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Sample records for asteraceae disentangling phylogenetic

  1. Intra-individual polymorphism in diploid and apomictic polyploid hawkweeds (Hieracium, Lactuceae, Asteraceae: disentangling phylogenetic signal, reticulation, and noise

    Directory of Open Access Journals (Sweden)

    Chrtek Jindřich

    2009-09-01

    Full Text Available Abstract Background Hieracium s.str. is a complex species-rich group of perennial herbs composed of few sexual diploids and numerous apomictic polyploids. The existence of reticulation and the near-continuity of morphological characters across taxa seriously affect species determination, making Hieracium one of the best examples of a 'botanist's nightmare'. Consequently, its species relationships have not previously been addressed by molecular methods. Concentrating on the supposed major evolutionary units, we used nuclear ribosomal (ETS and chloroplast (trnT-trnL sequences in order to disentangle the phylogenetic relationships and to infer the origins of the polyploids. Results Despite relatively low interspecific variation, the nuclear data revealed the existence of two major groups roughly corresponding to species with a Western or Eastern European origin. Extensive reticulation was mainly inferred from the character additivity of parental ETS variants. Surprisingly, many diploid species were of hybrid origin whilst several polyploid taxa showed no evidence of reticulation. Intra-individual ETS sequence polymorphism generally exceeded interspecific variation and was either independent of, or additional to, additive patterns accounted for by hybrid origin. Several ETS ribotypes occurred in different hybrid taxa, but never as the only variant in any species analyzed. Conclusion The high level of intra-individual ETS polymorphism prevented straightforward phylogenetic analysis. Characterization of this variation as additive, shared informative, homoplasious, or unique made it possible to uncover the phylogenetic signal and to reveal the hybrid origin of 29 out of 60 accessions. Contrary to expectation, diploid sexuals and polyploid apomicts did not differ in their molecular patterns. The basic division of the genus into two major clades had not previously been intimated on morphological grounds. Both major groups are thought to have survived in

  2. Endive, Chicory, and their wild relatives. A systematic and phylogenetic study of Cichorium (Asteraceae)

    OpenAIRE

    Kiers, Annemieke M.

    2000-01-01

    This thesis describes a systematic and phylogenetic analysis of the genus Cichorium. Cichorium is a small genus within the Asteraceae family (tribe Lactuceae) and is well known because of its two widely cultivated species: C. endivia (endive) and C. intybus (chicory). The genus occurs in the Old World and has been introduced in temperate and semi-arid regions elsewhere. An important diagnostic character at the genus and species level is the unique structure of the pappus, which, at the same t...

  3. Chromosomal organization and phylogenetic relationships in Hypochaeris species (Asteraceae) from Brazil

    OpenAIRE

    Claudete de Fátima Ruas; André L.L. Vanzela; Melissa O. Santos; Fregonezi, Jeferson N; Paulo Maurício Ruas; Nelson I. Matzenbacher; Margarida L.R. Aguiar-Perecin

    2005-01-01

    The association of cytogenetic and molecular techniques has contributed to the analysis of chromosome organization and phylogeny in plants. The fluorochrome GC-specific CMA3, fluorescent in situ hybridization (FISH) and RAPD (Random Amplified Polymorphic DNA) markers were used to investigate chromosome structure and genetic relationships in Hypochaeris (Asteraceae). Seven species native to South America, and two species introduced from Europe (H. glabra and Hypochaeris sp) were studied. FISH ...

  4. Phylogenetic relationships and generic delimitation in Inuleae subtribe Inulinae (Asteraceae) based on ITS and cpDNA sequence data

    DEFF Research Database (Denmark)

    Englund, Marcus; Pornpongrungrueng, Pimwadee; Gustafsson, Mats; Anderberg, Arne A.

    2009-01-01

    Phylogenetic relationships in Inuleae subtribe Inulinae (Asteraceae) were investigated. DNA sequence data from three chloroplast regions (ndhF, trnL-F and psbA-trnH) and the nuclear ribosomal internal transcribed spacer (ITS) region were analysed separately and in combination using parsimony and...... Bayesian inference. A total of 163 ingroup taxa were included, of which 60 were sampled for all four markers. Conflicts between chloroplast and nuclear data were assessed using partitioned Bremer support (PBS). Rather than averaging PBS over several trees from constrained searches, individual trees were...... considered by evaluating PBS ranges. Criteria to be used in the detection of a significant conflict between data partitions are proposed. Three nodes in the total data tree were found to encompass significant conflict that could result from ancient hybridization. Neither of the large, heterogeneous and...

  5. Chromosomal organization and phylogenetic relationships in Hypochaeris species (Asteraceae from Brazil

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    Claudete de Fátima Ruas

    2005-03-01

    Full Text Available The association of cytogenetic and molecular techniques has contributed to the analysis of chromosome organization and phylogeny in plants. The fluorochrome GC-specific CMA3, fluorescent in situ hybridization (FISH and RAPD (Random Amplified Polymorphic DNA markers were used to investigate chromosome structure and genetic relationships in Hypochaeris (Asteraceae. Seven species native to South America, and two species introduced from Europe (H. glabra and Hypochaeris sp were studied. FISH with rDNA probes identified one or two loci of 18S-5.8S-25S rDNA in the South American Hypochaeris species and one locus in the European species. Only one 5S rDNA locus was seen in all species studied. Blocks of GC-rich heterochromatin (CMA-positive bands associated to 18S-5.8S-25SrDNA loci were detected in all species investigated. Co-location of 5S rDNA and CMA bands was also observed, except for three South American species and Hypochaeris sp. In two South American species, additional CMA bands not related to rDNA were observed on the long arm of chromosome 2, near to the centromere. Hypochaeris glabra exhibited additional CMA-positive signals distributed at pericentromeric regions, on the short arms of all chromosomes. A total of 122 RAPD markers were used to determine the genetic relationships among species. The level of polymorphism was very high, revealing two genetic groups comprising the South American and the European species, thus supporting a previous hypothesis of monophyly of the South American Hypochaeris species. The coefficients of genetic similarity between European and South American species were 0.35, on average. Polymorphism was also high within the two groups. The genetic associations observed with RAPD markers were consistent with chromosome characteristics. Species carrying similar distribution of 45S rDNA loci and CMA-positive signals were included in the same group revealed by RAPDs. Cytogenetic and molecular data support the view that

  6. Molecular phylogenetics of the Espeletia complex (Asteraceae): evidence from nrDNA ITS sequences on the closest relatives of an Andean adaptive radiation.

    Science.gov (United States)

    Rauscher, Jason T

    2002-07-01

    The subtribe Espeletiinae (Asteraceae, Heliantheae) comprises morphologically and ecologically diverse plants endemic to the tropical montane paramos of the Andes of Venezuela, Colombia, and Ecuador. Though the ecophysiology and ecology of this adaptive radiation have been well studied, relationships among taxa in the subtribe and between the subtribe and other taxa in the Heliantheae are poorly known. In this study, sequences from the internal transcribed spacer (ITS) region of nuclear ribosomal DNA are used to test previous hypotheses about the phylogenetic position of the Espeletiinae within the Heliantheae and to determine which taxa are the subtribe's closest relatives. Gene phylogenies based on maximum parsimony analyses reveal that the Espeletiinae clade is nested well within the subtribe Melampodiinae and thus should be considered a monophyletic complex of species, not a separate subtribe. The most parsimonious gene trees suggest that the genus Ichthyothere may be the sister taxon to the Espeletia complex and that the genus Smallanthus and a species of Rumfordia are likely among the complex's other closest living relatives. These data offer preliminary insights into the origins of this adaptive radiation and the broader phylogenetic context in which it occurred. PMID:21665707

  7. Disentangling the effect of body size and phylogenetic distances on zooplankton top-down control of algae.

    Science.gov (United States)

    Gianuca, Andros T; Pantel, Jelena H; De Meester, Luc

    2016-04-13

    A negative consequence of biodiversity loss is reduced rates of ecosystem functions. Phylogenetic-based biodiversity indices have been claimed to provide more accurate predictions of ecosystem functioning than species diversity alone. This approach assumes that the most relevant traits for ecosystem functioning present a phylogenetic signal. Yet, traits-mediating niche partitioning and resource uptake efficiency in animals can be labile. To assess the relative power of a key trait (body size) and phylogeny to predict zooplankton top-down control on phytoplankton, we manipulated trait and phylogenetic distances independently in microcosms while holding species richness constant. We found that body size provided strong predictions of top-down control. In contrast, phylogeny was a poor predictor of grazing rates. Size-related grazing efficiency asymmetry was mechanistically more important than niche differences in mediating ecosystem function in our experimental settings. Our study demonstrates a strong link between a single functional trait (i.e. body size) in zooplankton and trophic interactions, and urges for a cautionary use of phylogenetic information and taxonomic diversity as substitutes for trait information to predict and understand ecosystem functions. PMID:27075258

  8. A new cecidogenous species of Eugnosta Hübner (Lepidoptera: Tortricidae) associated with Baccharis salicifolia (Asteraceae) in the northern Chilean Atacama Desert: Life-history description and phylogenetic inferences.

    Science.gov (United States)

    Vargas, Héctor A; Pollo, Pietro; Basilio, Daniel S; Gonçalves, Gislene L; Moreira, Gilson R P

    2015-01-01

    Eugnosta Hübner, 1825 (Lepidoptera, Tortricidae, Tortricinae, Cochylini, Cochylina) is reported for the first time in Chile. Male and female adults, the pupa, the last-instar larva, and galls of Eugnosta azapaensis Vargas & Moreira, sp. n., are described and illustrated from the Azapa Valley in the northern Atacama Desert. The larvae induce fusiform galls on shoots of the shrub Baccharis salicifolia (Ruiz & Pav.) Pers. (Asteraceae). An assessment of phylogenetic relationships of E. azapaensis with two congeneric species based on mitochondrial DNA is provided. PMID:25781249

  9. Phylogenetics.

    Science.gov (United States)

    Sleator, Roy D

    2011-04-01

    The recent rapid expansion in the DNA and protein databases, arising from large-scale genomic and metagenomic sequence projects, has forced significant development in the field of phylogenetics: the study of the evolutionary relatedness of the planet's inhabitants. Advances in phylogenetic analysis have greatly transformed our view of the landscape of evolutionary biology, transcending the view of the tree of life that has shaped evolutionary theory since Darwinian times. Indeed, modern phylogenetic analysis no longer focuses on the restricted Darwinian-Mendelian model of vertical gene transfer, but must also consider the significant degree of lateral gene transfer, which connects and shapes almost all living things. Herein, I review the major tree-building methods, their strengths, weaknesses and future prospects. PMID:21249334

  10. Disentangling Disproportionality

    DEFF Research Database (Denmark)

    Poulsen, Thomas

    2012-01-01

    The literature on deviations from one share-one vote seems to ignore that a difference between influence and investment, i.e., disproportionality, may exist without control enhancing mechanisms such as dual class shares. I propose a method to disentangle disproportionality and argue for its relev...

  11. Disentangling Peronospora on Papaver: Phylogenetics, taxonomy, nomenclature and host range of downy mildew of opium poppy (Papaver somniferum) and related species

    OpenAIRE

    Voglmayr, Hermann; Montes Borrego, Miguel; Landa, Blanca B.

    2014-01-01

    Based on sequence data from ITS rDNA, cox1 and cox2, six Peronospora species are recognised as phylogenetically distinct on various Papaver species. The host ranges of the four already described species P. arborescens, P. argemones, P. cristata and P. meconopsidis are clarified. Based on sequence data and morphology, two new species, P. apula and P. somniferi, are described from Papaver apulum and P. somniferum, respectively. The second Peronospora species parasitizing Papaver somniferum, tha...

  12. Disentangling Peronospora on Papaver: Phylogenetics, Taxonomy, Nomenclature and Host Range of Downy Mildew of Opium Poppy (Papaver somniferum) and Related Species

    Science.gov (United States)

    Voglmayr, Hermann; Montes-Borrego, Miguel; Landa, Blanca B.

    2014-01-01

    Based on sequence data from ITS rDNA, cox1 and cox2, six Peronospora species are recognised as phylogenetically distinct on various Papaver species. The host ranges of the four already described species P. arborescens, P. argemones, P. cristata and P. meconopsidis are clarified. Based on sequence data and morphology, two new species, P. apula and P. somniferi, are described from Papaver apulum and P. somniferum, respectively. The second Peronospora species parasitizing Papaver somniferum, that was only recently recorded as Peronospora cristata from Tasmania, is shown to represent a distinct taxon, P. meconopsidis, originally described from Meconopsis cambrica. It is shown that P. meconopsidis on Papaver somniferum is also present and widespread in Europe and Asia, but has been overlooked due to confusion with P. somniferi and due to less prominent, localized disease symptoms. Oospores are reported for the first time for P. meconopsidis from Asian collections on Papaver somniferum. Morphological descriptions, illustrations and a key are provided for all described Peronospora species on Papaver. cox1 and cox2 sequence data are confirmed as equally good barcoding loci for reliable Peronospora species identification, whereas ITS rDNA does sometimes not resolve species boundaries. Molecular phylogenetic data reveal high host specificity of Peronospora on Papaver, which has the important phytopathological implication that wild Papaver spp. cannot play any role as primary inoculum source for downy mildew epidemics in cultivated opium poppy crops. PMID:24806292

  13. Disentangling Peronospora on Papaver: phylogenetics, taxonomy, nomenclature and host range of downy mildew of opium poppy (Papaver somniferum) and related species.

    Science.gov (United States)

    Voglmayr, Hermann; Montes-Borrego, Miguel; Landa, Blanca B

    2014-01-01

    Based on sequence data from ITS rDNA, cox1 and cox2, six Peronospora species are recognised as phylogenetically distinct on various Papaver species. The host ranges of the four already described species P. arborescens, P. argemones, P. cristata and P. meconopsidis are clarified. Based on sequence data and morphology, two new species, P. apula and P. somniferi, are described from Papaver apulum and P. somniferum, respectively. The second Peronospora species parasitizing Papaver somniferum, that was only recently recorded as Peronospora cristata from Tasmania, is shown to represent a distinct taxon, P. meconopsidis, originally described from Meconopsis cambrica. It is shown that P. meconopsidis on Papaver somniferum is also present and widespread in Europe and Asia, but has been overlooked due to confusion with P. somniferi and due to less prominent, localized disease symptoms. Oospores are reported for the first time for P. meconopsidis from Asian collections on Papaver somniferum. Morphological descriptions, illustrations and a key are provided for all described Peronospora species on Papaver. cox1 and cox2 sequence data are confirmed as equally good barcoding loci for reliable Peronospora species identification, whereas ITS rDNA does sometimes not resolve species boundaries. Molecular phylogenetic data reveal high host specificity of Peronospora on Papaver, which has the important phytopathological implication that wild Papaver spp. cannot play any role as primary inoculum source for downy mildew epidemics in cultivated opium poppy crops. PMID:24806292

  14. Senecio changii (Asteraceae: Senecioneae), a New Species from Sichuan, China.

    Science.gov (United States)

    Ren, Chen; Tong, Tian-Jing; Hong, Yu; Yang, Qin-Er

    2016-01-01

    Senecio changii (Asteraceae: Senecioneae), a new species from Muli, Sichuan, southwestern China, is described. It is distinguished in Chinese Senecio s.s. by having lyrate-pinnatisect to pinnatisect leaves and a single terminal large discoid capitulum which is somewhat nodding. Evidence from floral micromorphology, karyology and molecular phylogenetic analyses based on the nuclear ITS/ETS sequence data all support its membership within Senecio s.s. PMID:27050905

  15. Entanglement versus disentanglement: Quantum Cryptography

    OpenAIRE

    Mitra, Arindam

    2000-01-01

    In quantum information, the role of entanglement and disentanglement is itself a subject of research and debate. Earlier works on quantum cryptography have almost established that entanglement has no special advantage in quantum cryptography. In this paper we reveal that entanglement is better ingredient than disentanglement for our alternative quantum cryptography.

  16. Four new taxa of Asteraceae in Sumatra

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    Sri Sudarmiyati Tjitrosoedirjo

    2003-12-01

    Full Text Available TJITROSOEDIRDJO, SRI S. 2002. Four new taxa of Asteraceae in Sumatra. Reinwardtia 12(1: 125–128. ⎯ Four new taxa of Asteraceae in Sumatra are described: Prenanthes L. (2 species, Senecio L. (1 species and Emilia sonchifolia (L. DC. (1 variety.

  17. Four new taxa of Asteraceae in Sumatra

    OpenAIRE

    Sri Sudarmiyati Tjitrosoedirjo

    2003-01-01

    TJITROSOEDIRDJO, SRI S. 2002. Four new taxa of Asteraceae in Sumatra. Reinwardtia 12(1): 125–128. ⎯ Four new taxa of Asteraceae in Sumatra are described: Prenanthes L. (2 species), Senecio L. (1 species) and Emilia sonchifolia (L.) DC. (1 variety).

  18. 7 CFR 201.56-2 - Sunflower family, Asteraceae (Compositae).

    Science.gov (United States)

    2010-01-01

    ...-2 Sunflower family, Asteraceae (Compositae). Kinds of seed: Artichoke, cardoon, chicory, dandelion... primary infection. (C) Albino. (b) Other kinds in the sunflower family: Artichoke, cardoon,...

  19. In vitro antioxidant activities of Asteraceae Plants

    OpenAIRE

    Vijaylakshmi, S.; Nanjan, M.J.; Suresh, B.

    2009-01-01

    Anaphalis neelgerriana DC and Cnicus wallichi DC belonging to the family Asteraceae (Compositae) are important medicinal plants indigenous to Nilgiris. Since the related species Anaphalis morrisonicola and Cnicus benedictus were reported for its anti cancer activities, the above mentioned plants were screened for Invitro antioxidant activity. In vitro antioxidant studies were carried out by DPPH, Nitric oxide and Hydrogen peroxide methods for the aerial part extracts of the plants. Different ...

  20. NOTES ON THE ASTERACEAE OF SUMATERA

    OpenAIRE

    SRI SUDARMIYATI TJITROSOEDIRDJO

    2002-01-01

    An account of the tribe composition, endemic taxa, comparison with ad jacent areas and weedy Asteraceae of Sumatera is given. Based on the records of January 2000, there are 133 species of 74 genera in 11 tribes. The tribe Heliantheae is the largest, with 28% of the total number of the genera, followed by Astereae with 15%, Inuleae 12%, Senecioneae 10%, Anthemideae, Eupatorieae and Lactuceae 8%, the other tribes are represented by 4% or less. The most diverse genus is Blumea with 14 specie...

