : A bacterium with ability to degrade cyanide as sole carbon and nitrogen source was isolated from soil. This bacterium named as isolate MF1. MF1 degraded cyanide in growth medium in alkaline condition after 40 hours. Moreover this isolate tolerated more than 7 mM potassium cyanide. The results showed that there was a direct relation between decreasing of cyanide concentration, increasing of ammonia concentration and growth of MF1. In addition, the isolated bacterium demonstrated the ability to utilize different cyanide compounds as sole carbon and nitrogen source. The results of morphological and physiological characteristics showed that this bacterium belonged to the Serratia sp. Moreover, 16S rDNA sequencing and phylogenetic analyses exhibited that MF1 strain was similar to Serratia

  3. Comparative study on biochemical activity of the intestinal isolates Lactobacillus sp. V3 and Bifidobacterium sp. A71 in different substrates

    Directory of Open Access Journals (Sweden)

    JOSIP BARAS

    2001-09-01

    Full Text Available The two intestinal isolates Lactobacillus sp. V3 and Bifidobacterium sp. A71 were selected for soymilk fermentation according to their acidification activity in soymilk. Beetroot juice and carrot juice were chosen for soymilk supplementation as additional sources of carbohydrates and brewer's yeast as an extra source of nitrogen. The fermentation was carried out for eight hours at 42°C. The fermentation was monitored by standard analytical and microbiological tests for changes of acidity (decreasing pH and increasing acid content, the contents of soluble dry substances, sugars and a-amino acids as well as changes in the number of viable cells. The samples were collected at the beginning and subsequently every two hours until the end of the fermentation. The results showed that there were differences between the tested isolates in terms of their ability to ferment soymilk. The mix with brewer's yeast had a better stimulating effect on the growth of both strains compared to those with juices alone. In addition, the carrot juice stimulated the growth of Bifidobacterium sp. A71 better than beetroot juice, while the opposite effect was found for the growth of Lactobacillus sp. V3.

  4. Isolation and Characterization of an Atypical Metschnikowia sp. Strain from the Skin Scraping of a Dermatitis Patient.

    Science.gov (United States)

    Kuan, Chee Sian; Ismail, Rokiah; Kwan, Zhenli; Yew, Su Mei; Yeo, Siok Koon; Chan, Chai Ling; Toh, Yue Fen; Na, Shiang Ling; Lee, Kok Wei; Hoh, Chee-Choong; Yee, Wai-Yan; Ng, Kee Peng

    2016-01-01

    A yeast-like organism was isolated from the skin scraping sample of a stasis dermatitis patient in the Mycology Unit Department of Medical Microbiology, University Malaya Medical Centre (UMMC), Kuala Lumpur, Malaysia. The isolate produced no pigment and was not identifiable using chromogenic agar and API 20C AUX. The fungus was identified as Metschnikowia sp. strain UM 1034, which is close to that of Metschnikowia drosophilae based on ITS- and D1/D2 domain-based phylogenetic analysis. However, the physiology of the strain was not associated to M. drosophilae. This pathogen exhibited low sensitivity to all tested azoles, echinocandins, 5-flucytosine and amphotericin B. This study provided insight into Metschnikowia sp. strain UM 1034 phenotype profiles using a Biolog phenotypic microarray (PM). The isolate utilized 373 nutrients of 760 nutrient sources and could adapt to a broad range of osmotic and pH environments. To our knowledge, this is the first report of the isolation of Metschnikowia non-pulcherrima sp. from skin scraping, revealing this rare yeast species as a potential human pathogen that may be misidentified as Candida sp. using conventional methods. Metschnikowia sp. strain UM 1034 can survive in flexible and diverse environments with a generalist lifestyle.

  5. Isolation and Characterization of an Atypical Metschnikowia sp. Strain from the Skin Scraping of a Dermatitis Patient.

    Directory of Open Access Journals (Sweden)

    Chee Sian Kuan

    Full Text Available A yeast-like organism was isolated from the skin scraping sample of a stasis dermatitis patient in the Mycology Unit Department of Medical Microbiology, University Malaya Medical Centre (UMMC, Kuala Lumpur, Malaysia. The isolate produced no pigment and was not identifiable using chromogenic agar and API 20C AUX. The fungus was identified as Metschnikowia sp. strain UM 1034, which is close to that of Metschnikowia drosophilae based on ITS- and D1/D2 domain-based phylogenetic analysis. However, the physiology of the strain was not associated to M. drosophilae. This pathogen exhibited low sensitivity to all tested azoles, echinocandins, 5-flucytosine and amphotericin B. This study provided insight into Metschnikowia sp. strain UM 1034 phenotype profiles using a Biolog phenotypic microarray (PM. The isolate utilized 373 nutrients of 760 nutrient sources and could adapt to a broad range of osmotic and pH environments. To our knowledge, this is the first report of the isolation of Metschnikowia non-pulcherrima sp. from skin scraping, revealing this rare yeast species as a potential human pathogen that may be misidentified as Candida sp. using conventional methods. Metschnikowia sp. strain UM 1034 can survive in flexible and diverse environments with a generalist lifestyle.

  6. Isolement d'une chrysophyte amylolytique, Poterioochromonas sp., de l'intestin du termite Reticulitermes santonensis

    Directory of Open Access Journals (Sweden)

    Tarayre, C.

    2014-01-01

    Full Text Available Isolation of an amylolytic chrysophyte, Poterioochromonas sp., from the digestive tract of the termite Reticulitermes santonensis. The aim of this work was the isolation and cultivation of amylolytic protists living in the digestive tract of the termite Reticulitermes santonensis (Feytaud. A chrysophyte identified as Poterioochromonas sp. was isolated in a special medium containing rice grains as a source of carbon and nitrogen. Then, the protist was grown in a medium containing starch as a carbon source, tryptone, and a phosphate buffer at different pH values (5, 6 and 7. Yeast extract was added or not. Ciprofloxacin was used to avoid the bacterial development. Other antibiotics were also tested but showed an inhibitive effect on the growth of Poterioochromonas sp. Yeast extract allowed reaching 1.9 (pH 5, 2.3 (pH 6 and 2.2 (pH 7 times higher final cell concentrations, and 2.8 (pH 5, 2.8 (pH 6 and 2.2 (pH 7 times higher biomass yields. The starch concentration did not decrease in the medium until 3 and 4 days of culture, with and without yeast extract, respectively. Eight days of culture were necessary for hydrolyzing the starch completely, with and without yeast extract. Maltose and maltotriose were detected in the culture media and were hydrolyzed progressively. Maximal maltose concentrations were 0.68, 0.66 and 0.51 g·l-1 in the medium containing yeast extract. Maltotriose concentrations were only 0.17, 0.14 and 0.12 g·l-1. Other glucose oligomers were also detected but in lower quantities. It was determined that the protist developed a weak amylase activity, particularly at a weakly acidic pH (5-6. Such a pH also allowed a better growth of the protist. A maximal amylase activity of 112 nkat·l-1 was measured with yeast extract at pH 5. No other enzymatic activity (protease, cellulase or xylanase was detected except amylase. The degradation products of starch, which were obtained by enzymatic hydrolysis, allow the identification of

  7. Dickeya solani sp. nov., a pectinolytic plant-pathogenic bacterium isolated from potato (Solanum tuberosum).

    Science.gov (United States)

    van der Wolf, Jan M; Nijhuis, Els H; Kowalewska, Malgorzata J; Saddler, Gerry S; Parkinson, Neil; Elphinstone, John G; Pritchard, Leighton; Toth, Ian K; Lojkowska, Ewa; Potrykus, Marta; Waleron, Malgorzata; de Vos, Paul; Cleenwerck, Ilse; Pirhonen, Minna; Garlant, Linda; Hélias, Valérie; Pothier, Joël F; Pflüger, Valentin; Duffy, Brion; Tsror, Leah; Manulis, Shula

    2014-03-01

    Pectinolytic bacteria have been recently isolated from diseased potato plants exhibiting blackleg and slow wilt symptoms found in a number of European countries and Israel. These Gram-reaction-negative, motile, rods were identified as belonging to the genus Dickeya, previously the Pectobacterium chrysanthemi complex (Erwinia chrysanthemi), on the basis of production of a PCR product with the pelADE primers, 16S rRNA gene sequence analysis, fatty acid methyl esterase analysis, the production of phosphatases and the ability to produce indole and acids from α-methylglucoside. Differential physiological assays used previously to differentiate between strains of E. chrysanthemi, showed that these isolates belonged to biovar 3. Eight of the isolates, seven from potato and one from hyacinth, were analysed together with 21 reference strains representing all currently recognized taxa within the genus Dickeya. The novel isolates formed a distinct genetic clade in multilocus sequence analysis (MLSA) using concatenated sequences of the intergenic spacer (IGS), as well as dnaX, recA, dnaN, fusA, gapA, purA, rplB, rpoS and gyrA. Characterization by whole-cell MALDI-TOF mass spectrometry, pulsed field gel electrophoresis after digestion of whole-genome DNA with rare-cutting restriction enzymes, average nucleotide identity analysis and DNA-DNA hybridization studies, showed that although related to Dickeya dadantii, these isolates represent a novel species within the genus Dickeya, for which the name Dickeya solani sp. nov. (type strain IPO 2222(T) = LMG25993(T) = NCPPB4479(T)) is proposed.

  8. Halococcus hamelinensis sp. nov., a novel halophilic archaeon isolated from stromatolites in Shark Bay, Australia.

    Science.gov (United States)

    Goh, Falicia; Leuko, Stefan; Allen, Michelle A; Bowman, John P; Kamekura, Masahiro; Neilan, Brett A; Burns, Brendan P

    2006-06-01

    Several halophilic archaea belonging to the genus Halococcus were isolated from stromatolites from Hamelin Pool, Shark Bay, Western Australia, collected during field trips in 1996 and 2002. This is the first incidence of halophilic archaea being isolated from this environment. Stromatolites are biosedimentary structures that have been formed throughout the earth's evolutionary history and have been preserved in the geological record for over 3 billion years. The stromatolites from Hamelin Pool, Western Australia, are the only known example of extant stromatolites forming in hypersaline coastal environments. Based on their 16S rRNA gene sequences and morphology, the isolates belong to the genus Halococcus. Strain 100NA1, isolated from stromatolites collected in 2002, was closely related to strain 100A6(T) that was isolated from the stromatolites collected in 1996, with a DNA-DNA hybridization value of 94 +/- 8 %. DNA-DNA hybridization values of strain 100A6(T) with Halococcus morrhuae NRC 16008 and Halococcus saccharolyticus ATCC 49257(T) were 17 +/- 6 and 11 +/-7 %, respectively. The DNA G + C content of strain 100A6(T) was 60.5 mol% (T(m)). The main polar lipid was S-DGA-1, a sulphated glycolipid that has been detected in all strains of the genus Halococcus. Whole-cell protein profiles, enzyme composition and utilization of various carbon sources were distinct from those of all previously characterized Halococcus species. The recognition of this strain as representing a novel species within the genus Halococcus is justified, and the name Halococcus hamelinensis sp. nov. is proposed. The type strain is 100A6(T) (=JCM 12892(T) = ACM 5227(T)).

  9. Mycobacterium talmoniae sp. nov., a slowly growing mycobacterium isolated from human respiratory samples.

    Science.gov (United States)

    Davidson, Rebecca M; DeGroote, Mary Ann; Marola, Jamie L; Buss, Sarah; Jones, Victoria; McNeil, Michael R; Freifeld, Alison G; Elaine Epperson, L; Hasan, Nabeeh A; Jackson, Mary; Iwen, Peter C; Salfinger, Max; Strong, Michael

    2017-08-01

    A novel slowly growing, non-chromogenic species of the class Actinobacteria was isolated from a human respiratory sample in Nebraska, USA, in 2012. Analysis of the internal transcribed spacer sequence supported placement into the genus Mycobacterium with high sequence similarity to a previously undescribed strain isolated from a patient respiratory sample from Oregon, USA, held in a collection in Colorado, USA, in 2000. The two isolates were subjected to phenotypic testing and whole genome sequencing and found to be indistinguishable. The bacteria were acid-fast stain-positive, rod-shaped and exhibited growth after 7-10 days on solid media at temperatures ranging from 25 to 42°C. Colonies were non-pigmented, rough and slightly raised. Analyses of matrix-assisted laser desorption ionization time-of-flight profiles showed no matches against a reference library of 130 mycobacterial species. Full-length 16S rRNA gene sequences were identical for the two isolates, the average nucleotide identity (ANI) between their genomes was 99.7 % and phylogenetic comparisons classified the novel mycobacteria as the basal most species in the slowly growing Mycobacterium clade. Mycobacterium avium is the most closely related species based on rpoB gene sequence similarity (92 %), but the ANI between the genomes was 81.5 %, below the suggested cut-off for differentiating two species (95 %). Mycolic acid profiles were more similar to M. avium than to Mycobacterium simiae or Mycobacterium abscessus. The phenotypic and genomic data support the conclusion that the two related isolates represent a novel Mycobacterium species for which the name Mycobacterium talmoniae sp. nov. is proposed. The type strain is NE-TNMC-100812T (=ATCC BAA-2683T=DSM 46873T).

  10. Cyclodextrin glycosyltransferase production by new Bacillus sp. strains isolated from brazilian soil

    Science.gov (United States)

    Menocci, Vivian; Goulart, Antonio José; Adalberto, Paulo Roberto; Tavano, Olga Luisa; Marques, Daniela Parreira; Contiero, Jonas; Monti, Rubens

    2008-01-01

    Three strains of Bacillus sp. (BACRP, BACNC-1 and BACAR) were isolated from soil adhered to cassava husk. CGTase specific activity for the three isolated strains was higher when cultivated at 40°C. Potato starch, cassava starch, maltodextrin and glucose were used as carbon source and growth temperatures varied from 25 to 55°C. The three isolates presented higher CGTase specific activity when cultivated with potato starch at 40°C. Isolated BACRP and BACAR presented specific activity of 4.0×10–3 and 2.2×10–3 U/mg prot at pH 7.0, respectively, when cultivated in mediums added with NaCl 2%; at pH 10,0 their activities were of 3.4×10–3 and 3.0×10–3 U/mg prot, respectively, in the same concentration of NaCl. On the other hand, the isolated BACNC-1 presented activity specific of 2.4×10–3 U/mg prot when cultivated at pH 7.0 added of NaCl 1%, and at pH 10.0 the specific activity was of 3.4×10–3 U/mg prot without NaCl addition. This work also showed the presence of cyclodextrins formed during fermentation process and that precipitation with acetone or lyophilization followed by dialysis was efficient at removing CDs (cyclodextrins), thus, eliminating interference in the activity assays. The enzyme produced by the BACAR strain was partially purified and β-CD was liberated as a reaction product. PMID:24031289

  11. Identification and taxonomic characterization of Bordetella pseudohinzii sp. nov. isolated from laboratory-raised mice.

    Science.gov (United States)

    Ivanov, Yury V; Linz, Bodo; Register, Karen B; Newman, Jeffrey D; Taylor, Dawn L; Boschert, Kenneth R; Le Guyon, Soazig; Wilson, Emily F; Brinkac, Lauren M; Sanka, Ravi; Greco, Suellen C; Klender, Paula M; Losada, Liliana; Harvill, Eric T

    2016-12-01

    Bordetella hinzii is known to cause respiratory disease in poultry and has been associated with a variety of infections in immunocompromised humans. In addition, there are several reports of B. hinzii infections in laboratory-raised mice. Here we sequenced and analysed the complete genome sequences of multiple B. hinzii-like isolates, obtained from vendor-supplied C57BL/6 mice in animal research facilities on different continents, and we determined their taxonomic relationship to other Bordetella species. The whole-genome based and 16S rRNA gene based phylogenies each identified two separate clades in B. hinzii, one was composed of strains isolated from poultry, humans and a rabbit whereas the other clade was restricted to isolates from mice. Distinctly different estimated DNA-DNA hybridization values, average nucleotide identity scores, gene content, metabolic profiles and host specificity all provide compelling evidence for delineation of the two species, B. hinzii - from poultry, humans and rabbit - and Bordetella pseudohinzii sp. nov. type strain 8-296-03T (=NRRL B-59942T=NCTC 13808T) that infect mice.

  12. Bacillus niabensis sp. nov., isolated from cotton-waste composts for mushroom cultivation.

    Science.gov (United States)

    Kwon, Soon-Wo; Lee, Seon-Young; Kim, Byung-Yong; Weon, Hang-Yeon; Kim, Jung-Bong; Go, Seung-Joo; Lee, Gil-Bok

    2007-08-01

    A group of five bacilli, designated strains 4T12, 4T19(T), 5M45, 5M53 and 5T52, isolated from cotton-waste composts for mushroom cultivation, were examined. These strains were Gram-positive, aerobic, motile, spore-forming rods. 16S rRNA gene sequence analyses revealed that the isolates belonged to the genus Bacillus, showing the highest levels of similarity (approx. 96.6-96.9 %) with respect to Bacillus herbersteinensis DSM 16534(T). The values for DNA-DNA hybridization (approx. 85-96 %) among these five strains revealed that they belong to the same species. The major menaquinone present was MK-7 and the predominant cellular fatty acids were anteiso-C(15 : 0) (approx. 24.5-33.9 %) and C(16 : 0) (approx. 15.1-34.1 %). The DNA G+C contents were 37.7-40.9 mol%. On the basis of physiological, biochemical, chemotaxonomic and comparative genomic analyses, the five isolates represent a novel species of the genus Bacillus, for which the name Bacillus niabensis sp. nov. is proposed. The type strain is 4T19(T) (=KACC 11279(T) =DSM 17723(T)).

  13. Streptococcus ovuberis sp. nov., isolated from a subcutaneous abscess in the udder of a sheep.

    Science.gov (United States)

    Zamora, Leydis; Pérez-Sancho, Marta; Fernández-Garayzábal, Jose Francisco; Orden, Jose Antonio; Domínguez-Bernal, Gustavo; de la Fuente, Ricardo; Domínguez, Lucas; Vela, Ana Isabel

    2017-11-01

    One unidentified, Gram-stain-positive, catalase-negative coccus-shaped organism was recovered from a subcutaneous abscess of the udder of a sheep and subjected to a polyphasic taxonomic analysis. Based on cellular morphology and biochemical criteria, the isolate was tentatively assigned to the genus Streptococcus, although the organism did not appear to match any recognized species. 16S rRNA gene sequence comparison studies confirmed its identification as a member of the genus Streptococcus and showed that the nearest phylogenetic relatives of the unknown coccus corresponded to Streptococcus moroccensis and Streptococcus cameli (95.9 % 16S rRNA gene sequence similarity). The sodA sequence analysis showed less than 89.3 % sequence similarity with the currently recognized species of the genus Streptococcus. The novel bacterial isolate was distinguished from close relatives of the genus Streptococcusby using biochemical tests. A mass spectrometry profile was also obtained for the novel isolate using matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS). Based on both phenotypic and phylogenetic findings, it is proposed that the unknown bacterium be classified as a representative of a novel species of the genus Streptococcus, Streptococcus ovuberis sp. nov. The type strain of Streptococcus ovuberissp. nov. is VB15-00779 T (=CECT 9179 T =CCUG 69612 T ).

  14. Streptococcus pharyngis sp. nov., a novel streptococcal species isolated from the respiratory tract of wild rabbits.

    Science.gov (United States)

    Vela, Ana I; Casas-Díaz, Encarna; Lavín, Santiago; Domínguez, Lucas; Fernández-Garayzábal, Jose F

    2015-09-01

    Four isolates of an unknown Gram-stain-positive, catalase-negative coccus-shaped organism, isolated from the pharynx of four wild rabbits, were characterized by phenotypic and molecular genetic methods. The micro-organisms were tentatively assigned to the genus Streptococcus based on cellular morphological and biochemical criteria, although the organisms did not appear to correspond to any species with a validly published name. Comparative 16S rRNA gene sequencing confirmed their identification as members of the genus Streptococcus, being most closely related phylogenetically to Streptococcus porcorum 682-03(T) (96.9% 16S rRNA gene sequence similarity). Analysis of rpoB and sodA gene sequences showed divergence values between the novel species and S. porcorum 682-03(T) (the closest phylogenetic relative determined from 16S rRNA gene sequences) of 18.1 and 23.9%, respectively. The novel bacterial isolate could be distinguished from the type strain of S. porcorum by several biochemical characteristics, such as the production of glycyl-tryptophan arylamidase and α-chymotrypsin, and the non-acidification of different sugars. Based on both phenotypic and phylogenetic findings, it is proposed that the unknown bacterium be assigned to a novel species of the genus Streptococcus, and named Streptococcus pharyngis sp. nov. The type strain is DICM10-00796B(T) ( = CECT 8754(T) = CCUG 66496(T)).

  15. Isolation, Identification, and Characterization of Cadmium Resistant Pseudomonas sp. M3 from Industrial Wastewater

    Directory of Open Access Journals (Sweden)

    Syed Zaghum Abbas

    2014-01-01

    Full Text Available The present study deals with the isolation, identification, and characterization of the cadmium resistant bacteria from wastewater collected from industrial area of Penang, Malaysia. The isolate was selected based on high level of the cadmium and antibiotic resistances. On the basis of morphological, biochemical characteristics, 16S rDNA gene sequencing and phylogeny analysis revealed that the strain RZCd1 was authentically identified as Pseudomonas sp. M3. The industrial isolate showed more than 70% of the cadmium removal in log phase. The cadmium removal capacity of strain RZCd1 was affected by temperature and pH. At pH 7.0 and 35°C, strain RZCd1 showed maximum cadmium removal capacity. The minimal inhibitory concentration of strain RZCd1 against the cadmium was 550 µg/mL. The resistance against the cadmium was associated with resistance to multiple antibiotics: amoxicillin, penicillin, cephalexin, erythromycin, and streptomycin. The strain RZCd1 also gave thick bands of proteins in front of 25 kDa in cadmium stress condition after 3 h of incubation. So the identified cadmium resistant bacteria may be useful for the bioremediation of cadmium contaminated industrial wastewater.

  16. Anti-Parasitic Compounds from Streptomyces sp. Strains Isolated from Mediterranean Sponges

    Directory of Open Access Journals (Sweden)

    Heidrun Moll

    2010-02-01

    Full Text Available Actinomycetes are prolific producers of pharmacologically important compounds accounting for about 70% of the naturally derived antibiotics that are currently in clinical use. In this study, we report on the isolation of Streptomyces sp. strains from Mediterranean sponges, on their secondary metabolite production and on their screening for anti-infective activities. Bioassay-guided isolation and purification yielded three previously known compounds namely, cyclic depsipeptide valinomycin, indolocarbazole alkaloid staurosporine and butenolide. This is the first report of the isolation of valinomycin from a marine source. These compounds exhibited novel anti-parasitic activities specifically against Leishmania major (valinomycin IC50 < 0.11 µM; staurosporine IC50 5.30 µM and Trypanosoma brucei brucei (valinomycin IC50 0.0032 µM; staurosporine IC50 0.022 µM; butenolide IC50 31.77 µM. These results underscore the potential of marine actinomycetes to produce bioactive compounds as well as the re-evaluation of previously known compounds for novel anti-infective activities.

  17. Methylobacterium gossipiicola sp. nov., a pink-pigmented, facultatively methylotrophic bacterium isolated from the cotton phyllosphere.

    Science.gov (United States)

    Madhaiyan, Munusamy; Poonguzhali, Selvaraj; Senthilkumar, Murugaiyan; Lee, Jung-Sook; Lee, Keun-Chul

    2012-01-01

    A pink, aerobic, facultatively methylotrophic, motile, Gram-negative rod, designated Gh-105(T), was isolated from the phyllosphere of cotton from Coimbatore (Tamilnadu, India). 16S rRNA gene sequence analysis showed clearly that the isolate belonged to the Methylobacterium cluster. Strain Gh-105(T) was most closely related to Methylobacterium adhaesivum AR27(T) (99% 16S rRNA gene sequence similarity) and Methylobacterium iners 5317S-33(T) (97.5%). The isolate grew with C(1) compounds such as methanol and dichloromethane, but not with formaldehyde, formate, methylamine, trimethylamine or methane, as sole carbon sources and carried mxaF, which encodes methanol dehydrogenase and supports methylotrophic metabolism. The major fatty acid was C(18:1)ω7c and the G+C content of the genomic DNA was 64.2 mol%. Physiological and biochemical data and DNA-DNA relatedness with M. adhaesivum KACC 12195(T) and M. iners KACC 11765(T) revealed clear phenotypic and genotypic differences. For this reason, we propose that strain Gh-105(T) (=CCM 7572(T) =NRRL B-51692(T)) represents the type strain of a novel species, with the name Methylobacterium gossipiicola sp. nov.