  1. NOTES ON THE ASTERACEAE OF SUMATERA

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    SRI SUDARMIYATI TJITROSOEDIRDJO

    2002-01-01

    Full Text Available An account of the tribe composition, endemic taxa, comparison with ad jacent areas and weedy Asteraceae of Sumatera is given. Based on the records of January 2000, there are 133 species of 74 genera in 11 tribes. The tribe Heliantheae is the largest, with 28% of the total number of the genera, followed by Astereae with 15%, Inuleae 12%, Senecioneae 10%, Anthemideae, Eupatorieae and Lactuceae 8%, the other tribes are represented by 4% or less. The most diverse genus is Blumea with 14 species. Other genera are only represented by 10 species or less, usually 4, or 3, or 2, and mostly by 1 species only. Thirty nine or about 53% are exotic genera and the native ones are less than half of the total number of the genera. In terms of indigenous and endemic species, Sumatera is richer than Java. There are 1 genus, 7 species and 2 varieties of Asteraceae endemic to Sumatera. A number of 43 important weed species were introduced from Tropical America, Africa, Asia and Europe. Among these Chromolaena odorata and Mikania micrantha are reported as the most noxious ones. List of the genera and species recorded in Sumatera is provided in this paper.

  2. A Comparison of the First Two Sequenced Chloroplast Genomes in Asteraceae: Lettuce and Sunflower

    Energy Technology Data Exchange (ETDEWEB)

    Timme, Ruth E.; Kuehl, Jennifer V.; Boore, Jeffrey L.; Jansen, Robert K.

    2006-01-20

    Asteraceae is the second largest family of plants, with over 20,000 species. For the past few decades, numerous phylogenetic studies have contributed to our understanding of the evolutionary relationships within this family, including comparisons of the fast evolving chloroplast gene, ndhF, rbcL, as well as non-coding DNA from the trnL intron plus the trnLtrnF intergenic spacer, matK, and, with lesser resolution, psbA-trnH. This culminated in a study by Panero and Funk in 2002 that used over 13,000 bp per taxon for the largest taxonomic revision of Asteraceae in over a hundred years. Still, some uncertainties remain, and it would be very useful to have more information on the relative rates of sequence evolution among various genes and on genome structure as a potential set of phylogenetic characters to help guide future phylogenetic structures. By way of contributing to this, we report the first two complete chloroplast genome sequences from members of the Asteraceae, those of Helianthus annuus and Lactuca sativa. These plants belong to two distantly related subfamilies, Asteroideae and Cichorioideae, respectively. In addition to these, there is only one other published chloroplast genome sequence for any plant within the larger group called Eusterids II, that of Panax ginseng (Araliaceae, 156,318 bps, AY582139). Early chloroplast genome mapping studies demonstrated that H. annuus and L. sativa share a 22 kb inversion relative to members of the subfamily Barnadesioideae. By comparison to outgroups, this inversion was shown to be derived, indicating that the Asteroideae and Cichorioideae are more closely related than either is to the Barnadesioideae. Later sequencing study found that taxa that share this 22 kb inversion also contain within this region a second, smaller, 3.3 kb inversion. These sequences also enable an analysis of patterns of shared repeats in the genomes at fine level and of RNA editing by comparison to available EST sequences. In addition, since

  3. A nomenclator for the frailejones (Espeletiinae Cuatrec., Asteraceae

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    Mauricio Diazgranados

    2012-08-01

    Full Text Available The páramos and high Andean forests of the tropical Andes are largely dominated by frailejones (Espeletiinae Cuatrec., Asteraceae. These plants are ecologically and culturally essential for both ecosystems and local inhabitants. The frailejones have been studied for over two centuries, but the taxonomic knowledge is still sparse and incomplete. The inedited monograph by Cuatrecasas contains only ca. 70% of the species known today, and publications in the last decade disagree regarding the number of taxa within the group, with estimates ranging from 3 genera and 90 species to 8 genera and 154 species. Moreover the literature contains inexact information about their distribution. As part of a study of the phylogenetic and biogeographic relationships of the group, a thorough revision of the nomenclature was needed as a first step. Currently the subtribe has 8 recognized genera, 141 species, 17 subspecies, 22 varieties, 8 forms, 33 recognized hybrids, 142 synonyms and 5 invalid names, for a total of 368 names (autonyms not counted. The most current list of taxa is presented here, along with some notes and Spanish names. Tamananthus crinitus V.M.Badillo is not included within the subtribe. Various previous species or infraspecific taxa (i.e. Carramboa tachirensis (Aristeg. Cuatrec., Espeletia algodonosa Aristeg., E. aurantia Aristeg., E. brassicoidea var. macroclada, E. brassicoidea var. pedunculata, E. garcibarrigae Cuatrec. and Espeletiopsis cristalinensis (Cuatrec. Cuatrec. are proposed or confirmed as hybrids. Two new records for Colombia are mentioned: Ruilopezia cardonae (Cuatrec. Cuatrec., which is the first report of Ruilopezia for that country, and Espeletia steyermarkii Cuatrec. Observations regarding the frequency of hybrids in the subtribe are also given.

  4. The complete chloroplast genome sequence of Aster spathulifolius (Asteraceae); genomic features and relationship with Asteraceae.

    Science.gov (United States)

    Choi, Kyoung Su; Park, SeonJoo

    2015-11-10

    Aster spathulifolius, a member of the Asteraceae family, is distributed along the coast of Japan and Korea. This plant is used for medicinal and ornamental purposes. The complete chloroplast (cp) genome of A. sphathulifolius consists of 149,473 bp that include a pair of inverted repeats of 24,751 bp separated by a large single copy region of 81,998 bp and a small single copy region of 17,973 bp. The chloroplast genome contains 78 coding genes, four rRNA genes and 29 tRNA genes. When compared to other cpDNA sequences of Asteraceae, A. spathulifolius showed the closest relationship with Jacobaea vulgaris, and its atpB gene was found to be a pseudogene, unlike J. vulgaris. Furthermore, evaluation of the gene compositions of J. vulgaris, Helianthus annuus, Guizotia abyssinica and A. spathulifolius revealed that 13.6-kb showed inversion from ndhF to rps15, unlike Lactuca of Asteraceae. Comparison of the synonymous (Ks) and nonsynonymous (Ka) substitution rates with J. vulgaris revealed that synonymous genes related to a small subunit of the ribosome showed the highest value (0.1558), while nonsynonymous rates of genes related to ATP synthase genes were highest (0.0118). These findings revealed that substitution has occurred at similar rates in most genes, and the substitution rates suggested that most genes is a purified selection. PMID:26164759

  5. Complete chloroplast genome sequences of Mongolia medicine Artemisia frigida and phylogenetic relationships with other plants.

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    Yue Liu

    Full Text Available BACKGROUND: Artemisia frigida Willd. is an important Mongolian traditional medicinal plant with pharmacological functions of stanch and detumescence. However, there is little sequence and genomic information available for Artemisia frigida, which makes phylogenetic identification, evolutionary studies, and genetic improvement of its value very difficult. We report the complete chloroplast genome sequence of Artemisia frigida based on 454 pyrosequencing. METHODOLOGY/PRINCIPAL FINDINGS: The complete chloroplast genome of Artemisia frigida is 151,076 bp including a large single copy (LSC region of 82,740 bp, a small single copy (SSC region of 18,394 bp and a pair of inverted repeats (IRs of 24,971 bp. The genome contains 114 unique genes and 18 duplicated genes. The chloroplast genome of Artemisia frigida contains a small 3.4 kb inversion within a large 23 kb inversion in the LSC region, a unique feature in Asteraceae. The gene order in the SSC region of Artemisia frigida is inverted compared with the other 6 Asteraceae species with the chloroplast genomes sequenced. This inversion is likely caused by an intramolecular recombination event only occurred in Artemisia frigida. The existence of rich SSR loci in the Artemisia frigida chloroplast genome provides a rare opportunity to study population genetics of this Mongolian medicinal plant. Phylogenetic analysis demonstrates a sister relationship between Artemisia frigida and four other species in Asteraceae, including Ageratina adenophora, Helianthus annuus, Guizotia abyssinica and Lactuca sativa, based on 61 protein-coding sequences. Furthermore, Artemisia frigida was placed in the tribe Anthemideae in the subfamily Asteroideae (Asteraceae based on ndhF and trnL-F sequence comparisons. CONCLUSION: The chloroplast genome sequence of Artemisia frigida was assembled and analyzed in this study, representing the first plastid genome sequenced in the Anthemideae tribe. This complete chloroplast genome

  6. Disentangling Competition Among Platform Driven Strategic Groups

    DEFF Research Database (Denmark)

    Kazan, Erol; Tan, Chee-Wee; Lim, Eric

    2015-01-01

    competition within platform-driven markets, we opted for the UK mobile payment market as our empirical setting. By embracing the theoretical lens of strategic groups and digital platforms, this study supplements prior research by deriving a taxonomy of platform-driven strategic groups that is grounded on......In platform-driven markets, competitive advantage is derived from superior platform design and configurations. For this reason, platform owners strive to create unique and inimitable platform configurals to maintain and extend their competitiveness within network economies. To disentangle firm...... competitive attributes of platform- driven markets; namely interfirm modularity and strategic linkages....

  7. Disentangling of complete and incomplete fusion events

    International Nuclear Information System (INIS)

    The study of typical traits of heavy-ion (HI) reactions at energies around the Coulomb barrier (CB) on the basis of momentum transfer from projectile to the target nuclei has been a topic of resurgent interest. Hence, in the present work an attempt has been made to disentangle the CF and ICF events from the measurement of FRRDs of residues populated in 12C + 159Tb interactions at above barrier energies. Further, the relative contributions of CF and ICF events have also been deduced from the FRRDs and their energy dependence has been studied

  8. Difference in defense strategy in flower heads and leaves of Asteraceae: multiple-species approach.

    Science.gov (United States)

    Oguro, Michio; Sakai, Satoki

    2014-01-01

    Although a vast number of studies have investigated defenses against herbivores in leaves, relatively little is known about defenses in flowers. Using wild individuals of 34 species of Asteraceae, we investigated differences in five traits that are thought to affect the intensity of herbivory (C, N, P, water, and total phenolic contents). Combinations of these traits between flower heads and leaves were studied as well. We also evaluated phylogenetic patterns of flower head and leaf traits. Flower heads had higher P and lower total phenolics than leaves. Water and C contents were negatively correlated both in the flower heads and leaves. N, P, and water contents were positively correlated in the flower heads, whereas this pattern was not found in the leaves. Thus, the traits we measured were more tightly inter-correlated in flower heads than in leaves. Because the flower heads had a lower total phenolic content, the relative allocation of defensive compounds could not be explained solely by fitness values of the organs. Perhaps plants employ an escape strategy rather than a defense strategy to cope with floral herbivores and higher allocation in P may enhance their escape from herbivores by improving the growth rate of flower heads, though our result might be affected in part by the plasticity of plants growing at different sites. Moreover, we found weak phylogenetic signals in the defensive traits. Because we found significant differences in the flower head traits, these weak signals may imply that the traits we measured evolved frequently. PMID:24036932

  9. Embryology of Ageratum conyzoides L. and A. fastigiatum R.M. King & H. Rob. (Asteraceae

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    Rafael de Oliveira Franca

    2015-03-01

    Full Text Available Ageratum has a complex circumscription, and recent studies have indicated its polyphyletism. The genus has been placed in the tribe Eupatorieae whose embryology is not fully known. Embryological data are conservative and important indicators of phylogenetic relationships and can improve family relationships. This study presents, for the first time in Eupatorieae, embryological data for Ageratum conyzoides and A. fastigiatum. Both species have common features of the family such as a unitegmic anatropous ovule, basal placentation, secretory tapetum, Polygonum megagametophyte, and Asterad embryogenesis. The data obtained reinforce the heterogeneity of the family embryology and show, for the first time, the anther wall development of the monocotyledonous type for Asteraceae. The species studied show also differences between themselves. A. conyzoides has bisporangiated and introrse anthers, conspicuous pappus, and cypselae with trichomes on the ribs, whereas A. fastigiatum has tetrasporangiate and latrorse anthers, pappus absent at maturity, and glabrous cypselae. The data presented support recent phylogenetic molecular studies, suggesting the replacement of A. fastigiatum to another genus along with Gyptidinae.

  10. Warionia (Asteraceae: a relict genus of Cichorieae?

    Directory of Open Access Journals (Sweden)

    Katinas, Liliana

    2008-12-01

    Full Text Available The genus Warionia, with its only species W. saharae, is endemic to the northwestern edge of the African Sahara desert. This is a somewhat thistle-like aromatic plant, with white latex, and fleshy, pinnately- partite leaves. Warionia is in many respects so different from any other genus of Asteraceae, that it has been tentatively placed in the tribes Cardueae, Cichorieae, Gundelieae, and Mutisieae. Until now, a comprehensive study of Warionia to have a complete context for discussing its taxonomic position is lacking. The general morphology, anatomy, palynology and chromosome number of W. saharae are investigated here, and the species is described and illustrated. Laticifers in leaves and stems indicate a relationship with Cichorieae, and are associated with the phloem, in contact with it or with the surrounding sclerenchyma sheath. The pollen features indicate a strong relation with Cardueae, namely the structure with Anthemoid pattern where the columellae are joined to the foot layer, the ectosexine with thin columellae, the endosexine with stout and ramified columellae, the conspicuous spines with globose bases and conspicuous apical channels, and the tectum surface very perforate. Chromosomal counts resulted in 2n = 34. The morphological and palynological evidence positions Warionia between the tribes Cardueae and Cichorieae suggesting that it could be a remnant of the ancestral stock that gave rise to both tribes.El género Warionia, y su única especie, W. saharae, es endémico del noroeste del desierto africano del Sahara. Es una planta semejante a un cardo, aromática, con látex blanco y hojas carnosas, pinnatipartidas. Warionia es tan diferente de otros géneros de Asteraceae que fue ubicada en las tribus Cardueae, Cichorieae, Gundelieae y Mutisieae. Hasta ahora, no existía un estudio global de Warionia como contexto para discutir su posición taxonómica. Se ha investigado aquí su morfología, anatomía, palinología y n

  11. Pharmacognostical study of achenes of some plants from Asteraceae family

    Directory of Open Access Journals (Sweden)

    Y.O. Bychkova

    2014-04-01

    Full Text Available In the present paper are represented morphological studies on determination of weight of 1000 achenes, and sieve analysis of fruits of some plants from Asteraceae family (Arctium lappa L., Leuzea carthamoides (Willd. D.C, Inula helenium L., Echinacea purpurea Moench., Calendula officinalis L.. Lipid, alcohol-soluble and water-soluble complexes in fruits of C. officinalis were studied.

  12. Pharmacognostical study of achenes of some plants from Asteraceae family

    OpenAIRE

    Y.O. Bychkova; H.Y. Babaeva; A.G. Deviatov

    2014-01-01

    In the present paper are represented morphological studies on determination of weight of 1000 achenes, and sieve analysis of fruits of some plants from Asteraceae family (Arctium lappa L., Leuzea carthamoides (Willd.) D.C, Inula helenium L., Echinacea purpurea Moench., Calendula officinalis L.). Lipid, alcohol-soluble and water-soluble complexes in fruits of C. officinalis were studied.

  13. Hyurterianum (Asteraceae, Inuleae), a new species from NE Anatolia, Turkey

    DEFF Research Database (Denmark)

    Gemici, Y.; Tan, K.; Yidirim, H.; Gemici, M.

    2008-01-01

    Helichrysum yurterianum Y. Gemici, Kit Tan, H. Yildirim & M. Gemici (Asteraceae, Inuleae) is described and illustrated. It is a serpentine endemic restricted to the province of Erzincan in NE Anatolia, Turkey. Its affinities are with H. arenarium and H. noeanum, which both have a wider distribution...

  14. Macroevolutionary dynamics in the early diversification of Asteraceae.

    Science.gov (United States)

    Panero, Jose L; Crozier, Bonnie S

    2016-06-01

    Spatial and temporal differences in ecological opportunity can result in disparity of net species diversification rates and consequently uneven distribution of taxon richness across the tree of life. The largest eudicotyledonous plant family Asteraceae has a global distribution and at least 460 times more species than its South American endemic sister family Calyceraceae. In this study, diversification rate dynamics across Asteraceae are examined in light of the several hypothesized causes for the family's evolutionary success that could be responsible for rate change. The innovations of racemose capitulum and pappus, and a whole genome duplication event occurred near the origin of the family, yet we found the basal lineages of Asteraceae that evolved in South America share background diversification rates with Calyceraceae and their Australasian sister Goodeniaceae. Instead we found diversification rates increased gradually from the origin of Asteraceae approximately 69.5Ma in the late Cretaceous through the Early Eocene Climatic Optimum at least. In contrast to earlier studies, significant rate shifts were not strongly correlated with intercontinental dispersals or polyploidization. The difference is due primarily to sampling more backbone nodes, as well as calibrations placed internally in Asteraceae that resulted in earlier divergence times than those found in most previous relaxed clock studies. Two clades identified as having transformed rate processes are the Vernonioid Clade and a clade within the Heliantheae alliance characterized by phytomelanic fruit (PF Clade) that represents an American radiation. In Africa, subfamilies Carduoideae, Pertyoideae, Gymnarrhenoideae, Cichorioideae, Corymbioideae, and Asteroideae diverged in a relatively short span of only 6.5millionyears during the Middle Eocene. PMID:26979262

  15. Universality of finite-time disentanglement

    Science.gov (United States)

    Drumond, Raphael C.; Duarte, Cristhiano; Terra Cunha, Marcelo; Nemes, M. C.

    2016-02-01

    In this paper we investigate how common the phenomenon of finite time disentanglement (FTD) is with respect to the set of quantum dynamics of bipartite quantum states with finite-dimensional Hilbert spaces. Considering a quantum dynamics from a general sense as just a continuous family of completely positive trace preserving maps (CPTP) (parametrized by the time variable) acting on the space of the bipartite systems, we conjecture that FTD happens for all dynamics but those when all maps of the family are induced by local unitary operations. We prove that this conjecture is valid for two important cases: (i) when all maps are induced by unitaries and (ii) for pairs of qubits, when all maps are unital. Moreover, we prove some general results about unitaries that preserve product states and about CPTP maps preserving pure states.

  16. Pollen morphology of the genus Eremanthus Less. (Vernonieae, Asteraceae Morfologia polínica de espécies do gênero Eremanthus Less. (Vernonieae, Asteraceae

    Directory of Open Access Journals (Sweden)

    BenoÎt Loeuille

    2012-03-01

    Full Text Available In order to evaluate the significance of the pollen morphology for generic and infrageneric taxonomy of the genus Eremanthus (Vernonieae, Asteraceae, and to provide additional data for its phylogenetic reconstruction, the pollen of 20 of the 23 species of the genus was examined using light and scanning electron microscopy. Acetolysed pollen grains were measured, described, and illustrated using light microscopy, while non-acetolysed pollen grains were analyzed using scanning electron microscopy. Pollen grains of these species are isopolar, oblate-spheroidal in most of the species, more rarely prolate spheroidal or suboblate, subtriangular amb, tricolporate and subechinolophate. The variation among quantitative characters does not correlate with the macromorphological subdivision of the genus or with the generic or specific limits.Com a finalidade de avaliar a importância da morfologia polínica para a taxonomia de Eremanthus (Vernonieae, Asteraceae em nível genérico e infragenérico e fornecer dados adicionais para a sua reconstrução filogenética, os grãos de pólen de 20 das 23 espécies do gênero foram examinados usando a microscopia de luz e eletrônica de varredura. Os grãos de pólen foram acetolisados, medidos, descritos e ilustrados sob microscópio de luz. Para a análise em microscópio eletrônico de varredura foram utilizados grãos de pólen com e/ou sem tratamento químico. As espécies apresentaram grãos de pólen isopolares, oblato-esferoidais, na maioria dos táxons, mais raramente prolato-esferoidais ou suboblatos, âmbito subtriangular, tricolporados e subechinolofados. A variação entre os caracteres quantitativos não se correlacionam com a subdivisão macromorfológica do gênero nem com os limites genéricos ou específicos.