  18. Methylobacterium cerastii sp. nov., isolated from the leaf surface of Cerastium holosteoides.

    Science.gov (United States)

    Wellner, S; Lodders, N; Kämpfer, P

    2012-04-01

    Two Gram-stain-negative, non-endospore-forming, rod-like strains, designated C15T and C44, were isolated from the phyllosphere of Cerastium holosteoides and were studied in detail in order to assess their taxonomic position. 16S rRNA gene sequence analysis allocated both isolates clearly to the genus Methylobacterium. Both strains showed the highest 16S rRNA gene sequence similarity to Methylobacterium marchantiae JT1T (97.5 %) and Methylobacterium jeotgali S2R03-9T (97.4 %). The fatty acid profiles contained major amounts of C16:0, C18:1ω7c and C16:1ω7c/iso-C15:0 2-OH (summed feature 3), which supported the grouping of the isolates in the genus Methylobacterium. Physiological/biochemical characterization and DNA-DNA hybridizations with the type strains of the most closely related species allowed a clear phenotypic and genotypic differentiation of the strains. For this reason, we propose for strain C15T (=DSM 23679T=CCUG 60040T=CCM 7788T) a novel species with the name Methylobacterium cerastii sp. nov. Strain C44 (=DSM 23675=CCM 7789) is an additional strain of M. cerastii.

  19. Paenibacillus castaneae sp. nov., isolated from the phyllosphere of Castanea sativa Miller.

    Science.gov (United States)

    Valverde, Angel; Peix, Alvaro; Rivas, Raúl; Velázquez, Encarna; Salazar, Sergio; Santa-Regina, Ignacio; Rodríguez-Barrueco, Claudino; Igual, José M

    2008-11-01

    A bacterial strain, designated Ch-32(T), was isolated from the phyllosphere of Castanea sativa in Spain. Phylogenetic analysis based on 16S rRNA gene sequences placed the isolate in the genus Paenibacillus within the same subgroup as Paenibacillus xinjiangensis and Paenibacillus glycanilyticus, with similarities of 96.3 and 96.8 %, respectively. DNA-DNA hybridization values for strain Ch-32(T) with these two species were lower than 20 %. The novel isolate was a Gram-variable, motile, sporulating rod. It produced catalase and oxidase and hydrolysed cellulose, gelatin and aesculin. Acetoin and urease production, nitrate reduction and starch hydrolysis were negative. Growth was supported by many carbohydrates and organic acids as carbon sources. MK-7 was the only menaquinone detected and anteiso-C(15 : 0), iso-C(16 : 0) and C(16 : 0) were the major fatty acids. The DNA G+C content was 46 mol%. Phylogenetic, DNA relatedness and phenotypic analyses showed that strain Ch-32(T) should be classified as a novel species of the genus Paenibacillus, for which the name Paenibacillus castaneae sp. nov. is proposed; the type strain is Ch-32(T) (=CECT 7279(T)=DSM 19417(T)).

  20. Lactococcus petauri sp. nov., isolated from an abscess of a sugar glider.

    Science.gov (United States)

    Goodman, Laura B; Lawton, Marie R; Franklin-Guild, Rebecca J; Anderson, Renee R; Schaan, Lynn; Thachil, Anil J; Wiedmann, Martin; Miller, Claire B; Alcaine, Samuel D; Kovac, Jasna

    2017-11-01

    A strain of lactic acid bacteria, designated 159469T, isolated from a facial abscess in a sugar glider, was characterized genetically and phenotypically. Cells of the strain were Gram-stain-positive, coccoid and catalase-negative. Morphological, physiological and phylogenetic data indicated that the isolate belongs to the genus Lactococcus. Strain 159469T was closely related to Lactococcus garvieae ATCC 43921T, showing 95.86 and 98.08 % sequence similarity in 16S rRNA gene and rpoB gene sequences, respectively. Furthermore, a pairwise average nucleotide identity blast (ANIb) value of 93.54 % and in silico DNA-DNA hybridization value of 50.7  % were determined for the genome of strain 159469T, when compared with the genome of the type strain of Lactococcus garvieae. Based on the data presented here, the isolate represents a novel species of the genus Lactococcus, for which the name Lactococcus petauri sp. nov. is proposed. The type strain is 159469T (=LMG 30040T=DSM 104842T).

  1. Lactobacillus uvarum sp. nov.--a new lactic acid bacterium isolated from Spanish Bobal grape must.

    Science.gov (United States)

    Mañes-Lázaro, Rosario; Ferrer, Sergi; Rosselló-Mora, Ramón; Pardo, Isabel

    2008-12-01

    Five strains isolated from grape musts in Spain in 1997, have been characterized by several molecular techniques, and three of them have been identified as pertaining to a new species. All strains are Gram-positive rods, aerotolerant and homofermentative bacteria that do not exhibit catalase activity. Phylogenetic analysis based on 16S rRNA gene sequences placed these strains within the genus Lactobacillus, closely related to Lactobacillus mali. DNA-DNA hybridization experiments confirmed that strain 71 belongs to the lately described species L. satsumensis, strain 88 belongs to L. mali and the other three isolates have an independent status at species level. Restriction analysis of the amplified 16S rRNA gene (16S-ARDRA), internal spacer region (ISR) analysis, random amplified polymorphism DNA (RAPD) and ribotyping were performed in order to establish genotypic similarities and differences between the new species and their closest species. The three isolates can be genetically differentiated from their closest relatives by RAPD analysis and ribotyping. Phenotypically, they can be distinguished by several traits such as their ability to grow at pH 3.3 and NaCl 5% (w/v) and by certain carbohydrate fermentations. The name L. uvarum sp. nov. is proposed. The type strain is 8T (=DSM 19971T = colección española de cultivos tipo (CECT) 7335T).

  2. Abyssisolibacter fermentans gen. nov. sp. nov., isolated from deep sub-seafloor sediment.

    Science.gov (United States)

    Kim, Wonduck; Lee, Jung-Hyun; Kwon, Kae Kyoung

    2016-05-01

    A Gram-staining-negative, thin rod-shaped, anaerobic bacterium designated MCWD3(T) was isolated from sediment of the deep sea in Ulleung Basin, East Sea, Korea. The ranges of temperature, pH and NaCl for growth of this strain were 15-40°C (optimum 29°C), 5.0-10.0 (optimum pH 6.5), and 1-5%, respectively. The major fatty acids were iso-C(15:0) (30%) and iso-C(15:0) dimethyl acetal (17%). The major polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, and unidentified aminophospholipids, phospholipids, and aminolipids. The fermentation product from yeast extract was acetate. Phylogenetic analysis based on 16S rRNA genes indicated that the isolate was related to Sporosalibacterium faouarense (92.8% sequence identity), Clostridiisalibacter paucivorans (92.6%), and Brassicibacter mesophilus (92.4%). However, the isolate was differentiated from these genera by both physiological and chemotaxonomical properties. On the basis of a polyphasic taxonomic analysis, we propose that MCWD3(T) represents a novel taxon with the name Abyssisolibacter fermentans gen. nov. sp. nov.

  3. Pseudomonas kribbensis sp. nov., isolated from garden soils in Daejeon, Korea.

    Science.gov (United States)

    Chang, Dong-Ho; Rhee, Moon-Soo; Kim, Ji-Sun; Lee, Yookyung; Park, Mi Young; Kim, Haseong; Lee, Seung-Goo; Kim, Byoung-Chan

    2016-11-01

    Two bacterial strains, 46-1 and 46-2(T), were isolated from garden soil. These strains were observed to be aerobic, Gram-stain negative, rod-shaped, non-spore-forming, motile and catalase and oxidase positive. Phylogenetic analysis based on 16S rRNA gene sequences showed that the two strains shared 100 % sequence similarity with each other and belong to the genus Pseudomonas in the class Gammaproteobacteria. The concatenated 16S rRNA, gyrB, rpoB and rpoD gene sequences further confirmed that the isolates belong to the Pseudomonas koreensis subgroup (SG), with P. koreensis Ps 9-14(T), Pseudomonas moraviensis 1B4(T) and Pseudomonas granadensis F-278,770(T) as their close relatives (>96 % pairwise similarity). DNA-DNA hybridization with the closely related type strain P. koreensis SG revealed a low level of relatedness (15 %) in the isolates but it was a minor component (Pseudomonas, for which the name Pseudomonas kribbensis sp. nov. is proposed; the type strain is 46-2(T) (=KCTC 32541(T) = DSM 100278(T)).

  4. Phomalevones A-C: dimeric and pseudodimeric polyketides from a fungicolous Hawaiian isolate of Phoma sp. (Cucurbitariaceae).

    Science.gov (United States)

    Shim, Sang Hee; Baltrusaitis, Jonas; Gloer, James B; Wicklow, Donald T

    2011-03-25

    Phomalevones A-C (1-3), three new com-pounds with bis-dihydroxanthone and bis-benzophenone systems, were isolated from cultures of a Hawaiian isolate of Phoma sp. (MYC-1734 = NRRL 39060; Cucurbitariaceae). The structures of 1-3 were determined by analysis of NMR and MS data. The absolute configurations of the sp(3) stereocenters in the monomeric unit of 1 were assigned by application of Mosher's method, and overall absolute configurations were proposed on the basis of ECD data using both computational methods and comparisons with literature data for model compounds. All three compounds showed antibacterial activity, and compounds 2 and 3 also exhibited antifungal effects.

  5. Antifungal compounds of Xylaria sp., an endophytic fungus isolated from Palicourea marcgravii (Rubiaceae); Substancias antifungicas de Xylaria sp., um fungo endofitico isolado de Palicourea marcgravii (Rubiaceae)

    Energy Technology Data Exchange (ETDEWEB)

    Cafeu, Mariana C.; Silva, Geraldo H.; Teles, Helder L.; Bolzani, Vanderlan da S.; Araujo, Angela R. [UNESP, Araraquara, SP (Brazil). Inst. de Quimica]. E-mail: araujoar@iq.unesp.br; Young, Maria Claudia M. [Instituto de Botanica, Sao Paulo, SP (Brazil). Secao de Fisiologia e Bioquimica de Plantas; Pfenning, Ludwig H. [Universidade Federal de Lavras, MG (Brazil). Dept. de Fitopatologia

    2005-11-15

    Five compounds, 2-hexyl-3-methyl-butanodioic acid (1), cytochalasin D (2), 7-dechlorogriseofulvin (3), cytochalasin B (4) and griseofulvin (5), have been isolated from the endophytic fungus Xylaria sp., and their structures were elucidated on the basis of spectroscopic data. In the bioautography assay against Cladosporium cladosporioides and Cladosporium sphaerospermum, compounds 1 and 2 were found to be active while compounds 3, 4 and 5 did not show antifungal activity. (author)

  6. Biodegradation of stored jet fuel by a Nocardia sp. isolated from contaminated soil

    Directory of Open Access Journals (Sweden)

    Edelvio de Barros Gomes

    2009-10-01

    Full Text Available The aim of this study was to investigate the potential of degradation of an autochthonous bacterial strain, isolated from petroleum derivatives contaminated soil samples against jet fuel hydrocarbons. The autochthonous bacterial strain was characterized as Nocardia sp. Evaluation of their degrading abilities was carried out by presumptive assays as redox indicator test and by observations of surface tension decreases in aqueous medium. Degradation of jet fuel hydrocarbons was evaluated by chromatographic methods. Experiments were performed in flasks at two biostimulation rates. A bacterial strain of Pseudomonas aeruginosa UFPEDA 39 was utilized as a reference microorganism. The bacterial strain, identified as Nocardia sp, demonstrate high ability to degrade jet fuel compounds as well as to produce surface active compounds when compared to the reference microrganism.O presente estudo objetivou a investigação da capacidade degradadora de uma linhagem bacteriana autóctone (isolada de amostras de solo contaminadas com derivados de petróleo contra hidrocarbonetos de querosene de aviação. A linhagem foi caracterizada como Nocardia sp. A avaliação do seu potencial degradador deu-se realizada mediante testes com indicador redox e observações na redução da tensão superficial na fase aquosa. A degradação do querosene foi avaliada por métodos cromatográficos. Os experimentos foram realizados utilizando-se duas taxas de bioestímulo. Uma linhagem bacteriana Pseudomonas aeruginosa UFPEDA 39 foi utilizada como referência. A linhagem autóctone demonstrou alta eficiência na degradação de hidrocarbonetos do querosene bem como para produzir compostos ativos de superfície quando comparada com a linhagem de referência.

  7. Vibrio aphrogenes sp. nov., in the Rumoiensis clade isolated from a seaweed.

    Science.gov (United States)

    Tanaka, Mami; Endo, Shoko; Kotake, Fumihito; Al-Saari, Nurhidayu; Amin, A K M Rohul; Feng, Gao; Mino, Sayaka; Doi, Hidetaka; Ogura, Yoshitoshi; Hayashi, Tetsuya; Suda, Wataru; Hattori, Masahira; Yumoto, Isao; Sawabe, Toko; Sawabe, Tomoo; Araki, Toshiyoshi

    2017-01-01

    A novel strain Vibrio aphrogenes sp. nov. strain CA-1004T isolated from the surface of seaweed collected on the coast of Mie Prefecture in 1994 [1] was characterized using polyphasic taxonomy including multilocus sequence analysis (MLSA) and a genome based comparison. Both phylogenetic analyses on the basis of 16S rRNA gene sequences and MLSA based on eight protein-coding genes (gapA, gyrB, ftsZ, mreB, pyrH, recA, rpoA, and topA) showed the strain could be placed in the Rumoiensis clade in the genus Vibrio. Sequence similarities of the 16S rRNA gene and the multilocus genes against the Rumoiensis clade members, V. rumoiensis, V. algivorus, V. casei, and V. litoralis, were low enough to propose V. aphrogenes sp. nov. strain CA-1004T as a separate species. The experimental DNA-DNA hybridization data also revealed that the strain CA-1004T was separate from four known Rumoiensis clade species. The G+C content of the V. aphrogenes strain was determined as 42.1% based on the genome sequence. Major traits of the strain were non-motile, halophilic, fermentative, alginolytic, and gas production. A total of 27 traits (motility, growth temperature range, amylase, alginase and lipase productions, and assimilation of 19 carbon compounds) distinguished the strain from the other species in the Rumoiensis clade. The name V. aphrogenes sp. nov. is proposed for this species in the Rumoiensis clade, with CA-1004T as the type strain (JCM 31643T = DSM 103759T).

  8. Antibiotic susceptibility profiles of Mycoplasma sp. 1220 strains isolated from geese in Hungary.

    Science.gov (United States)

    Grózner, Dénes; Kreizinger, Zsuzsa; Sulyok, Kinga M; Rónai, Zsuzsanna; Hrivnák, Veronika; Turcsányi, Ibolya; Jánosi, Szilárd; Gyuranecz, Miklós

    2016-08-19

    Mycoplasma sp. 1220 can induce inflammation primarily in the genital and respiratory tracts of waterfowl, leading to serious economic losses. Adequate housing and appropriate antibiotic treatment are promoted in the control of the disease. The aim of the present study was to determine the in vitro susceptibility to thirteen different antibiotics and an antibiotic combination of thirty-eight M. sp. 1220 strains isolated from geese and a duck in several parts of Hungary, Central Europe between 2011 and 2015. High MIC50 values were observed in the cases of tilmicosin (>64 μg/ml), oxytetracycline (64 μg/ml), norfloxacin (>10 μg/ml) and difloxacin (10 μg/ml). The examined strains yielded the same MIC50 values with spectinomycin, tylosin and florfenicol (8 μg/ml), while enrofloxacin (MIC50 5 μg/ml), doxycycline (MIC50 5 μg/ml), lincomycin (MIC50 4 μg/ml) and lincomycin-spectinomycin (1:2) combination (MIC50 4 μg/ml) inhibited the growth of the bacteria with lower concentrations. Tylvalosin (MIC50 0.5 μg/ml) and two pleuromutilins (tiamulin MIC50 0.625 μg/ml; valnemulin MIC50 ≤ 0.039 μg/ml) were found to be the most effective drugs against M. sp. 1220. However, strains with elevated MIC values were detected for all applied antibiotics. Valnemulin, tiamulin and tylvalosin were found to be the most effective antibiotics in the study. Increasing resistance was observed in the cases of several antibiotics. The results highlight the importance of testing Mycoplasma species for antibiotic susceptibility before therapy.

  9. Gliotoxin Isolated from Marine Fungus Aspergillus sp. Induces Apoptosis of Human Cervical Cancer and Chondrosarcoma Cells

    Directory of Open Access Journals (Sweden)

    Van-Tinh Nguyen

    2013-12-01

    Full Text Available Gliotoxin, a secondary metabolite produced by marine fungus Aspergillus sp., possesses various biological activities including anticancer activity. However, the mechanism underlying gliotoxin-induced cytotoxicity on human cervical cancer (Hela and human chondrosarcoma (SW1353 cells remains unclear. In this study, we focused on the effect of gliotoxin induction on apoptosis, the activating expressions of caspase family enzymes in the cells. Apoptotic cell levels were measured through DAPI and Annexin V/Propidium Iodide (PI double staining analysis. The apoptotic protein expression of Bcl-2 and caspase family was detected by Western blot in Hela and SW1353 cells. Our results showed that gliotoxin treatment inhibited cell proliferation and induced significant morphological changes. Gliotoxin induced apoptosis was further confirmed by DNA fragmentation, chromatin condensation and disrupted mitochondrial membrane potential. Gliotoxin-induced activation of caspase-3, caspase-8 and caspase-9, down-regulation of Bcl-2, up-regulation of Bax and cytochromec (cyt c release showed evidence for the gliotoxin activity on apoptosis. These findings suggest that gliotoxin isolated from marine fungus Aspergillus sp. induced apoptosis in Hela and SW1353 cells via the mitochondrial pathway followed by downstream events leading to apoptotic mode of cell death.

  10. Production and characterization of cyclodextrin glycosyltransferase from Bacillus sp. isolated from Cuban

    Directory of Open Access Journals (Sweden)

    Kárel Hernández Sánchez

    2014-12-01

    Full Text Available A cyclodextrin glycosyltransferase (CGTase from an alkaliphilic Bacillus sp. strain, isolated from Cuban soil, was purified with Sephadex G-50 with a yield of 66.5%. The CGTase was stable over a very wide pH range, 6.0–10, at 25°C and was most active at pH 7.5. The enzyme exhibited an optimum temperature of 60°C and was stable to 50°C for at least 8 h. The T50 value – defined as the temperature at which 50% of the initial activity was retained–was 63°C in this enzyme. The influence of substrate or product concentration on the initial rate of CD production was studied, and the kinetic parameters were determined. The analysis of kinetic parameters Km and Vmax was obtained by the action of CGTase on the starch of corn with respect to β-CD, and the values were 4.1 g/L and 5.2 μM β-CD/min ml, respectively. The purified CGTase from Bacillus sp. could be used for an efficient cyclodextrin (CD production which is the significant yield of γ- CDs.

  11. Pichia cecembensis sp. nov. isolated from a papaya fruit (Carica papaya L., Caricaceae).

    Science.gov (United States)

    Bhadra, Bhaskar; Sreenivas Rao, R; Naveen Kumar, N; Chaturvedi, Preeti; Sarkar, Partha K; Shivaji, S

    2007-06-01

    The ascogenous yeast YS16T was isolated from a decaying papaya fruit. Phenotypic traits such as multilateral budding, spheroidal or elongate shape, pseudohyphae formation, asci with one or more ascospores, ability to ferment d-glucose, inability to assimilate nitrate and the presence of Q7 ubiquinone suggest its affiliation to the genus Pichia. The nearest phylogenetic neighbor, based on D1/D2 domain sequence of the 26S rRNA gene and ITS region sequence, was identified as Issatchenkia orientalis (NRRL Y-5396T, a synonym of Pichia kudriavzevii) with similarities of 98.2% and 97% respectively. In addition to the difference in the D1/D2 and ITS region sequence, YS16T differs from I. orientalis with respect to a number of phenotypic traits. However, in the phylogenetic analysis, YS16T showed close relatedness to the P. membranifaciens clade. Thus, it is proposed to assign the status of a new species to YS16T, for which the name P. cecembensis sp. nov. is proposed. The type strain of P. cecembensis sp. nov. is YS16T (=NRRL Y-27985T=JCM 13873T=CBS 10445T).

  12. Crude bacterial extracts of two new Streptomyces sp. isolates as bio-colorants for textile dyeing.

    Science.gov (United States)

    Kramar, Ana; Ilic-Tomic, Tatjana; Petkovic, Milos; Radulović, Niko; Kostic, Mirjana; Jocic, Dragan; Nikodinovic-Runic, Jasmina

    2014-08-01

    Renewed demand for incorporation of natural dyes (bio-colorants) in textile industry could be met through biotechnological production of bacterial pigments. Two new Streptomyces strains (NP2 and NP4) were isolated for the remarkable ability to produce diffusible deep blue and deep red pigment into fermentation medium. Crude mycelial extracts of both strains were used as bio-colorants in conventional textile dyeing procedures avoiding downstream purification procedures. The yields of bio-colorants obtained in this way were 62 and 84 mg per g of mycelia for Streptomyces sp. NP2 and Streptomyces sp. NP4, respectively. Through nuclear magnetic resonance analysis of crude extracts before and after dyeing procedures, it was shown that both extracts contained prodigiosin-like family of compounds that exhibited different dyeing capabilities towards different textile fibers. Polyamide and acrylic fibers were colored to the deepest shade, polyester and triacetate fibers to a noticeable, but much lower shade depth, while cotton and cellulosic fibers stained weakly. These results confirmed that crude bacterial extracts had the characteristics similar to those of ionic and disperse dyes, which was consistent with the identified polypyrrolic prodigiosin-like structures.

  13. Biohydrogen production from a novel alkalophilic isolate Clostridium sp. IODB-O3.

    Science.gov (United States)

    Patel, Anil Kumar; Debroy, Arundhati; Sharma, Sandeep; Saini, Reetu; Mathur, Anshu; Gupta, Ravi; Tuli, Deepak Kumar

    2015-01-01

    Hydrogen producing bacteria IODB-O3 was isolated from sludge and identified as Clostridium sp. by 16S rDNA gene analysis. In this study, biohydrogen production process was developed using low-cost agro-waste. Maximum H2 was produced at 37°C and pH 8.5. Maximum H2 yield was obtained 2.54±0.2mol-H2/mol-reducing sugar from wheat straw pre-hydrolysate (WSPH) and 2.61±0.1mol-H2/mol-reducing sugar from pre-treated wheat straw enzymatic-hydrolysate (WSEH). The cumulative H2 production (ml/L), 3680±105 and 3270±100, H2 production rate (ml/L/h), 153±5 and 136±5, and specific H2 production (ml/g/h), 511±5 and 681±10 with WSPH and WSEH were obtained, respectively. Biomass pre-treatment via steam-explosion generates ample amount of WSPH which remains unutilized for bioethanol production due to non-availability of efficient C5-fermenting microorganisms. This study shows that Clostridium sp. IODB-O3 is capable of utilizing WSPH efficiently for biohydrogen production. This would lead to reduced economic constrain on the overall cellulosic ethanol process and also establish a sustainable biohydrogen production process. Copyright © 2014 Elsevier Ltd. All rights reserved.

  14. Rhizobium vallis sp. nov., isolated from nodules of three leguminous species.

    Science.gov (United States)

    Wang, Fang; Wang, En Tao; Wu, Li Juan; Sui, Xin Hua; Li, Ying; Chen, Wen Xin

    2011-11-01

    Four bacterial strains isolated from root nodules of Phaseolus vulgaris, Mimosa pudica and Indigofera spicata plants grown in the Yunnan province of China were identified as a lineage within the genus Rhizobium according to the analysis of 16S rRNA gene sequences, sharing most similarity with Rhizobium lusitanum P1-7(T) (99.1 % sequence similarity) and Rhizobium rhizogenes IAM 13570(T) (99.0 %). These strains also formed a distinctive group from the reference strains for defined species of the genus Rhizobium in a polyphasic approach, including the phylogenetic analyses of the 16S rRNA gene and housekeeping genes (recA, atpD, glnII), DNA-DNA hybridization, BOX-PCR fingerprinting, phenotypic characterization, SDS-PAGE of whole-cell proteins, and cellular fatty acid profiles. All the data obtained in this study suggested that these strains represent a novel species of the genus Rhizobium, for which the name Rhizobium vallis sp. nov. is proposed. The DNA G+C content (mol%) of this species varied between 60.9 and 61.2 (T(m)). The type strain of R. vallis sp. nov. is CCBAU 65647(T) ( = LMG 25295(T) =HAMBI 3073(T)), which has a DNA G+C content of 60.9 mol% and forms effective nodules on Phaseolus vulgaris.

  15. Identification of New Lactone Derivatives Isolated from Trichoderma sp., An Endophytic Fungus of Brotowali (Tinaspora crispa

    Directory of Open Access Journals (Sweden)

    ELFITA

    2014-03-01

    Full Text Available Endophytic fungi is a rich source of novel organic compounds with interesting biological activities and a high level of structural diversity. As a part of our systematic search for new bioactive lead structures and specific profiles from endophytic fungi, an endophytic fungus was isolated from roots of brotowali (Tinaspora crispa, an important medicinal plant. Colonial morphological trait and microscopic observation revealed that the endophytic fungus was Trichoderma sp. The pure fungal strain was cultivated on 7 L Potatos Dextose Broth (PDB medium under room temperature (no shaking for 8 weeks. The ethyl acetate were added to cultur medium and left overnight to stop cell growth. The culture filtrates were collected and extracted with EtOAc and then taken to evaporation. Two new lactone derivatives, 5-hydroxy-4-hydroxymethyl-2H-pyran-2-one (1 and (5-hydroxy-2-oxo-2H pyran-4-yl methyl acetate (2 were obtained from the EtOAc extracts of Trichoderma sp. Their structures were determined on the basic of spectroscopic methods including UV, IR, 1H-NMR, 13C-NMR, HMQC, and HMBC.

  16. Degradation of terephthalic acid by a newly isolated strain of Arthrobacter sp.0574

    Directory of Open Access Journals (Sweden)

    Yi-Mei Zhang

    2013-07-01

    Full Text Available Terephthalic acid is an important industrial chemical but its production typically generates 3–10 tons of wastewater, which is a significant source of pollution. Although recent research has shown that terephthalic acid can be degraded by physical and chemical methods, these methods are complex and expensive. Microbial degradation of terephthalic acid is a popular alternative because it is environmentally friendly. We isolated a Gram-positive strain capable of growing aerobically on terephthalic acid as the sole carbon and energy source. It was identified as Arthrobacter sp. by 16S rDNA sequencing and its physiological and biochemical characteristics. For terephthalic acid degradation, the optimal temperature of the resting cells was 30 °C, optimal shaking speed was 150 rpm, the most suitable pH was 7.0, and the ability to degrade terephthalic acid was inhibited by concentrations of terephthalic acid above 10 g/L.

  17. Noncontiguous finished genome sequence and description of Fusobacterium massiliense sp. nov. isolated from human duodenum

    Directory of Open Access Journals (Sweden)

    M. Mailhe

    2017-03-01

    Full Text Available The strain Marseille-P2749T (= CSUR P2749=DSM 103085 was isolated as part of culturomics study from a liquid duodenum sample from a French man. Bacterial cells were Gram-negative bacilli, fusiform shaped and non–spore forming, and they grew in microaerophilic and anaerobic atmosphere. Its genome is 1 809 169 bp long and contains 1646 protein-coding genes. The DNA G+C content was 27.33 mol%. This strain exhibited a 95.9% sequence similarity with Fusobacterium periodonticum, the phylogenetically closest species with standing in nomenclature. Strain Marseille-P2749T is suggested to be a novel species belonging to the genus Fusobacterium, for which the name Fusobacterium massiliense sp. nov. is proposed.

  18. Chelatococcus composti sp. nov., isolated from penicillin fermentation fungi residue with pig manure co-compost.

    Science.gov (United States)

    Zhang, Zhenhua; Zhao, Juan; Yu, Cigang; Dong, Shanshan; Duan, Huiyin; Yu, Ran; Liu, Yan; Wang, Changyong

    2017-03-01

    A novel Gram-stain-negative bacterium, designated strain PC-2T, was isolated from penicillin fermentation fungi residue with pig manure co-compost in China. Phylogenetic analysis, based on 16S rRNA gene sequence comparisons, revealed that strain PC-2T should be assigned to the genus Chelatococcus and that it had 98.9 % similarity with Chelatococcus daeguensis, 98.8 % with Chelatococcus sambhunathii, 98.4 %, with Chelatococcus caeni and 96.0 % with Chelatococcus asaccharovorans. The G+C content of genomic DNA was 70.9 mol%. On the basis of the phylogenetic analysis, DNA-DNA relatedness values, phenotypic characteristics and chemotaxonomic data, strain PC-2 T represents a novel species of the genus Chelatococcus, for which the name Chelatococcus composti sp. nov. is proposed. The type strain is PC-2T (=DSM 101465T=CGMCC 1.15283T).

  19. Identification and cloning of first cadmium metallothionein like gene from locally isolated ciliate, Paramecium sp.

    Science.gov (United States)

    Shuja, Rukhsana Nighat; Shakoori, Abdul Rauf

    2009-03-01

    First cadmium metallothionein like gene PMCd1 of a ciliate, Paramecium sp., isolated from industrial wastewater has been cloned and sequenced. PMCd1 is an intronless gene, encoding 612 nucleotides, with TAA coding for glutamine. The coding region of PMCd1 comprises 203 amino acids, including 37 cysteine residues with a conserved structural pattern in the form of recurring structural motifs, arranged in 17 x-cys-x-y-cys-x, 1 x-cys-cys-x and x-cys-x contexts. Both, the deduced amino acids and nucleotide sequence differ, not only from other animal metallothioneins (MTs), but also from the previously characterized Tetrahymena Cu and Cd-MTs. The translated protein of PMCd1 contains conserved cysteine residues, peculiar characteristic of stress inducible metallothionein genes of ciliates and other groups of organisms.

  20. Thermophilic amylase from Thermus sp. isolation and its potential application for bioethanol production

    Directory of Open Access Journals (Sweden)

    Amin Fatoni

    2012-11-01

    Full Text Available Limited reserves of fossil energy stimulate researchers to explore for a new alternative energy, such as bioethanol.A thermophilic amylase producing bacterium was isolated from local hot-springs and its characteristic and potential applicationfor bioethanol production was determined. The obtained amylase was studied to determine its optimum temperature, pH,enzymatic reaction time, and substrate concentration. Tapioca waste was used as the substrate to find the potential of theamylase for degrading starch into glucose, and then the process was continued by fermentation to produce bioethanol. Theamylase producer bacterium was proposed as genus Thermus sp. The crude amylase that was obtained has the optimumtemperature of 60°C and optimum pH of 8.0, optimum substrate concentration at 10% (w/w and optimum enzymatic reactiontime of 45 minutes. These enzymes convert the starches of waste tapioca at optimum conditions, with the result of 2.9%ethanol produced from raw materials.

  1. Draft genome sequence of phenol degrading Acinetobacter sp. Strain V2, isolated from oil contaminated soil.

    Science.gov (United States)

    Sharma, Vikas; Lin, Johnson

    We report here the draft genome sequence of Acinetobacter sp. Strain V2 isolated from the oil contaminated soil collected from ENGEN, Amanzimtoti, South Africa. Degradation of phenolic compounds such as phenol, toluene, aniline etc. at 400ppm in 24h and oil degrading capability makes this organism an efficient multifunctional bioremediator. Genome sequencing of Acinetobacter spp. V2 was carried out on Illumina HiSeq 2000 platform (performed by the Beijing Genomics Institute [BGI], Shenzhen, China). The data obtained revealed 643 contigs with genome size of 4.0 Mb and G+C content of 38.59%. Copyright © 2016 Sociedade Brasileira de Microbiologia. Published by Elsevier Editora Ltda. All rights reserved.

  2. Microbial production of uracil by an isolated Methylobacterium sp. WJ4 using methanol.

    Science.gov (United States)

    Lee, Wangjun; Kim, Sangwoo; Song, Insu; Kwon, Yuhyun; Park, Soohyun; Oh, Byung-Keun; Oh, Han Bin; Lee, Jinwon

    2018-04-01

    In this study, we report the production of uracil from methanol by an isolated methylotrophic bacterium, Methylobacterium sp. WJ4. The use of methanol as alternative carbon feedstock is attractive option in biotechnology. As a feedstock of biotechnological processes, methanol has distinct advantages over methane. This is not only due to physical and chemical considerations, but also to the properties of the pertinent organisms. Besides, with a wide array of biological activities and synthetic accessibility, uracil is considered as privileged structures in drug discovery. Uracil analogues have been applied to treatments of patients with cancer or viral infections. In this respect, it is meaningful to produce uracil using methanol. The effect of process parameters and methanol concentration for uracil production were investigated and optimized. Uracil production was remarkably increased to 5.76mgg cell dry weight -1 in optimized condition. The results were significant for further understanding of methylotrophic bacteria on uracil production. Copyright © 2017 Elsevier Inc. All rights reserved.

  3. Isolation, structure and biological activity of phomafungin, a cyclic lipodepsipeptide from a widespread tropical Phoma sp.

    Science.gov (United States)

    Herath, Kithsiri; Harris, Guy; Jayasuriya, Hiranthi; Zink, Deborah; Smith, Scott; Vicente, Francisca; Bills, Gerald; Collado, Javier; González, Antonio; Jiang, Bo; Kahn, Jennifer Nielsen; Galuska, Stefan; Giacobbe, Robert; Abruzzo, George; Hickey, Emily; Liberator, Paul; Xu, Deming; Roemer, Terry; Singh, Sheo B

    2009-02-01

    We isolated a cyclic lipodepsipeptide, phomafungin, from a Phoma sp. The distinct antifungal activity of phomafungin in the crude extract was initially discovered by mechanistic profiling in the Candida albicans fitness test. The purified compound contains a 28 member ring consisting of eight amino acids and a beta-hydroxy-gamma-methyl-hexadecanoic acid, and displays a broad spectrum of antifungal activity against Candida spp., Aspergillus fumigatus and Trichophyton mentagrophytes with MIC of 2-8 microg/ml, and toxicity to mice at 25 mg/kg. The linear peptide derived from opening of the lactone ring was devoid of antifungal activity as well as toxicity. Phomafungin has been identified in a number of Phoma spp. collected from Africa and the Indian and Pacific Ocean islands.

  4. Draft genome sequence of Thermoanaerobacterium sp. strain PSU-2 isolated from thermophilic hydrogen producing reactor.

    Science.gov (United States)

    O-Thong, Sompong; Khongkliang, Peerawat; Mamimin, Chonticha; Singkhala, Apinya; Prasertsan, Poonsuk; Birkeland, Nils-Kåre

    2017-06-01

    Thermoanaerobacterium sp. strain PSU-2 was isolated from thermophilic hydrogen producing reactor and subjected to draft genome sequencing on 454 pyrosequencing and annotated on RAST. The draft genome sequence of strain PSU-2 contains 2,552,497 bases with an estimated G + C content of 35.2%, 2555 CDS, 8 rRNAs and 57 tRNAs. The strain had a number of genes responsible for carbohydrates metabolic, amino acids and derivatives, and protein metabolism of 17.7%, 14.39% and 9.81%, respectively. Strain PSU-2 also had gene responsible for hydrogen biosynthesis as well as the genes related to Ni-Fe hydrogenase. Comparative genomic analysis indicates strain PSU-2 shares about 94% genome sequence similarity with Thermoanaerobacterium xylanolyticum LX-11. The nucleotide sequence of this draft genome was deposited into DDBJ/ENA/GenBank under the accession MSQD00000000.

  5. Activation of macrophages by an exopolysaccharide isolated from Antarctic Psychrobacter sp. B-3

    Science.gov (United States)

    Yu, Leiye; Sun, Guojie; Wei, Jingfang; Wang, Yingze; Du, Chao; Li, Jiang

    2016-09-01

    An exopolysaccharide (EPS) was isolated and purified from an Antarctic psychrophilic bacterium B-3, identified as Psychrobacter sp., and the activation of RAW264.7 cells by B-3 EPS was investigated. The results show that B-3 EPS, over a certain concentration range, promoted cell viability, nitric oxide production, tumor necrosis factor (TNF)α secretion, and phagocytic ability. Furthermore, TAK-242, an inhibitor of the toll-like receptor 4 (TLR4) significantly reduced nitric oxide production by these cells after stimulation with B-3 EPS. Moreover, B-3 EPS induced p65 phosphorylation and IκBα degradation in these cells. In conclusion, B-3 EPS might have activated RAW264.7 cells by combining with TLR4 on cell surface and triggering activation of NF-κB signaling pathways, implying that this EPS could activate macrophages and regulate initial immune response.

  6. Physicochemical parameters optimization, and purification of phycobiliproteins from the isolated Nostoc sp.

    Science.gov (United States)

    Johnson, Eldin M; Kumar, Kanhaiya; Das, Debabrata

    2014-08-01

    The present study investigated the effects of several physicochemical parameters on the improvement of phycobiliproteins (especially phycocyanin) synthesis in a newly isolated species of Nostoc sp. Standard BG11₀ medium was modified to enhance the biomass productivity in different photobioreactors. The initial pH of 8, light intensity of 40 μmol m(-2)s(-1), temperature of 35 °C, diurnal cycle of 16:8 h (light:dark regime), 75.48 μM Na₂CO₃ and 17.65 mM NaNO₃ were found most suitable for the phycobiliproteins synthesis. Cyanobacteria exhibited chromatic adaptation, causing overexpression of phycocyanin in red and phycoerythrin in green light. The maximum phycobiliproteins yield of 0.13 gg(-1) dry cell weight was obtained in green light. Phycocyanin was further purified using thin layer chromatography (TLC), anion exchange chromatography and SDS-PAGE (denaturing gel) electrophoresis. Copyright © 2014 Elsevier Ltd. All rights reserved.

  7. Tellurite resistance and reduction by a Paenibacillus sp. isolated from heavy metal-contaminated sediment.

    Science.gov (United States)

    Chien, Chih-Ching; Han, Chu-Ting

    2009-08-01

    A gram-positive bacterium (designated as strain TeW) that is highly resistant to tellurite was isolated from sediment. The bacterium can grow in the presence of up to 2,000 micromol/L of potassium tellurite (K2TeO3). Reduction of K2TeO3 to tellurium was indicated by the blackening of the growth medium. No lag in growth was observed when cells unexposed to tellurite were transferred to the growth medium containing K2TeO3, indicating that resistance to tellurite was not inducible. Up to 50 and 90% of the metalloid oxyanion tellurite (TeO(3)(2-)) was removed from the medium by strain TeW during growth in nonstatic (shaking) and static (without shaking) conditions, respectively. The bacterium was identified as a Paenibacillus sp. according to its morphology, physiology, and 16S rDNA sequence homology.

  8. Mycobacterium eburneum sp. nov., a non-chromogenic, fast-growing strain isolated from sputum.

    Science.gov (United States)

    Nouioui, Imen; Carro, Lorena; Teramoto, Kanae; Igual, José M; Jando, Marlen; Del Carmen Montero-Calasanz, Maria; Sutcliffe, Iain; Sangal, Vartul; Goodfellow, Michael; Klenk, Hans-Peter

    2017-09-01

    A polyphasic study was undertaken to establish the taxonomic position of a non-chromogenic, rapidly growing Mycobacterium strain that had been isolated from sputum. The strain, CECT 8775T, has chemotaxonomic and cultural properties consistent with its classification in the genus Mycobacterium and was distinguished from the type strains of closely related mycobacterial species, notably from Mycobacterium paraense DSM 46749T, its nearest phylogenetic neighbour, based on 16S rRNA, hsp65 and rpoB gene sequence data. These organisms were also distinguished by a broad range of chemotaxonomic and phenotypic features and by a digital DNA-DNA relatedness value of 22.8 %. Consequently, the strain is considered to represent a novel species of Mycobacterium for which the name Mycobacterium eburneum sp. nov is proposed; the type strain is X82T (CECT 8775T=DSM 44358T).

  9. Piperine production by endophytic fungus Periconia sp. isolated from Piper longum L.

    Science.gov (United States)

    Verma, Vijay C; Lobkovsky, Emil; Gange, Alan C; Singh, Santosh K; Prakash, Satya

    2011-06-01

    The endophytic fungus Periconia sp. produces piperine (5-(3, 4-methylenedioxyphenyl)-1-piperidinopent-2, 4-dien-1-one) under liquid culture. This is the first report of the alternative source for this chemical other than its host, Piper longum. The highly functionalized fungus-derived piperine exhibits strong antimycobacterial activity against Mycobacterium tuberculosis and M. smegmetis with minimum inhibitory concentrations of 1.74 and 2.62 μg ml(-1), respectively. The compound was crystallized and the structure was elucidated by single-crystal X-ray crystallography. This finding is of significance as piperine is a potential cancer preventative agent. It is reaffirmed by this report that important pharmaceuticals can be produced by endophytic microbes, and these molecules appear to be mimetic to their host origin. Therefore, we can enhance the bioactive principles of medicinal plants by isolating and identifying the endophytes, thereby showing the importance of preserving the biodiversity of these plants.

  10. Legionella thermalis sp. nov., isolated from hot spring water in Tokyo, Japan.

    Science.gov (United States)

    Ishizaki, Naoto; Sogawa, Kazuyuki; Inoue, Hiroaki; Agata, Kunio; Edagawa, Akiko; Miyamoto, Hiroshi; Fukuyama, Masafumi; Furuhata, Katsunori

    2016-03-01

    Strain L-47(T) of a novel bacterial species belonging to the genus Legionella was isolated from a sample of hot spring water from Tokyo, Japan. The 16S rRNA gene sequences (1477 bp) of this strain (accession number AB899895) had less than 95.0% identity with other Legionella species. The dominant fatty acids of strain L-47(T) were a15:0 (29.6%) and the major ubiquinone was Q-12 (71.1%). It had a guanine-plus-cytosine content of 41.5 mol%. The taxonomic description of Legionella thermalis sp. nov. is proposed to be type strain L-47(T) (JCM 30970(T)  = KCTC 42799(T)). © 2016 The Societies and John Wiley & Sons Australia, Ltd.

  11. Bacillus purgationiresistans sp. nov., isolated from a drinking-water treatment plant.

    Science.gov (United States)

    Vaz-Moreira, Ivone; Figueira, Vânia; Lopes, Ana R; Lobo-da-Cunha, Alexandre; Spröer, Cathrin; Schumann, Peter; Nunes, Olga C; Manaia, Célia M

    2012-01-01

    A Gram-positive, aerobic, non-motile, endospore-forming rod, designated DS22(T), was isolated from a drinking-water treatment plant. Cells were catalase- and oxidase-positive. Growth occurred at 15-37 °C, at pH 7-10 and with Bacillus. Its closest phylogenetic neighbours were Bacillus horneckiae NRRL B-59162(T) (98.5% 16S rRNA gene sequence similarity), Bacillus oceanisediminis H2(T) (97.9%), Bacillus infantis SMC 4352-1(T) (97.4%), Bacillus firmus IAM 12464(T) (96.8%) and Bacillus muralis LMG 20238(T) (96.8%). DNA-DNA hybridization, and biochemical and physiological characterization allowed the differentiation of strain DS22(T) from its closest phylogenetic neighbours. The data supports the proposal of a novel species, Bacillus purgationiresistans sp. nov.; the type strain is DS22(T) (=DSM 23494(T)=NRRL B-59432(T)=LMG 25783(T)).

  12. Characterization of Actinomyces Isolates from Infected Root Canals of Teeth: Description of Actinomyces radicidentis sp. nov.

    Science.gov (United States)

    Collins, Matthew D.; Hoyles, Lesley; Kalfas, Sotos; Sundquist, Goran; Monsen, Tor; Nikolaitchouk, Natalia; Falsen, Enevold

    2000-01-01

    Two strains of a previously undescribed Actinomyces-like bacterium were recovered in pure culture from infected root canals of teeth. Analysis by biochemical testing and polyacrylamide gel electrophoresis of whole-cell proteins indicated that the strains closely resembled each other phenotypically but were distinct from previously described Actinomyces and Arcanobacterium species. Comparative 16S rRNA gene-sequencing studies showed the bacterium to be a hitherto unknown subline within a group of Actinomyces species which includes Actinomyces bovis, the type species of the genus. Based on phylogenetic and phenotypic evidence, we propose that the unknown bacterium isolated from human clinical specimens be classified as Actinomyces radicidentis sp. nov. The type strain of Actinomyces radicidentis is CCUG 36733. PMID:10970390

  13. Biodegradation of nicotine by a novel Strain Shinella sp. HZN1 isolated from activated sludge.

    Science.gov (United States)

    Jiang, Hong J; Ma, Yun; Qiu, Guo J; Wu, Fei L; Chen, Sheng L

    2011-01-01

    The nicotine-degrading bacterium HZN1 was isolated from activated sludge and identified as Shinella sp. based on its physiological characteristics and analysis of 16S rDNA gene. Strain HZN1 is capable of using nicotine as the sole carbon source in the mineral salts medium. The optimum temperature and pH for strain HZN1 growth and nicotine degradation were 30°C and 7.0, respectively. It could degrade approximately 100 % of 0.5 g L(-1) of nicotine within 9 h. Three intermediate metabolites were produced by the strain HZN1 and identified as cotinine, myosmine and nicotyrine using gas chromatography-mass spectrometry. This is the first report of nicotine-degrading strain from the genus of Shinella. The results showed that strain HZN1 could be potentially employed in bioremediation of nicotine. Our findings would provide a new insight into the biodegradation of nicotine.

  14. Rhizobium favelukesii sp. nov., isolated from the root nodules of alfalfa (Medicago sativa L).

    Science.gov (United States)

    Torres Tejerizo, Gonzalo; Rogel, Marco Antonio; Ormeño-Orrillo, Ernesto; Althabegoiti, María Julia; Nilsson, Juliet Fernanda; Niehaus, Karsten; Schlüter, Andreas; Pühler, Alfred; Del Papa, María Florencia; Lagares, Antonio; Martínez-Romero, Esperanza; Pistorio, Mariano

    2016-11-01

    Strains LPU83T and Or191 of the genus Rhizobium were isolated from the root nodules of alfalfa, grown in acid soils from Argentina and the USA. These two strains, which shared the same plasmid pattern, lipopolysaccharide profile, insertion-sequence fingerprint, 16S rRNA gene sequence and PCR-fingerprinting pattern, were different from reference strains representing species of the genus Rhizobium with validly published names. On the basis of previously reported data and from new DNA-DNA hybridization results, phenotypic characterization and phylogenetic analyses, strains LPU83T and Or191 can be considered to be representatives of a novel species of the genus Rhizobium, for which the name Rhizobium favelukesii sp. nov. is proposed. The type strain of this species is LPU83T (=CECT 9014T=LMG 29160T), for which an improved draft-genome sequence is available.

  15. Legionella cardiaca sp. nov., isolated from a case of native valve endocarditis in a human heart.

    Science.gov (United States)

    Pearce, Meghan M; Theodoropoulos, Nicole; Mandel, Mark J; Brown, Ellen; Reed, Kurt D; Cianciotto, Nicholas P

    2012-12-01

    A Gram-negative, rod-shaped bacterium, designated H63(T), was isolated from aortic valve tissue of a patient with native valve endocarditis. 16S rRNA gene sequencing revealed that H63(T) belongs to the genus Legionella, with its closest neighbours being the type strains of Legionella brunensis (98.8% similarity), L. londiniensis (97.0%), L. jordanis (96.8%), L. erythra (96.2%), L. dresdenensis (96.0%) and L. rubrilucens, L. feeleii, L. pneumophila and L. birminghamensis (95.7%). DNA-DNA hybridization studies yielded values of cardiaca sp. nov. is proposed. The type strain is H63(T) ( = ATCC BAA-2315(T)  = DSM 25049(T)  = JCM 17854(T)).

  16. Isolation of the New Antiplasmodial Butanolide, Malleastrumolide A, from Malleastrum sp. (Meliaceae) from Madagascar.

    Science.gov (United States)

    Du, Yongle; Abedi, Alexander K; Valenciano, Ana Lisa; Fernández-Murga, Maria L; Cassera, Maria B; Rasamison, Vincent E; Applequist, Wendy L; Miller, James S; Kingston, David G I

    2017-12-01

    An extract of Malleastrum sp. (Meliaceae) collected in Madagascar by the Madagascar International Cooperative Biodiversity Group was found to have antimalarial activity, with an IC 50 value between 2.5 and 5 μg ml -1 . After purification by liquid-liquid partition, chromatography on a Diaion open column, C 18 SPE and C 18 reversed phase HPLC, the new butanolide, malleastrumolide A, was isolated. The structure of malleastrumolide A was determined by mass spectrometry, NMR, and ECD. The double bond position was determined by cross-metathesis and mass spectrometry. The compound has antiproliferative activity against the A2780 ovarian cancer cell line with an IC 50 value of 17.4 μm and antiplasmodial activity against the drug-resistant Dd2 strain of Plasmodium falciparum with an IC 50 value of 2.74 μm. © 2017 Wiley-VHCA AG, Zurich, Switzerland.