  17. New species of Ophryosporus (Eupatorieae Asteraceae from Peru

    Directory of Open Access Journals (Sweden)

    Abundio Sagástegui Alva

    2013-03-01

    Full Text Available Ophryosporus marchii Sagást. & E. Rodr. is described as a new species of Ophryosporus Meyen (Eupatorieae: Asteraceae from the Department of Cajamarca, Peru. This new species is apparently endemic to the province of Contumaza and closest relative to O. sagasteguii H. Rob. It is critically compared with this species and data on its geographical distribution, ecology and conservation status are provided.

  18. Brine shrimp lethality bioassay of selected Centaurea L. species (Asteraceae)

    OpenAIRE

    Janaćković P.; Tešević V.; Marin P.D.; Milosavljević S.; Duletić-Laušević Sonja; Janaćković Slavica; Veljić M.

    2008-01-01

    Ether extracts of 15 Centaurea L. species (Asteraceae) methanol extracts of 12species, and cnicin isolated from C. derventana were tested for general bioactivity using the brine shrimp lethality test. Cnicin showed the most potent activity with LC50 0.2. Also, ether extract of C. splendens showed significant activity with LC50 7.3, as did methanol extract of C. arenaria with LC50 12.4.

  19. Presence of Senecio sylvaticus L. (Asteraceae in Turkey

    Directory of Open Access Journals (Sweden)

    Tunçkol Bilge

    2015-09-01

    Full Text Available The annual plant Senecio sylvaticus L. (Asteraceae is regarded as a doubtfully recorded in Turkey. It has not been collected in the country since the first report of its occurrence in the north eastern Black Sea Region in 1875. This paper reconfirms the occurrence of Senecio sylvaticus in Turkey. New specimens were collected from the Ereğli and Alaplı regions (Zonguldak province, NW Turkey in 2014. The species description, distribution maps and photographs are given.

  20. Anatomy of ovary and ovule in dandelions (Taraxacum, Asteraceae)

    OpenAIRE

    Musiał, K.; Płachno, B. J.; Świątek, P.; Marciniuk, J.

    2012-01-01

    The genus Taraxacum Wigg. (Asteraceae) forms a polyploid complex within which there are strong links between the ploidy level and the mode of reproduction. Diploids are obligate sexual, whereas polyploids are usually apomictic. The paper reports on a comparative study of the ovary and especially the ovule anatomy in the diploid dandelion T. linearisquameum and the triploid T. gentile. Observations with light and electron microscopy revealed no essential differences in the anatomy of both the ...

  1. Disentangling phylogenetic constraints from selective forces in the evolution of trematode transmission stages

    OpenAIRE

    Koehler, A.V.; Brown, B.; Poulin, R.; Thieltges, D.W.; Fredensborg, B.L.

    2012-01-01

    The transmission stages of parasites are key determinants of parasite fitness, but they also incur huge mortality. Yet the selective forces shaping the sizes of transmission stages remain poorly understood. We ran a comparative analysis of interspecific variation in the size of transmission stages among 404 species of parasitic trematodes. There are two transmission steps requiring infective stages in the life cycle of trematodes: transmission from the definitive to the first intermediate (sn...

  2. Origins and recent radiation of Brazilian Eupatorieae (Asteraceae) in the eastern Cerrado and Atlantic Forest.

    Science.gov (United States)

    Rivera, Vanessa Lopes; Panero, Jose L; Schilling, Edward E; Crozier, Bonnie S; Moraes, Marta Dias

    2016-04-01

    The remarkable diversity of Eupatorieae in the Brazilian flora has received little study, despite the tribe's very high levels of endemism and importance in the threatened Cerrado and the Atlantic Forest biodiversity hotspots. Eupatorieae are one of the largest tribes in Asteraceae with 14 of 19 recognized subtribes occurring in Brazil. We constructed the largest phylogeny of Brazilian Eupatorieae to date that sampled the nrITS and ETS, chloroplast ndhI and ndhF genes, and the ndhI-ndhG intergenic spacer for 183 species representing 77 of the 85 Brazilian genera of the tribe. Maximum likelihood and Bayesian phylogenetic analyses showed that these species are not collectively monophyletic, so their distribution reflects multiple introductions into Brazil. A novel clade was found that includes 75% of the genera endemic to Brazil (Cerrado-Atlantic Forest Eupatorieae, "CAFE" clade). This radiation of at least 247 species concentrated in the Cerrado and Atlantic Forest biomes of central eastern Brazil is Brazil. PMID:26667031

  3. Disentangling Complexity from Randomness and Chaos

    Directory of Open Access Journals (Sweden)

    Lena C. Zuchowski

    2012-02-01

    Full Text Available This study aims to disentangle complexity from randomness and chaos, and to present a definition of complexity that emphasizes its epistemically distinct qualities. I will review existing attempts at defining complexity and argue that these suffer from two major faults: a tendency to neglect the underlying dynamics and to focus exclusively on the phenomenology of complex systems; and linguistic imprecisions in describing these phenomenologies. I will argue that the tendency to discuss phenomenology removed from the underlying dynamics is the main root of the difficulties in distinguishing complex from chaotic or random systems. In my own definition, I will explicitly try to avoid these pitfalls. The theoretical contemplations in this paper will be tested on a sample of five models: the random Kac ring, the chaotic CA30, the regular CA90, the complex CA110 and the complex Bak-Sneppen model. Although these modelling studies are restricted in scope and can only be seen as preliminary, they still constitute on of the first attempts to investigate complex systems comparatively.

  4. Disentangling stellar activity and planetary signals

    Directory of Open Access Journals (Sweden)

    Santos N.C.

    2011-02-01

    Full Text Available Photospheric stellar activity (i.e. dark spots or bright plages might be an important source of noise and confusion in the radial-velocity (RV measurements. Radial-velocimetry planet search surveys as well as follow-up of photometric transit surveys require a deep understanding and precise characterization of the effects of stellar activity, in order to disentangle it from planetary signals. We simulate dark spots on a rotating stellar photosphere. The variations of the RV are characterized and analyzed according to the stellar inclination, the latitude and the number of spots. The Lomb-Scargle periodograms of the RV variations induced by activity present power at the rotational period Prot of the star and its two-first harmonics Prot/2 and Prot/3. Three adjusted sinusoids fixed at the fundamental period and its two-first harmonics allow to remove about 90% of the RV jitter amplitude. We apply and validate our approach on four known active planet-host stars: HD 189733, GJ 674, CoRoT-7 and ι Hor.

  5. Asteraceae Pollen Provisions Protect Osmia Mason Bees (Hymenoptera: Megachilidae) from Brood Parasitism.

    Science.gov (United States)

    Spear, Dakota M; Silverman, Sarah; Forrest, Jessica R K

    2016-06-01

    Many specialist herbivores eat foods that are apparently low quality. The compensatory benefits of a poor diet may include protection from natural enemies. Several bee lineages specialize on pollen of the plant family Asteraceae, which is known to be a poor-quality food. Here we tested the hypothesis that specialization on Asteraceae pollen protects bees from parasitism. We compared rates of brood parasitism by Sapyga wasps on Asteraceae-specialist, Fabeae-specialist, and other species of Osmia bees in the field over several years and sites and found that Asteraceae-specialist species were parasitized significantly less frequently than other species. We then tested the effect of Asteraceae pollen on parasites by raising Sapyga larvae on three pollen mixtures: Asteraceae, Fabeae, and generalist (a mix of primarily non-Asteraceae pollens). Survival of parasite larvae was significantly reduced on Asteraceae provisions. Our results suggest that specialization on low-quality pollen may evolve because it helps protect bees from natural enemies. PMID:27172598

  6. Taxonomic novelties in Mikania (Asteraceae: Eupatorieae) from Atlantic Forest, Brazil

    OpenAIRE

    Borges, R.A.X.; Forzza, R.C.; Fraga, C.N.

    2010-01-01

    During studies of Brazilian Atlantic Forest Asteraceae, a new species and a replacement name were determined: Mikania amorimii from Bahia State and Mikania capixaba from Espírito Santo State. The former is a new species related to M. ternata but distinct by its leaves, involucral bracts and cypsela morphology. The latter is proposed as a replacement name for Mikania dentata G.M.Barroso, a later homonym of M. dentata Spreng. Line drawings and comments about conservation status are made for bot...

  7. DNA-based identification of Calendula officinalis (Asteraceae) 1

    OpenAIRE

    Schmiderer, Corinna; Lukas, Brigitte; Ruzicka, Joana; Novak, Johannes

    2015-01-01

    Premise of the study: For the economically important species Calendula officinalis, a fast identification assay based on high-resolution melting curve analysis was designed. This assay was developed to distinguish C. officinalis from other species of the genus and other Asteraceae genera, and to detect C. officinalis as an adulterant of saffron samples. Methods and Results: For this study, five markers (ITS, rbcL, 5′ trnK-matK, psbA-trnH, trnL-trnF) of 10 Calendula species were sequenced and ...

  8. The genus cicerbita wallr. (cichorieae- asteraceae) in Pakistan and Kashmir

    International Nuclear Information System (INIS)

    The genus Cicerbita Wallr. of the tribe Cichorieae-Asteraceae is revised for Pakistan and Kashmir. A broader generic concept of the genus is accepted and in all 11 species have been recognized including 3 new species viz. Cicerbita astorensis, Roohi Bano and Qaiser, C. alii, Roohi Bano and Qaiser and C. gilgitensis Roohi Bano and Qaiser. 5 new combinations, including 3 at species and 2 at varietal level have also been proposed. An artificial key to all the species is provided. Latin diagnosis, illustrations of newly described species, world wide and local distribution and ecological notes of all the species are also furnished. (author)

  9. Trypanocidal activity of Lychnophora staavioides Mart. (Vernonieae, Asteraceae).

    Science.gov (United States)

    Takeara, R; Albuquerque, S; Lopes, N P; Lopes, J L C

    2003-01-01

    In the continuing search for new compounds with trypanocidal activity for use in blood banks to prevent the transmission of Chagas' disease, a trypanocidal extract of Lychnophora staavioides Mart. (Vernonieae, Asteraceae) was fractionated using several chromatographic techniques and afforded the following flavonoids: tectochrysin, pinostrobin, pinobanksin, pinobanksin 3-acetate, pinocembrin, chrysin, galangin 3-methyl ether, quercetin 3-methyl ether, chrysoeriol and vicenin-2. The most active compound was quercetin 3-methyl ether, which showed no blood lysis activity and which represents a promising compound for use against T. cruzi in blood banks. PMID:13678232

  10. Comparative leaf morphology and anatomy of three Asteraceae species

    Directory of Open Access Journals (Sweden)

    Patricia Milan

    2006-01-01

    Full Text Available The objective of this paper was to describe and compare the morphology and anatomy of mature leaves of Mikania glomerata Spreng., Porophyllum ruderale Cass. and Vernonia condensata Baker (Asteraceae species that have different habits emphasizing their secretory structures. Longitudinal and transversal sections of mature leaf blades of the three species were analyzed at the apex, base, and medium third part of the midvein of the leaf blade and of the margin. M. glomerata had uniseriate glandular trichomes and secretory ducts; P. ruderale had hydathodes and secretory cavities; and V. condensata had idioblasts and uni-and biseriate glandular trichomes.Este trabalho teve por objetivo descrever e comparar a morfo-anatomia das folhas adultas de Mikania glomerata Spreng., Porophyllum ruderale Cass. e Vernonia condensata Baker (Asteraceae, que possuem diferentes hábitos, enfatizando suas estruturas secretoras. Secções longitudinais e transversais dos limbos foliares foram analisadas nas regiões do ápice, da base e do terço médio na altura da nervura central, do limbo foliar e da margem. M. glomerata apresentou tricomas glandulares unisseriados e ductos secretores; P. ruderale tinha hidatódios e cavidades secretoras; e V. condensata apresentou idioblastos e tricomas glandulares uni- ou bisseriados.

  11. Phylogenetic effective sample size

    OpenAIRE

    Bartoszek, Krzysztof

    2015-01-01

    In this paper I address the question - how large is a phylogenetic sample I propose a definition of a phylogenetic effective sample size for Brownian motion and Ornstein-Uhlenbeck processes - the regression effective sample size. I discuss how mutual information can be used to define an effective sample size in the non-normal process case and compare these two definitions to an already present concept of effective sample size (the mean effective sample size). Through a simulation study I find...

  12. De ontrafeling van in Nederland ingeburgerde Amerikaanse herfstasters (Symphyotrichum Nees subg. Symphyotrichum sect. Symphyotrichum, Asteraceae)

    NARCIS (Netherlands)

    Dirkse, Gerard M.; Reijerse, Fons A.I.; Duistermaat, Leni H.

    2014-01-01

    De moeilijke determinatie van ingeburgerde Amerikaanse herfstasters (Symphyotrichum Nees subg. Symphyotrichum sect. Symphyotrichum, Asteraceae), als gevolg van uiteenlopende opvattingen over hun taxonomie, was voor ons aanleiding om deze planten beter te leren kennen. In september en oktober 2011 ve

  13. Phylogenetically resolving epidemiologic linkage

    Science.gov (United States)

    Romero-Severson, Ethan O.; Bulla, Ingo; Leitner, Thomas

    2016-01-01

    Although the use of phylogenetic trees in epidemiological investigations has become commonplace, their epidemiological interpretation has not been systematically evaluated. Here, we use an HIV-1 within-host coalescent model to probabilistically evaluate transmission histories of two epidemiologically linked hosts. Previous critique of phylogenetic reconstruction has claimed that direction of transmission is difficult to infer, and that the existence of unsampled intermediary links or common sources can never be excluded. The phylogenetic relationship between the HIV populations of epidemiologically linked hosts can be classified into six types of trees, based on cladistic relationships and whether the reconstruction is consistent with the true transmission history or not. We show that the direction of transmission and whether unsampled intermediary links or common sources existed make very different predictions about expected phylogenetic relationships: (i) Direction of transmission can often be established when paraphyly exists, (ii) intermediary links can be excluded when multiple lineages were transmitted, and (iii) when the sampled individuals’ HIV populations both are monophyletic a common source was likely the origin. Inconsistent results, suggesting the wrong transmission direction, were generally rare. In addition, the expected tree topology also depends on the number of transmitted lineages, the sample size, the time of the sample relative to transmission, and how fast the diversity increases after infection. Typically, 20 or more sequences per subject give robust results. We confirm our theoretical evaluations with analyses of real transmission histories and discuss how our findings should aid in interpreting phylogenetic results. PMID:26903617

  14. Die Plantfamilie Asteraceae: 4 Interessante groeivorme en ekonomies belangrike soorte

    Directory of Open Access Journals (Sweden)

    P. P.J. Herman

    2002-09-01

    Full Text Available Die plantfamilie Asteraceae bevat ’n ryke verskeidenheid en interessante groeivorme soos eenjarige en meerjarige kruide, dwergstruike, struike, bome, slingerplante, sukkulente, waterplante, rosetplante, kussingplante, heide-agtige plante, platgroeiend, grasagtig  en doringrig. Die blare vertoon ook baie variasie in vorm en ander kenmerke byvoorbeeld afwisselend, teenoorstaande, saamgepak, sittend, gesteeld, enkelvoudig, gaafrandig, getand, gelob of diep verdeeld, saamgesteld, met drie tot vyf hoofare, gereduseer of heeltemal afwesig, glad of baie harig op die boonste of onderste oppervlakke. Soms is melksap teenwoordig en sommiges is aromaties. Sommige verteenwoordigers van die familie is ekonomies belangrik; sommiges is eetbaar of word vir medisyne gebruik terwyl ander giftig is, sommiges word as veevoer benut maar ander is onkruide en die hout van sommiges is in die verlede gebruik.

  15. Antioxidative/acetylcholinesterase inhibitory activity of some Asteraceae plants.

    Science.gov (United States)

    Mekinić, Ivana Generalić; Burcul, Franko; Blazević, Ivica; Skroza, Danijela; Kerum, Daniela; Katalinić, Visnja

    2013-04-01

    The extracts obtained by 80% EtOH from some Asteraceae plants (Calendula officinalis, Inula helenium, Arctium lappa, Artemisia absinthium and Achillea millefolium) were studied. Rosmarinic acid, one of the main compounds identified in all extracts, was determined quantitatively by using HPLC. In addition, spectrophotometric methods were evaluated as an alternative for rosmarinic acid content determination. Total phenolic content was also established for all extracts. A. millefolium extract was found to have the highest content of rosmarinic acid as well as total phenols. All extracts were tested for antioxidant and acetylcholinesterase inhibitory activity. A. millefolium was shown to possess the best antioxidant activity (for all tested methods) as well as acetylcholinesterase inhibitory activity. Highly positive linear relationships were obtained between antioxidant/acetylcholinesterase inhibitory activity and the determined rosmarinic acid content indicating its significance for the observed activities. PMID:23738456

  16. El género Pluchea (familia Asteraceae, tribu Plucheeae) en México The genus Pluchea (family Asteraceae, tribe Plucheeae) in Mexico

    OpenAIRE

    José Luis Villaseñor; José Ángel Villarreal

    2006-01-01

    El género Pluchea (Asteraceae, Plucheeae), distribuido principalmente en las regiones tropicales de América, África, Asia y Australia, registra en México 9 epecies, 2 de ellas endémicas del país. Se presenta una sinopsis del género para México, incluyendo una clave para la identificación de las especies y mapas de distribución obtenidos de los ejemplares revisados.The genus Pluchea (Asteraceae, Plucheeae) is mostly found in the tropical regions of America, Africa, Asia, and Australia; in Mexi...

  17. Effects of species’ similarity and dominance on the functional and phylogenetic structure of a plant meta-community

    OpenAIRE

    Chalmandrier, L.; Münkemüller, T.; Lavergne, S.; Thuiller, W.

    2015-01-01

    Different assembly processes drive the spatial structure of meta-communities (β-diversity). Recently, functional and phylogenetic diversities have been suggested as indicators of these assembly processes. Assuming that diversity is a good proxy for niche overlap, high β-diversity along environmental gradients should be the result of environmental filtering while low β-diversity should stem from competitive interactions. So far studies trying to disentangle the relative importance of these ass...