  17. Co-metabolism of DDT by the newly isolated bacterium, Pseudoxanthomonas sp. wax

    Directory of Open Access Journals (Sweden)

    Guangli Wang

    2010-06-01

    Full Text Available Microbial degradation of 1,1,1-trichloro-2,2-bis(p-chlorophenylethane (DDT is the most promising way to clean up DDT residues found in the environment. In this paper, a bacterium designated as wax, which was capable of co-metabolizing DDT with other carbon sources, was isolated from a long-term DDT-contaminated soil sample by an enrichment culture technique. The new isolate was identified as a member of the Pseudoxanthomonas sp., based on its morphological, physiological and biochemical properties, as well as by 16S rRNA gene analysis. In the presence of 100 mg l-1 glucose, the wax strain could degrade over 95% of the total DDT, at a concentration of 20 mg l-1, in 72 hours, and could degrade over 60% of the total DDT, at a concentration of 100 mg l-1, in 144 hours. The wax strain had the highest degradation efficiency among all of the documented DDT-degrading bacteria. The wax strain could efficiently degrade DDT at temperatures ranging from 20 to 37ºC, and with initial pH values ranging from 7 to 9. The bacterium could also simultaneously co-metabolize 1,1-dichloro-2,2-bis(p-chlorophenylethane (DDD, 2,2-bis(p-chlorophenyl-1,1-dichlorethylene (DDE, and other organochlorine compounds. The wax strain could also completely remove 20 mg kg-1 of DDT from both sterile and non-sterile soils in 20 days. This study demonstrates the significant potential use of Pseudoxanthomonas sp. wax for the bioremediation of DDT in the environment.

  18. Streptococcus himalayensis sp. nov., isolated from the respiratory tract of Marmota himalayana.

    Science.gov (United States)

    Niu, Lina; Lu, Shan; Lai, Xin-He; Hu, Shoukui; Chen, Cuixia; Zhang, Gui; Yang, Jing; Jin, Dong; Wang, Yi; Lan, Ruiting; Lu, Gang; Xie, Yingping; Ye, Changyun; Xu, Jianguo

    2017-02-01

    Five strains of Gram-positive-staining, catalase-negative, coccus-shaped, chain-forming organisms isolated separately from the respiratory tracts of five Marmota himalayana animals in the Qinghai-Tibet Plateau of China were subjected to phenotypic and molecular taxonomic analyses. Comparative analysis of the 16S rRNA gene indicated that these singular organisms represent a new member of the genus Streptococcus, being phylogenetically closest to Streptococcus marmotae DSM 101995T (98.4 % similarity). The groEL, sodA and rpoB sequence analysis showed interspecies similarity values between HTS2T and Streptococcus. marmotae DSM 101995T, its closest phylogenetic relative based on 16S rRNA gene sequences, of 98.2, 78.8 and 93.7 %, respectively. A whole-genome phylogenetic tree built from 82 core genes of genomes from 16 species of the genus Streptococcus validated that HTS2T forms a distinct subline and exhibits specific phylogenetic affinity with S. marmotae. In silico DNA-DNA hybridization of HTS2T showed an estimated DNA reassociation value of 40.5 % with Streptococcus. marmotae DSM 101995T. On the basis of their phenotypic characteristics and phylogenetic findings, it is proposed that the five isolates be classified as representatives of a novel species of the genus Streptococcus, Streptococcus himalayensis sp. nov. The type strain is HTS2T (=DSM 101997T=CGMCC 1.15533T). The genome of Streptococcus himalayensis sp. nov. strain HTS2T contains 2195 genes with a size of 2 275 471 bp and a mean DNA G+C content of 41.3 mol%.

  19. Desulfuromonas svalbardensis sp nov and Desulfuromusa ferrireducens sp nov., psychrophilic, Fe(III)-reducing bacteria isolated from Arctic sediments, Svalbard

    DEFF Research Database (Denmark)

    Vandieken, V.; Mussmann, M.; Niemann, Hans Henrik

    2006-01-01

    . As alternatives to Fe(III), they reduced fumarate, S-0 and Mn(IV). Based on 16S rRNA gene sequence similarity, strain 112(T) was most closely related to Desulfuromonas acetoxidans (97.0%) and Desulfuromonas thiophila NZ27(T) (95.5 %), and strain 102(T) to Malonomonas rubra Gra Mal 1(T) (96.3%) and Desulfuromusa...... succinoxidans Gylac(T) (95.9%) within the Deltaproteobacteria. Strains 112(T) and 102(T) therefore represent novel species, for which the names Desulfuromonas svalbardensis sp. nov. (type strain 112(T) = DSM 16958(T) = JCM 12927(T)) and Desulfuromusa ferrireducens sp. nov. (type strain 102(T) = DSM 16956 (T...

  20. Leptospira mayottensis sp. nov., a pathogenic species of the genus Leptospira isolated from humans.

    Science.gov (United States)

    Bourhy, Pascale; Collet, Louis; Brisse, Sylvain; Picardeau, Mathieu

    2014-12-01

    A group of strains representing species of the genus Leptospira, isolated from patients with leptospirosis in Mayotte (Indian Ocean), were previously found to be considerably divergent from other known species of the genus Leptospira. This was inferred from sequence analysis of rrs (16S rRNA) and other genetic loci and suggests that they belong to a novel species. Two strains from each serogroup currently identified within this novel species were studied. Spirochaete, aerobic, motile, helix-shaped strains grew well at 30-37 °C, but not at 13 °C or in the presence of 8-azaguanine. Draft genomes of the strains were also analysed to study the DNA relatedness with other species of the genus Leptospira. The new isolates formed a distinct clade, which was most closely related to Leptospira borgpetersenii, in multilocus sequence analysis using concatenated sequences of the genes rpoB, recA, fusA, gyrB, leuS and sucA. Analysis of average nucleotide identity and genome-to-genome distances, which have recently been proposed as reliable substitutes for classical DNA-DNA hybridization, further confirmed that these isolates should be classified as representatives of a novel species. The G+C content of the genomic DNA was 39.5 mol%. These isolates are considered to represent a novel species, for which the name Leptospira mayottensis sp. nov. is proposed, with 200901116(T) ( = CIP 110703(T) = DSM 28999(T)) as the type strain. © 2014 IUMS.

  1. Flavobacterium plurextorum sp. nov. Isolated from Farmed Rainbow Trout (Oncorhynchus mykiss.

    Directory of Open Access Journals (Sweden)

    Leydis Zamora

    Full Text Available Five strains (1126-1H-08(T, 51B-09, 986-08, 1084B-08 and 424-08 were isolated from diseased rainbow trout. Cells were Gram-negative rods, 0.7 µm wide and 3 µm long, non-endospore-forming, catalase and oxidase positive. Colonies were circular, yellow-pigmented, smooth and entire on TGE agar after 72 hours incubation at 25°C. They grew in a temperature range between 15°C to 30°C, but they did not grow at 37°Cor 42°C. Based on 16S rRNA gene sequence analysis, the isolates belonged to the genus Flavobacterium. Strain 1126-1H-08(T exhibited the highest levels of similarity with Flavobacterium oncorhynchi CECT 7678(T and Flavobacterium pectinovorum DSM 6368(T (98.5% and 97.9% sequence similarity, respectively. DNA-DNA hybridization values were 87 to 99% among the five isolates and ranged from 21 to 48% between strain 1126-1H-08(T, selected as a representative isolate, and the type strains of Flavobacterium oncorhynchi CECT 7678(T and other phylogenetic related Flavobacterium species. The DNA G+C content of strain 1126-1H-08(T was 33.2 mol%. The predominant respiratory quinone was MK-6 and the major fatty acids were iso-C15∶0 and C15∶0. These data were similar to those reported for Flavobacterium species. Several physiological and biochemical tests differentiated the novel bacterial strains from related Flavobacterium species. Phylogenetic, genetic and phenotypic data indicate that these strains represent a new species of the genus Flavobacterium, for which the name Flavobacterium plurextorum sp. nov. was proposed. The type strain is 1126-1H-08(T ( = CECT 7844(T = CCUG 60112(T.

  2. Flavobacterium plurextorum sp. nov. Isolated from Farmed Rainbow Trout (Oncorhynchus mykiss)

    Science.gov (United States)

    Zamora, Leydis; Fernández-Garayzábal, José F.; Sánchez-Porro, Cristina; Palacios, Mari Angel; Moore, Edward R. B.; Domínguez, Lucas; Ventosa, Antonio; Vela, Ana I.

    2013-01-01

    Five strains (1126-1H-08T, 51B-09, 986-08, 1084B-08 and 424-08) were isolated from diseased rainbow trout. Cells were Gram-negative rods, 0.7 µm wide and 3 µm long, non-endospore-forming, catalase and oxidase positive. Colonies were circular, yellow-pigmented, smooth and entire on TGE agar after 72 hours incubation at 25°C. They grew in a temperature range between 15°C to 30°C, but they did not grow at 37°Cor 42°C. Based on 16S rRNA gene sequence analysis, the isolates belonged to the genus Flavobacterium. Strain 1126-1H-08T exhibited the highest levels of similarity with Flavobacterium oncorhynchi CECT 7678T and Flavobacterium pectinovorum DSM 6368T (98.5% and 97.9% sequence similarity, respectively). DNA–DNA hybridization values were 87 to 99% among the five isolates and ranged from 21 to 48% between strain 1126-1H-08T, selected as a representative isolate, and the type strains of Flavobacterium oncorhynchi CECT 7678T and other phylogenetic related Flavobacterium species. The DNA G+C content of strain 1126-1H-08T was 33.2 mol%. The predominant respiratory quinone was MK-6 and the major fatty acids were iso-C15∶0 and C15∶0. These data were similar to those reported for Flavobacterium species. Several physiological and biochemical tests differentiated the novel bacterial strains from related Flavobacterium species. Phylogenetic, genetic and phenotypic data indicate that these strains represent a new species of the genus Flavobacterium, for which the name Flavobacterium plurextorum sp. nov. was proposed. The type strain is 1126-1H-08T ( = CECT 7844T = CCUG 60112T). PMID:23825681

  3. Rhizobium nepotum sp. nov. isolated from tumors on different plant species.

    Science.gov (United States)

    Puławska, Joanna; Willems, Anne; De Meyer, Sofie E; Süle, Sandor

    2012-06-01

    Five Gram-negative, rod-shaped, non-spore-forming bacteria were isolated from galls on different plant species in Hungary: strain 39/7(T) from Prunus cerasifera Myrobalan, strain 0 from grapevine var. Ezerjó, strain 7/1 from raspberry var. Findus and in Poland, strain C3.4.1 from Colt rootstock (Prunus avium × Prunus pseudocerasus) and strain CP17.2.2 from Prunus avium. Only one of these isolates, strain 0, is able to cause crown gall on different plant species. On the basis of 16S rRNA gene sequence similarity, the strains cluster together and belong to the genus Rhizobium and their closest relative is Rhizobium radiobacter (99.1%). Phylogenetic analysis of the novel strains using housekeeping genes atpD, glnA, gyrB, recA and rpoB revealed their distinct position separate from other known Rhizobium species and confirmed their relation to Rhizobium radiobacter. The major cellular fatty acids are 18:1 w7c, 16:0, 16:0 3OH, summed feature 2 (comprising 12:0 aldehyde, 16:1 iso I and/or 14:0 3OH) and summed feature 3 (comprising 16:1 w7c and/or 15 iso 2OH). DNA-DNA hybridization of strain 39/7(T) with the type strain of R. radiobacter LMG 140(T) revealed 45% DNA-DNA hybridization. Phenotypic and physiological properties differentiate the novel isolates from other closely related species. On the basis of the results obtained, the five isolates are considered to represent a novel species of the genus Rhizobium, for which the name Rhizobium nepotum sp. nov. (type strain 39/7(T)=LMG 26435(T)=CFBP 7436(T)) is proposed. Copyright © 2012 Elsevier GmbH. All rights reserved.

  4. Characterisation of Pseudomonas spp. and Ochrobactrum sp. isolated from volcanic soil.

    Science.gov (United States)

    Mishra, Shashank Kumar; Khan, Mohammad Haneef; Misra, Sankalp; Dixit, Vijay Kant; Khare, Praveen; Srivastava, Suchi; Chauhan, Puneet Singh

    2017-02-01

    Soil bacteria may have properties of plant growth promotion but not be sufficiently beneficial for plants under stress conditions. This challenge has led researchers to extend their searches into extreme environments for potential soil bacteria with multiple plant beneficial traits as well as abiotic stress tolerance abilities. In the current study, an attempt was made to evaluate soil bacteria from an extreme environment, volcano soils, based on plant growth promoting and abiotic stress mitigating characteristics. The screening led to the isolation of eight (NBRISH4, NBRISH6, NBRISH10, NBRISH11, NBRISH13, NBRISH14, NBRISH16 and NBRISH26) bacterial isolates capable of withstanding stresses, namely temperature (up to 45 °C), salt (up to 2 M NaCl) and drought (up to 60% Poly Ethylene Glycol 6000) in vitro. Further, the selected isolates were notable for their in vitro temporal performance with regards to survival (in terms of colony count), phosphate solubilisation, biofilm formation, auxin, alginate and exo-polysaccharide production abilities under abiotic stresses i.e. 40 °C temperature; 500 mM NaCl salt and drought (PEG) conditions. In vivo seed treatments of individual selected bacteria to maize plants resulted into significant enhancement in root and shoot length, root and shoot fresh and dry weight and number of leaves per plant. Overall, the plant growth promoting and abiotic stress tolerance ability was most evident for bacterial isolate NBRISH6 which was identified as an Ochrobactrum sp. using 16S rRNA based phylogenetic analysis.

  5. Isolation of cellulase-producing bacteria and characterization of the cellulase from the isolated bacterium Cellulomonas sp. YJ5.

    Science.gov (United States)

    Yin, Li-Jung; Huang, Po-Shin; Lin, Hsin-Hung

    2010-09-08

    A cellulase-producing bacterium was isolated from soil and identified as Cellulomonas sp. YJ5. Maximal cellulase activity was obtained after 48 h of incubation at 30 degrees C in a medium containing 1.0% carboxymethyl cellulose (CMC), 1.0% algae powder, 1.0% peptone, 0.24% (NH4)2SO4, 0.20% K2HPO4, and 0.03% MgSO(4).7H2O. The cellulase was purified after Sephacryl S-100 chromatography twice with a recovery of 27.9% and purification fold of 17.5. It was, with N-terminal amino acids of AGTKTPVAK, stable at pH 7.5-10.5 and 20-50 degrees C with optimal pH and temperature of 7.0 and 60 degrees C, respectively. Cu2+, Fe2+, Hg2+, Cr3+, and SDS highly inhibited, but cysteine and beta-mercaptoethanol activated, its activity. Substrate specificity indicated it to be an endo-beta-1,4-glucanase.

  6. Isolation and Characterization of an Atypical Metschnikowia sp. Strain from the Skin Scraping of a Dermatitis Patient

    OpenAIRE

    Kuan, Chee Sian; Ismail, Rokiah; Kwan, Zhenli; Yew, Su Mei; Yeo, Siok Koon; Chan, Chai Ling; Toh, Yue Fen; Na, Shiang Ling; Lee, Kok Wei; Hoh, Chee-Choong; Yee, Wai-Yan; Ng, Kee Peng

    2016-01-01

    A yeast-like organism was isolated from the skin scraping sample of a stasis dermatitis patient in the Mycology Unit Department of Medical Microbiology, University Malaya Medical Centre (UMMC), Kuala Lumpur, Malaysia. The isolate produced no pigment and was not identifiable using chromogenic agar and API 20C AUX. The fungus was identified as Metschnikowia sp. strain UM 1034, which is close to that of Metschnikowia drosophilae based on ITS- and D1/D2 domain-based phylogenetic analysis. However...

  7. Marinomonas alcarazii sp. nov., M. rhizomae sp. nov., M. foliarum sp. nov., M. posidonica sp. nov. and M. aquiplantarum sp. nov., isolated from the microbiota of the seagrass Posidonia oceanica.

    Science.gov (United States)

    Lucas-Elío, Patricia; Marco-Noales, Ester; Espinosa, Elena; Ordax, Mónica; López, María M; Garcías-Bonet, Neus; Marbà, Nuria; Duarte, Carlos M; Sanchez-Amat, Antonio

    2011-09-01

    Five novel Gram-reaction-negative aerobic marine bacterial strains with DNA G+C contents IVIA-Po-14b(T), IVIA-Po-145(T) and IVIA-Po-155(T) were closely related to Marinomonas pontica 46-16(T), according to phylogenetic analysis. However, DNA-DNA hybridization values IVIA-Po-181(T) and IVIA-Po-159(T), were found to be closely related to M. dokdonensis DSW10-10(T) but DNA-DNA relatedness levels IVIA-Po-14b(T )( = CECT 7730(T)  = NCIMB 14671(T)), IVIA-Po-145(T) ( = CECT 7377(T)  = NCIMB 14431(T)), IVIA-Po-155(T) ( = CECT 7731(T)  = NCIMB 14672(T)), IVIA-Po-181(T) ( = CECT 7376(T)  = NCIMB 14433(T)) and IVIA-Po-159(T) ( = CECT 7732(T)  = NCIMB 14673(T)) represent novel species, for which the names Marinomonas alcarazii sp. nov., Marinomonas rhizomae sp. nov., Marinomonas foliarum sp. nov., Marinomonas posidonica sp. nov. and Marinomonas aquiplantarum sp. nov. are proposed, respectively.

  8. Complete genome sequence of Hymenobacter sp. strain PAMC26554, an ionizing radiation-resistant bacterium isolated from an Antarctic lichen.

    Science.gov (United States)

    Oh, Tae-Jin; Han, So-Ra; Ahn, Do-Hwan; Park, Hyun; Kim, Augustine Yonghwi

    2016-06-10

    A Gram-negative, rod-shaped, red-pink in color, and UV radiation-resistant bacterium Hymenobacter sp. strain PAMC26554 was isolated from Usnea sp., an Antarctic lichen, and belongs to the class of Cytophagia and the phylum of Bacteroidetes. The complete genome of Hymenobacter sp. PAMC26554 consists of one chromosome (5,244,843bp) with two plasmids (199,990bp and 6421bp). The genomic sequence indicates that Hymenobacter sp. strain PAMC26554 possesses several genes involved in the nucleotide excision repair pathway that protects damaged DNA. This complete genome information will help us to understand its adaptation and novel survival strategy in the Antarctic extreme cold environment. Copyright © 2016 Elsevier B.V. All rights reserved.

  9. Nocardiopsis arabia sp. nov., a halotolerant actinomycete isolated from a sand-dune soil.

    Science.gov (United States)

    Hozzein, Wael N; Goodfellow, Michael

    2008-11-01

    The taxonomic status of an unknown actinomycete isolated from a sand-dune soil was established using a polyphasic approach. Isolate S186(T) had chemotaxonomic and morphological properties consistent with its classification in the genus Nocardiopsis, grew on agar plates at NaCl concentrations of up to 15 % (w/v) and formed a distinct phyletic line in the Nocardiopsis 16S rRNA gene sequence tree. Its closest phylogenetic neighbours were Nocardiopsis chromatogenes, Nocardiopsis composta, Nocardiopsis gilva and Nocardiopsis trehalosi, with sequence similarity to the various type strains of 96.9 %, but it was readily distinguished from the type strains of these and related species using a range of phenotypic properties. It is apparent from the genotypic and phenotypic data that strain S186(T) belongs to a novel species of the genus Nocardiopsis, for which the name Nocardiopsis arabia sp. nov. is proposed. The type strain is S186(T) (=CGMCC 4.2057(T) =DSM 45083(T)).

  10. Streptomyces polyantibioticus sp. nov., isolated from the banks of a river.

    Science.gov (United States)

    le Roes-Hill, Marilize; Meyers, Paul R

    2009-06-01

    As part of an antibiotic-screening programme, an actinomycete, designated strain SPR(T), was isolated from soil collected from the banks of the Umgeni River, KwaZulu-Natal Province, South Africa. The isolate produced branching vegetative mycelia with sporangiophores bearing sporangia developing at a late stage of growth. The sporangia contained smooth, almond-shaped, non-motile spores. Strain SPR(T) exhibited antibiosis against various Gram-positive and Gram-negative bacteria, including Enterococcus faecium VanA (a vancomycin-resistant strain), Mycobacterium aurum A+ and Escherichia coli ATCC 25922. The chemotaxonomic characteristics of the strain, with the exception of the phospholipid pattern, corresponded with those of the members of the family Streptomycetaceae Waksman and Henrici 1943. Furthermore, phylogenetic analysis based on 16S rRNA genes showed that the strain was closely related to members of the genus Streptomyces, which supports its classification in the family Streptomycetaceae. Thus strain SPR(T) represents a novel species of the genus Streptomyces, for which the name Streptomyces polyantibioticus sp. nov. is proposed. The type strain is SPR(T) (=DSM 44925(T)=NRRL B-24448(T)).

  11. Porphyromonas loveana sp. nov., isolated from the oral cavity of Australian marsupials.

    Science.gov (United States)

    Bird, Philip S; Trott, Darren J; Mikkelsen, Deirdre; Milinovich, Gabriel J; Hillman, Kristine M; Burrell, Paul C; Blackall, Linda L

    2016-10-01

    An obligatory anaerobic, Gram-stain-negative coccobacillus with black-pigmented colonies was isolated from the oral cavity of selected Australian marsupial species. Phenotypic and molecular criteria showed that this bacterium was a distinct species within the genus Porphyromonas, and was closely related to Porphyromonas gingivalis and Porphyromonas gulae. This putative novel species and P. gulae could be differentiated from P. gingivalis by catalase activity. Further characterization by multi-locus enzyme electrophoresis of glutamate dehydrogenase and malate dehydrogenase enzyme mobility and matrix-assisted laser desorption ionization time-of-flight MS showed that this putative novel species could be differentiated phenotypically from P. gingivalis and P. gulae. Definitive identification by 16S rRNA gene sequencing showed that this bacterium belonged to a unique monophyletic lineage, phylogenetically distinct from P. gingivalis (94.9 % similarity) and P. gulae (95.5 %). This also was supported by 16S-23S rRNA intergenic spacer region and glutamate dehydrogenase gene sequencing. A new species epithet, Porphyromonas loveana sp. nov., is proposed for this bacterium, with DSM 28520T (=NCTC 13658T=UQD444T=MRK101T), isolated from a musky rat kangaroo, as the type strain.

  12. Delftia rhizosphaerae sp. nov. isolated from the rhizosphere of Cistus ladanifer.

    Science.gov (United States)

    Carro, Lorena; Mulas, Rebeca; Pastor-Bueis, Raquel; Blanco, Daniel; Terrón, Arsenio; González-Andrés, Fernando; Peix, Alvaro; Velázquez, Encarna

    2017-06-01

    A bacterial strain, designated RA6T, was isolated from the rhizosphere of Cistus ladanifer. Phylogenetic analyses based on 16S rRNA gene sequence placed the isolate into the genus Delftia within a cluster encompassing the type strains of Delftia lacustris, Delftia tsuruhatensis, Delftia acidovorans and Delftia litopenaei, which presented greater than 97 % sequence similarity with respect to strain RA6T. DNA-DNA hybridization studies showed average relatedness ranging from of 11 to 18 % between these species of the genus Delftia and strain RA6T. Catalase and oxidase were positive. Casein was hydrolysed but gelatin and starch were not. Ubiquinone 8 was the major respiratory quinone detected in strain RA6T together with low amounts of ubiquinones 7 and 9. The major fatty acids were those from summed feature 3 (C16 : 1ω7c/C16 : 1 ω6c) and C16 : 0. The predominant polar lipids were diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. Phylogenetic, chemotaxonomic and phenotypic analyses showed that strain RA6T should be considered as a representative of a novel species of genus Delftia, for which the name Delftia rhizosphaerae sp. nov. is proposed. The type strain is RA6T (=LMG 29737T= CECT 9171T).

  13. Isolation, screening and partial purification of antimicrobial antibiotics from soil Streptomyces sp. SCA 7

    Directory of Open Access Journals (Sweden)

    P. Saravana Kumar

    2014-09-01

    Full Text Available Thirty-seven actinomycetes strains were isolated from soil samples collected from an agriculture field in Vengodu, Thiruvannamalai District, Tamil Nadu, India (latitude: 12° 54′ 0033″, North; longitude: 79° 78′ 5216″, East; elevation: 228.6/70.0 ft/m. The isolates were assessed for antagonistic activity against five Gram-positive bacteria, seven Gram-negative bacteria, and two pathogenic fungi. During the initial screening, 43% of the strains showed weak activity, 16% showed moderate activity, 5% showed good activity, and 35% showed no antagonistic activity. Among the strains tested, SCA 7 showed strong antimicrobial activity. Maximum biological activity was obtained on modified nutrient glucose agar (MNGA medium. The mycelia of SCA 7 were extracted with methanol and tested against microbial pathogens using the disc diffusion method. The crude extract was purified partially using column chromatography and assessed for antimicrobial activity. Fraction 10 showed good activity against Staphylococcus epidermidis (31.25 μg/mL and Malassezia pachydermatis (500 μg/mL and the active principle (fraction 10 was identified as 2,4-bis (1,1-dimethylethyl phenol. Based on morphological, physiological, biochemical, cultural, and molecular characteristics (16S rDNA sequencing, this strain was identified as Streptomyces sp. SCA 7. It could be used in the development of new substances for pharmaceutical or agricultural purposes.