  18. Fourier Disentangling Using the Technology of Virtual Observatory

    CERN Document Server

    Skoda, P

    2010-01-01

    The Virtual Observatory is a new technology of the astronomical research allowing the seamless processing and analysis of a heterogeneous data obtained from a number of distributed data archives. It may also provide astronomical community with powerful computational and data processing on-line services replacing the custom scientific code run on user's computers. Despite its benefits the VO technology has been still little exploited in stellar spectroscopy. As an example of possible evolution in this field we present an experimental web-based service for disentangling of spectra based on code KOREL. This code developed by P. Hadrava enables Fourier disentangling and line-strength photometry, i.e. simultaneous decomposition of spectra of multiple stars and solving for orbital parameters, line-profile variability or other physical parameters of observed objects. We discuss the benefits of the service-oriented approach from the point of view of both developers and users and give examples of possible user-friendl...

  19. A Universal Phylogenetic Tree.

    Science.gov (United States)

    Offner, Susan

    2001-01-01

    Presents a universal phylogenetic tree suitable for use in high school and college-level biology classrooms. Illustrates the antiquity of life and that all life is related, even if it dates back 3.5 billion years. Reflects important evolutionary relationships and provides an exciting way to learn about the history of life. (SAH)

  20. Continuous Variable Quantum State Sharing via Quantum Disentanglement

    OpenAIRE

    Lance, Andrew M.; Symul, Thomas; Bowen, Warwick P.; Sanders, Barry C.; Tyc, Tomas; Ralph, Timothy C.; Lam, Ping Koy

    2004-01-01

    Quantum state sharing is a protocol where perfect reconstruction of quantum states is achieved with incomplete or partial information in a multi-partite quantum networks. Quantum state sharing allows for secure communication in a quantum network where partial information is lost or acquired by malicious parties. This protocol utilizes entanglement for the secret state distribution, and a class of "quantum disentangling" protocols for the state reconstruction. We demonstrate a quantum state sh...

  1. A New Scheme of Entanglement Swapping and Disentanglement

    Institute of Scientific and Technical Information of China (English)

    刘堂昆; 王继锁; 冯健; 詹明生

    2004-01-01

    We consider three two-level atoms (A, B, and C) initially in the W entanglement state, then one of them, C, is injected into a high-Q cavity to make resonant interaction to entangle with the other two atoms A and B that are far away from the cavity. The entanglement swapping or disentanglement can be realized by carrying out measurements on C and selecting appropriate interaction time of C with the coherent field.

  2. Phylogenetic molecular function annotation

    OpenAIRE

    Barbara E Engelhardt; Jordan, Michael I.; Repo, Susanna T; Brenner, Steven E

    2009-01-01

    It is now easier to discover thousands of protein sequences in a new microbial genome than it is to biochemically characterize the specific activity of a single protein of unknown function. The molecular functions of protein sequences have typically been predicted using homology-based computational methods, which rely on the principle that homologous proteins share a similar function. However, some protein families include groups of proteins with different molecular functions. A phylogenetic ...

  3. Molecular phylogenetics before sequences

    OpenAIRE

    Mark A. Ragan; Bernard, Guillaume,; Chan, Cheong Xin

    2014-01-01

    From 1971 to 1985, Carl Woese and colleagues generated oligonucleotide catalogs of 16S/18S rRNAs from more than 400 organisms. Using these incomplete and imperfect data, Carl and his colleagues developed unprecedented insights into the structure, function, and evolution of the large RNA components of the translational apparatus. They recognized a third domain of life, revealed the phylogenetic backbone of bacteria (and its limitations), delineated taxa, and explored the tempo and mode of micr...

  4. Canonical phylogenetic ordination.

    Science.gov (United States)

    Giannini, Norberto P

    2003-10-01

    A phylogenetic comparative method is proposed for estimating historical effects on comparative data using the partitions that compose a cladogram, i.e., its monophyletic groups. Two basic matrices, Y and X, are defined in the context of an ordinary linear model. Y contains the comparative data measured over t taxa. X consists of an initial tree matrix that contains all the xj monophyletic groups (each coded separately as a binary indicator variable) of the phylogenetic tree available for those taxa. The method seeks to define the subset of groups, i.e., a reduced tree matrix, that best explains the patterns in Y. This definition is accomplished via regression or canonical ordination (depending on the dimensionality of Y) coupled with Monte Carlo permutations. It is argued here that unrestricted permutations (i.e., under an equiprobable model) are valid for testing this specific kind of groupwise hypothesis. Phylogeny is either partialled out or, more properly, incorporated into the analysis in the form of component variation. Direct extensions allow for testing ecomorphological data controlled by phylogeny in a variation partitioning approach. Currently available statistical techniques make this method applicable under most univariate/multivariate models and metrics; two-way phylogenetic effects can be estimated as well. The simplest case (univariate Y), tested with simulations, yielded acceptable type I error rates. Applications presented include examples from evolutionary ethology, ecology, and ecomorphology. Results showed that the new technique detected previously overlooked variation clearly associated with phylogeny and that many phylogenetic effects on comparative data may occur at particular groups rather than across the entire tree. PMID:14530135

  5. DNA-based identification of Calendula officinalis (Asteraceae)1

    Science.gov (United States)

    Schmiderer, Corinna; Lukas, Brigitte; Ruzicka, Joana; Novak, Johannes

    2015-01-01

    Premise of the study: For the economically important species Calendula officinalis, a fast identification assay based on high-resolution melting curve analysis was designed. This assay was developed to distinguish C. officinalis from other species of the genus and other Asteraceae genera, and to detect C. officinalis as an adulterant of saffron samples. Methods and Results: For this study, five markers (ITS, rbcL, 5′ trnK-matK, psbA-trnH, trnL-trnF) of 10 Calendula species were sequenced and analyzed for species-specific mutations. With the application of two developed primer pairs located in the trnK 5′ intron and trnL-trnF, C. officinalis could be distinguished from other species of the genus and all outgroup samples tested. Adulterations of Calendula DNA in saffron could be detected down to 0.01%. Conclusions: With the developed assay, C. officinalis can be reliably identified and admixtures of this species as adulterant of saffron can be revealed at low levels. PMID:26649268

  6. Vernonia condensata Baker (Asteraceae): A Promising Source of Antioxidants

    Science.gov (United States)

    da Silva, Jucélia Barbosa; Temponi, Vanessa dos Santos; Gasparetto, Carolina Miranda; Fabri, Rodrigo Luiz; Aragão, Danielle Maria de Oliveira; Pinto, Nícolas de Castro Campos; Ribeiro, Antônia; Scio, Elita; Del-Vechio-Vieira, Glauciemar; de Sousa, Orlando Vieira

    2013-01-01

    The present study evaluated the antioxidant potential of Vernonia condensata Baker (Asteraceae). Dried and powdered leaves were exhaustively extracted with ethanol by static maceration followed by partition to obtain the hexane, dichloromethane, ethyl acetate, and butanol fractions. Total phenols and flavonoids contents were determined through spectrophotometry and flavonoids were identified by HPLC-DAD system. The antioxidant activity was assessed by DPPH radical scavenging activity, TLC-bioautography, reducing power of Fe+3, phosphomolybdenum, and TBA assays. The total phenolic content and total flavonoids ranged from 0.19 to 23.11 g/100 g and from 0.13 to 4.10 g/100 g, respectively. The flavonoids apigenin and luteolin were identified in the ethyl acetate fraction. The IC50 of DPPH assay varied from 4.28 to 75.10 µg/mL and TLC-bioautography detected the antioxidant compounds. The reducing power of Fe+3 was 19.98 to 336.48 μg/mL, while the reaction with phosphomolybdenum ranged from 13.54% to 32.63% and 56.02% to 135.00% considering ascorbic acid and rutin as reference, respectively. At 30 mg/mL, the ethanolic extract and fractions revealed significant effect against lipid peroxidation. All these data sustain that V. condensata is an important and promising source of bioactive substances with antioxidant activity. PMID:24489987

  7. Chemical Constituents and Acetylcholinesterase Inhibition of Senecio ventanensis Cabrera (Asteraceae

    Directory of Open Access Journals (Sweden)

    Natalia Paola Alza

    2016-01-01

    Full Text Available Chemical constituents and acetylcholinesterase inhibition was investigated in both essential oil and dichloromethane subextract obtained from the aerial parts of Senecio ventanensis, an endemic Asteraceae. The chemical composition of the oil was determined by GC and GC-MS. The major constituents were a -terpinene (12.2%, limonene (11.9%, -humulene (10.5%, sabinene (9.1%, terpinolene (8.8%, p-cymene (8.1% and a -ocimene (7.3%. The bioassay guided isolation of the constituents of the active dichloromethane subextract (IC 50 = 361.6 µg/mL led us to the isolation of two diastereoisomers of a sesquiterpene endoperoxide 3,6-epidioxy-1,10-bisaboladiene (1 and 2, reported here for the first time in S. ventanensis. The identification was achieved by comprehensive analyses of its 1H and 13C NMR spectroscopic data (including 2D experiments and mass spectrometric data. Their absolute configuration is proposed on the basis of AM1 calculations and NOESY experiments. This is the first time that compounds 1 and 2 have been separated as well as the first phytochemical investigation of S. ventanensis.

  8. Disentangling participation power and decision-making in participatory design

    CERN Document Server

    Bratteteig, Tone

    2014-01-01

    Providing a critical view on user participation in design, disentangling decision making and power in design, this book uses fieldwork material from two large participatory design projects: one experimental in the field of urban planning, the other a product development project within health care. Addressing power issues in participatory design is critical to providing a realistic view of the possibilities and limitations of participation. Design is decision-making: during a design process a huge number of decisions?taken before the designers end up with a design result - an artefact or system

  9. Fast phylogenetic DNA barcoding

    DEFF Research Database (Denmark)

    Terkelsen, Kasper Munch; Boomsma, Wouter Krogh; Willerslev, Eske;

    2008-01-01

    We present a heuristic approach to the DNA assignment problem based on phylogenetic inferences using constrained neighbour joining and non-parametric bootstrapping. We show that this method performs as well as the more computationally intensive full Bayesian approach in an analysis of 500 insect...... DNA sequences obtained from GenBank. We also analyse a previously published dataset of environmental DNA sequences from soil from New Zealand and Siberia, and use these data to illustrate the fact that statistical approaches to the DNA assignment problem allow for more appropriate criteria...... for determining the taxonomic level at which a particular DNA sequence can be assigned....

  10. Nuevas citas de Asteraceae para la provincia de Catamarca (Argentina New records of Asteraceae for the province of Catamarca (Argentina

    Directory of Open Access Journals (Sweden)

    Susana E. Freire

    2011-06-01

    Full Text Available Se mencionan los siguientes nuevos registros de Asteráceas para la provincia de Catamarca, Argentina: Baccharis acaulis, B. boliviensis var. latifolia, B. flexuosa, B. glutinosa var. angustissima, B. stenophylla (Tribu Astereae, Eupatorium patens var. tomentosum (Tribu Eupatorieae, Cosmos bipinnatus, C. peucedanifolius var. peucedanifolius, Helianthus annuus (Tribu Heliantheae, Gamochaeta erythractis, G. longipedicellata, Gnaphalium lacteum, Tessaria integrifolia var. integrifolia (Tribu Inuleae, Chuquiraga ruscifolia (Tribu Mutisieae, Senecio crepidifolius, S. subulatus var. subulatus, Xenophyllum incisum var. incisum (Tribu Senecioneae. Se citan además el hábitat de los taxones y las provincias fitogeográficas que integran. Se propone una nueva combinación, Baccharis glutinosa Pers. var. angustissima (DC. Giuliano.The following Asteraceae are mentioned for the province of Catamarca: Baccharis acaulis, B. boliviensis var. latifolia, B. flexuosa, B. glutinosa var. angustissima, B. stenophylla (Tribe Astereae, Eupatorium patens var. tomentosum (Tribe Eupatorieae, Cosmos bipinnatus, C. peucedanifolius var. peucedanifolius, Helianthus annuus (Tribe Heliantheae, Gamochaeta erythractis, G. longipedicellata, Gnaphalium lacteum, Tessaria integrifolia var. integrifolia (Tribe Inuleae, Chuquiraga ruscifolia (Tribe Mutisieae, Senecio crepidifolius, S. subulatus var. subulatus, Xenophyllum incisum var. incisum (Tribe Senecioneae. The habitat and phytogeographic provinces of the taxa are mentioned. The following new combination is proposed: Baccharis glutinosa Pers. var. angustissima (DC. Giuliano.

  11. Phylogeny, biogeography, and character evolution in mediterranean, asiatic, and macaronesian Helichrysum (Asteraceae, Gnaphalieae) inferred from nuclear phylogenetic analyses

    OpenAIRE

    Galbany-Casals, Mercè; Garcia-Jacas, Núria; Sáez, Llorenç; Benedí González, Carles; Susanna de la Serna, Alfonso

    2009-01-01

    [EN] The genus Helichrysum has 500–600 species in Africa, Madagascar, the Mediterranean basin, Macaronesia, western and central Asia, and India. The aims of this study are to confirm the exclusion of Castroviejoa from Helichrysum, to elucidate the origin of the Macaronesian endemics, to confirm the monophyly of the Mediterranean-Asiatic group, and, within this group, to contrast molecular data with sectional classification and to provide insight into trends in character evolution ...

  12. Reconstruction of phylogenetic relationships in a highly reticulate group with deep coalescence and recent speciation (Hieracium, Asteraceae)

    Czech Academy of Sciences Publication Activity Database

    Krak, Karol; Caklová, Petra; Chrtek, Jindřich; Fehrer, Judith

    2013-01-01

    Roč. 110, č. 2 (2013), s. 138-151. ISSN 0018-067X R&D Projects: GA ČR GA206/05/0657; GA ČR GAP506/10/1363 Grant ostatní: European Union(XE) ES-TAF-1365 Institutional support: RVO:67985939 Keywords : Hieracium * hybridization * incomplete lineage sorting Subject RIV: EF - Botanics Impact factor: 3.804, year: 2013

  13. Phylogenetic comparative assembly

    Directory of Open Access Journals (Sweden)

    Husemann Peter

    2010-01-01

    Full Text Available Abstract Background Recent high throughput sequencing technologies are capable of generating a huge amount of data for bacterial genome sequencing projects. Although current sequence assemblers successfully merge the overlapping reads, often several contigs remain which cannot be assembled any further. It is still costly and time consuming to close all the gaps in order to acquire the whole genomic sequence. Results Here we propose an algorithm that takes several related genomes and their phylogenetic relationships into account to create a graph that contains the likelihood for each pair of contigs to be adjacent. Subsequently, this graph can be used to compute a layout graph that shows the most promising contig adjacencies in order to aid biologists in finishing the complete genomic sequence. The layout graph shows unique contig orderings where possible, and the best alternatives where necessary. Conclusions Our new algorithm for contig ordering uses sequence similarity as well as phylogenetic information to estimate adjacencies of contigs. An evaluation of our implementation shows that it performs better than recent approaches while being much faster at the same time.

  14. Phylogenetic trees in bioinformatics

    Energy Technology Data Exchange (ETDEWEB)

    Burr, Tom L [Los Alamos National Laboratory

    2008-01-01

    Genetic data is often used to infer evolutionary relationships among a collection of viruses, bacteria, animal or plant species, or other operational taxonomic units (OTU). A phylogenetic tree depicts such relationships and provides a visual representation of the estimated branching order of the OTUs. Tree estimation is unique for several reasons, including: the types of data used to represent each OTU; the use ofprobabilistic nucleotide substitution models; the inference goals involving both tree topology and branch length, and the huge number of possible trees for a given sample of a very modest number of OTUs, which implies that fmding the best tree(s) to describe the genetic data for each OTU is computationally demanding. Bioinformatics is too large a field to review here. We focus on that aspect of bioinformatics that includes study of similarities in genetic data from multiple OTUs. Although research questions are diverse, a common underlying challenge is to estimate the evolutionary history of the OTUs. Therefore, this paper reviews the role of phylogenetic tree estimation in bioinformatics, available methods and software, and identifies areas for additional research and development.

  15. VO-KOREL: A Fourier disentangling service of Virtual Observatory

    CERN Document Server

    Škoda, Petr; Fuchs, Jan

    2011-01-01

    VO-KOREL is a web service exploiting the technology of Virtual Observatory for providing the astronomers with the intuitive graphical front-end and distributed computing back-end running the most recent version of Fourier disentangling code KOREL. The system integrates the ideas of the e-shop basket, conserving the privacy of every user by transfer encryption and access authentication, with features of laboratory notebook, allowing the easy housekeeping of both input parameters and final results, as well as it explores a newly emerging technology of cloud computing. While the web-based front-end allows the user to submit data and parameter files, edit parameters, manage a job list, resubmit or cancel running jobs and mainly watching the text and graphical results of a disentangling process, the main part of the back-end is a simple job queue submission system executing in parallel multiple instances of FORTRAN code KOREL. This may be easily extended for GRID-based deployment on massively parallel computing cl...

  16. Estudo fitoquímico da espécie Pterocaulon interruptum DC. (Asteraceae Phytochemical study of Pterocaulon interruptum Dc., Asteraceae

    Directory of Open Access Journals (Sweden)

    Ana Carolina Winkler Heemann

    2006-12-01

    Full Text Available A análise fitoquímica das partes aéreas de Pterocaulon interruptum DC. (Asteraceae resultou no isolamento de cinco compostos: uma cumarina, sabandinol, dois esteróides, estigmasterol e 3-O-acetil-taraxasterol e dois flavonóides, quercetina e taxifolina 7-O-prenilada. As estruturas destas substâncias foram estabelecidas por análises espectroscópicas, sendo que este é o primeiro trabalho sobre o isolamento destes compostos em Pterocaulon interruptum DC.Chemical investigation of the aerial parts of Pterocaulon interruptum DC., Asteraceae, resulted in the isolation of five compounds: one coumarin, sabandinol, two steroids, stigmasterol and 3-O-acetyl taraxasterol and two flavonoids, quercetin (flavonol and 7-O-prenyl taxifolin (dihydroxyflavonol. The structures of these compounds were established by spectroscopic analysis. This paper deals with the first report of these compounds in Pterocaulon interruptum DC.

  17. El género Pluchea (familia Asteraceae, tribu Plucheeae en México The genus Pluchea (family Asteraceae, tribe Plucheeae in Mexico

    Directory of Open Access Journals (Sweden)

    José Luis Villaseñor

    2006-06-01

    Full Text Available El género Pluchea (Asteraceae, Plucheeae, distribuido principalmente en las regiones tropicales de América, África, Asia y Australia, registra en México 9 epecies, 2 de ellas endémicas del país. Se presenta una sinopsis del género para México, incluyendo una clave para la identificación de las especies y mapas de distribución obtenidos de los ejemplares revisados.The genus Pluchea (Asteraceae, Plucheeae is mostly found in the tropical regions of America, Africa, Asia, and Australia; in Mexico the genus records 9 species, 2 of them endemic. In this paper a synopsis of the genus in Mexico is presented; it includes a key to identify the species as well as distribution maps obtained from the specimens examined.

  18. Jurinea micevskii (Asteraceae), a new species from the Republic of Macedonia

    DEFF Research Database (Denmark)

    Stevanovic, Vladimir; Matevski, Vlado; Tan, Kit

    2010-01-01

    Jurinea micevskii (Asteraceae) is described and illustrated as a new species endemic to Mt Galicica in the southwestern Republic of Macedonia. It resembles J. taygetea, a narrow endemic of Mt Taigetos in the Peloponnese, southern Greece and J. bocconei from Mt Madoníe in north central Sicily. The...

  19. Helichrysum yurterianum (Asteraceae, Inuleae), a new species from NE Anatolia, Turkey

    DEFF Research Database (Denmark)

    Gemici, Yusuf; Tan, Kit; Yildirim, Hasan;

    2008-01-01

    Helichrysum yurterianum Y. Gemici, Kit Tan, H. Yildirim & M. Gemici (Asteraceae, Inuleae) is described and illustrated. It is a serpentine endemic restricted to the province of Erzincan in NE Anatolia, Turkey. Its affinities are with H. arenarium and H. noeanum, which both have a wider distributi...

  20. Estudio de la propagación sexual del arboloco Montanoa quadrangularis Schultz Bipontianus Asteraceae

    OpenAIRE

    William Escobar-Torres; Loyla Rodríguez-Perez; Marcela Tamayo-Rincón

    2010-01-01

    Sexual propagation of arboloco Montanoa quadrangularis Schultz Bipontianus (Asteraceae). Objective. To develop sexual propagationmethodologies for Montanoa quadrangularis Schultz Bipontianus (arboloco). Materials and methods. Seeds were harvested from treesgrown at the Chilaca environmental station (Geoambiente Ltda.) located in Pacho, Cundinamarca, Colombia. The study was carried out intwo phases: firstly, substrate effect on germination responses was evaluated in seedbed conditions. Substra...

  1. Cirsium semzinanicum (Asteraceae), a new species from Hakkâri, Turkey

    OpenAIRE

    Fırat,Mehmet

    2016-01-01

    Cirsium semzinanicum sp. nov. (Asteraceae) is described as a new species from Hakkâri, Turkey. The new species is a part of the sect. Epitrachys (Cardueae) and similar to Cirsium karduchorum, from which it differs in morphological characters such as leaves, involucre, phyllaries, corolla, achens and pollen morphology. Geographical distribution, habitat and IUCN conservation status of this species are given.

  2. Ultrafast Approximation for Phylogenetic Bootstrap

    NARCIS (Netherlands)

    Bui Quang Minh, [No Value; Nguyen, Thi; von Haeseler, Arndt

    2013-01-01

    Nonparametric bootstrap has been a widely used tool in phylogenetic analysis to assess the clade support of phylogenetic trees. However, with the rapidly growing amount of data, this task remains a computational bottleneck. Recently, approximation methods such as the RAxML rapid bootstrap (RBS) and

  3. Quartets and unrooted phylogenetic networks.

    Science.gov (United States)

    Gambette, Philippe; Berry, Vincent; Paul, Christophe

    2012-08-01

    Phylogenetic networks were introduced to describe evolution in the presence of exchanges of genetic material between coexisting species or individuals. Split networks in particular were introduced as a special kind of abstract network to visualize conflicts between phylogenetic trees which may correspond to such exchanges. More recently, methods were designed to reconstruct explicit phylogenetic networks (whose vertices can be interpreted as biological events) from triplet data. In this article, we link abstract and explicit networks through their combinatorial properties, by introducing the unrooted analog of level-k networks. In particular, we give an equivalence theorem between circular split systems and unrooted level-1 networks. We also show how to adapt to quartets some existing results on triplets, in order to reconstruct unrooted level-k phylogenetic networks. These results give an interesting perspective on the combinatorics of phylogenetic networks and also raise algorithmic and combinatorial questions. PMID:22809417

  4. Using Brain Stimulation to Disentangle Neural Correlates of Conscious Vision

    Directory of Open Access Journals (Sweden)

    TomAlexanderde Graaf

    2014-09-01

    Full Text Available Research into the neural correlates of consciousness (NCCs has blossomed, due to the advent of new and increasingly sophisticated brain research tools. Neuroimaging has uncovered a variety of brain processes that relate to conscious perception, obtained in a range of experimental paradigms. But methods such as fMRI or EEG do not always afford inference on the role these brain processes play in conscious vision. Such empirical neural correlates of consciousness could reflect neural prerequisites, neural consequences, or neural substrates of a conscious experience. Here, we take a closer look at the use of non-invasive brain stimulation (NIBS techniques in this context. We discuss and review how NIBS methodology can enlighten our understanding of brain mechanisms underlying conscious vision by disentangling the empirical neural correlates of consciousness.

  5. Disentangling the role of structure and friction in shear jamming

    Science.gov (United States)

    Vinutha, H. A.; Sastry, Srikanth

    2016-06-01

    Amorphous sphere packings have been intensely investigated to understand mechanical and flow behaviour of dense granular matter and to explore universal aspects of the jamming transition, from fluid to structurally arrested states. Considerable recent research has focused on anisotropic packings of frictional grains generated by shear deformation leading to shear jamming, occurring below the jamming density for isotropic packings of frictionless grains. Here, with the aim of disentangling the role of shear-deformation-induced structures and friction in generating shear jamming, we computationally study sheared assemblies of frictionless spheres, over a wide range of densities. We demonstrate that shear deformation alone leads to the emergence of geometric features characteristic of jammed packings, with the increase of shear strain. We also show that such emergent geometry, together with friction, leads to mechanically stable, shear-jammed, packings above a threshold density that lies well below the isotropic jamming point.

  6. Macroecology of biodiversity: disentangling local and regional effects.

    Science.gov (United States)

    Pärtel, Meelis; Bennett, Jonathan A; Zobel, Martin

    2016-07-01

    Contents 404 I. 404 II. 404 III. 405 IV. 406 V. 407 VI. 408 409 References 409 SUMMARY: Macroecology of biodiversity disentangles local and regional drivers of biodiversity by exploring large-scale biodiversity relationships with environmental or biotic gradients, generalizing local biodiversity relationships across regions, or comparing biodiversity patterns among species groups. A macroecological perspective is also important at local scales: a full understanding of local biodiversity drivers, including human impact, demands that regional processes be taken into account. This requires knowledge of which species could inhabit a site (the species pool), including those that are currently absent (dark diversity). Macroecology of biodiversity is currently advancing quickly owing to an unprecedented accumulation of biodiversity data, new sampling techniques and analytical methods, all of which better equip us to face current and future challenges in ecology and biodiversity conservation. PMID:27040897

  7. Asteraceae in Strelitzia 14 (2003 and Southern African Botanical Diversity Network Report No. 41 (2006: updates and corrections

    Directory of Open Access Journals (Sweden)

    P. P. Herman

    2008-12-01

    Full Text Available The distributions, endemism and tribal affiliations o f taxa in the family Asteraceae in southern Africa are updated. New ombinations and newly described species are added to the previously published lists.

  8. Asteraceae visited by honeybees in Argentina: a record from entomopalynological studies Asteraceae visitadas por abejas melíferas en Argentina: un registro a partir de estudios entomopalinológicos

    Directory of Open Access Journals (Sweden)

    María C. Telleria

    2009-07-01

    Full Text Available Entomopalynological studies of Asteraceae in Argentina revealed that 64 taxa occurred in food stored by honeybees. The most visited plant tribes were classified according to both the type of reward provided by the different taxa and the intensity that such reward is collected by honeybees. Exotic plant taxa were intensely visited inside the disturbed areas (e.g. Cardueae and Cichorieae tribes, whereas native taxa (e.g. Barnadesioideae, Mutisieae, Astereae and Eupatorieae were intensely visited in less disturbed areas. A large number of identified taxa of Asteraceae and the evaluation of its importance to honeybee nutrition were presented. The present study contributes to the knowledge of relationship between Asteraceae and honeybees.A partir de estudios entomopalinológicos se encontró que 64 taxa pertenecientes a la familia Asteraceae están presentes en los alimentos almacenados por las abejas melíferas. Los representantes exóticos fueron intensamente visitados en las áreas más alteradas (e.g. Cardueae and Cichorieae, mientras que algunos representantes nativos (e.g. Barnadesioideae, Mutisieae, Astereae y Eupatorieae fueron intensamente visitados en áreas menos alteradas. Se presenta un importante número de taxa de Asteraceae relevantes para la nutrición de las abejas melíferas. El presente trabajo contribuye a conocer la relación entre Asteraceae y abejas melíferas.

  9. [Foundations of the new phylogenetics].

    Science.gov (United States)

    Pavlinov, I Ia

    2004-01-01

    Evolutionary idea is the core of the modern biology. Due to this, phylogenetics dealing with historical reconstructions in biology takes a priority position among biological disciplines. The second half of the 20th century witnessed growth of a great interest to phylogenetic reconstructions at macrotaxonomic level which replaced microevolutionary studies dominating during the 30s-60s. This meant shift from population thinking to phylogenetic one but it was not revival of the classical phylogenetics; rather, a new approach emerged that was baptized The New Phylogenetics. It arose as a result of merging of three disciplines which were developing independently during 60s-70s, namely cladistics, numerical phyletics, and molecular phylogenetics (now basically genophyletics). Thus, the new phylogenetics could be defined as a branch of evolutionary biology aimed at elaboration of "parsimonious" cladistic hypotheses by means of numerical methods on the basis of mostly molecular data. Classical phylogenetics, as a historical predecessor of the new one, emerged on the basis of the naturphilosophical worldview which included a superorganismal idea of biota. Accordingly to that view, historical development (the phylogeny) was thought an analogy of individual one (the ontogeny) so its most basical features were progressive parallel developments of "parts" (taxa), supplemented with Darwinian concept of monophyly. Two predominating traditions were diverged within classical phylogenetics according to a particular interpretation of relation between these concepts. One of them (Cope, Severtzow) belittled monophyly and paid most attention to progressive parallel developments of morphological traits. Such an attitude turned this kind of phylogenetics to be rather the semogenetics dealing primarily with evolution of structures and not of taxa. Another tradition (Haeckel) considered both monophyletic and parallel origins of taxa jointly: in the middle of 20th century it was split into

  10. Quantum Simulation of Phylogenetic Trees

    OpenAIRE

    Ellinas, Demosthenes; Jarvis, Peter

    2011-01-01

    Quantum simulations constructing probability tensors of biological multi-taxa in phylogenetic trees are proposed, in terms of positive trace preserving maps, describing evolving systems of quantum walks with multiple walkers. Basic phylogenetic models applying on trees of various topologies are simulated following appropriate decoherent quantum circuits. Quantum simulations of statistical inference for aligned sequences of biological characters are provided in terms of a quantum pruning map o...

  11. Phylogeny and evolution of Perezia (Asteraceae: Mutisieae: Nassauviinae)

    Institute of Scientific and Technical Information of China (English)

    Beryl B. SIMPSON; Mary T. K. ARROYO; Sandra SIPE; Marta DIAS de MORAES; Joshua McDILL

    2009-01-01

    A molecular phylogenetic analysis of most of the species of Perezia reveals that, as traditionally defined, the genus is not monophyletic with two species more closely related to Nassauvia than to Perezia. In addition, our results show that Burkartia (Perezia) lanigera is related to Acourtia and is the only member of that clade in South America. The remaining species are monophyletic and show a pattern of an early split between a western temperate and an eastern subtropical clade of species. Within the western clade, the phylogeny indicates a pattern of diversification that proceeded from southern, comparatively low-elevation habitats to southern high-elevation habitats, and ultimately into more northern high-elevation habitats. The most derived clades are found in the high central Andes, where significant radiation has occurred.

  12. Sequential congruency effects: disentangling priming and conflict adaptation.

    Science.gov (United States)

    Puccioni, Olga; Vallesi, Antonino

    2012-09-01

    Responding to the color of a word is slower and less accurate if the word refers to a different color (incongruent condition) than if it refers to the same color (congruent condition). This phenomenon, known as the Stroop effect, is modulated by sequential effects: it is bigger when the current trial is preceded by a congruent condition than by an incongruent one in the previous trial. Whether this phenomenon is due to priming mechanisms or to cognitive control is still debated. To disentangle the contribution of priming with respect to conflict adaptation mechanisms in determining sequential effects, two experiments were designed here with a four-alternative forced choice (4-AFC) Stroop task: in the first one only trials with complete alternations of features were used, while in the second experiment all possible types of repetitions were presented. Both response times (RTs) and errors were evaluated. Conflict adaptation effects on RTs were limited to congruent trials and were exclusively due to priming: they disappeared in the priming-free experiment and, in the second experiment, they occurred in sequences with feature repetitions but not in complete alternation sequences. Error results, instead, support the presence of conflict adaptation effects in incongruent trials. In priming-free sequences (experiment 1 and complete alternation sequences of experiment 2) with incongruent previous trials there was no error Stroop effect, while this effect was significant with congruent previous trials. These results indicate that cognitive control may modulate performance above and beyond priming effects. PMID:21735040

  13. Disentangling mite predator-prey relationships by multiplex PCR.

    Science.gov (United States)

    Pérez-Sayas, Consuelo; Pina, Tatiana; Gómez-Martínez, María A; Camañes, Gemma; Ibáñez-Gual, María V; Jaques, Josep A; Hurtado, Mónica A

    2015-11-01

    Gut content analysis using molecular techniques can help elucidate predator-prey relationships in situations in which other methodologies are not feasible, such as in the case of trophic interactions between minute species such as mites. We designed species-specific primers for a mite community occurring in Spanish citrus orchards comprising two herbivores, the Tetranychidae Tetranychus urticae and Panonychus citri, and six predatory mites belonging to the Phytoseiidae family; these predatory mites are considered to be these herbivores' main biological control agents. These primers were successfully multiplexed in a single PCR to test the range of predators feeding on each of the two prey species. We estimated prey DNA detectability success over time (DS50), which depended on the predator-prey combination and ranged from 0.2 to 18 h. These values were further used to weight prey detection in field samples to disentangle the predatory role played by the most abundant predators (i.e. Euseius stipulatus and Phytoseiulus persimilis). The corrected predation value for E. stipulatus was significantly higher than for P. persimilis. However, because this 1.5-fold difference was less than that observed regarding their sevenfold difference in abundance, we conclude that P. persimilis is the most effective predator in the system; it preyed on tetranychids almost five times more frequently than E. stipulatus did. The present results demonstrate that molecular tools are appropriate to unravel predator-prey interactions in tiny species such as mites, which include important agricultural pests and their predators. PMID:25824504

  14. Disentangling bipartite and core-periphery structure in financial networks

    Science.gov (United States)

    Barucca, Paolo; Lillo, Fabrizio

    2016-07-01

    A growing number of systems are represented as networks whose architecture conveys significant information and determines many of their properties. Examples of network architecture include modular, bipartite, and core-periphery structures. However inferring the network structure is a non trivial task and can depend sometimes on the chosen null model. Here we propose a method for classifying network structures and ranking its nodes in a statistically well-grounded fashion. The method is based on the use of Belief Propagation for learning through Entropy Maximization on both the Stochastic Block Model (SBM) and the degree-corrected Stochastic Block Model (dcSBM). As a specific application we show how the combined use of the two ensembles -SBM and dcSBM- allows to disentangle the bipartite and the core-periphery structure in the case of the e-MID interbank network. Specifically we find that, taking into account the degree, this interbank network is better described by a bipartite structure, while using the SBM the core-periphery structure emerges only when data are aggregated for more than a week.

  15. Disentangling the role of environmental processes in galaxy clusters

    CERN Document Server

    Hernández-Fernández, Jonathan D; Iglesias-Páramo, J

    2012-01-01

    In this work we present the results of a novel approach devoted to disentangle the role of the environmental processes affecting galaxies in clusters. This is based on the analysis of the NUV-r' distributions of a large sample of star-forming galaxies in clusters spanning more than four absolute magnitudes. The galaxies inhabit three distinct environmental regions: virial regions, cluster infall regions and field environment. We have applied rigorous statistical tests in order to analyze both, the complete NUV-r' distributions and their averages for three different bins of r'-band galaxy luminosity down to M_r' ~ -18, throughout the three environmental regions considered. We have identified the environmental processes that significantly affect the star-forming galaxies in a given luminosity bin by using criteria based on the characteristics of these processes: their typical time-scales, the regions where they operate and the galaxy luminosity range for which their effects are more intense. We have found that ...

  16. Disentangling stellar activity from exoplanetary signals with interferometry

    Directory of Open Access Journals (Sweden)

    Ligi Roxanne

    2015-01-01

    Full Text Available Stellar activity can express as many forms at stellar surfaces: dark spots, convective cells, bright plages. Particularly, dark spots and bright plages add noise on photometric data or radial velocity measurements used to detect exoplanets, and thus lead to false detection or disrupt their derived parameters. Since interferometry provides a very high angular resolution, it may constitute an interesting solution to distinguish the signal of a transiting exoplanet and that of stellar activity. It has also been shown that granulation adds bias in visibility and closure phase measurements, affecting in turn the derived stellar parameters. We analyze the noises generated by dark spots on interferometric observables and compare them to exoplanet signals. We investigate the current interferometric instruments able to measure and disentangle these signals, and show that there is a lack in spatial resolution. We thus give a prospective of the improvements to be brought on future interferometers, which would also significantly extend the number of available targets.

  17. Assessment of In vitro Sun Protection Factor of Calendula Officinalis L. (Asteraceae) Essential Oil Formulation

    OpenAIRE

    Mishra, AK; Mishra, A.; Chattopadhyay, P.

    2012-01-01

    The present study was undertaken to study the sunscreen activity of herbal formulation. There is no evidence of the sun protection factor (SPF) studies on essential oil of Calendula flowers (Calendula officinalis L., Asteraceae). The study investigates the in vitro SPF by ultraviolet specrtophotometry method of Calendula flower oil in a cream formulation. Calendula oil was isolated by Clavenger's apparatus, compositions were identified by GC–MS and the cream of calendula flower oil was prepar...

  18. The effects of extraction method on recovery rutin from Calendula officinalis L. (Asteraceae)

    OpenAIRE

    Frederico Severino Martins; Edemilson Cardoso da Conceição; Elane Sousa Bandeira; José Carréra Silva; Roseane Maria Ribeiro Costa

    2014-01-01

    Background: Calendula officinalis L. (Asteraceae) is a Mediterranean specie, but in Europe and America it is cultivated for ornamental or medicinal purposes. This species is widely used for presenting activities, antiinflammatory antibacterial and antioxidant. However the therapeutic action is linked to the amount of assets of the extracted raw material. The extraction method of bioactive compounds is an important step in the manufacturing of herbal medicines, because secondary metabolites wi...