  14. Micromonospora halotolerans sp. nov., isolated from the rhizosphere of a Pisum sativum plant.

    Science.gov (United States)

    Carro, Lorena; Pukall, Rüdiger; Spröer, Cathrin; Kroppenstedt, Reiner M; Trujillo, Martha E

    2013-06-01

    A filamentous actinomycete strain designated CR18(T) was isolated on humic acid agar from the rhizosphere of a Pisum sativum plant collected in Spain. This isolate was observed to grow optimally at 28 °C, pH 7.0 and in the presence of 5 % NaCl. Phylogenetic analyses based on the 16S rRNA gene sequence indicated a close relationship with the type strains of Micromonospora chersina and Micromonospora endolithica. A further analysis based on a concatenated DNA sequence stretch of 4,523 bp that included partial sequences of the atpD, gyrB, recA, rpoB and 16S rRNA genes clearly differentiated the new strain from recognized Micromonospora species compared. DNA-DNA hybridization studies further supported the taxonomic position of strain CR18(T) as a novel genomic species. Chemotaxonomic analyses which included whole cell sugars, polar lipids, fatty acid profiles and menaquinone composition confirmed the affiliation of the new strain to the genus Micromonospora and also highlighted differences at the species level. These studies were finally complemented with an array of physiological tests to help differentiate between the new strain and its phylogenetic neighbours. Consequently, strain CR18(T) (= CECT 7890(T) = DSM 45598(T)) is proposed as the type strain of a novel species, Micromonospora halotolerans sp. nov.

  15. Antitumor activity of bacterial exopolysaccharides from the endophyte Bacillus amyloliquefaciens sp. isolated from Ophiopogon japonicus.

    Science.gov (United States)

    Chen, Yi-Tao; Yuan, Qiang; Shan, LE-Tian; Lin, Mei-Ai; Cheng, Dong-Qing; Li, Chang-Yu

    2013-06-01

    The endophytic bacterium, MD-b1, was isolated from the medicinal plant Ophiopogon japonicas and identified as the Bacillus amyloliquefaciens sp. with 99% similarity based on the partial sequence analysis of 16S rDNA. Exopolysaccharides were extracted from the endophyte for the evaluation of its antitumor activity against gastric carcinoma cell lines (MC-4 and SGC-7901). 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide (MTT) assays and microscopy were performed to estimate the cell viability and morphological changes of the MC-4 and SGC-7901 cells following treatment with the exopolysaccharides at 14, 22 and 30 μg/μl. The results revealed that the exopolysaccharides displayed concentration-dependent inhibitory effects against the MC-4 and SGC-7901 cells, with an IC50 of 19.7 and 26.8 μg/μl, respectively. The exopolysaccharides also induced morphological abnormalities in the cells. These effects indicated the the exopolysaccharides had an antitumoral mechanism of action associated with the mitochondrial dysfunction of the treated cells. This is the first study to investigate the endophytic microorganism isolated from O. japonicas and also the first discovery of such antitumoral exopolysaccharides derived from the genus Bacillus. This provides a promising and reproducible natural product source with high therapeutic value for anticancer treatment, thereby facilitating the development of new anticancer agents.

  16. Endozoicomonas atrinae sp. nov., isolated from the intestine of a comb pen shell Atrina pectinata.

    Science.gov (United States)

    Hyun, Dong-Wook; Shin, Na-Ri; Kim, Min-Soo; Oh, Sei Joon; Kim, Pil Soo; Whon, Tae Woong; Bae, Jin-Woo

    2014-07-01

    A novel bacterium, designated strain WP70(T), was isolated from the gut of a comb pen shell (Atrina pectinata) collected from the southern sea of Yeosu in Korea. The isolate was Gram-stain-negative, aerobic, non-motile and rod-shaped. Phylogenetic analyses based on 16S rRNA gene sequences indicated that strain WP70(T) belonged to the genus Endozoicomonas. The highest level of sequence similarity (98.4%) was shared with Endozoicomonas elysicola MKT110(T). Optimal growth occurred in 2% (w/v) NaCl at 30 °C and at pH 7. The major cellular fatty acids were summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c), summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c) and C16 : 0. The main respiratory quinone was Q-9. The polar lipids comprised phosphatidylglycerol, phosphatidylethanolamine, diphosphatidylglycerol, three unidentified phospholipids, an unidentified aminolipid, an unidentified aminophospholipid and an unidentified lipid. The genomic DNA G+C content was 50.5 mol% and DNA-DNA hybridization values indicated <11% genomic relatedness to the closest species. Physiological, biochemical, chemotaxonomic and genotypic analyses indicated that strain WP70(T) represents a novel species of the genus Endozoicomonas, for which the name Endozoicomonas atrinae sp. nov. is proposed. The type strain is WP70(T) ( = KACC 17474(T)  = JCM 19190(T)). © 2014 IUMS.

  17. Streptococcus caprae sp. nov., isolated from Iberian ibex (Capra pyrenaica hispanica).

    Science.gov (United States)

    Vela, A I; Mentaberre, G; Lavín, S; Domínguez, L; Fernández-Garayzábal, J F

    2016-01-01

    Biochemical and molecular genetic studies were performed on a novel Gram-stain-positive, catalase-negative, coccus-shaped organism isolated from tonsil samples of two Iberian ibexes. The micro-organism was identified as a streptococcal species based on its cellular, morphological and biochemical characteristics. 16S rRNA gene sequence comparison studies confirmed its identification as a member of the genus Streptococcus, but the organism did not correspond to any species of this genus. The nearest phylogenetic relative of the unknown coccus from ibex was Streptococcus porci 2923-03T (96.6 % 16S rRNA gene sequence similarity). Analysis based on rpoB and sodA gene sequences revealed sequence similarity values lower than 86.0 and 83.8 %, respectively, from the type strains of recognized Streptococcus species. The novel bacterial isolate was distinguished from Streptococcus porci and other Streptococcus species using biochemical tests. Based on both phenotypic and phylogenetic findings, it is proposed that the unknown bacterium be classified as representing a novel species of the genus Streptococcus, for which the name Streptococcus caprae sp. nov. is proposed. The type strain is DICM07-02790-1CT ( = CECT 8872T = CCUG 67170T).

  18. Starmerella syriaca f.a., sp. nov., an osmotolerant yeast species isolated from flowers in Syria.

    Science.gov (United States)

    Sipiczki, Matthias

    2015-04-01

    Four strains of a novel asexual ascomycetous yeast species were isolated from Malva sp. flowers in Syria. Sequencing of the regions spanning the small subunit, 5.8S, and the D1/D2 domains of the large subunit ribosomal RNA genes showed that the isolates were conspecific. Comparative analysis of these sequences and the corresponding sequences of the type strains of ascomycetous yeasts revealed that the novel species is phylogenetically related to members of the Starmerella clade. Its closest relative is Candida vaccinii. For the new species the name Starmerella syriaca is proposed. Its strains are osmotolerant and produce pseudohypha-like structures capable of penetrating agar media. The type strain is 2-1362(T) (=CBS 13909(T) = NCAIM Y.02138(T) = CCY 090-003-001(T)). The GenBank accession numbers for its nucleotide sequences are: JX515986 (D1/D2 LSU), JX515987 (ITS1-5.8S-ITS2) and JX515988 (SSU). Mycobank: MB 810090.

  19. Lentibacter algarum gen. nov., sp. nov., isolated from coastal water during a massive green algae bloom.

    Science.gov (United States)

    Li, Zhao; Qu, Zhe; Zhang, Xiuming; Zhang, Xiao-Hua

    2012-05-01

    Two novel Gram-stain-negative, aerobic strains (ZXM100(T) and ZXM098) were isolated from seawater in the coastal region of Qingdao (36.027° N 120.184° E), China, during a massive green algae bloom. Cells were ovoid to irregular short rods and lacked flagella. Poly-β-hydroxybutyrate was accumulated. Cells did not contain bacteriochlorophyll a. The isolates grew at NaCl concentrations of 3-9 % and 22-28 °C. C(18 : 1)ω7c, C(18 : 0) and C(16 : 0) were the major fatty acid components. The polar lipids of ZXM100(T) were phosphatidylglycerol, phosphatidylethanolamine, phosphatidylcholine, a single lipid and an unidentified aminolipid. The predominant isoprenoid quinone of ZXM100(T) was Q-10. Phylogenetic analysis based on 16S rRNA gene sequences showed that strains belonged to the family Rhodobacteraceae. Based on the results obtained in this study, strain ZXM100(T) was considered to represent a novel species in a new genus, for which the name Lentibacter algarum gen. nov., sp. nov. is proposed. The type strain is ZXM100(T) ( = LMG 24861(T) = CGMCC 1.10234(T)); the DNA G+C content of the type strain is 54.6 mol%.

  20. Pontibacter aydingkolensis sp. nov., isolated from soil of a salt lake.

    Science.gov (United States)

    Osman, Ghenijan; Zhang, Tao; Lou, Kai; Gao, Yan; Chang, Wei; Lin, Qing; Yang, Hong-Mei; Huo, Xiang-Dong; Wang, Ning

    2016-12-01

    A Gram-stain-negative, short rod-shaped and light-red-pigmented bacterium, designated XAAS-1T, was isolated from the soil of Aydingkol Lake near the Turpan City, Xinjiang, China. The isolate was positive for oxidase, catalase and hydrolysis of starch, casein, gelatin and aesculin. The sole respiratory quinone was MK-7 and the principal cellular fatty acids were iso-C15 : 0 and C15 : 0 3-OH. The major polar lipids were phosphatidylethanolamine, one unidentified phospholipid and two unidentified polar lipids. The polyamine pattern was found to contain mainly sym-homospermidine. 16S rRNA gene sequence analysis indicated that strain XAAS-1T belongs to the genus Pontibacter in the family Cytophagaceae, with sequence similarities ranging from 93.8 to 96.7 % with other type species of the genus Pontibacter. On the basis of phenotypic and genotypic data, strain XAAS-1T represents a novel species of the genus Pontibacter, for which the name Pontibacter aydingkolensis sp. nov. (type strain XAAS-1T=CCTCC AB 2016134T=JCM 31442T) is proposed.

  1. Methylobacterium bullatum sp. nov., a methylotrophic bacterium isolated from Funaria hygrometrica.

    Science.gov (United States)

    Hoppe, Thomas; Peters, Karsten; Schmidt, Friedrich

    2011-11-01

    A novel, pink-pigmented aerobic, facultatively methylotrophic bacterial strain (F3.2(T)) isolated from the phyllosphere of Funaria hygrometrica, was analyzed using a polyphasic approach. Cells were Gram-negative, motile rods, strictly aerobic and non-spore-forming and exhibited surface structures varying in quantity, distribution and morphology. The isolate grew at 10-33°C over a pH range of 5.5-8.0 and in the presence of less than 1.0% NaCl. Strain F3.2(T) shared less than 70% DNA-DNA binding to the next type strain of the genus Methylobacterium (M. adhaesivum DSM 17169(T)). In addition to the major cellular fatty acid C(18:1)ω7c (81.7%), present in all Methylobacterium species (and also members of the genus Alphaproteobacteria), a high value (11.7%) of the fatty acids (summed feature) C(16:1)ω7c and/or iso-C(15:0)2OH was determined. Phylogenetic analyses based on 16S rDNA and methanol dehydrogenase gene sequences, DNA-DNA hybridization values, chemotaxonomic and phenotypic characteristics indicate that the strain F3.2(T) represents a novel species within the genus Methylobacterium. We propose the name Methylobacterium bullatum sp. nov. for this species. The type strain is the strain F3.2(T) (DSM 21893(T)=LMG 24788(T)). Copyright © 2011 Elsevier GmbH. All rights reserved.

  2. Preferential desulfurization of dibenzyl sulfide by an isolated Gordonia sp. IITR100.

    Science.gov (United States)

    Ahmad, Abrar; Chauhan, Ashok Kumar; Kushwaha, Hari Narayan; Javed, Saleem; Kumar, Ashwani

    2015-06-01

    Several organosulfur compounds are present in the crude oil, and are required to be removed before its processing into transport fuel. For this reason, biodesulfurization of thiophenic compounds has been studied extensively. However, studies on the sulfide compounds are scarce. In this paper, we describe desulfurization of a model sulfidic compound, dibenzyl sulfide (DBS) by an isolated Gordonia sp. IITR100. The reaction was accompanied with the formation of metabolites dibenzyl sulfoxide, dibenzyl sulfone and benzoic acid. Studies with recombinant E. coli revealed that enzyme DszC of this isolate metabolizes DBS into dibenzyl sulfoxide and dibenzyl sulfone, but the reaction downstream to it is mediated by some enzyme other than its DszA. In reactions where DBS and dibenzothiophene (DBT) were present together, both IITR100 and recombinant E. coli exhibited preference for the desulfurization of DBS over DBT. The newly identified capability of IITR100 for desulfurization of both thiophenic and sulfidic compounds suggests its potential use in improved desulfurization of petroleum fractions.

  3. Burkholderia aspalathi sp. nov., isolated from root nodules of the South African legume Aspalathus abietina Thunb.

    Science.gov (United States)

    Mavengere, Natasha R; Ellis, Allan G; Le Roux, Johannes J

    2014-06-01

    During a study to investigate the diversity of rhizobia associated with native legumes in South Africa's Cape Floristic Region, a Gram-negative bacterium designated VG1C(T) was isolated from the root nodules of Aspalathus abietina Thunb. Based on phylogenetic analyses of the 16S rRNA and recA genes, VG1C(T) belongs to the genus Burkholderia, with the highest degree of sequence similarity to the type strain of Burkholderia sediminicola (98.5% and 98%, respectively). The DNA G+C content of strain VG1C(T) was 60.1 mol%, and DNA-DNA relatedness values to the type strain of closely related species were found to be substantially lower than 70%. As evidenced by results of genotypic, phenotypic and chemotaxonomic tests provided here, we conclude that isolate VG1C(T) represents a novel rhizosphere-associated species in the genus Burkholderia, for which the name Burkholderia aspalathi sp. nov. is proposed, with the type strain VG1C(T) ( = DSM 27239(T) = LMG 27731(T)). © 2014 IUMS.

  4. Amylase Production from Thermophilic Bacillus sp. BCC 021-50 Isolated from a Marine Environment

    Directory of Open Access Journals (Sweden)

    Altaf Ahmed Simair

    2017-06-01

    Full Text Available The high cost of fermentation media is one of the technical barriers in amylase production from microbial sources. Amylase is used in several industrial processes or industries, for example, in the food industry, the saccharification of starchy materials, and in the detergent and textile industry. In this study, marine microorganisms were isolated to identify unique amylase-producing microbes in starch agar medium. More than 50 bacterial strains with positive amylase activity, isolated from marine water and soil, were screened for amylase production in starch agar medium. Bacillus sp. BCC 021-50 was found to be the best amylase-producing strain in starch agar medium and under submerged fermentation conditions. Next, fermentation conditions were optimized for bacterial growth and enzyme production. The highest amylase concentration of 5211 U/mL was obtained after 36 h of incubation at 50 °C, pH 8.0, using 20 g/L molasses as an energy source and 10 g/L peptone as a nitrogen source. From an application perspective, crude amylase was characterized in terms of temperature and pH. Maximum amylase activity was noted at 70 °C and pH 7.50. However, our results show clear advantages for enzyme stability in alkaline pH, high-temperature, and stability in the presence of surfactant, oxidizing, and bleaching agents. This research contributes towards the development of an economical amylase production process using agro-industrial residues.

  5. Desulfovibrio alkalitolerans sp. nov., a novel alkalitolerant, sulphate-reducing bacterium isolated from district heating water.

    Science.gov (United States)

    Abildgaard, Lone; Nielsen, Marie Bank; Kjeldsen, Kasper Urup; Ingvorsen, Kjeld

    2006-05-01

    A novel alkalitolerant, sulphate-reducing bacterium (strain RT2T) was isolated from alkaline district heating water. Strain RT2T was a motile vibrio (0.5-0.8 microm wide and 1.4-1.9 microm long) and grew at pH 6.9-9.9 (optimum at pH 9.0-9.4) and at 16-47 degrees C (optimum at 43 degrees C). The genomic DNA G+C content was 64.7 mol%. A limited number of compounds were used as electron donors with sulphate as electron acceptor, including lactate, pyruvate, formate and hydrogen/acetate. Sulphite and thiosulphate also served as electron acceptors. Based on physiological and genotypic properties, the isolate was considered to represent a novel species of the genus Desulfovibrio, for which the name Desulfovibrio alkalitolerans sp. nov. is proposed. The type strain is RT2T (=DSM 16529T=JCM 12612T). The strain is the first alkali-tolerant member of the genus Desulfovibrio to be described.

  6. Microbacterium aerolatum sp. nov., isolated from the air in the 'Virgilkapelle' in Vienna.

    Science.gov (United States)

    Zlamala, Christian; Schumann, Peter; Kämpfer, Peter; Valens, Maria; Rosselló-Mora, Ramon; Lubitz, Werner; Busse, Hans-Jürgen

    2002-07-01

    Three rod-shaped, Gram-positive strains were isolated from the air of the chapel 'Virgilkapelle' in Vienna. A representative of these three strains, strain V-73T, shared the highest 16S rDNA sequence similarities with members of the genus Microbacterium, in particular Microbacterium foliorum, Microbacterium testaceum, Microbacterium esteraromaticum, Microbacterium keratanolyticum and Microbacterium arabinogalactanolyticum. The strains displayed almost identical biochemical and physiological characteristics and showed no differences in their protein patterns obtained after SDS-PAGE. On the basis of Fourier-transform infra-red (FT-IR) spectra and genomic fingerprints, the three strains were grouped together and separated from the other relevant members of the genus Microbacterium. The chemotaxonomic characteristics analysed, including polar lipids, quinone systems, cell wall composition and fatty acid profiles, were in good agreement with the characteristics described for the genus Microbacterium. The G+C content of the DNAs was determined to be in the narrow range 69.3-69.7 mol %. The results of DNA-DNA hybridization, biochemical/physiological characterization, ERIC-PCR-generated genomic fingerprints and FT-IR spectra demonstrated that the three isolates represent a novel species of the genus Microbacterium. The name Microbacterium aerolatum sp. nov. is proposed for the novel species, of which strain V-73T (= DSM 14217T = CCM 4955T) is the type strain.

  7. Natrinema soli sp. nov., a novel halophilic archaeon isolated from a hypersaline wetland.

    Science.gov (United States)

    Rasooli, Mehrnoosh; Naghoni, Ali; Amoozegar, Mohammad Ali; Mirfeizi, Leila; Moshtaghi Nikou, Mahdi; Shahzadeh Fazeli, Seyed Abolhassan; Minegishi, Hiroaki; Ventosa, Antonio

    2017-07-01

    An extremely halophilic archaeon, designated strain 5-3T, was isolated from a soil sample of Meighan wetland in Iran. Strain 5-3T was strictly aerobic, catalase-positive and oxidase-negative. Cells were Gram-stain-negative, non-motile and ovoid. Colonies of strain 5-3T were cream-coloured. The isolate showed optimum growth at 4.0 M NaCl, 40 °C and pH 7.0. The major polar lipids of the strain were phosphatidylglycerol, phosphatidylglycerol phosphate methyl ester, two unknown phospholipids and three glycolipids (including one that was chromatographically identical to S2-DGD). The major respiratory quinone was menaquinone MK-8. The G+C content of the genomic DNA was 61.5 mol%. The closest relative was Natrinema salaciae JCM 17869T with 97.3 % similarity in the orthologous 16S rRNA gene sequence. Analysis of 16S rRNA and rpoB' gene sequences indicated that strain 5-3T is a member of the genus Natrinema in the family Natrialbaceae and forms a distinct cluster. On the basis of phylogenetic analysis, and phenotypic and chemotaxonomic characteristics, a novel species of the family Natrialbaceae, Natrinema soli sp. nov., is proposed. The type strain is 5-3T (=IBRC-M 11063T=LMG 29247T).

  8. Brevibacterium album sp. nov., a novel actinobacterium isolated from a saline soil in China.

    Science.gov (United States)

    Tang, Shu-Kun; Wang, Yun; Schumann, Peter; Stackebrandt, Erko; Lou, Kai; Jiang, Cheng-Lin; Xu, Li-Hua; Li, Wen-Jun

    2008-03-01

    A novel Gram-positive, rod-shaped actinobacterium, designated strain YIM 90718(T), was isolated from a saline soil in Xinjiang province, north-west China, and subjected to polyphasic taxonomy. The peptidoglycan type was A1gamma and the cell-wall sugars contained galactose. Phospholipids were phosphatidylglycerol and diphosphatidylglycerol. The predominant menaquinone was MK-8(H(2)). The major fatty acids were anteiso-C(15 : 0), anteiso-C(17 : 0) and iso-C(15 : 0). All of these chemotaxonomic data assigned the new isolate YIM 90718(T) consistently to the genus Brevibacterium. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain YIM 90718(T) formed a distinct phyletic lineage in the genus Brevibacterium and showed the highest sequence similarity (96.2 %) to Brevibacterium samyangense SST-8(T) and low similarity (Brevibacterium. On the based of the polyphasic evidence, a novel species, Brevibacterium album sp. nov., is proposed, with the type strain YIM 90718(T) (=DSM 18261(T) =KCTC 19173(T) =CCTCC AB 206112(T)).

  9. Brevibacterium yomogidense sp. nov., isolated from a soil conditioner made from poultry manure.

    Science.gov (United States)

    Tonouchi, Akio; Kitamura, Koji; Fujita, Takashi

    2013-02-01

    A novel Gram-stain-positive rod-shaped actinobacterium was isolated from a soil conditioner made from poultry manure. The isolate, designated strain MN-6-a(T), contained anteiso-C(15 : 0) and anteiso-C(17 : 0) as the major fatty acids, and MK-7(H(2)) and MK-8(H(2)) as the major menaquinones. Phosphatidylglycerol was a major polar lipid. The G+C content of the genomic DNA was 67.4 mol%. Phylogenetic analysis showed that strain MN-6-a(T) was closely related to Brevibacterium salitolerans TRM 415(T) with 97.1 % 16S rRNA gene sequence similarity. DNA-DNA hybridization showed that strain MN-6-a(T) had 10.2 % genomic relatedness with B. salitolerans TRM 415(T). On the basis of phenotypic, phylogenetic and chemotaxonomic data obtained in this study, strain MN-6-a(T) represents a novel species of the genus Brevibacterium, for which the name Brevibacterium yomogidense sp. nov. is proposed. The type strain is MN-6-a(T) ( = JCM 17779(T) = DSM 24850(T)).

  10. Brevibacterium celere sp. nov., isolated from degraded thallus of a brown alga.

    Science.gov (United States)

    Ivanova, Elena P; Christen, Richard; Alexeeva, Yulia V; Zhukova, Natalia V; Gorshkova, Natalia M; Lysenko, Anatoly M; Mikhailov, Valery V; Nicolau, Dan V

    2004-11-01

    Two whitish yellow, Gram-positive, non-motile, aerobic bacteria were isolated from enrichment culture during degradation of the thallus of the brown alga Fucus evanescens. The bacteria studied were chemo-organotrophic, mesophilic and grew well on nutrient media containing up to 15 % (w/v) NaCl. The DNA G+C content was 61 mol%. The two isolates exhibited a conspecific DNA-DNA relatedness value of 98 %, indicating that they belong to the same species. A comparative analysis of 16S rRNA gene sequences revealed that strain KMM 3637(T) formed a distinct phyletic lineage in the genus Brevibacterium (family Brevibacteriaceae, class Actinobacteria) and showed the highest sequence similarity (about 97 %) to Brevibacterium casei. DNA-DNA hybridization experiments demonstrated 45 % binding with the DNA of B. casei DSM 20657(T). Physiological and chemotaxonomic characteristics (meso-diaminopimelic acid in the peptidoglycan, major cellular fatty acids 15 : 0ai and 17 : 0ai) of the bacteria studied were consistent with the genomic and phylogenetic data. On the basis of the results of this study, a novel species, Brevibacterium celere sp. nov., is proposed. The type strain is KMM 3637(T) (=DSM 15453(T)=ATCC BAA-809(T)).

  11. Brevibacterium siliguriense sp. nov., a facultatively oligotrophic bacterium isolated from river water.

    Science.gov (United States)

    Kumar, Arvind; Ince, İkbal Agah; Katı, Ahmet; Chakraborty, Ranadhir

    2013-02-01

    A Gram-positive-staining, rod-shaped, facultatively oligotrophic bacterial strain, designated MB18(T), was isolated from a water sample collected from the River Mahananda at Siliguri (26° 44' 23.20' N, 88° 25' 22.89' E), West-Bengal, India. On the basis of 16S rRNA gene sequence similarity, the closest relative of this strain was Brevibacterium epidermidis NCDO 2286(T) (96 % similarity). The DNA G+C content of strain MB18(T) was 64.6 mol%. Chemotaxonomic data [MK-8(H(2)) as the major menaquinone, galactose as the sole cell-wall sugar, meso-diaminopimelic acid as the diagnostic cell-wall diamino acid, phosphatidylglycerol and diphosphatidylglycerol as constituents of the polar lipids, anteiso-C(15 : 0), anteiso-C(17 : 0) and iso-C(15 : 0) as the major fatty acids] supported the affiliation of strain MB18(T) to the genus Brevibacterium. The results of DNA G+C content, 16S rRNA gene sequence analysis and biochemical and physiological analyses allowed genotypic and phenotypic differentiation of strain MB18(T) from its nearest neighbour B. epidermidis. The isolate therefore represents a novel species, for which the name Brevibacterium siliguriense sp. nov. is proposed; the type strain is MB18(T) ( = DSM 23676(T) = LMG 25772(T)).