  19. Tree and tree-like species of Mexico: Asteraceae, Leguminosae, and Rubiaceae

    OpenAIRE

    Martin Ricker; Hernández, Héctor M.; Mario Sousa; Helga Ochoterena

    2013-01-01

    Trees or tree-like plants are defined here broadly as perennial, self-supporting plants with a total height of at least 5 m (without ascending leaves or inflorescences), and with one or several erect stems with a diameter of at least 10 cm. We continue our compilation of an updated list of all native Mexican tree species with the dicotyledonous families Asteraceae (36 species, 39% endemic), Leguminosae with its 3 subfamilies (449 species, 41% endemic), and Rubiaceae (134 species, 24% endemic)...

  20. ISOLATION AND ANALYTICAL CHARACTERIZATION OF STEVIOSIDE FROM LEAVES OF STEVIA REBAUDIANA BERT; (ASTERACEAE)

    OpenAIRE

    Inamake M.R.; Shelar P.D.; Kulkarni M.S.; Katekar S.M.; Tambe Rashmi

    2010-01-01

    Stevioside a natural non caloric sweetener isolated from the leaves of the plant Stevia rebaudiana Bertoni (Asteraceae or compositae). It has been widely used in many countries, including Japan, Korea, China, Brazil and Paraguay, either as a substitute for sucrose in beverages and foods or as a household sweetening agent isolated from the dried leaves of Stevia. In the present work attempt was made to isolate stevioside from the dried leaves of Stevia in its purest form. Isolated stevioside w...

  1. Comparative study of closely related \\kur{Asteraceae} species with different invasive status

    OpenAIRE

    ŠAFARČÍKOVÁ, Simona

    2008-01-01

    Complex of 4 closely related Asteraceae species with different invasive status (native Bidens tripartita, casual aliens Cosmos bipinnatus, Coreopis tinctoria and invasive alien Bidens frondosa) was studied to clarify the invasive success of Bidens frondosa and to assess the invasive potential of both unsuccessful aliens. Among studied characteristics were included: reproductive traits (germination in different regimes, seed viability and seed production), growth characteristics (relative grow...

  2. Distribution of the most common weeds from fam. Asteraceae in Srem

    OpenAIRE

    Igić Ružica S.; Konstantinović Branko; Polić Dubravka; Anačkov Goran T.

    2002-01-01

    Weeds fall into a specific ecological group of plants and man should play the key role in controlling the process of their formation and the rate of their spreading. Damage caused by weeds is significant in both the agricultural and natural ecosystems. Therefore, special care should be paid to the current rate of their spreading, ensuring that the caused environmental changes do not become irreversible. The paper summarizes the locations in which the most common weed types of the Asteraceae f...

  3. Estudo farmacobotânico de folha e caule de Baccharis uncinella DC., Asteraceae

    OpenAIRE

    Manfron Budel Jane; Duarte, Márcia do Rocio

    2008-01-01

    Baccharis uncinella DC. belongs to the Asteraceae family and is included in the Spicata group. Its synonym is Baccharis discolor Baker and it is popularly known as vassoura and vassoura-lageana in Portuguese. The phytochemical screening has shown the presence of essential oil, flavonoids, alkaloids, cardiac glycosides and saponins. Baccharis uncinella has presented antiviral activity against Herpes simplex type I. The volatile oil of the aerial organs has exhibited antimicrobial a...

  4. Leaf and stem microscopic identification of Tithonia diversifolia (Hemsl.) A. Gray (Asteraceae)

    OpenAIRE

    Márcia do Rocio Duarte; Cláudia Bonissoni Empinotti

    2012-01-01

    Tithonia diversifolia (Hemsl.) A. Gray is an Asteraceae shrub, popularly known as Mexican sunflower and cultivated for ornamental and therapeutic uses in different countries. In folk medicine, it is of value for treating diabetes, malaria and infectious diseases. These indications have been corroborated by various pharmacological assays. Given the lack of data on anatomical aspects of T. diversifolia, this work aimed to investigate the leaf and stem microscopic characters of this medicinal pl...

  5. Musteranalysen an ausgewählten variegaten Formen der Araceae, Asteraceae, Ericaceae, Marantaceae und Rosaceae

    OpenAIRE

    Rodriguez Ibanez, David

    2001-01-01

    Der Ursprung, die Entwicklung und die Formierung von Laubblatt-Mustern konnten bei ausgewählten variegaten Formen der Araceae, Asteraceae, Ericaceae, Maranthaceae und Rosaceae erklärt werden. Die Pflanzen wurden je nach Problematik untersucht und in drei verschiedene Gruppen verteilt: In der ersten Gruppe, Blattmuster mit unregelmäßiger makulater Musterung, Monstera deliciosa, Syngonium podophyllum und die Sorten 'Pirol' und 'Luyona' von Dendranthema grandiflorum zeigen ein unregelmäßiges Lau...

  6. Clinal differentiation during invasion: Senecio inaequidens (Asteraceae) along altitudinal gradients in Europe

    OpenAIRE

    Monty, Arnaud; Mahy, Grégory

    2009-01-01

    Plant population differentiation may play a role in decreasing the ability to predict whether, where, and when an introduced species will invade. However, few studies have addressed the level of genetic change an alien species may undergo during range expansion, e.g. in response to climatic variation with altitude. In the present study, we tested the hypothesis that invasive populations of Senecio inaequidens (Asteraceae) differentiated during migration from two independent introduction sites...

  7. Larvicidal activity of methanolic leaf extracts of plant, Chromolaena odorata L. (Asteraceae) against vector mosquitoes

    OpenAIRE

    Jagruti H. Sukhthankar; Hemanth Kumar; M. H. S. Godinho; Ashwani Kumar

    2014-01-01

    Mosquitoes transmit malaria, filariasis, dengue, chikungunya, etc. Repeated use of insecticides for mosquito control has caused development of resistance, adverse effects on non-target organisms and serious environmental concerns. Hence alternative control measures are being explored inter alia plant based insecticides. We carried out larvicidal bioassays with methanolic extract of leaves of Chromolaena odorata (family Asteraceae) against late instar larvae of disease vectors Anopheles stephe...

  8. A Database of Antidiabetic Plant Species of Family Asteraceae, Euphorbiaceae, Fabaceae, Lamiaceae and Moraceae

    OpenAIRE

    Tanu Sharma; Sidhu, M. C.

    2013-01-01

    Plants are playing a great role in the fulfillment of day to day needs and are an integral component of the health care systems. Present review is concerned with the compilation of information related to antidiabetic activity of medicinal plants belonging to families Asteraceae, Euphorbiaceae, Fabaceae, Lamiaceae and Moraceae from the available literature. A detailed account of 88 plant species has been collected. This information is useful in different areas of research especially for the ph...

  9. A Metabolomic Approach to Target Compounds from the Asteraceae Family for Dual COX and LOX Inhibition

    Directory of Open Access Journals (Sweden)

    Daniela A. Chagas-Paula

    2015-07-01

    Full Text Available The application of metabolomics in phytochemical analysis is an innovative strategy for targeting active compounds from a complex plant extract. Species of the Asteraceae family are well-known to exhibit potent anti-inflammatory (AI activity. Dual inhibition of the enzymes COX-1 and 5-LOX is essential for the treatment of several inflammatory diseases, but there is not much investigation reported in the literature for natural products. In this study, 57 leaf extracts (EtOH-H2O 7:3, v/v from different genera and species of the Asteraceae family were tested against COX-1 and 5-LOX while HPLC-ESI-HRMS analysis of the extracts indicated high diversity in their chemical compositions. Using O2PLS-DA (R2 > 0.92; VIP > 1 and positive Y-correlation values, dual inhibition potential of low-abundance metabolites was determined. The O2PLS-DA results exhibited good validation values (cross-validation = Q2 > 0.7 and external validation = P2 > 0.6 with 0% of false positive predictions. The metabolomic approach determined biomarkers for the required biological activity and detected active compounds in the extracts displaying unique mechanisms of action. In addition, the PCA data also gave insights on the chemotaxonomy of the family Asteraceae across its diverse range of genera and tribes.

  10. Activation of anthocyanin biosynthesis in Gerbera hybrida (Asteraceae) suggests conserved protein-protein and protein-promoter interactions between the anciently diverged monocots and eudicots.

    Science.gov (United States)

    Elomaa, Paula; Uimari, Anne; Mehto, Merja; Albert, Victor A; Laitinen, Roosa A E; Teeri, Teemu H

    2003-12-01

    We have identified an R2R3-type MYB factor, GMYB10, from Gerbera hybrida (Asteraceae) that shares high sequence homology to and is phylogenetically grouped together with the previously characterized regulators of anthocyanin pigmentation in petunia (Petunia hybrida) and Arabidopsis. GMYB10 is able to induce anthocyanin pigmentation in transgenic tobacco (Nicotiana tabacum), especially in vegetative parts and anthers. In G. hybrida, GMYB10 is involved in activation of anthocyanin biosynthesis in leaves, floral stems, and flowers. In flowers, its expression is restricted to petal epidermal cell layers in correlation with the anthocyanin accumulation pattern. We have shown, using yeast (Saccharomyces cerevisiae) two-hybrid assay, that GMYB10 interacts with the previously isolated bHLH factor GMYC1. Particle bombardment analysis was used to show that GMYB10 is required for activation of a late anthocyanin biosynthetic gene promoter, PGDFR2. cis-Analysis of the target PGDFR2 revealed a sequence element with a key role in activation by GMYB10/GMYC1. This element shares high homology with the anthocyanin regulatory elements characterized in maize (Zea mays) anthocyanin promoters, suggesting that the regulatory mechanisms involved in activation of anthocyanin biosynthesis have been conserved for over 125 million years not only at the level of transcriptional regulators but also at the level of the biosynthetic gene promoters. PMID:14605235

  11. Characterisation of sunflower-21 (SF21) genes expressed in pollen and pistil of Senecio squalidus (Asteraceae) and their relationship with other members of the SF21 gene family.

    Science.gov (United States)

    Allen, Alexandra M; Lexer, Christian; Hiscock, Simon J

    2010-09-01

    Two related flower-expressed gene copies belonging to the SF21 (sunflower-21) gene family have been isolated from Senecio squalidus (Oxford Ragwort, Asteraceae). These gene copies are differentially expressed in pollen and pistil tissues; ORSF21B (Oxford Ragwort SF21B) is expressed exclusively in mature pollen, whereas ORSF21A (Oxford Ragwort SF21A) is expressed in the transmitting tissue of the style, where it is developmentally regulated. Despite differences in expression, the coding regions of ORSF21A and ORSF21B are highly similar. Amino acid sequence alignments of SF21 genes from a number of angiosperm species indicate that this gene family is conserved in flowering plants and may play an important role in reproductive processes in a wide range of taxa. Phylogenetic analysis of SF21 nucleotide sequence alignments supports this theory, and indicates a complicated history of evolution of this gene family in angiosperms. The putative roles of SF21 genes in reproduction and pollen-pistil interactions are discussed. PMID:20182753

  12. Pollen–pistil interactions and self-incompatibility in the Asteraceae: new insights from studies of Senecio squalidus (Oxford ragwort)

    Science.gov (United States)

    Allen, Alexandra M.; Thorogood, Christopher J.; Hegarty, Matthew J.; Lexer, Christian; Hiscock, Simon J.

    2011-01-01

    Background Pollen–pistil interactions are an essential prelude to fertilization in angiosperms and determine compatibility/incompatibility. Pollen–pistil interactions have been studied at a molecular and cellular level in relatively few families. Self-incompatibility (SI) is the best understood pollen–pistil interaction at a molecular level where three different molecular mechanisms have been identified in just five families. Here we review studies of pollen–pistil interactions and SI in the Asteraceae, an important family that has been relatively understudied in these areas of reproductive biology. Scope We begin by describing the historical literature which first identified sporophytic SI (SSI) in species of Asteraceae, the SI system later identified and characterized at a molecular level in the Brassicaceae. Early structural and cytological studies in these two families suggested that pollen–pistil interactions and SSI were similar, if not the same. Recent cellular and molecular studies in Senecio squalidus (Oxford ragwort) have challenged this belief by revealing that despite sharing the same genetic system of SSI, the Brassicaceae and Asteraceae molecular mechanisms are different. Key cellular differences have also been highlighted in pollen–stigma interactions, which may arise as a consequence of the Asteraceae possessing a ‘semi-dry’ stigma, rather than the ‘dry’ stigma typical of the Brassicaceae. The review concludes with a summary of recent transcriptomic analyses aimed at identifying proteins regulating pollen–pistil interactions and SI in S. squalidus, and by implication the Asteraceae. The Senecio pistil transcriptome contains many novel pistil-specific genes, but also pistil-specific genes previously shown to play a role in pollen–pistil interactions in other species. Conclusions Studies in S. squalidus have shown that stigma structure and the molecular mechanism of SSI in the Asteraceae and Brassicaceae are different. The

  13. Molecular evolution of the exon 2 of CHS genes and the possibility of its application to plant phylogenetic analysis

    Institute of Scientific and Technical Information of China (English)

    2000-01-01

    The exon 2 of chalcone synthase (CHS) gene is relatively conserved during evolution.In this study,three exon 2 fragments from two species in gymnosperm (Cycas panzhihuaensis,Ginkgo biloba) and seven from four species in angiosperm (Magnolia denudata,Salix babylonica,Nymphaea tetragona,Camellia japonica) have been amplified by PCR from genomic DNA and sequenced.Together with other 73 sequences of CHS collected from EMBL database and literature,these sequences,which embrace 19 families of gymnosperm and angiosperm,have been analyzed for their phylogenetic relations by parsimony method.The result indicated that sequences from the same systematic family usually grouped together except those from Theaceae,Magnoliaceae and Nymphaeaceae.The relative rate test revealed the rate heterogeneity of CHS genes among the families.For the nucleotide substitution the sequences from Asteraceae and Solanaceae evolve faster than those from the other families analyzed while the sequences from Poaceae,Asteraceae and Solanaceae evolve faster for the nonsynonymous substitution.These results suggest that the duplication and extinction events of CHS genes are different among systematic families,therefore it seems impractical to look for orthologous sequences from CHS genes to study plant phylogeny at the family level and/or above.However,it is possible to do so below the family level.

  14. DISENTANGLING THE ROLE OF ENVIRONMENTAL PROCESSES IN GALAXY CLUSTERS

    Energy Technology Data Exchange (ETDEWEB)

    Hernandez-Fernandez, Jonathan D.; Vilchez, J. M.; Iglesias-Paramo, J., E-mail: jonatan@iaa.es [Instituto de Astrofisica de Andalucia, Glorieta de la Astronomia s/n, 18008 Granada (Spain)

    2012-05-20

    In this work, we present the results of a novel approach devoted to disentangling the role of the environmental processes affecting galaxies in clusters. This is based on the analysis of the near-UV (NUV) - r' distributions of a large sample of star-forming galaxies in clusters spanning more than four absolute magnitudes. The galaxies inhabit three distinct environmental regions: virial regions, cluster infall regions, and field environment. We have applied rigorous statistical tests to analyze both the complete NUV - r' distributions and their averages for three different bins of the r'-band galaxy luminosity down to M{sub r{sup '}}{approx}-18, throughout the three environmental regions considered. We have identified the environmental processes that significantly affect the star-forming galaxies in a given luminosity bin by using criteria based on the characteristics of these processes: their typical timescales, the regions where they operate, and the galaxy luminosity range for which their effects are more intense. We have found that the high-luminosity (M{sub r{sup '}}{<=}-20) star-forming galaxies do not show significant signs in their star formation activity of being affected by: (1) the environment in the last {approx}10{sup 8} yr, or (2) a sudden quenching in the last 1.5 Gyr. The intermediate-luminosity (-20< M{sub r{sup '}}{<=}-19) star-forming galaxies appear to be affected by starvation in the virial regions and by the harassment in the virial and infall regions. Low-luminosity (-19

  15. Disentangling multi-level systems: averaging, correlations and memory

    International Nuclear Information System (INIS)

    We consider two weakly coupled systems and adopt a perturbative approach based on the Ruelle response theory to study their interaction. We propose a systematic way of parameterizing the effect of the coupling as a function of only the variables of a system of interest. Our focus is on describing the impacts of the coupling on the long term statistics rather than on the finite-time behavior. By direct calculation, we find that, at first order, the coupling can be surrogated by adding a deterministic perturbation to the autonomous dynamics of the system of interest. At second order, there are additionally two separate and very different contributions. One is a term taking into account the second-order contributions of the fluctuations in the coupling, which can be parameterized as a stochastic forcing with given spectral properties. The other one is a memory term, coupling the system of interest to its previous history, through the correlations of the second system. If these correlations are known, this effect can be implemented as a perturbation with memory on the single system. In order to treat this case, we present an extension to Ruelle's response theory able to deal with integral operators. We discuss our results in the context of other methods previously proposed for disentangling the dynamics of two coupled systems. We emphasize that our results do not rely on assuming a time scale separation, and, if such a separation exists, can be used equally well to study the statistics of the slow variables and that of the fast variables. By recursively applying the technique proposed here, we can treat the general case of multi-level systems

  16. A nomenclator for the frailejones (Espeletiinae Cuatrec., Asteraceae).

    Science.gov (United States)

    Diazgranados, Mauricio

    2012-01-01

    The páramos and high Andean forests of the tropical Andes are largely dominated by frailejones (Nomen nudum Cuatrec., Nomen nudum). These plants are ecologically and culturally essential for both ecosystems and local inhabitants. The frailejones have been studied for over two centuries, but the taxonomic knowledge is still sparse and incomplete. The inedited monograph by Cuatrecasas contains only ca. 70% of the species known today, and publications in the last decade disagree regarding the number of taxa within the group, with estimates ranging from 3 genera and 90 species to 8 genera and 154 species. Moreover the literature contains inexact information about their distribution. As part of a study of the phylogenetic and biogeographic relationships of the group, a thorough revision of the nomenclature was needed as a first step. Currently the subtribe has 8 recognized genera, 141 species, 17 subspecies, 22 varieties, 8 forms, 33 recognized hybrids, 142 synonyms and 5 invalid names, for a total of 368 names (autonyms not counted). The most current list of taxa is presented here, along with some notes and Spanish names. Tamananthus crinitus V.M.Badillo is not included within the subtribe. Various previous species or infraspecific taxa (i.e. Carramboa tachirensis (Aristeg.) Cuatrec., Espeletia algodonosa Aristeg., Espeletia aurantia Aristeg., Espeletia brassicoidea var. macroclada, Espeletia brassicoidea var. pedunculata,Espeletia garcibarrigae Cuatrec. and Espeletiopsis cristalinensis (Cuatrec.) Cuatrec.) are proposed or confirmed as hybrids. Two new records for Colombia are mentioned: Ruilopezia cardonae (Cuatrec.) Cuatrec., which is the first report of Ruilopezia for that country, and Espeletia steyermarkii Cuatrec. Observations regarding the frequency of hybrids in the subtribe are also given. PMID:23233810

  17. Abundances from disentangled component spectra: the eclipsing binary V578 Mon

    CERN Document Server

    Pavlovski, K

    2005-01-01

    Chemical abundances of the early-B type components of the binary V578 Mon are derived from disentangled component spectra. This is a pilot study showing that, even with moderately high line-broadening, metal abundances can be derived from disentangled spectra with a precision 0.1 dex, relative to sharp-lined single stars of the same spectral type. This binary is well-suited for such an assessment because of its youth as a member of the Rosette Nebula cluster NGC 2244, strengthening the expectation of an unevolved ZAMS chemical composition. The method is of interest to study rotational driven mixing in main-sequence stars, with fundamental stellar parameters known with higher accuracy in (eclipsing) binaries. The paper also includes an evaluation of the bias that might be present in disentangled spectra.