  12. Brevibacterium oceani sp. nov., isolated from deep-sea sediment of the Chagos Trench, Indian Ocean.

    Science.gov (United States)

    Bhadra, Bhaskar; Raghukumar, Chandralata; Pindi, Pavan Kumar; Shivaji, Sisinthy

    2008-01-01

    Two bacterial strains, designated BBH5 and BBH7(T), were isolated from a deep-sea sediment sample collected from the Chagos Trench of the Indian Ocean (1 degrees 06' S 7 degrees 31' E). Based on their 16S rRNA gene sequence similarity (99.9%), level of DNA-DNA relatedness (93%) and a number of similar phenotypic characteristics, the two strains are identified as representing the same species. Their phylogenetically nearest neighbours, based on 16S rRNA gene sequence similarity values (97.9-98.4%), were identified as Brevibacterium iodinum, Brevibacterium epidermidis, Brevibacterium linens and Brevibacterium permense. However, strains BBH5 and BBH7(T) could be distinguished from the above four species by a number of phenotypic characteristics, and levels of DNA-DNA relatedness between the two new isolates and these Brevibacterium species were 35-42%. Therefore, strains BBH5 and BBH7(T) are considered to represent a novel species of the genus Brevibacterium, for which the name Brevibacterium oceani sp. nov. is proposed. The type strain is BBH7(T) (=LMG 23457(T) =IAM 15353(T)).

  13. Actinomyces haliotis sp. nov., a bacterium isolated from the gut of an abalone, Haliotis discus hannai.

    Science.gov (United States)

    Hyun, Dong-Wook; Shin, Na-Ri; Kim, Min-Soo; Kim, Pil Soo; Kim, Joon Yong; Whon, Tae Woong; Bae, Jin-Woo

    2014-02-01

    A novel, Gram-staining-positive, facultatively anaerobic, non-motile and coccus-shaped bacterium, strain WL80(T), was isolated from the gut of an abalone, Haliotis discus hannai, collected from the northern coast of Jeju in Korea. Optimal growth occurred at 30 °C, pH 7-8 and with 1% (w/v) NaCl. Phylogenetic analyses based on the 16S rRNA gene sequence revealed that strain WL80(T) fell within the cluster of the genus Actinomyces, with highest sequence similarity to the type strains of Actinomyces radicidentis (98.8% similarity) and Actinomyces urogenitalis (97.0% similarity). The major cellular fatty acids were C18 : 1ω9c and C16 : 0. Menaquinone-10 (H4) was the major respiratory quinone. The genomic DNA G+C content of the isolate was 70.4 mol%. DNA-DNA hybridization values with closely related strains indicated less than 7.6% genomic relatedness. The results of physiological, biochemical, chemotaxonomic and genotypic analyses indicated that strain WL80(T) represents a novel species of the genus Actinomyces, for which the name Actinomyces haliotis sp. nov. is proposed. The type strain is WL80(T) ( = KACC 17211(T) = JCM 18848(T)).

  14. Rhizobium anhuiense sp. nov., isolated from effective nodules of Vicia faba and Pisum sativum.

    Science.gov (United States)

    Zhang, Yu Jing; Zheng, Wen Tao; Everall, Isobel; Young, J Peter W; Zhang, Xiao Xia; Tian, Chang Fu; Sui, Xin Hua; Wang, En Tao; Chen, Wen Xin

    2015-09-01

    Four rhizobia-like strains, isolated from root nodules of Pisum sativum and Vicia faba grown in Anhui and Jiangxi Provinces of China, were grouped into the genus Rhizobium but were distinct from all recognized species of the genus Rhizobium by phylogenetic analysis of 16S rRNA and housekeeping genes. The combined sequences of the housekeeping genes atpD, recA and glnII for strain CCBAU 23252(T) showed 86.9 to 95% similarity to those of known species of the genus Rhizobium. All four strains had nodC and nifH genes and could form effective nodules with Pisum sativum and Vicia faba, and ineffective nodules with Phaseolus vulgaris, but did not nodulate Glycine max, Arachis hypogaea, Medicago sativa, Trifolium repens or Lablab purpureus in cross-nodulation tests. Fatty acid composition, DNA-DNA relatedness and a series of phenotypic tests also separated these strains from members of closely related species. Based on all the evidence, we propose a novel species, Rhizobium anhuiense sp. nov., and designate CCBAU 23252(T) ( = CGMCC 1.12621(T) = LMG 27729(T)) as the type strain. This strain was isolated from a root nodule of Vicia faba and has a DNA G+C content of 61.1 mol% (Tm).

  15. Rhizobium oryzicola sp. nov., potential plant-growth-promoting endophytic bacteria isolated from rice roots.

    Science.gov (United States)

    Zhang, Xiao-Xia; Gao, Ju-Sheng; Cao, Yan-Hua; Sheirdil, Rizwan Ali; Wang, Xiu-Cheng; Zhang, Lei

    2015-09-01

    Bacterial strains ZYY136(T) and ZYY9 were isolated from surface-sterilized rice roots from a long-term experiment of rice-rice--Astragalus sinicus rotation. The 16S rRNA gene sequences of strains ZYY136(T) and ZYY9 showed the highest similarity, of 97.0%, to Rhizobium tarimense PL-41(T). Sequence analysis of the housekeeping genes recA, thrC and atpD clearly differentiated the isolates from currently described species of the genus Rhizobium. The DNA-DNA relatedness value between ZYY136(T) and ZYY9 was 82.3%, and ZYY136(T) showed 34.0% DNA-DNA relatedness with the most closely related type strain, R. tarimense PL-41(T). The DNA G+C content of strain ZYY136(T) was 58.1 mol%. The major cellular fatty acids were summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c), C16 : 0 and C16 : 0 3-OH. Strains ZYY136(T) and ZYY9 could be differentiated from the previously defined species of the genus Rhizobium by several phenotypic characteristics. Therefore, we conclude that strains ZYY136(T) and ZYY9 represent a novel species of the genus Rhizobium, for which the name Rhizobium oryzicola sp. nov. is proposed (type strain ZYY136(T) = ACCC 05753(T) = KCTC 32088(T)).

  16. Polaribacter atrinae sp. nov., isolated from the intestine of a comb pen shell, Atrina pectinata.

    Science.gov (United States)

    Hyun, Dong-Wook; Shin, Na-Ri; Kim, Min-Soo; Kim, Pil Soo; Jung, Mi-Ja; Kim, Joon Yong; Whon, Tae Woong; Bae, Jin-Woo

    2014-05-01

    A novel Gram-staining-negative, aerobic, non-motile, yellow-to-orange carotenoid-type-pigmented and rod-shaped bacterium, designated strain WP25T, was isolated from the intestine of a comb pen shell, Atrina pectinata, which was collected from the South Sea near Yeosu in Korea. The isolate grew optimally at 20 °C, at pH 7 and with 2% (w/v) NaCl. 16S rRNA gene sequence analysis showed that strain WP25T belonged to the genus Polaribacter in the family Flavobacteriaceae and the highest sequence similarity was shared with the type strain of Polaribacter sejongensis (98.5%). The major cellular fatty acids were iso-C15:0, anteiso-C15:0, C15:1ω6c and iso-C15:0 3-OH. The main respiratory quinone was menaquinone MK-6. The polar lipids of strain WP25T were phosphatidylethanolamine, two unidentified aminolipids, an unidentified phospholipid and four unidentified lipids. The genomic DNA G+C content was 31.2 mol%. DNA-DNA hybridization experiments indicated <12.6% genomic relatedness with closely related strains. Based on phylogenetic, phenotypic and genotypic analyses, strain WP25T represents a novel species in the genus Polaribacter, for which the name Polaribacter atrinae sp. nov. is proposed, with the type strain WP25T (=KACC 17473T=JCM 19202T).

  17. Isolation of the crude oil degrading marine Acinetobacter sp. E11

    Energy Technology Data Exchange (ETDEWEB)

    Razak, C.N.A.; Wang, W.F.; Rahman, S.H.S.A.; Basri, M.; Salleh, A.B. [University Putra Malaysia, Serdang, Selangor (Malaysia). Centre for Enzyme and Microbial Technology Research

    1999-07-01

    The Acinetobacter sp. E11, isolated from Port Dickson Beach, Malaysia, was able to grow in media containing crude oil as the sole carbon and energy source. Substrate specificity studies showed that the bacterium exhibited substrate preference as growth was observed only in media containing aliphatic hydrocarbons, while aromatic and cyclic hydrocarbons inhibited growth. With the aliphatic hydrocarbons, growth was seen only in the long-chain alkanes tested (pentadecane, dodecane and hexadecane). No growth was recorded in the short-chain alkanes (pentane, hexane and heptane) tested. With complex hydrocarbons, only crude oil and 4T SHELL engine oil supported growth. No growth was observed in kerosene and PETRONAS gasoline. The isolate could grow in up to 10% and 20% [v/v] of the crude oil and alkanes tested, respectively. Among the long-chain alkanes tested, hexadecane was the most preferred, followed by pentadecane and dodecane. Nitrogen and phosphorous supplements were essential for growth and the best growth was achieved with 3% nitrogen/phosphorous additions. Microscopic observation revealed that the bacterium adhered to the hexadecane and crude oil droplets. GC analysis showed that the bacterium was able to degrade more than 60% of the hydrocarbons in the crude oil in 15 days at 37 C compared to the uninoculated media. (orig.)

  18. Formation of Se (0 Nanoparticles by Duganella sp. andAgrobacterium sp. isolated from Se-laden soil of North-East Punjab, India

    Directory of Open Access Journals (Sweden)

    Bajaj Mini

    2012-07-01

    Full Text Available Abstract Background Selenium (Se is an essential trace element, but is toxic at high concentrations. Depending upon the geological background, the land use or on anthropogenic pollution, different amounts of Se may be present in soil. Its toxicity is related to the oxyanions selenate and selenite as they are water soluble and bioavailable. Microorganisms play an important role in Se transformations in soil and its cycling in the environment by transforming water-soluble oxyanions into water insoluble, non-toxic elemental Se (0. For this study, soil samples were collected from selenium-contaminated agricultural soils of Punjab/India to enrich and isolate microbes that interacted with the Se cycle. Results A mixed microbial culture enriched from the arable soil of Punjab could reduce 230 mg/l of water soluble selenite to spherical Se (0 nanoparticles during aerobic growth as confirmed by SEM-EDX. Four pure cultures (C 1, C 4, C 6, C 7 of Gram negative, oxidase and catalase positive, aerobic bacteria were isolated from this mixed microbial consortium and identified by 16 S rDNA gene sequence alignment as two strains of Duganella sp. (C 1, C 4 and two strains of Agrobacterium sp.(C 6, C 7. SEM/TEM-EDX analyses of the culture broth of the four strains revealed excretion of uniformly round sharply contoured Se (0 nanoparticles by all cultures. Their size ranged from 140–200 nm in cultures of strains C 1 and C 4, and from 185–190 nm in cultures of strains C 6 and C 7. Both Duganella sp. revealed better selenite reduction efficiencies than the two Agrobacterium sp. Conclusions This is the first study reporting the capability of newly isolated, aerobically growing Duganella sp. and Agrobacterium sp. from soils of Punjab/India to form spherical, regularly formed Se (0 nanoparticles from water soluble selenite. Among others, the four strains may significantly contribute to the biogeochemical cycling of Se in soil. Bioconversion of toxic

  19. Draft Genome Sequence of Enterobacter sp. Sa187, an Endophytic Bacterium Isolated from the Desert Plant Indigofera argentea

    KAUST Repository

    Lafi, Feras Fawzi

    2017-02-17

    Enterobacter sp. Sa187 is a plant endophytic bacterium, isolated from root nodules of the desert plant Indigofera argentea, collected from the Jizan region of Saudi Arabia. Here, we report the genome sequence of Sa187, highlighting several genes involved in plant growth–promoting activity and environmental adaption.

  20. Draft Genome Sequence of Halostagnicola sp. A56, an Extremely Halophilic Archaeon Isolated from the Andaman Islands

    Science.gov (United States)

    Kanekar, Sagar P.; Saxena, Neha; Pore, Soham D.; Arora, Preeti; Kanekar, P. P.

    2015-01-01

    The first draft genome of Halostagnicola sp. A56, isolated from the Andaman Islands is reported here. The A56 genome comprises 3,178,490 bp in 26 contigs with a G+C content of 60.8%. The genome annotation revealed that A56 could have potential applications for the production of polyhydroxyalkanoate or bioplastics. PMID:26564049

  1. Genome sequence of Methylobacterium sp. strain GXF4, a xylem-associated bacterium isolated from Vitis vinifera L. grapevine.

    Science.gov (United States)

    Gan, Han Ming; Chew, Teong Han; Hudson, André O; Savka, Michael A

    2012-09-01

    Methylobacterium sp. strain GXF4 is an isolate from grapevine. Here we present the sequence, assembly, and annotation of its genome, which may shed light on its role as a grapevine xylem inhabitant. To our knowledge, this is the first genome announcement of a plant xylem-associated strain of the genus Methylobacterium.

  2. Pironetin, a novel plant growth regulator produced by Streptomyces sp. NK10958. I. Taxonomy, production, isolation and preliminary characterization.

    Science.gov (United States)

    Kobayashi, S; Tsuchiya, K; Harada, T; Nishide, M; Kurokawa, T; Nakagawa, T; Shimada, N; Kobayashi, K

    1994-06-01

    A novel plant growth regulator, pironetin, was isolated from the culture broth of Streptomyces sp. NK10958. It was extracted from the culture broth with ethyl acetate and purified by column chromatographies. Pironetin showed 23% inhibition on the growth of rice plants without any loss of crop yield at 10 g/a on 9 days before heading.

  3. Draft Genome Sequence of MCPA-Degrading Sphingomonas sp. Strain ERG5, Isolated from a Groundwater Aquifer in Denmark

    DEFF Research Database (Denmark)

    Nielsen, Tue Kjærgaard; Kot, Witold; Sørensen, Sebastian R

    2015-01-01

    Sphingomonas sp. strain ERG5 was isolated from a bacterial community, originating from a groundwater aquifer polluted with low pesticide concentrations. This bacterium degrades 2-methyl-4-chlorophenoxyacetic acid (MCPA) in a wide spectrum of concentrations and has been shown to function in bioaug...... in bioaugmented sand filters. Genes associated with MCPA degradation are situated on a putative conjugative plasmid....

  4. Draft Genome Sequence of Plant Growth-Promoting Endophytic Streptomyces sp. GKU 895 Isolated from the Roots of Sugarcane.

    Science.gov (United States)

    Kruasuwan, Worarat; Salih, Talal Sabhan; Brozio, Sarah; Hoskisson, Paul A; Thamchaipenet, Arinthip

    2017-05-11

    Streptomyces sp. GKU 895 is an endophytic actinomycete isolated from the roots of sugarcane. GKU 895 has a genome of 8.3 Mbp and the genome exhibits adaptations related to plant growth-promoting activity. It also has extensive specialized metabolite biosynthetic gene clusters apparent in its genome. Copyright © 2017 Kruasuwan et al.

  5. Production and characterization of bacterial cellulose by Leifsonia sp. CBNU-EW3 isolated from the earthworm, Eisenia fetida

    Science.gov (United States)

    A total of five bacterial strains were isolated from earthworm, Eisenia fetida and examined for bacterial cellulose (BC) production in Hestrin–Schramm medium (HS). Among the five strains tested, CBNU-EW3 exhibited excellent BC production and was identified as Leifsonia sp. by 16S rDNA sequence analy...

  6. Cytotoxic (A549) and antimicrobial effects of Methylobacterium sp. isolate (ERI-135) from Nilgiris forest soil, India.

    Science.gov (United States)

    Balachandran, C; Duraipandiyan, V; Ignacimuthu, S

    2012-09-01

    To assess the antimicrobial and cytotoxic effects of Methylobacterium sp. isolated from soil sample of Doddabetta forest, Nilgiris, Western Ghats of Tamil Nadu. Isolation of Methylobacterium was performed from soils by serial dilution plate technique. The strain was grown in modified nutrient gulucose agar (MNGA) medium to study the morphology and biochemical characteristics. Methylobacterium sp. was screened for its antimicrobial activity against pathogenic bacteria and fungi. The strain was subjected to 16S rRNA analysis and was identified as Methylobacterium sp. The nucleotide sequence of the 16S rRNA gene of the isolate exhibited close similarity with other Methylobacterium sp. and has been submitted to Genbank. The antibacterial substances were extracted using chloroform and ethyl acetate from MNGA medium in which ERI-135 had grown for 5 d at 30 °C. Cytotoxic effect was also studied. GC-MS analysis was carried out. The antimicrobial activity was assessed using broth micro dilution technique. Ethyl acetate extract showed activity against bacteria such as Bacillus subtilis, Klebsiella pneumoniae (K. pneumoniae), Pseudomonas aeruginosa, Salmonella typhimurium, Shigella flexneri, Enterobacter aerogenes, Staphylococcus aureu and Staphylococcus epidermidis (S. epidermidis) and fungi such as, Candida albicans and Trichophyton rubrum. The lowest minimum inhibitory concentrations were: 250 µg/mL against S. epidermidis and 250µg/mL against K. pneumonia. The isolate had the ability to produce enzymes such as protease. The exyract showed cytotoxic effect in human adenocarcinoma cancer cell line (A549). GC-MS analysis showed the presence of isovaleric acid (3.64%), 2-Methylbutanoic acid (5.03%), isobutyramide (5.05%), N,N-oimethylformamide-di-t-butylacetal (9.79%), benzeneacetamide (15.56%), octyl butyl phthalate (3.59%) and diisooctyl phthalate (5.79) in the extract. Methylobacterium sp. (ERI-135) showed promising antibacterial and cytotoxic activity. This is the first

  7. Wickerhamiella kiyanii f.a., sp. nov. and Wickerhamiella fructicola f.a., sp. nov., two yeasts isolated from native plants of Atlantic rainforest in Brazil.

    Science.gov (United States)

    Dayo-Owoyemi, Ifeloju; Rosa, Carlos Augusto; Rodrigues, André; Pagnocca, Fernando Carlos

    2014-06-01

    Two novel species, Wickerhamiella kiyanii f.a., sp. nov. (type strain FB1-1DASP(T) = CBS 12905(T) = CBMAI 1613(T)) and Wickerhamiella fructicola f.a., sp. nov. (type strain H10Y(T) = CBS 12902(T) = CBMAI 1614(T)) are proposed in the Wickerhamiella clade (Saccharomycetes, Saccharomycetales) to accommodate three strains isolated from flowers and fruits typical of the Brazilian Atlantic rainforest. The novel status of these yeast species was established by sequence divergence observed in the D1/D2 domains of the LSU rRNA gene from the most closely related, described species as well as by phylogenetic analysis. Wickerhamiella kiyanii sp. nov. differs from its nearest phylogenetic neighbours W. pagnoccae CBS 12178(T), Candida jalapaonensis CBS 10935(T) and Candida drosophilae CBS 8459(T) by 2.2-4.2% in the D1/D2 sequences. By contrast, a sequence divergence of 13.2-13.8% was observed between W. fructicola sp. nov. and its closest, described phylogenetic relative Candida kazoui JCM 12558(T) and Candida hasegawae JCM 12559(T). Taxonomic descriptions of the two novel species are given. © 2014 IUMS.

  8. Characterization of bacterial isolates from rotting potato tuber tissue showing antagonism to Dickeya sp. biovar 3 in vitro and in planta

    NARCIS (Netherlands)

    Czajkowski, R.L.; De Boer, W.J.; Van Veen, J.A.; Van der Wolf, J.M.

    2012-01-01

    Possibilities for biocontrol of biovar 3 Dickeya sp. in potato were investigated, using bacteria from rotting potato tissue isolated by dilution plating on nonselective agar media. In a plate assay, 649 isolates were screened for antibiosis against Dickeya sp. IPO2222 and for the production of

  9. A new purple sulfur bacterium isolated from a littoral microbial mat, Thiorhodococcus drewsii sp. nov.

    Science.gov (United States)

    Zaar, Annette; Fuchs, Georg; Golecki, Jochen R; Overmann, Jörg

    2003-03-01

    A new strain of purple sulfur bacterium was isolated from a marine microbial mat sampled in Great Sippewissett Salt Marsh at the Atlantic coast (Woods Hole, Mass., USA). Single cells of strain AZ1 were coccus-shaped, highly motile by means of a single flagellum, and did not contain gas vesicles. Intracellular membranes were of the vesicular type. However, additional concentric membrane structures were present. The photosynthetic pigments were bacteriochlorophyll a and carotenoids of the normal spirilloxanthin series, with rhodopin as the dominant carotenoid. Hydrogen sulfide (up to 11 mM), sulfur, thiosulfate, and molecular hydrogen were used as electron donors during anaerobic phototrophic growth. During growth on sulfide, elemental sulfur globules were transiently stored inside the cells. Strain AZ1 is much more versatile than most other Chromatiaceae with respect to electron donor and organic substrates. In the presence of CO(2), it is capable of assimilating C(1)-C(5) fatty acids, alcohols, and intermediates of the tricarboxylic acid cycle. Strain AZ1 could also grow photoorganotrophically with acetate as the sole photosynthetic electron donor. Chemotrophic growth in the dark under microoxic conditions was not detected. Optimum growth occurred at pH 6.5-6.7, 30-35 degrees C, > or =50 micro mol quanta m(-2) s(-1), and 2.4-2.6% NaCl. The DNA base composition was 64.5 mol% G+C. Comparative sequence analysis of the 16S rRNA gene confirmed that the isolate is a member of the family Chromatiaceae. Sequence similarity to the most closely related species, Thiorhodococcus minor DSMZ 11518(T), was 97.8%; however, the value for DNA-DNA hybridization between both strains was only 20%. Because of the low genetic similarity and since strain AZ1 physiologically differs considerably from all other members of the Chromatiaceae, including Trc. minor, the new isolate is described as a new species of the genus Thiorhodococcus, Thiorhodococcus drewsii sp. nov.

  10. Thermus islandicus sp. nov., a mixotrophic sulfur-oxidizing bacterium isolated from the Torfajokull geothermal area.

    Science.gov (United States)

    Bjornsdottir, Snaedis H; Petursdottir, Solveig K; Hreggvidsson, Gudmundur O; Skirnisdottir, Sigurlaug; Hjorleifsdottir, Sigridur; Arnfinnsson, Johann; Kristjansson, Jakob K

    2009-12-01

    Strains PRI 2268 and PRI 3838(T) were isolated from two separate hot springs in the Torfajokull geothermal area of South Iceland. The cells were non-motile rods, approximately 0.3 microm in width and 1.5-2.5 microm in length. Electron microscopy revealed a Gram-negative cell-wall structure. The strains grew at 45-79 degrees C (optimum, 65 degrees C) and pH 5.5-10.5 (optimum, pH 6.0-7.0). 16S rRNA gene sequence analysis indicated that they formed a separate branch within the genus Thermus with 'Thermus kawarayensis' KW11 as their closest cultured relative (96.5 % similarity). The gene sequence similarities of both new isolates to Thermus aquaticus YT-1(T) and Thermus igniterrae RF-4(T) were 96.1 % and 95.5 %, respectively. DNA-DNA relatedness between strain PRI 3838(T) and 'T. kawarayensis' was 46.1 %. The DNA G+C content of strain PRI 3838(T) was 69.0 mol%. The predominant menaquinones, pigmentation, fatty acid profiles and phospholipid profiles of the novel strains were similar to those of other members of the genus Thermus. However, the new strains could be differentiated from the type strains of all other species of the genus Thermus by their lack of catalase activity and their utilization of only a few carbon sources. Furthermore, the novel strains exhibited mixotrophic growth with sulfur oxidation. On the basis of 16S rRNA gene sequence comparisons, DNA-DNA hybridization and physiological and biochemical characteristics, the new isolates represent a novel species. Since the species appears to be ubiquitous in Icelandic hot springs, the name Thermus islandicus sp. nov. is proposed. The type strain is PRI 3838(T) (=DSM 21543(T)=ATCC BAA-1677(T)).

  11. Nocardia bhagyanesis sp. nov., a novel actinomycete isolated from the rhizosphere of Callistemon citrinus (Curtis), India.

    Science.gov (United States)

    Vaddavalli, Radha; Peddi, Sneha; Kothagauni, Srilekha Yadav; Linga, Venkateswar Rao

    2014-03-01

    A novel actinomycete strain, designated VRC07(T), was isolated from a Callistemon citrinus rhizosphere sample collected from Hyderabad, India. Its taxonomic status was determined by using polyphasic approach. It is a Gram-positive, aerobic, non-motile, weakly acid-fast strain. Phylogenetic analysis based on the 16S rRNA gene sequence revealed that strain VRC07(T) is a member of the genus Nocardia. The highest levels of 16S rRNA gene sequence similarity was found between the strains Nocardia niwae W9241(T) (99.6 %), Nocardia amikacinitolerans W9988(T) (99.3 %) and Nocardia arthritidis IFM 10035(T) (98.9 %); similarity to other type strains of the genus Nocardia was below 98.7 %. The organism had chemical and morphological features consistent with its classification in the genus Nocardia such as meso-diaminopimelic acid as the diagnostic diamino acid in the cell wall peptidoglycan. Arabinose and galactose as the diagnostic sugars. Diagnostic polar lipids were phosphatidylinositol, diphosphatidylglycerol, and phosphatidylglycerol. The predominant menaquinone was MK-8(H4, ω-cycl). The major fatty acids were C16:0, C18:0, C18:1 w9c, C18:0 10-methyl TBSA and sum in feature 3 (16:1 w7c/16:1 w6c). The G+C content of the genomic DNA was 68.5 mol%. The DNA-DNA relatedness data, together with phenotypic differences clearly distinguished the isolate from its closest relatives. On the basis of these phenotypic and genotypic data, the isolate represents a novel species, for which the name Nocardia bhagyanesis sp. nov., is proposed. The type strain is VRC07(T) (=KCTC 29209(T) = MTCC 11725(T) = ATCC BAA-2548).

  12. Bacillus kiskunsagensis sp. nov., a novel alkaliphilic and moderately halophilic bacterium isolated from soda soil.

    Science.gov (United States)

    Borsodi, Andrea K; Tóth, Erika; Aszalós, Júlia M; Bárány, Ágnes; Schumann, Peter; Spröer, Cathrin; Kovács, Attila L; Márialigeti, Károly; Szili-Kovács, Tibor

    2017-09-01

    An alkaliphilic and moderately halophilic strain characterized by optimal growth at pH 9.0-10.0 and 7 % (w/v) NaCl, and designated B16-24T, was isolated from the rhizosphere soil of the bayonet grass Bolboschoenus maritimus at a soda pond in the Kiskunság National Park, Hungary. Cells of the strain were Gram-staining-positive, non-motile, straight rods, and formed central, ellipsoidal endospores with slightly swollen sporangia. The isolate was facultative anaerobic, catalase positive, oxidase negative, and contained a peptidoglycan of type A1γ based on meso-diaminopimelic acid. Menaquinone-7 (MK-7) was the predominant isoprenoid quinone, and anteiso-C15 : 0 the major cellular fatty acid. The DNA G+C content of strain B16-24T was 36.6 mol%. The 16S rRNA gene-based phylogenetic analysis revealed that the novel isolate had the greatest similarities to the type strains of Bacillus okhensis Kh10-101T (97.8 %), B. akibai 1139T (97.4 %), B. alkalisediminis K1-25T (97.3 %) and B. wakoensis N-1T (97.1 %). The DNA-DNA relatedness of strain B16-24T and the closely related Bacillus species ranged between 24±6 % and 35±3 %. The distinctive phenotypic and genetic results of this study confirmed that strain B16-24T represents a novel species within the genus Bacillus, for which the name Bacillus kiskunsagensis sp. nov. is proposed. The type strain is B16-24T (=DSM 29791T=NCAIM B.02610T).

  13. Streptomyces caldifontis sp. nov., isolated from a hot water spring of Tatta Pani, Kotli, Pakistan.

    Science.gov (United States)

    Amin, Arshia; Ahmed, Iftikhar; Khalid, Nauman; Osman, Ghenijan; Khan, Inam Ullah; Xiao, Min; Li, Wen-Jun

    2017-01-01

    A Gram-staining positive, non-motile, rod-shaped, catalase positive and oxidase negative bacterium, designated NCCP-1331T, was isolated from a hot water spring soil collected from Tatta Pani, Kotli, Azad Jammu and Kashmir, Pakistan. The isolate grew at a temperature range of 18-40 °C (optimum 30 °C), pH 6.0-9.0 (optimum 7.0) and with 0-6 % NaCl (optimum 2 % NaCl (w/v)). The phylogenetic analysis based on 16S rRNA gene sequence revealed that strain NCCP-1331T belonged to the genus Streptomyces and is closely related to Streptomyces brevispora BK160T with 97.9 % nucleotide similarity, followed by Streptomyces drosdowiczii NRRL B-24297T with 97.8 % nucleotide similarity. The DNA-DNA relatedness values of strain NCCP-1331T with S. brevispora KACC 21093T and S. drosdowiczii CBMAI 0498T were 42.7 and 34.7 %, respectively. LL-DAP was detected as diagnostic amino acid along with alanine, glycine, leucine and glutamic acid. The isolate contained MK-9(H8) as the predominant menaquinone. Major polar lipids detected in NCCP-1331T were phosphatidylethanolamine, phosphatidylinositol and unidentified phospholipids. Major fatty acids were iso-C16: 0, summed feature 8 (18:1 ω7c/18:1 ω6c), anteiso-C15:0 and C16:0. The genomic DNA G + C content was 69.8 mol %. On the basis of phylogenetic, phenotypic and chemotaxonomic analysis, it is concluded that strain NCCP-1331T represents a novel species of the genus Streptomyces, for which the name Streptomyces caldifontis sp. nov. is proposed. The type strain is NCCP-1331T (=KCTC 39537T = CPCC 204147T).

  14. Arcobacter lanthieri sp. nov., isolated from pig and dairy cattle manure.

    Science.gov (United States)

    Whiteduck-Léveillée, Kerri; Whiteduck-Léveillée, Jenni; Cloutier, Michel; Tambong, James T; Xu, Renlin; Topp, Edward; Arts, Michael T; Chao, Jerry; Adam, Zaky; André Lévesque, C; Lapen, David R; Villemur, Richard; Talbot, Guylaine; Khan, Izhar U H

    2015-08-01

    A study was undertaken to determine the prevalence and diversity of species of the genus Arcobacter in pig and dairy cattle manure, which led to the identification of strains AF1440T, AF1430 and AF1581. Initially identified as Arcobacter butzleri based on colony morphology and initial PCR-confirmation tests, analyses of 16S rRNA gene sequences of these strains confirmed that they belonged to the genus Arcobacter and were different from all known species of the genus. The isolates formed a distinct group within the genus Arcobacter based on their 16S rRNA, gyrB, rpoB, cpn60, gyrA and atpA gene sequences and fatty acid profiles. Their unique species status was further supported by physiological properties and DNA-DNA hybridization that allowed phenotypic and genotypic differentiation of the strains from other species of the genus Arcobacter. The isolates were found to be oxidase, catalase and esterase positive and urease negative; they grew well at 30 °C under microaerophilic conditions and produced nitrite and acetoin. Based on their common origin and various physiological properties, it is proposed that the isolates are classified as members of a novel species with the name Arcobacter lanthieri sp. nov. The type strain is AF1440T ( = LMG 28516T = CCUG 66485T); strains AF1430 ( = LMG 28515 = CCUG 66486) and AF1581 ( = LMG 28517 = CCUG 66487) are reference strains.

  15. Pseudomonas salegens sp. nov., a halophilic member of the genus Pseudomonas isolated from a wetland.

    Science.gov (United States)

    Amoozegar, Mohammad Ali; Shahinpei, Azadeh; Sepahy, Abbas Akhavan; Makhdoumi-Kakhki, Ali; Seyedmahdi, Shima Sadat; Schumann, Peter; Ventosa, Antonio

    2014-10-01

    A novel Gram-stain-negative, aerobic, non-endospore-forming, non-pigmented, rod-shaped, slightly halophilic bacterium, designated GBPy5(T), was isolated from aquatic plants of the Gomishan wetland, Iran. Cells of strain GBPy5(T) were motile. Growth occurred with between 1 and 10% (w/v) NaCl and the isolate grew optimally with 3% (w/v) NaCl. The optimum pH and temperature for growth of the strain were pH 8.0 and 30 °C, respectively, while it was able to grow over a pH range of 6.5-9.0 and a temperature range of 4-35 °C. Phylogenetic analysis, based on 16S rRNA gene sequences, revealed that strain GBPy5(T) is a member of the genus Pseudomonas forming a monophyletic branch. The novel strain exhibited 16S rRNA gene sequence similarity of 95.4% with type strains of Pseudomonas guariconensis PCAVU11(T) and Pseudomonas sabulinigri J64(T), respectively. The major cellular fatty acids of the isolate were C18:1ω7c (37.8%), C16:0 (14.9%), C16:1ω7c (12.9%), C12:0 3-OH (7.1%) and C12:0 (7.0%). The polar lipid pattern of strain GBPy5(T) comprised phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine and one phospholipid. Ubiquinone 9 (Q-9) was the predominant lipoquinone. The G+C content of the genomic DNA of strain GBPy5(T) was 59.2 mol%. On the basis of the phenotypic and phylogenetic data, strain GBPY5(T) represents a novel species of the genus Pseudomonas, for which the name Pseudomonas salegens sp. nov. is proposed. The type strain is GBPy5(T) ( = IBRC-M 10762(T) = CECT 8338(T)). IUMS.

  16. Pseudorhodoplanes sinuspersici gen. nov., sp. nov., isolated from oil-contaminated soil.

    Science.gov (United States)

    Tirandaz, Hassan; Dastgheib, Seyed Mohammad Mehdi; Amoozegar, Mohammad Ali; Shavandi, Mahmoud; de la Haba, Rafael R; Ventosa, Antonio

    2015-12-01

    Strain RIPI 110T was isolated from a soil sample collected from an oil-contaminated site on Siri Island, Persian Gulf, Iran. Cells of the novel isolate were Gram-stain-negative, facultatively anaerobic, non-motile and rod-shaped. Cells divided asymmetrically by budding and formed rosette-like clusters. The optimum pH and temperature for growth were pH 7 and 30 °C, while the strain was able to grow at pH 5.5-8 and 15-35 °C. Strain RIPI 110T utilized only complex carbon sources and pyruvate as the sole carbon source and could not grow under photoautotrophic conditions. The highest 16S rRNA gene sequence similarities, 93.9, 93.9 and 93.5 %, were obtained with Variibacter gotjawalensis GJW-30T, Rhodoplanes roseus 941T and Rhodoplanes elegans AS130T, respectively. The major cellular fatty acids were summed feature 8 (C18 : 1ω7c/ω6c), C16 : 0 and C19 : 0 cyclo ω8c. Polar lipid analyses revealed that strain RIPI 110T contained phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylglycerol, an unknown aminophospholipid and four unknown phospholipids. Ubiquinone-10 was the predominant quinone component. The DNA G+C content was 59.4 mol%. On the basis of the 16S rRNA gene sequence analysis, in combination with chemotaxonomic and physiological data, the novel isolate could not be classified in any recognized genera. Strain RIPI 110T is thus considered to represent a novel species of a new genus within the order Rhizobiales, for which the name Pseudorhodoplanes sinuspersici gen. nov., sp. nov. is proposed. The type strain of the type species is RIPI 110T ( = IBRC-M 10770T = CECT 8374T).

  17. Erythrobacter pelagi sp. nov., a member of the family Erythrobacteraceae isolated from the Red Sea

    KAUST Repository

    Wu, H.-x.

    2011-08-05

    A novel Gram-negative, aerobic, catalase- and oxidase-positive, non-sporulating, non-motile, rod-shaped bacterium, designated strain UST081027-248(T), was isolated from seawater of the Red Sea. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain UST081027-248(T) fell within the genus Erythrobacter. Levels of 16S rRNA gene sequence similarity between the novel strain and the type strains of Erythrobacter species ranged from 95.3% (with Erythrobacter gangjinensis) to 98.2% (with Erythrobacter citreus). However, levels of DNA-DNA relatedness between strain UST081027-248(T) and the type strains of closely related species were below 70%. Optimal growth of the isolate occurred in the presence of 2.0% NaCl, at pH 8.0-9.0 and at 28-36 degrees C. The isolate did not produce bacteriochlorophyll a. The predominant cellular fatty acids were C-17:1 omega 6c, summed feature 8 (C-18:1 omega 6c and/or C-18:1 omega 7c) and C-15:0 2-OH. The genomic DNA G+C content of strain UST081027-248(T) was 60.4 mol%. Phenotypic properties and phylogenetic distinctiveness clearly indicated that strain UST081027-248(T) represents a novel species of the genus Erythrobacter, for which the name Erythrobacter pelagi sp. nov. is proposed. The type strain is UST081027-248(T) (=JCM 17468(T)=NRRL 59511(T)).

  18. Planomonospora algeriensis sp. nov., an actinobacterium isolated from a Saharan soil of Algeria.

    Science.gov (United States)

    Chaabane Chaouch, Fawzia; Bouras, Noureddine; Mokrane, Salim; Bouznada, Khaoula; Zitouni, Abdelghani; Pötter, Gabriele; Spröer, Cathrin; Klenk, Hans-Peter; Sabaou, Nasserdine

    2017-02-01

    A filamentous actinobacterium, designated strain PM3T, was isolated from a Saharan soil sample collected from Béni-Abbès, Béchar (South-West Algeria). A polyphasic taxonomic study was carried out to establish the status of strain PM3T. The isolate was found to have morphological and chemotaxonomical properties associated with members of the genus Planomonospora. The new isolated microorganism developed cylindrical sporangia arranged in double parallel rows on aerial mycelium, each one containing a motile single sporangiospore. The cell wall of the strain was found to contain meso-diaminopimelic acid. Whole-cell hydrolysates were found to contain madurose, glucose, mannose and ribose. The predominant menaquinone was identified as MK-9(H2) (69.6%). The polar lipids detected were identified as diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, phosphatidylethanolamine, phosphatidylhydroxyethanolamine and glucosamine-containing lipids. The major fatty acids were found to be C17:1ω9c (38.6%) and C17:0 (24.2%). Results of 16S rRNA gene sequence comparison revealed that strain PM3T shared a high degree of 16S rRNA gene sequence similarity with Planomonospora sphaerica DSM 44632T (99.3%), Planomonospora parontospora subsp. parontospora DSM 43177T (99.2%) and P. parontospora subsp. antibiotica DSM 43869T (99.0%). DNA-DNA hybridization values between strain PM3T and the type strains of the closely related species were between 58.4 and 70.1%. The combination of phylogenetic analysis, DNA-DNA relatedness data, phenotypic characteristics and chemotaxonomic data support the conclusion that strain PM3T represents a novel species of the genus Planomonospora, for which the name Planomonospora algeriensis sp. nov. is proposed. The type strain is PM3T (=DSM 46752T = CECT 9047T).

  19. Listeria weihenstephanensis sp. nov., isolated from the water plant Lemna trisulca taken from a freshwater pond.

    Science.gov (United States)

    Lang Halter, Evi; Neuhaus, Klaus; Scherer, Siegfried

    2013-02-01

    The phylogenetic position and phenotypic characteristics of two non-spore-forming bacilli similar to members of the genus Listeria were studied. The gram-reaction-positive, slightly motile, facultatively anaerobic strains were isolated from the water plant Lemna trisulca sampled from a freshwater pond in Bavaria, Germany. Although no identification was possible employing the API Listeria test (bioMérieux), 16S rRNA sequence analysis confirmed a close phylogenetic similarity to Listeria rocourtiae DSM 22097(T) (99.0 % sequence similarity) and a more distant relationship to other Listeria species (96.0 % to Listeria monocytogenes DSM 20600(T) and 95.0 % similarity to Listeria grayi DSM 20601(T)). DNA-DNA hybridization analysis between the isolates and Listeria rocourtiae DSM 22097(T) yielded a similarity of 22.5 %. Analysis of partial sequences of sigB, prs, recA and HSP60 were studied and compared with those of other members of the genus Listeria and Brochothrix thermosphacta DSM 20171(T) supporting the relationships indicated by 16S rRNA gene sequences. The studied isolates were non-haemolytic and were not associated with cases of human or animal disease. While the results demonstrate that the strains belong to the genus Listeria, phenotypic and genotypic differences from Listeria rocourtiae DSM 22097(T) suggest that the strains represent a novel species for which the name Listeria weihenstephanensis sp. nov. is proposed; the type strain is WS 4560(T) ( = DSM 24698(T) = LMG 26374(T)), with WS 4615 ( = DSM 24699 = LMG 26375) as a second strain of the species.

  20. Actinomyces succiniciruminis sp. nov. and Actinomyces glycerinitolerans sp. nov., two novel organic acid-producing bacteria isolated from rumen

    NARCIS (Netherlands)

    Palakawong Na Ayudthaya, Susakul; Pristaš, Peter; Hrehová, Ludmila; Javorský, Peter; Stams, A.J.M.; Plugge, Caroline M.

    2016-01-01

    Two bacterial strains, Am4 and G10 were isolated from rumen fluid of different ruminants: cow (Holstein-Friesian) and sheep (Slovenskè merino), respectively. They were isolated from different hosts and regions, but showed 99.2% similarity of the 16S rRNA genes. Both strains are versatile and

  1. Subtypes Distribution and Frequency of Blastocystis sp. Isolated from Diarrheic and Non-diarrheic Patients

    Directory of Open Access Journals (Sweden)

    Nahid JALALLOU

    2017-02-01

    Full Text Available Background: Blastocystis is one of the most common parasites, reported from both human and animals. This parasite is more prevalent in regions with low levels of hygiene, close contact with animal and unsuitable disposal systems. The aim of the study was to subtype Blastocystis sp., isolated from diarrheic and non-diarrheic patients using sequencing of 18S ribosomal DNA.Methods: Totally, 300 stool samples were collected from diarrheic and non-diarrheic patients referred to Imam Reza Hospital, Tehran from Apr to Aug 2015. All samples were concentrated using conventional Formalin – ether technique and recognized under light microscope. The fresh stool samples were also cultivated in clotted fetal bovine medium and examined for growing of Blastocystis every 48 h with direct smear slides for 10 d.DNA extraction was performed on all positive samples. Amplified DNA fragment of 18S rDNA was sequenced and compared with reference genes, previously deposited in Genbank database.Results: The number of diarrheic and non-diarrheic patients participated in the study was 134 (44.66% and 166 (55.34%, respectively. Three subtypes 1, 2, 3 were identified from positive samples. Subtype 2 was the most prevalent (36.5% followed by subtype 1 (33.3% and subtype 3 (30.2%. There were no mixed subtypes. Furthermore, the most prevalent subtypes in diarrheic and non-diarrheic patients were subtype 2 (39.28% and subtype 1 (37.14%, respectively.Conclusion: Blastocystis sp., is one of the most prevalent unicellular parasites among diarrheic and non-diarrheic patients. Indeed, ST2 was the most prevalent subtype particularly in those samples collected from diarrheic patients.

  2. Nocardia xestospongiae sp. nov., isolated from a marine sponge in the Andaman Sea.

    Science.gov (United States)

    Thawai, Chitti; Rungjindamai, Nattawut; Klanbut, Khanungkan; Tanasupawat, Somboon

    2017-05-01

    A marine sponge-derived actinomycete, strain ST01-07T, was isolated from Xestospongia sp. collected from the Andaman Sea. The strain was characterised taxonomically using a polyphasic approach. The strain contained meso-diaminopimelic acid in the peptidoglycan, whole-cell sugars were arabinose, galactose, glucose, mannose and ribose. Mycolic acids that co-migrated with those from Nocardia araoensis NBRC 100135T were observed in whole-cell extracts. MK-8(H4ω-cycl) was the predominant menaquinone. Major cellular fatty acids were C17 : 1ω8c, C16 : 0 and C17 : 0. The diagnostic phospholipids in the cell consisted of diphosphatidylglycerol, phosphatidylethanolamine and phosphatidylinositol. Phylogenetic analysis based on the 16S rRNA gene sequence showed that strain ST01-07T belonged to the genus Nocardia and was most closely related to N. araoensis IFM 0575T (98.71 % 16S rRNA gene sequence similarity), Nocardia niwae W9241T (98.56 %), Nocardia beijingensis AS4.1521T (98.41 %) and Nocardia arthritidis IFM 10035T (98.36 %). In addition, low DNA-DNA relatedness values (13.6±0.1% to 40.1±0.6%) confirmed that strain ST01-07T represents a novel species of the genus Nocardia, for which the name Nocardia xestospongiae sp. nov., is proposed. The type strain is ST01-07T (=BCC 45622T=NBRC 109069T).

  3. Rhizobium taibaishanense sp. nov., isolated from a root nodule of Kummerowia striata.

    Science.gov (United States)

    Yao, Li Juan; Shen, Yao Yao; Zhan, Jun Peng; Xu, Wei; Cui, Guang Ling; Wei, Ge Hong

    2012-02-01

    During a study of the diversity and phylogeny of rhizobia in the root nodules of Kummerowia striata grown in north-western China, four strains were classified in the genus Rhizobium on the basis of their 16S rRNA gene sequences. The 16S rRNA gene sequences of three of these strains were identical and that of the other strain, which was the only one isolated in Yangling, differed from the others by just 1 bp. The16S rRNA gene sequences of the four strains showed a mean similarity of 99.3 % with the most closely related, recognized species, Rhizobium vitis. The corresponding recA and glnA gene sequences showed similarities with established species of Rhizobium of less than 86.5 % and less than 89.6 %, respectively. These low similarities indicated that the four strains represented a novel species of the genus Rhizobium. The strains were also found to be distinguishable from the closest related, established species (R. vitis) by rep-PCR DNA fingerprinting, analysis of cellular fatty acid profiles and from the results of a series of phenotypic tests. The level of DNA-DNA relatedness between the representative strain CCNWSX 0483(T) and Rhizobium vitis IAM 14140(T) was only 40.13 %. Therefore, a novel species, Rhizobium taibaishanense sp. nov., is proposed, with strain CCNWSX 0483(T) ( = ACCC 14971(T) = HAMBI 3214(T)) as the type strain. In nodulation and pathogenicity tests, none of the four strains of Rhizobium taibaishanense sp. nov. was able to induce any nodule or tumour formation on plants. As no amplicons were detected when DNA from the strains was run in PCR with primers for the detection of nodA, nifH and virC gene sequences, the strains probably do not carry sym or vir genes.

  4. Antimicrobial Activity of Bacillus sp. Natural Isolates and Their Potential Use in the Biocontrol of Phytopathogenic Bacteria

    Directory of Open Access Journals (Sweden)

    Tanja Berić

    2012-01-01

    Full Text Available Screening of 203 Bacillus sp. natural isolates for antimicrobial activity against phytopathogenic bacteria showed that 127 tested strains inhibit at least one sensitive strain, which illustrates their potential use as biocontrol agents. Among them, 104 isolates showed significant antagonism against Xanthomonas oryzae pv. oryzae, and only one of these (VPS50.2 synthesizes bacteriocin. An additional screening tested whether 51 isolates contained genes involved in the biosynthesis of lipopeptides of the iturin and surfactin classes. Results show that 33 isolates harbour the operon for iturin biosynthesis, and six of them carry the sfp gene, responsible for the biosynthesis of surfactin. Lipopeptide purification from the supernatant of isolate SS12.9 (identified as B. subtilis or B. amyloliquefaciens was performed using ethyl acetate extraction, ultrafiltration and reversed phase HPLC. Mass spectrometry analysis confirmed that isolate SS12.9 produces a substance of the iturin class with potential for biocontrol of X. oryzae pv. oryzae.

  5. Two new species of the genus Candida in the Zygoascus clade, Candida lundiana sp. nov. and Candida suthepensis sp. nov., isolated from raw honey in Thailand.

    Science.gov (United States)

    Saksinchai, Sujinan; Suzuki, Motofumi; Lumyong, Saisamorn; Ohkuma, Moriya; Chantawannakul, Panuwan

    2012-03-01

    During a survey of yeasts associated with raw honey collected in Thailand, two strains of the Zygoascus clade were isolated from the Asian cavity-nesting honeybee Apis cerana and the stingless bee Homotrigona fimbriata. Phylogeny based on 26S rDNA D1/D2 sequences placed these yeasts as members of a clade including Candida bituminiphila, Candida patagonica and Candida polysorbophila. The strains of the two novel species, CBS 12271(T) and CBS 12270(T), respectively, could be unquestionably distinguished from their relatives by rDNA sequences and other taxonomic characteristics. Therefore, the novel anamorphic species, Candida lundiana sp. nov. (type strain CBS 12271(T) = JCM 16823(T)) and Candida suthepensis sp. nov. (type strain CBS 12270(T) = JCM 16822(T)) are described.