  18. Potencial antioxidante e antimicrobiano de espécies da família Asteraceae Antioxidant and antimicrobial potential of Asteraceae species

    Directory of Open Access Journals (Sweden)

    R.L Fabri

    2011-01-01

    Full Text Available Espécies da família Asteraceae são amplamente utilizadas na medicina popular para diversos fins terapêuticos. Neste contexto, este estudo teve por objetivo averiguar a atividade antimicrobiana e antioxidante in vitro de extratos metanólicos de plantas pertencentes a Asteraceae, a maioria comumente utilizada na medicina tradicional. A prospecção química dos extratos também foi realizada. A atividade antimicrobiana foi avaliada pelo método de susceptibilidade em microdiluição em caldo e a atividade antioxidante determinada pelo ensaio com o radical DPPH. O extrato da folha de Baccharis dracunculifolia apresentou significativa atividade antimicrobiana para Pseudomonas aeruginosa,Bacillus cereus e Cryptococcus neoformans (CIM = 0,005; 0,005 e 0,039 mg mL-1, respectivamente. Os extratos das folhas de Bidens segetum e Matricaria chamomilla foram seletivos para Shigella sonnei e P. aeruginosa (CIM = 0,005 e 0,078 mg mL-1, respectivamente. Já as folhas de Acanthospermun australe e Baccharis trimera apresentaram atividade significativa apenas para Candida albicans (CIM = 0,039 mg mL-1 enquanto as folhas de Taraxacum officinale foram ativos contra ambas leveduras com CIM 0,039 mg mL-1. Em relação à atividade antioxidante, os extratos das folhas de B. dracunculifolia, T. officinale e das inflorescências de B. segetum apresentaram significativa atividade com CI50 de 5, 5 e 4 µg mL-1, respectivamente. A prospecção química dos extratos identificou presença de compostos como flavonoides, terpenos e outros que podem ser responsáveis pelas atividades observadas.Asteraceae species have been largely used in folk medicine for several therapeutic purposes. Thus, the aim of this work was to investigate the in vitro antimicrobial and antioxidant activities of methanol extracts from plants belonging to the Asteraceae family, most of which are commonly used in traditional medicine. Chemical prospecting of extracts was also performed. The

  19. Phylogenetic Position of Barbus lacerta Heckel, 1843

    Directory of Open Access Journals (Sweden)

    Mustafa Korkmaz

    2015-11-01

    As a result, five clades come out from phylogenetic reconstruction and in phylogenetic tree Barbus lacerta determined to be sister group of Barbus macedonicus, Barbus oligolepis and Barbus plebejus complex.

  20. Morpho-anatomical features of underground systems in six Asteraceae species from the Brazilian Cerrado

    Directory of Open Access Journals (Sweden)

    Beatriz Appezzato-da-Glória

    2011-09-01

    Full Text Available In the Brazilian Cerrado (neotropical savanna, the development of bud-bearing underground systems as adaptive structures to fire and dry periods can comprise an important source of buds for this ecosystem, as already demonstrated in the Brazilian Campos grasslands and North American prairies. Asteraceae species from both woody and herbaceous strata have subterranean organs that accumulate carbohydrates, reinforcing the adaptive strategy of these plants to different environmental conditions. This study aims to analyse the morpho-anatomy of underground systems of six species of Asteraceae (Mikania cordifolia L.f. Willd., Mikania sessilifolia DC, Trixis nobilis (Vell. Katinas, Pterocaulon alopecuroides (Lam. DC., Vernonia elegans Gardner and Vernonia megapotamica Spreng., to describe these structures and to verify the occurrence and origin of shoot buds, and to analyse the presence of reserve substances. Individuals sampled in Cerrado areas in São Paulo State showed thick underground bud-bearing organs, with adventitious or lateral roots and presence of fructans. Xylopodium was found in all studied species, except for Trixis nobilis, which had stem tuber. The presence of fructans as reserve, and the capacity of structures in the formation of buds indicate the potential of herbaceous species of Asteraceae in forming a viable bud bank for vegetation regeneration in the Brazilian Cerrado.No Cerrado brasileiro (savana neotropical, o desenvolvimento de sistemas subterrâneos que produzem gemas, como estruturas adaptativas contra o fogo e períodos de seca, pode compreender um importante suprimento de gemas para esse ecossistema, como já demonstrado nos campos brasileiros e nas pradarias norte-americanas. Espécies de Asteraceae tanto do estrato lenhoso, quanto do herbáceo têm órgãos que acumulam carboidratos, reforçando a estratégia adaptativa dessas plantas a diferentes condições ambientais. Este estudo tem o objetivo de analisar a morfo

  1. Entanglement Swapping and Disentanglement via an Entangled State of Atoms Interacting with a Cavity Field

    Institute of Scientific and Technical Information of China (English)

    刘堂昆; 王继锁; 冯健; 詹明生

    2002-01-01

    We consider entanglement swapping and disentanglement schemes via an entangled state of three two-level atoms interacting with a coherent field. When a two-level atom C, entangled with two other two-level atoms A and B,is injected into a high-Q cavity and atoms A and B are far away from the cavity, the entanglement swapping or disentanglement can be realized by carrying out the measurement on the atom C and by selecting an appropriate interaction time of atom C with the coherent field.

  2. Moderate evidence for a Lombard effect in a phylogenetically basal primate.

    Science.gov (United States)

    Schopf, Christian; Schmidt, Sabine; Zimmermann, Elke

    2016-01-01

    When exposed to enhanced background noise, humans avoid signal masking by increasing the amplitude of the voice, a phenomenon termed the Lombard effect. This auditory feedback-mediated voice control has also been found in monkeys, bats, cetaceans, fish and some frogs and birds. We studied the Lombard effect for the first time in a phylogenetically basal primate, the grey mouse lemur, Microcebus murinus. When background noise was increased, mouse lemurs were able to raise the amplitude of the voice, comparable to monkeys, but they did not show this effect consistently across context/individuals. The Lombard effect, even if representing a generic vocal communication system property of mammals, may thus be affected by more complex mechanisms. The present findings emphasize an effect of context, and individual, and the need for further standardized approaches to disentangle the multiple system properties of mammalian vocal communication, important for understanding the evolution of the unique human faculty of speech and language. PMID:27602292

  3. The complete chloroplast genome sequence of Ampelopsis: gene organization, comparative analysis and phylogenetic relationships to other angiosperms

    Directory of Open Access Journals (Sweden)

    Gurusamy eRaman

    2016-03-01

    Full Text Available Ampelopsis brevipedunculata is an economically important plant that belongs to the Vitaceae family of angiosperms. The phylogenetic placement of Vitaceae is still unresolved. Recent phylogenetic studies suggested that it should be placed in various alternative families including Caryophyllaceae, asteraceae, Saxifragaceae, Dilleniaceae, or with the rest of the rosid families. However, these analyses provided weak supportive results because they were based on only one of several genes. Accordingly, complete chloroplast genome sequences are required to resolve the phylogenetic relationships among angiosperms. Recent phylogenetic analyses based on the complete chloroplast genome sequence suggested strong support for the position of Vitaceae as the earliest diverging lineage of rosids and placed it as a sister to the remaining rosids. These studies also revealed relationships among several major lineages of angiosperms; however, they highlighted the significance of taxon sampling for obtaining accurate phylogenies. In the present study, we sequenced the complete chloroplast genome of A. brevipedunculata and used these data to assess the relationships among 32 angiosperms, including 18 taxa of rosids. The Ampelopsis chloroplast genome is 161,090 bp in length, and includes a pair of inverted repeats of 26,394 bp that are separated by small and large single copy regions of 19,036 bp and 89,266 bp, respectively. The gene content and order of Ampelopsis is identical to many other unrearranged angiosperm chloroplast genomes, including Vitis and tobacco. A phylogenetic tree constructed based on 70 protein-coding genes of 33 angiosperms showed that both Saxifragales and Vitaceae diverged from the rosid clade and formed two clades with 100% bootstrap value. The position of the Vitaceae is sister to Saxifragales, and both are the basal and earliest diverging lineages. Moreover, Saxifragales forms a sister clade to Vitaceae of rosids. Overall, the results of

  4. Calendula officinalis L. (Asteraceae) possess antioxidant properties on Fe2+-initiated peroxidation of rat brain microsomes

    OpenAIRE

    Palacios, Alejandro; Barberón, Javier; Leaden, Patricio; Zeinsteger, Pedro

    2016-01-01

    In this study the effects of Calendula officinalis L. (Asteraceae) extract (CO) on the polyunsaturated fatty acid composition, chemiluminescence and unsaturation index of microsomes isolated from brain rat, are presented. After incubation of microsomes in an ascorbate (0.4 mM)-Fe2+ (2.15 μM) system (180 min at 37 °C) it was observed that the total cpm/mg protein originated from light emission:chemiluminescence was lower in brain microsomes obtained from CO group compared to the control group ...

  5. Composition of the essential oil from leaves of Smallanthus quichensis (Asteraceae) from Costa Rica

    OpenAIRE

    Carlos Chaverri; José F. Cicció

    2015-01-01

    Smallanthus es un género de plantas perteneciente a la familia Asteraceae que contiene aproximadamente 24 especies, la mayoría ubicadas desde el sur de México, América Central y hasta la cordillera de los Andes en América del Sur. El objetivo del prese nte estudio fue el de identifica r la composición química del aceite esencial de las hojas de S. quichensis . La extracción se realizó mediante el método de hidrodestilación, empleando un instrumento de tipo Cleve...

  6. Una nueva especie de Pentacalia (Senecioneae: Asteraceae del Norte de Perú

    Directory of Open Access Journals (Sweden)

    Abundio Sagástegui

    2011-07-01

    Full Text Available Es descrita e ilustrada una nueva especie de Pentacalia Cassini (Senecioneae: Asteraceae procedente del Departamento de La Libertad, Perú, y aparentemente endémica de la Provincia de Santiago de Chuco, denominada Pentacalia vallejiana Sagást. & E. Rodr. sp. nov. Esta nueva especie es suigéneris entre las especies peruanas y dentro del género. Se compara con sus relacionados y adicionalmente se presentan datos sobre su distribución geográfica y ecológica.

  7. Taxonomical studies on endemic scorzonera pygmaea var. pygmaea and var. nutans stat. nov. (asteraceae) from turkey

    International Nuclear Information System (INIS)

    The taxonomic status of Scorzonera pygmaea var. pygmaea and var. nutans belonging to the tribe. cichoreae (Asteraceae). S. pygmaea samples were collected from Arayit mountain. We suggest that these two subspecies should be classified as varietes because of their morphological and anatomical characteristics, ecological and geographical similarities. Moreover being together in the same localities of these under species taxa supports our opinion, i.e. S. pygmaea Sibth. and Sm. var. pygmaea stat. nov. and S. pygmaea Sibth. and Sm. var. nutans (Czeczott) O. Koyuncu and Yaylac, stat. nov. (author)

  8. Matricaria L. (Anthemideae, Asteraceae in Iran: a chemotaxonomic study based on flavonoids

    Directory of Open Access Journals (Sweden)

    Majid Sharifi-Tehrani

    2011-12-01

    Full Text Available Matricaria L. belongs to the tribe Anthemideae and the subtribe Matricineae (Asteraceae and comprises 7 species of which 2 species grow wild in Iran. This study was aimed to characterize the Iranian materials of Matricaria using profiles of flavonoid spots and determination of skeletons of major flavonoids in each species. Twelve bulked population samples from Matricaria aurea and M. recutita were examined. Presence -absence data from two dimensional maps (2DM of their flavonoid spots were processed using Cluster and PCA analyses. Differences at species level in flavonoid skeleton properties were investigated and a taxonomic review of close taxa was provided.

  9. Phylogenetic Distribution of Fungal Sterols

    OpenAIRE

    Weete, John D.; Abril, Maritza; Blackwell, Meredith

    2010-01-01

    Background Ergosterol has been considered the “fungal sterol” for almost 125 years; however, additional sterol data superimposed on a recent molecular phylogeny of kingdom Fungi reveals a different and more complex situation. Methodology/Principal Findings The interpretation of sterol distribution data in a modern phylogenetic context indicates that there is a clear trend from cholesterol and other Δ5 sterols in the earliest diverging fungal species to ergosterol in later diverging fungi. The...

  10. Palynotaxonomy of Brazilian Viguiera (Asteraceae Species Palinotaxonomia de espécies brasileiras de Viguiera (Asteraceae-Heliantheae

    Directory of Open Access Journals (Sweden)

    Mara Angelina Galvão Magenta

    2010-12-01

    Full Text Available With the aim of improving inter-specific delimitation of the genus Viguiera Kunth in Brazil, a palynological analysis was undertaken with 27 taxa, representing around 77% of all occurring species. Samples were obtained from herbarium specimens and the pollen grains were analyzed through light and scanning electron microscopy. Characteristics, including the shape of the pollen grains, polar and equatorial diameter, aperture measurements, surface ornamentation and exine thickness, were registered and compared. The pollen grains were medium-sized (25 - 50 mm, isopolar and oblate spheroidal (prolate spheroidal in V. aspilioides Baker. The observed values corroborated the synonymity of some species and also highlighted certain micro-morphological differences, such as polar diameter and the dimensions of the colpus and endoaperture, thus confirming the groups of species delimitation obtained by morphologic and phylogenetic analyses.Com a finalidade de obter subsídios para a delimitação interespecífica do gênero Viguiera Kunth no Brasil, foi efetuado um estudo palinológico com 27 táxons, representando cerca de 77% das espécies ocorrentes. As amostras foram obtidas de material herborizado e o grão de pólen foi analisado sob microscopias óptica e eletrônica de varredura. Os grãos de pólen foram caracterizados quanto à forma, às dimensões e tipo da abertura, à ornamentação da superfície e à espessura da exina. Os grãos de pólen são médios (25 - 50mm, isopolares, oblato-esferoidais (prolato-esferoidais em V. aspilioides Baker, tricolporados, endoabertura lalongada, sexina espinhosa. Os valores obtidos corroboraram a sinonimização de algumas espécies e diferenças micro-morfológicas, tais como os valores do diâmetro polar, as dimensões do colpo e da endoabertura confirmaram algumas delimitações de grupos de espécies obtidas em análises filogenéticas de morfologia.

  11. Transforming phylogenetic networks: Moving beyond tree space.

    Science.gov (United States)

    Huber, Katharina T; Moulton, Vincent; Wu, Taoyang

    2016-09-01

    Phylogenetic networks are a generalization of phylogenetic trees that are used to represent reticulate evolution. Unrooted phylogenetic networks form a special class of such networks, which naturally generalize unrooted phylogenetic trees. In this paper we define two operations on unrooted phylogenetic networks, one of which is a generalization of the well-known nearest-neighbor interchange (NNI) operation on phylogenetic trees. We show that any unrooted phylogenetic network can be transformed into any other such network using only these operations. This generalizes the well-known fact that any phylogenetic tree can be transformed into any other such tree using only NNI operations. It also allows us to define a generalization of tree space and to define some new metrics on unrooted phylogenetic networks. To prove our main results, we employ some fascinating new connections between phylogenetic networks and cubic graphs that we have recently discovered. Our results should be useful in developing new strategies to search for optimal phylogenetic networks, a topic that has recently generated some interest in the literature, as well as for providing new ways to compare networks. PMID:27224010

  12. Functional and phylogenetic ecology in R

    CERN Document Server

    Swenson, Nathan G

    2014-01-01

    Functional and Phylogenetic Ecology in R is designed to teach readers to use R for phylogenetic and functional trait analyses. Over the past decade, a dizzying array of tools and methods were generated to incorporate phylogenetic and functional information into traditional ecological analyses. Increasingly these tools are implemented in R, thus greatly expanding their impact. Researchers getting started in R can use this volume as a step-by-step entryway into phylogenetic and functional analyses for ecology in R. More advanced users will be able to use this volume as a quick reference to understand particular analyses. The volume begins with an introduction to the R environment and handling relevant data in R. Chapters then cover phylogenetic and functional metrics of biodiversity; null modeling and randomizations for phylogenetic and functional trait analyses; integrating phylogenetic and functional trait information; and interfacing the R environment with a popular C-based program. This book presents a uni...

  13. Disentangling giant component and finite cluster contributions in sparse random matrix spectra

    Science.gov (United States)

    Kühn, Reimer

    2016-04-01

    We describe a method for disentangling giant component and finite cluster contributions to sparse random matrix spectra, using sparse symmetric random matrices defined on Erdős-Rényi graphs as an example and test bed. Our methods apply to sparse matrices defined in terms of arbitrary graphs in the configuration model class, as long as they have finite mean degree.

  14. Across-Task Priming Revisited: Response and Task Conflicts Disentangled Using Ex-Gaussian Distribution Analysis

    Science.gov (United States)

    Moutsopoulou, Karolina; Waszak, Florian

    2012-01-01

    The differential effects of task and response conflict in priming paradigms where associations are strengthened between a stimulus, a task, and a response have been demonstrated in recent years with neuroimaging methods. However, such effects are not easily disentangled with only measurements of behavior, such as reaction times (RTs). Here, we…

  15. The Role of ADHD in Academic Adversity: Disentangling ADHD Effects from Other Personal and Contextual Factors

    Science.gov (United States)

    Martin, Andrew J.

    2014-01-01

    Students with attention-deficit/hyperactivity disorder (ADHD) experience significant academic difficulties that can lead to numerous negative academic consequences. With a focus on adverse academic outcomes, this study seeks to disentangle variance attributable to ADHD from variance attributable to salient personal and contextual covariates.…

  16. Screening of Asteraceae (Compositae Plant Extracts for Larvicidal Activity against Aedes fluviatilis (Diptera: Culicidae

    Directory of Open Access Journals (Sweden)

    Maria E Macêdo

    1997-07-01

    Full Text Available Ethanol extracts of 83 plants species belonging to the Asteraceae (Compositae family, collected in the State of Minas Gerais, Brazil, were tested for larvicidal activity against the mosquito Aedes fluviatilis - Diptera: Culicidae. The extract from Tagetes minuta was the most active with a LC90 of 1.5 mg/l and LC50 of 1.0 mg/l. This plant has been the object of several studies by other groups and its active components have already been identified as thiophene derivatives, a class of compounds present in many Asteraceae species. The extract of Eclipta paniculata was also significantly active, with a LC90 of 17.2 mg/l and LC50 of 3.3 mg/l and no previous studies on its larvicidal activity or chemical composition could be found in the literature. Extracts of Achryrocline satureoides, Gnaphalium spicatum, Senecio brasiliensis, Trixis vauthieri, Tagetes patula and Vernonia ammophila were less active, killing more than 50% of the larvae only at the higher dose tested (100 mg/l.