  6. A potent fish pathogenic bacterial killer Streptomyces sp. isolated from the soils of east coast region, South India

    Directory of Open Access Journals (Sweden)

    Durairaj Thirumurugan

    2013-10-01

    Full Text Available Objective: To investigate the potentiality of the marine actinobacteria isolated from marine soil against fish pathogenic bacteria. Methods: In the present study, a total of 33 soil samples were collected from the Bay of Bengal, east coast region (ECR of Tamilnadu, South India. Then they were used for the isolation of actinobacteria by using conventional serial dilution technique on starch casein agar medium. The antibacterial activities of the actinobacteria were screened primarily by using cross streak plate method against fish pathogenic bacteria namely Vibrio alginolyticus, Vibrio parahaemolyticus, Vibrio cholera, Aeromonas sp. and Pseudomonas sp. The antimicrobial efficacy of the selected isolates was carried out with various organic solvents, and finally the active compound was subjected to chromatographic techniques including TLC and GC-MS. Results: Of the 82 actinobacteria isolated, 21 (26% isolates were possessed antibacterial activity against fish pathogenic bacteria. Out of 21 antibacterial isolates, the isolate ECR77 was selected for further study based on its potential activity against fish pathogenic bacteria. Of the various solvents tested, the ethyl acetate extract had good antibacterial activity against the tested bacterial pathogens. The isolate ECR77 grew well on oat meal agar medium with 2% salt level at 35 °C. GC-MS study found that the presence of bioactive compounds namely tetradecanoic acid, n-hexadecanoic acid and octadecanoic acid. The morphological, physiological, biochemical and cultural characteristics of the potential isolate were supported the identity up to generic level as Streptomyces sp. ECR77. Conclusions: The results obtained from this study concludes that the ECR soils of South India is a hot spot of novel bioactive compound producing marine actinobacteria with great pharmaceutical values.

  7. Antibiotic resistance in Staphylococcus sp. isolated from the vaginal environment of squirrel monkeys (Saimiri spp.) bred ex situ.

    Science.gov (United States)

    Donato, Anna C J; Penna, Bruno; Consalter, Angélica; Carvalho, Daniela D; Lilenbaum, Walter; Ferreira, Ana M R

    2017-06-01

    Squirrel monkeys (Saimiri spp.) have been widely used as animal models; however, the occurrence of Staphylococcus sp in their vaginal microbiota remains to be described. Samples were collected from 175 adult squirrel monkeys to isolate Staphylococcus sp and to test for susceptibility to a panel of nine antimicrobial agents. Isolates with characteristics of the genus Staphylococcus were detected in 95 of 175 samples. Coagulase-negative staphylococci (CoNS) were the most common (95.8%, 91/95) isolates. Resistance to antibiotics was observed in 47.3% (45/95) of isolates. Resistance to tetracycline was observed in 28.5% (26/91), chloramphenicol in 15.4% (14/91), and methicillin in 13.2% (12/91) of CoNS. Coagulase-positive staphylococci were resistant to tetracycline, erythromycin, and methicillin. The presence of Staphylococcus sp in vaginal samples obtained from squirrel monkeys suggests that these animals were in a carrier state. Furthermore, isolating strains resistant to methicillin reinforces the biosafety care of a colony. © 2017 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.

  8. Syntrophaceticus schinkii gen. nov., sp. nov., an anaerobic, syntrophic acetate-oxidizing bacterium isolated from a mesophilic anaerobic filter.

    Science.gov (United States)

    Westerholm, Maria; Roos, Stefan; Schnürer, Anna

    2010-08-01

    A mesophilic, syntrophic acetate-oxidizing bacterium, designated strain Sp3(T), was isolated from sludge from a mesophilic methanogenic digestor operating at a high ammonium concentration (6.4 g L(-1) NH(4)(+)-N). The strain showed acetate-oxidizing ability in cocultivation with a hydrogen-consuming methanogen. Comparative 16S rRNA gene sequence analysis confirmed that strain Sp3(T) belonged to the Firmicutes-Clostridia class. The most closely related species was Thermacetogenium phaeum (16S rRNA gene sequence identity 92%). Strain Sp3(T) used ethanol, betaine and lactate as carbon and electron sources and showed growth between 25 and 40 degrees C and pH 6.0 and 8.0. Based on the phylogenetic position and the physiological characteristics of strain Sp3(T), this new syntrophic, acetate-oxidizing bacterium is proposed as the new genus and species Syntrophaceticus schinkii, with Sp3(T) (=JCM 16669(T)) as the type strain. An isolate (strain Esp=JCM 16670) with high 16S rRNA gene sequence identity (99%) to syntrophic acetate-oxidizing Clostridium ultunense was also retrieved from the methanogenic digestor.

  9. Polycyclic aromatic hydrocarbon-degrading species isolated from Hawaiian soils: Mycobacterium crocinum sp. nov., Mycobacterium pallens sp. nov., Mycobacterium rutilum sp. nov., Mycobacterium rufum sp. nov. and Mycobacterium aromaticivorans sp. nov

    National Research Council Canada - National Science Library

    Hennessee, Christiane T; Seo, Jong-Su; Alvarez, Anne M; Li, Qing X

    2009-01-01

    .... Nine strains isolated from these soils were identified as rapidly growing members of the genus Mycobacterium through basic phenotypic characteristics and through sequence similarity of three genes...

  10. [Isolation and identification of Sulfobacillus sp. strains and their application in pyrite bioleaching].

    Science.gov (United States)

    Peng, Tangjian; Zhong, Shuiping; Chen, Chaoran; Peng, Cheng; Jiang, Chengying

    2013-12-04

    The work aimed to isolate and culture the acidophilic and moderately thermophilic microorganisms for leaching the sulfide ore. We enriched and incubated iron- or sulfur-oxidizing strains from muddy water of acuric hot spring utilizing ferrous irons or elemental sulfur as substrates. Then, we identified the strains by their morphological, physiological, biochemical properties and phylogenetic positions, and estimated their bioleaching potential according to their oxidation rate of pyrite. Two acidophilic, aerobic and facultative heterotrophic bacterial strains, Costa C and Costa E, were isolated from the samples of sulfuric hot springs of Costa Rica. Cells of the two strains were gram-positive, spore-forming and rod-shaped [(0.4 - 0.6) microm x (2.5 - 4.0) microm and (0.4 - 0.7) microm x (2.4 - 4.9) microm, respectively]. Strain Costa C grew at a temperature range of 30 degrees C - 55 degrees C and a pH range of 1.2 - 5.0, optimally at 50 degrees C and 2.8. Strain Costa E grew at a temperature range of 30 degrees C - 55 degrees C and at a pH range of 1.4 - 5.0, optimally at 40 degrees C and 2.8. Two strains could autotrophically grow on inorganic substrates such as ferrous irons, element sulfur and K2 S4 O6 and also could utilize organic substrates like yeast extract for heterotrophic growth. Phylogenetic analysis based on 16S rRNA gene sequences alignment demonstrated that the highest similarity between strain Costa C, Costa E and other species of the genus Sulfobacillus was above 99%. Based on morphological, physiological and biochemical analysis, Costa C and Costa E can be affiliated to the genus Sulfobacillus, for which the names Sulfobacillus sp. strain Costa C and Sulfobacillus sp. strain Costa E were proposed. Both strains could oxidize pyrite, and the oxidation rates arrived 63.0 mg/L x d and 56.8 mg/L x d, respectively.

  11. Desulfuromonas svalbardensis sp nov and Desulfuromusa ferrireducens sp nov., psychrophilic, Fe(III)-reducing bacteria isolated from Arctic sediments, Svalbard

    OpenAIRE

    Vandieken, V.; Mussmann, M.; Niemann, H.; Jørgensen, B. B.

    2006-01-01

    Two psychrophilic, Gram-negative, rod-shaped, motile bacteria (strains 112(T) and 102(T)) that conserved energy from dissimilatory Fe(III) reduction concomitant with acetate oxidation were isolated from permanently cold Arctic marine sediments. Both strains grew at temperatures down to -2 degrees C, with respective temperature optima of 14 degrees C and 14-17 degrees C for strains 112(T) and 102(T). The isolated strains reduced Fe(III) using common fermentation products such as acetate, lacta...

  12. Bioactive endophytic fungi isolated from Caesalpinia echinata Lam. (Brazilwood) and identification of beauvericin as a trypanocidal metabolite from Fusarium sp.

    Science.gov (United States)

    Campos, Fernanda Fraga; Sales Junior, Policarpo A; Romanha, Alvaro José; Araújo, Márcio S S; Siqueira, Ezequias P; Resende, Jarbas M; Alves, Tânia M A; Martins-Filho, Olindo A; Santos, Vera Lúcia dos; Rosa, Carlos A; Zani, Carlos L; Cota, Betania Barros

    2015-02-01

    Aiming to identify new sources of bioactive secondary metabolites, we isolated 82 endophytic fungi from stems and barks of the native Brazilian tree Caesalpinia echinata Lam. (Fabaceae). We tested their ethyl acetate extracts in several in vitro assays. The organic extracts from three isolates showed antibacterial activity against Staphylococcus aureus and Escherichia coli [minimal inhibitory concentration (MIC) 32-64 μg/mL]. One isolate inhibited the growth of Salmonella typhimurium (MIC 64 μg/mL) and two isolates inhibited the growth of Klebsiella oxytoca (MIC 64 μg/mL), Candida albicans and Candida tropicalis (MIC 64-128 μg/mL). Fourteen extracts at a concentration of 20 μg/mL showed antitumour activities against human breast cancer and human renal cancer cells, while two isolates showed anti-tumour activities against human melanoma cancer cells. Six extracts were able to reduce the proliferation of human peripheral blood mononuclear cells, indicating some degree of selective toxicity. Four isolates were able to inhibit Leishmania (Leishmania) amazonensis and one isolate inhibited Trypanosoma cruzi by at least 40% at 20 μg/mL. The trypanocidal extract obtained from Fusarium sp. [KF611679] culture was subjected to bioguided fractionation, which revealed beauvericin as the compound responsible for the observed toxicity of Fusarium sp. to T. cruzi. This depsipeptide showed a half maximal inhibitory concentration of 1.9 μg/mL (2.43 μM) in a T. cruzi cellular culture assay.

  13. Reuse of red seaweed waste by a novel bacterium, Bacillus sp. SYR4 isolated from a sandbar.

    Science.gov (United States)

    Kang, Soyeon; Kim, Joong Kyun

    2015-01-01

    A potent bacterial strain was isolated from a sandbar and identified as Bacillus sp. SYR4 for the reuse of red seaweed waste. The isolate possessed both agarase and carrageenase activities. The optimal pH and temperature for the degradation of both agar and carrageenan by the isolate were found to be pH 7.5 and 30 °C, respectively. The effects of cations on cell growth and degradation ability of the isolate were significant in comparison with controls. The isolate produced 0.27 and 0.29 g l(-1) of reducing sugars from 1 g l(-1) of agar and carrageenan, respectively. When the isolate was cultivated in red seaweed powder medium for 10 days, the yield of reducing sugars was 24 %. As a result, the eco-friendly reuse of red seaweed waste by this isolate appears to be feasible for the production of reducing sugars and could be a valuable resource. To the best of our knowledge, this is the first study to directly demonstrate the ability of Bacillus sp. SYR4 to degrade both agar and carrageenan.

  14. Draft genome sequence of Streptomyces sp. strain F1, a potential source for glycoside hydrolases isolated from Brazilian soil

    Directory of Open Access Journals (Sweden)

    Ricardo Rodrigues de Melo

    Full Text Available ABSTRACT Here, we show the draft genome sequence of Streptomyces sp. F1, a strain isolated from soil with great potential for secretion of hydrolytic enzymes used to deconstruct cellulosic biomass. The draft genome assembly of Streptomyces sp. strain F1 has 69 contigs with a total genome size of 8,142,296 bp and G + C 72.65%. Preliminary genome analysis identified 175 proteins as Carbohydrate-Active Enzymes, being 85 glycoside hydrolases organized in 33 distinct families. This draft genome information provides new insights on the key genes encoding hydrolytic enzymes involved in biomass deconstruction employed by soil bacteria.

  15. Thermus caldifontis sp. nov., a thermophilic bacterium isolated from a hot spring.

    Science.gov (United States)

    Khan, Inam Ullah; Habib, Neeli; Hussain, Firasat; Xian, Wen-Dong; Amin, Arshia; Zhou, En-Min; Ahmed, Iftikhar; Zhi, Xiao-Yang; Li, Wen-Jun

    2017-08-01

    A thermophilic bacterial strain, designated YIM 73026T was isolated from a sediment sample collected from a hot spring in Tibet, PR China. The taxonomic position of the novel isolate was investigated by a polyphasic approach. The novel isolate was Gram-stain-negative, aerobic and rod-shaped. Colonies were circular, convex, opaque and yellow. The strain grew at 50-70 °C (optimum, 60 °C), pH 6.0-8.0 (optimum, pH 7.0) and in the presence of up to 1.0 % NaCl (w/v). Comparison of the 16S rRNA gene sequences of YIM 73026T and those of other members of the genus Thermus showed sequence similarities ranging from 91.2 to 97.5 %, with YIM 73026T showing closest sequence similarity to Thermus scotoductus SE-1T (97.5 %). DNA-DNA hybridization results, however, revealed that DNA-DNA reassociation values between YIM 73026T and T. scotoductus DSM 8553T (37.6 %), Thermusamyloliquefaciens YIM 77409T (34.5 %), Thermusantranikianii DSM 12462T (30.3 %), Thermuscaliditerrae YIM 77925T (28.6 %) and Thermustengchongensis YIM 77924T (27.3 %) were well below the 70 % limit for species identification. YIM 73026T contained MK-8 as the respiratory quinone, and iso-C15 : 0, iso-C16 : 0, iso-C17 : 0 and anteiso-C15 : 0 as the major cellular fatty acids (>10 %). The polar lipids consisted of one aminophospholipid, one phospholipid and two glycolipids. The genomic DNA G+C content of YIM 73026T was 65.4 mol%. On the basis of morphological, chemotaxonomic and genotypic characteristics, it is proposed that the isolate represents a novel species of the genus Thermus, for which the name Thermus caldifontis sp. nov. is proposed. The type strain is YIM 73026T (=NBRC 112415T=CCTCC AB 2016305T).

  16. Acinetobacter larvae sp. nov., isolated from the larval gut of Omphisa fuscidentalis.

    Science.gov (United States)

    Liu, Song; Wang, Yanwei; Ruan, Zhiyong; Ma, Kedong; Wu, Bo; Xu, Yansheng; Wang, Jingli; You, Yang; He, Mingxiong; Hu, Guoquan

    2017-04-01

    A Gram-stain-negative, non-spore-forming, non-motile and aerobic coccobacilli-shaped strain, designated BRTC-1T, was isolated from the gut of Omphisa fuscidentalis Hampson, which is a larva of a moth and was collected from Xishuangbanna Dai Autonomous Prefecture in China. The isolate was found to grow at NaCl concentrations of 0-5 % (w/v) (optimum: 0 %), 10-45 °C (optimum: 30-35 °C) and pH 5.0-9.0 (optimum: pH 6.0) on tryptic soy agar. Analysis of the 16S rRNA gene sequence indicated that the isolate belonged to the genus Acinetobacter and was most closely related to Acinetobacter rudis LMG 26107T, Acinetobacter guillouiae LMG 988T and Acinetobacter bereziniae LMG 1003T with 96.4, 96.3 and 96.3 % sequence similarity, respectively. The comparative sequence analyses of the rpoB and gyrB genes showed that BRTC-1T is distant from the species of the genus Acinetobacter with validly published names (≤84.0 and ≤82.0 % similarity, respectively). The average nucleotide identity and digital DNA-DNA hybridization values (≤77.0 and ≤22.8 %, respectively) between the whole-genome sequence of BRTC-1T and those of the known taxa were far below the thresholds used to discriminate bacterial species. The major fatty acids were determined to be C16 : 0, C18 : 1ω9c and C16 : 1ω7c/iso-C15 : 0 2-OH. The respiratory quinone was Q-9. The polar lipids were found to be diphosphatidyglycerol, phosphatidylglycerol, phosphatidylethanolamine, five phospholipids and one phosphatidylcholine. Based on its phenotypic and chemotaxonomic characteristics from this study, the isolate is concluded to represent a novel species of the genus Acinetobacter, for which the name Acinetobacter larvae sp. nov. is proposed. The type strain is BRTC-1T (=ACCC 19936T=JCM 31367T).

  17. Salinivibrio kushneri sp. nov., a moderately halophilic bacterium isolated from salterns.

    Science.gov (United States)

    López-Hermoso, Clara; de la Haba, Rafael R; Sánchez-Porro, Cristina; Ventosa, Antonio

    2017-12-21

    Ten Gram-strain-negative, facultatively anaerobic, moderately halophilic bacterial strains, designated AL184T, IB560, IB563, IC202, IC317, MA421, ML277, ML318, ML328A and ML331, were isolated from water ponds of five salterns located in Spain. The cells were motile, curved rods and oxidase and catalase positive. All of them grew optimally at 37°C, at pH 7.2-7.4 and in the presence of 7.5% (w/v) NaCl. Based on phylogenetic analyses of the 16S rRNA, the isolates were most closely related to Salinivibrio sharmensis BAGT (99.6-98.2% 16S rRNA gene sequence similarity) and Salinivibrio costicola subsp. costicola ATCC 35508T (99.0-98.1%). According to the MLSA analyses based on four (gyrB, recA, rpoA and rpoD) and eight (ftsZ, gapA, gyrB, mreB, pyrH, recA, rpoA and topA) concatenated gene sequences, the most closely relatives were S. siamensis JCM 14472T (96.8-95.4% and 94.9-94.7%, respectively) and S. sharmensis DSM 18182T (94.0-92.6% and 92.9-92.7%, respectively). In silico DNA-DNA hybridization (GGDC) and average nucleotide identity (ANI) showed values of 23.3-44.8% and 80.2-91.8%, respectively with the related species demonstrating that the ten isolates constituted a single novel species of the genus Salinivibrio. Its pangenome and core genome consist of 6041 and 1230 genes, respectively. The phylogeny based on the concatenated orthologous core genes revealed that the ten strains form a coherent phylogroup well separated from the rest of the species of the genus Salinivibrio. The major cellular fatty acids of strain AL184T were C16:0 and C18:1. The DNA G+C content range was 51.9-52.5mol% (Tm) and 50.2-50.9mol% (genome). Based on the phylogenetic-phylogenomic, phenotypic and chemotaxonomic data, the ten isolates represent a novel species of the genus Salinivibrio, for which the name Salinivibrio kushneri sp. nov. is proposed. The type strain is AL184T (=CECT 9177T=LMG 29817T). Copyright © 2017 Elsevier GmbH. All rights reserved.

  18. Antagonistic activities of some Bifidobacterium sp. strains isolated from resident infant gastrointestinal microbiota on Gram-negative enteric pathogens.

    Science.gov (United States)

    Delcaru, Cristina; Alexandru, Ionela; Podgoreanu, Paulina; Cristea, Violeta Corina; Bleotu, Coralia; Chifiriuc, Mariana Carmen; Bezirtzoglou, Eugenia; Lazar, Veronica

    2016-06-01

    The gastrointestinal microbiota contributes to the consolidation of the anti-infectious barrier against enteric pathogens. The purpose of this study was to investigate the influence of Bifidobacterium sp. strains, recently isolated from infant gastrointestinal microbiota on the in vitro growth and virulence features expression of enteropathogenic bacterial strains. The antibacterial activity of twelve Bifidobacterium sp. strains isolated from human feces was examined in vitro against a wide range of Gram negative pathogenic strains isolated from 30 infant patients (3 days to 5 years old) with diarrhea. Both potential probiotic strains (Bifidobacterium longum, Bifidobacterium pseudocatenulatum, Bifidobacterium catenulatum, Bifidobacterium breve, Bifidobacterium ruminantium) and enteropathogenic strains (EPEC, EIEC, Klebsiella pneumoniae, Salmonella sp., Yersinia enterocolitica, Pseudomonas aeruginosa) were identified by MALDI-TOF and confirmed serologically when needed. The bactericidal activity, growth curve, adherence to the cellular HEp-2 substratum and production of soluble virulence factors have been assessed in the presence of different Bifidobacterium sp. cultures and fractions (whole culture and free-cell supernatants). Among the twelve Bifidobacterium sp. strains, the largest spectrum of antimicrobial activity against 9 of the 18 enteropathogenic strains was revealed for a B. breve strain recently isolated from infant intestinal feces. The whole culture and free-cell supernatant of B. breve culture decreased the multiplication rate, shortened the log phase and the total duration of the growth curve, with an earlier entrance in the decline phase and inhibited the adherence capacity to a cellular substratum and the swimming/swarming motility too. These results indicate the significant probiotic potential of the B. breve strain. Copyright © 2016 Elsevier Ltd. All rights reserved.

  19. Nocardiopsis akesuensis sp. nov., an actinomycete isolated from a salt water beach.

    Science.gov (United States)

    Gao, Guang-Bin; Luo, Xiao-Xia; Xia, Zhan-Feng; Zhang, Yao; Wan, Chuan-Xing; Zhang, Li-Li

    2016-12-01

    The taxonomic position of a novel actinomycete, strain TRM 46250T, isolated from the sediment of a salt water beach at Baicheng, Xinjiang, China, was determined by a polyphasic approach. Strain TRM 46250T grew optimally in the presence of 2 % (w/v) NaCl and an optimum temperature range for growth of 28-37 °C. The whole-cell sugars of strain TRM 46250T were ribose, xylose, mannose and galactose. The diagnostic diamino acid was meso-diaminopimelic acid. The polar lipids were phosphatidylinositol, phosphatidylcholine, phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol, phosphatidylmethyl ethanolamine and six unidentified phospholipids. The predominant menaquinones were MK-10, MK-10(H6) and MK-10(H8). The major fatty acids were 10-methyl C18 : 0, iso-C16 : 0, C16 : 0, iso-G C16 : 1 and C18 : 1ω9c. Based on morphological and chemotaxonomic characteristics the isolate was determined to belong to the genus Nocardiopsis. The phylogenetic tree based on its nearly complete 16S rRNA gene sequence (1493 nt) with those of representative strains showed that the strain consistently falls into a distinct phyletic line together with Nocardiopsis gilva YIM 90087T (97.68 % similarity) and a subclade consisting of Nocardiopsis composta KS9T (97.52 %), Nocardiopsis rosea YIM 90094T (97.44 %) and Nocardiopsis rhodophaea YIM 90096T (97.16 %). However, DNA-DNA hybridization studies between strain TRM 46250T and N. gilva YIM 90087T showed only 36.94 % relatedness. On the basis of these data, strain TRM 46250T should be designated as a representative of a novel species of the genus Nocardiopsis, for which the name Nocardiopsis akesuensis sp. nov. is proposed. The type strain is TRM 46250T (=CCTCC AA 2015027T=KCTC 39725T).

  20. Streptomyces fukangensis sp. nov., a novel alkaliphilic actinomycete isolated from a saline-alkaline soil.

    Science.gov (United States)

    Zhang, Yong-Guang; Wang, Hong-Fei; Liu, Qing; Hozzein, Wael N; Wadaan, Mohammed A M; Cheng, Juan; Chen, Yue-Ji; Zhang, Yuan-Ming; Li, Wen-Jun

    2013-12-01

    An alkaliphilic actinobacterium, designated EGI 80050(T), was isolated from a desert soil sample of Xinjiang, north-west China, and characterized by a polyphasic approach. The isolate was observed to produce purple orange-yellow aerial mycelium and dark orange-yellow substrate mycelium on yeast extract-malt extract agar medium. Whole-cell hydrolysates of strain EGI 80050(T) were found to contain LL-diaminopimelic acid as the diagnostic diamino acid, and galactose, glucose, rhamnose and mannose as the main sugars. The major fatty acids identified were C16:0-iso (36.8 %), C15:0-anteiso (17.3 %), 15:0-iso (13.2 %) and 14:0-iso (10.5 %). The predominant menaquinones detected were MK-9(H6) and MK-9(H8), while the characteristic polar lipids were identified as diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, phosphatidylinositol mannosides, phosphatidylmethylethanolamine and three unknown phospholipids. The G+C content of the genomic DNA was determined to be 67.9 mol%. Phylogenetic analysis based on 16S rRNA gene sequences affiliated the strain EGI 80050(T) to the genus Streptomyces. Levels of 16 rRNA gene sequence similarities between strain EGI 80050(T) and Streptomyces candidus NRRL ISP-5141(T), Streptomyces cremeus NBRC 12760(T), Streptomyces spiroverticillatus NBRC 12821(T), Streptomyces violaceorectus NBRC 13102(T), Streptomyces cinereoruber subsp. cinereoruber NBRC 12756(T) were 96.7, 96.6, 96.6, 96.6 and 96.6 %, respectively. Based on the phenotypic, chemotaxonomic and phylogenetic data, strain EGI 80050(T) is considered to represent a novel species of the genus Streptomyces, for which the name Streptomyces fukangensis sp. nov. (type strain EGI 80050(T) = BCRC 16945(T) = JCM 19127(T)) is proposed.