  17. Phylogenetics of neotropical Platymiscium (Leguminosae

    DEFF Research Database (Denmark)

    Saslis-Lagoudakis, C. Haris; Chase, Mark W; Robinson, Daniel N;

    2008-01-01

    Platymiscium is a neotropical legume genus of forest trees in the Pterocarpus clade of the pantropical "dalbergioid" clade. It comprises 19 species (29 taxa), distributed from Mexico to southern Brazil. This study presents a molecular phylogenetic analysis of Platymiscium and allies inferred from...... nuclear ribosomal (nrITS) and plastid (trnL, trnL-F and matK) DNA sequence data using parsimony and Bayesian methods. Divergence times are estimated using a Bayesian method assuming a relaxed molecular clock (multidivtime). Within the Pterocarpus clade, new sister relationships are recovered: Pterocarpus...

  18. Phylogenetic placement of the Spirosomaceae

    Science.gov (United States)

    Woese, C. R.; Maloy, S.; Mandelco, L.; Raj, H. D.

    1990-01-01

    Comparative analysis of 16S rRNA sequences shows that the family Spirosomaceae belongs within the eubacterial phylum defined by the flavobacteria and bacteriodes. Its constituent genera, Spirosoma, Flectobacillus, and Runella form a monophyletic grouping therein. The phylogenetic assignment is based not only upon evolutionary distance analysis, but also upon sequence signatures and higher order structural synapomorphies in 16S rRNA. Another genus peripherally associated with the Spirosomaceae, Ancylobacter ("Microcyclus"), does not cluster with the flavobacteria and their relatives, but rather belongs to the alpha subdivision of the purple bacteria.

  19. Many-core algorithms for statistical phylogenetics

    OpenAIRE

    Suchard, Marc A.; Rambaut, Andrew

    2009-01-01

    Motivation: Statistical phylogenetics is computationally intensive, resulting in considerable attention meted on techniques for parallelization. Codon-based models allow for independent rates of synonymous and replacement substitutions and have the potential to more adequately model the process of protein-coding sequence evolution with a resulting increase in phylogenetic accuracy. Unfortunately, due to the high number of codon states, computational burden has largely thwarted phylogenetic re...

  20. Antibacterial, antifungal and cytotoxic activities of eight Asteraceae and two Rubiaceae plants from colombian biodiversity Atividades antibactariana, antifúngica e citotóxica de oito plantas Asteraceae e duas Rubiaceae da biodiversidade colombiana

    Directory of Open Access Journals (Sweden)

    Jaime Niño

    2006-12-01

    Full Text Available Thirty crude extracts of eight plants belonging to Asteraceae and two to Rubiaceae families collected at different places from the Regional Natural Park Ucumarí (RNPU, Colombia, were tested for their antibacterial activity against two Gram-positive and two Gram-negative bacteria and three fungi. Both the antibacterial and the antimycotic activities were tested by the agar well diffusion method. The cytotoxic activity on the same plant extracts was determined through the brine shrimp lethality bioassay. The extracts from the Asteraceae family were more bioactive against Bacillus subtilis and Staphylococcus aureus. The extracts of both families studied were bioactive against the fungi Candida albicans and Fusarium solani. In addition, the extracts of Asteraceae species displayed the greatest cytotoxic activities. However, the most important specie in this research was Gonzalagunia rosea Standl (Rubiaceae because of the strong and moderate activities of the methanol and dichloromethane extracts against C. albicans and F. solani, respectively; as well as the strong cytotoxic activity of the methanol extract. None of these ten plants has previously been reported for their biological activities.Trinta extratos crus de oito plantas da família Asteraceae e a duas plantas da família Rubiaceae, coletadas em diferentes lugares do Parque Natural Regional Ucumarí (PNRU, Colombia, foram avaliadas quanto à atividade contra duas bactérias Gram-positivas, duas Gram-negativas e três fungos. As atividades antibacteriana e antimicótica foram determinadas pelo método de difusão em agar. A atividade citotóxica dos mesmos extratos foi determinada através do bioensaio de Artemia salina. Os extratos da família Asteraceae foram os mais bioativos contra Bacillus subtilis e Staphylococcus aureus. Os extratos de ambas famílias estudadas foram bioativos contra os fungos Candida albicans e Fusarium solani. Os extratos da família Asteraceae exibiram maior

  1. Construction and characterization of two BAC libraries representing a deep-coverage of the genome of chicory (Cichorium intybus L., Asteraceae)

    OpenAIRE

    Gonthier Lucy; Bellec Arnaud; Blassiau Christelle; Prat Elisa; Helmstetter Nicolas; Rambaud Caroline; Huss Brigitte; Hendriks Theo; Bergès Hélène; Quillet Marie-Christine

    2010-01-01

    Abstract Background The Asteraceae represents an important plant family with respect to the numbers of species present in the wild and used by man. Nonetheless, genomic resources for Asteraceae species are relatively underdeveloped, hampering within species genetic studies as well as comparative genomics studies at the family level. So far, six BAC libraries have been described for the main crops of the family, i.e. lettuce and sunflower. Here we present the characterization of BAC libraries ...

  2. Phylogenetic organization of bacterial activity.

    Science.gov (United States)

    Morrissey, Ember M; Mau, Rebecca L; Schwartz, Egbert; Caporaso, J Gregory; Dijkstra, Paul; van Gestel, Natasja; Koch, Benjamin J; Liu, Cindy M; Hayer, Michaela; McHugh, Theresa A; Marks, Jane C; Price, Lance B; Hungate, Bruce A

    2016-09-01

    Phylogeny is an ecologically meaningful way to classify plants and animals, as closely related taxa frequently have similar ecological characteristics, functional traits and effects on ecosystem processes. For bacteria, however, phylogeny has been argued to be an unreliable indicator of an organism's ecology owing to evolutionary processes more common to microbes such as gene loss and lateral gene transfer, as well as convergent evolution. Here we use advanced stable isotope probing with (13)C and (18)O to show that evolutionary history has ecological significance for in situ bacterial activity. Phylogenetic organization in the activity of bacteria sets the stage for characterizing the functional attributes of bacterial taxonomic groups. Connecting identity with function in this way will allow scientists to begin building a mechanistic understanding of how bacterial community composition regulates critical ecosystem functions. PMID:26943624

  3. Constrained fitting of disentangled binary spectra: application to V615 Per in the open cluster h Persei

    CERN Document Server

    Tamajo, E; Southworth, J

    2010-01-01

    Using the technique of spectral disentangling, it is possible to determine the individual spectra of the components of a multiple star system from composite spectra observed at a range of orbital phases. This method has several advantages: it is unaffected by line blending, does not use template spectra, and returns individual component spectra with very high signal-to-noise ratios. The disentangled spectra of a binary star system are very well suited to spectroscopic analysis but for one problem: the absolute spectral line depths are unknown because this information is not contained in the original spectra (unless there is one taken in eclipse) without making assumptions about the spectral characteristics of the component stars. Here we present a method for obtaining the atmospheric parameters of the component stars by the constrained fitting of synthetic spectra to observed and disentangled spectra. Disentangled spectra are fitted using synthetic spectra and a genetic algorithm in order to determine the eff...

  4. Prenanthes violaefolia Decne.(Asteraceae)-a new report from Kashmir Himalaya, India

    Institute of Scientific and Technical Information of China (English)

    Parvaiz; Ahmad; Lone; Ajay; Kumar; Bhardwaj; Kunwar; Wajahat; Shah

    2015-01-01

    Objective: To enumerate the diversity of important medicinal plants used traditionally by the local populace in biodiversity rich and temperate Himalayan ranges of Bandipora district, Jammu and Kashmir, India. Methods: Methods used to explore the plants with medicinal value and to record associated ethnomedicinal knowledge included semi-structured interviews, focus group discussions and walk-in-the-woods with local knowledgeable persons, traditional practitioners called "Bhoeris" and tribals(Gujjars and Bakkerwals). Results: During plant exploration in this floristically rich Himalayan region, a very interesting and less-known species of the genus Prenanthes L.,(Asteraceae) was recorded. On examination, the species was identified as Prenanthes violaefolia Decne., which represents a first report from Kashmir Himalaya, India. Conclusions: Prenanthes violaefolia could serve as an important source of new potent compounds provided that it is subjected to thorough phytochemical and pharmacological investigations.

  5. Prenanthes violaefolia Decne. (Asteraceae)-a new report from Kashmir Himalaya, India

    Institute of Scientific and Technical Information of China (English)

    Parvaiz Ahmad Lone; Ajay Kumar Bhardwaj; Kunwar Wajahat Shah

    2015-01-01

    Objective:To enumerate the diversity of important medicinal plants used traditionally by the local populace in biodiversity rich and temperate Himalayan ranges of Bandipora district, Jammu and Kashmir, India. Methods:Methods used to explore the plants with medicinal value and to record associated ethnomedicinal knowledge included semi-structured interviews, focus group discussions and walk-in-the-woods with local knowledgeable persons, traditional practitioners called“Bhoeris”and tribals (Gujjars and Bakkerwals). Results:During plant exploration in this floristically rich Himalayan region, a very interesting and less-known species of the genus Prenanthes L., (Asteraceae) was recorded. On examination, the species was identified as Prenanthes violaefolia Decne., which represents a first report from Kashmir Himalaya, India. Conclusions: Prenanthes violaefolia could serve as an important source of new potent compounds provided that it is subjected to thorough phytochemical and pharmacological investigations.

  6. Influence of different substrates on the germination of jambu (Spilanthes oleracea L. – Asteracea

    Directory of Open Access Journals (Sweden)

    Isabela Cristina Gomes Honório

    2011-06-01

    Full Text Available The aim of this work was to analyze the influence of different substrates on the germination of Spilanthes oleracea L. (Asteraceae seeds, a native species of northern Brazil. The experiment was conducted in a completely randomized design with six treatments and four replications, with 25 seeds each. The treatments consisted of the following substrates: commercial substrate Plantmax®, soil + manure (2:1, soil, washed sand, partially carbonized rice peel and germitest paper. We evaluated the germination (%, the germination rate index (GRI, and the radicle length. The results presented significant differences for the parameter radicle length, and lower values were shown when substrate soil or sand was utilized. With the exception of soil, that had lower averages for all analyzed parameters, the other substrates were found to be suitable for the germination of S. oleracea.

  7. ISOLATION AND ANALYTICAL CHARACTERIZATION OF STEVIOSIDE FROM LEAVES OF STEVIA REBAUDIANA BERT; (ASTERACEAE

    Directory of Open Access Journals (Sweden)

    Inamake M.R.

    2010-12-01

    Full Text Available Stevioside a natural non caloric sweetener isolated from the leaves of the plant Stevia rebaudiana Bertoni (Asteraceae or compositae. It has been widely used in many countries, including Japan, Korea, China, Brazil and Paraguay, either as a substitute for sucrose in beverages and foods or as a household sweetening agent isolated from the dried leaves of Stevia. In the present work attempt was made to isolate stevioside from the dried leaves of Stevia in its purest form. Isolated stevioside was purified, analyzed & characterized by using various chromatographic & analytical methods including TLC, UV, FTIR, NMR and HPLC methods. The Rf value for TLC was 0.32, λmax of UV spectra was obtained at 333 nm and HPLC showed the sharp peak with 1.958 min retention time. The isolated stevioside was also compared with standard stevioside with all analytical methods.

  8. VOLATILE COMPONENTS FROM GALLS INDUCED BY Baccharopelma dracunculifoliae (Hemiptera: Psyllidae ON LEAVES OF Baccharis dracunculifolia (Asteraceae

    Directory of Open Access Journals (Sweden)

    Michele Aparecida Besten

    2015-01-01

    Full Text Available The volatile components of the galls induced by the insect Baccharopelma dracunculifoliae (Hemiptera: Psyllidae on leaves of Baccharis dracunculifolia (Asteraceae were analyzed by gas chromatography-mass spectrometry (GC-MS and gas chromatographyflame- ionisation detection (GC-FID, and then comparison with volatile oil samples from healthy leaves collected in the vicinity. The galls produced around 3.5% of the total organic volatiles whereas healthy leaves rendered an average yield of 0.6%. The observed higher proportions of germacrene D, bicyclogermacrene, limonene, and β-pinene in the galls suggest that all these compounds are important targets in the search for natural enemies of this Psyllid. Moreover, higher relative percentages of (E-nerolidol and spathulenol were found in healthy leaves.

  9. A new acylated flavonol from the aerial parts of Asteriscus maritimus (L.) Less (Asteraceae).

    Science.gov (United States)

    Ezzat, Marwa I; Ezzat, Shahira M; El Deeb, Kadriya S; El Fishawy, Ahlam M; El-Toumy, Sayed A

    2016-08-01

    Phytochemical investigation of the flowering aerial parts of Asteriscus maritimus (L.) Less (Asteraceae) led to the isolation of a new compound: patuletin 7-O-β-D-[(2″'S) 6″(3″'-hydroxy-2″'-methyl-propanoyl)] glucopyranoside, together with five known metabolites; β-sitosterol 2, chlorogenic acid 3, P-hydroxy -methylbenzoate 4, luteolin 5 and protocatechuic acid 6. The structures of the isolated compounds were determined by comprehensive analyses of its 1D and 2D NMR, HRMS and compared with previously known analogues. The ethanolic extract of the flowering aerial parts of A. maritimus was found to be safe (LD50 = 4.6 mg/kg) and possess significant antioxidant and anti-inflammatory activities and this was in accordance with its high phenolic content (107.36 ± 0.051 mg GAE/g extract). PMID:26828806

  10. Three new caespitose species of Senecio (Asteraceae, Senecioneae) from South Peru.

    Science.gov (United States)

    Tubée, Daniel B Montesinos

    2014-01-01

    Three new species of the genus Senecio (Asteraceae, Senecioneae) belonging to Senecio ser. Suffruticosi subser. Caespitosi were discovered in the tributaries of the upper Tambo River, Moquegua Department, South Peru. Descriptions, diagnoses and discussions about their distribution, a table with the morphological similarities with other species of Senecio, a distribution map, conservation status assessments, and a key to the caespitose Peruvian species of Senecio subser. Caespitosi are provided. The new species are Senecio moqueguensis Montesinos, sp. nov. (Critically Endangered) which most closely resembles Senecio pucapampaensis Beltrán, Senecio sykorae Montesinos, sp. nov. (Critically Endangered) which most closely resembles Senecio gamolepis Cabrera, and Senecio tassaensis Montesinos, sp. nov. (Critically Endangered) which most closely resembles Senecio moqueguensis Montesinos. PMID:25197221

  11. Three new caespitose species of Senecio (Asteraceae, Senecioneae from South Peru

    Directory of Open Access Journals (Sweden)

    Daniel Montesinos Tubée

    2014-06-01

    Full Text Available Three new species of the genus Senecio (Asteraceae, Senecioneae belonging to S. ser. Suffruticosi subser. Caespitosi were discovered in the tributaries of the upper Tambo River, Moquegua Department, South Peru. Descriptions, diagnoses and discussions about their distribution, a table with the morphological similarities with other species of Senecio, a distribution map, conservation status assessments, and a key to the caespitose Peruvian species of S. subser. Caespitosi are provided. The new species are Senecio moqueguensis Montesinos, sp. nov. (Critically Endangered which most closely resembles Senecio pucapampaensis Beltrán, Senecio sykorae Montesinos, sp. nov. (Critically Endangered which most closely resembles Senecio gamolepis Cabrera, and Senecio tassaensis Montesinos, sp. nov. (Critically Endangered which most closely resembles Senecio moqueguensis Montesinos.

  12. A taxonomic revision of the genus lactuca L. (cicihorieae- asteraceae) from Pakistan and Kashmir

    International Nuclear Information System (INIS)

    The genus Lactuca L. of the tribe Cichorieae-Asteraceae is taxonomically revised from Pakistan and Kashmir. The revision is based on study of large number of herbarium specimens. In few cases plants have also been studied in their natural habitat. A total of 13 species are recognized from Pakistan and Kashmir including 1 new species i.e. Lactuca erostrata Roohi Bano and Qaiser. A new combination Lactuca orientalis subsp. nuristanica (Podlech) Roohi Bano and Qaiser is also proposed. All the taxa valid or synonyms have been typified with the help of type specimens and literature. Key to the species along with detailed morphological description and ecological notes of each taxon are also given. (author)

  13. Larvicidal activity of methanolic leaf extracts of plant, Chromolaena odorata L. (Asteraceae against vector mosquitoes

    Directory of Open Access Journals (Sweden)

    Jagruti H. Sukhthankar

    2014-09-01

    Full Text Available Mosquitoes transmit malaria, filariasis, dengue, chikungunya, etc. Repeated use of insecticides for mosquito control has caused development of resistance, adverse effects on non-target organisms and serious environmental concerns. Hence alternative control measures are being explored inter alia plant based insecticides. We carried out larvicidal bioassays with methanolic extract of leaves of Chromolaena odorata (family Asteraceae against late instar larvae of disease vectors Anopheles stephensi, Culex quinquefasciatus and Aedes aegypti. The highest mortality was observed in Cx. quinquefasciatus [LC50 = 43 ppm, (95% CI: 34 - 48 ppm; LC90 = 110 ppm (CI: 94 - 135 ppm] followed by Ae. aegypti [LC50 = 138 ppm, (CI: 121 - 157 ppm; LC90 = 463 ppm (CI: 386 - 584 ppm] and An. stephensi [LC50 = 1613 ppm (CI: 1364 - 1890 ppm; LC90 = 8306 ppm (CI: 6598 - 11076 ppm]. Being larvicidal, leaf extracts of Chromolaena odorata could be explored further.

  14. Disentangle plume-induced anisotropy in the velocity field in buoyancy-driven turbulence

    CERN Document Server

    Zhou, Quan

    2011-01-01

    We present a method of disentangling the anisotropies produced by the cliff structures in turbulent velocity field and test it in the system of turbulent Rayleigh-B\\'{e}nard (RB) convection. It is found that in the RB system the cliff structures in the velocity field are generated by thermal plumes. These cliff structures induce asymmetry in the velocity increments, which leads us to consider the plus and minus velocity structure functions (VSF). The plus velocity increments exclude cliff structures, while the minus ones include them. Our results show that the scaling exponents of the plus VSFs are in excellent agreement with those predicted for homogeneous and isotropic turbulence (HIT), whereas those of the minus VSFs exhibit significant deviations from HIT expectations in places where thermal plumes abound. These results demonstrate that plus and minus VSFs can be used to quantitatively study the effect of cliff structures in the velocity field and to effectively disentangle the associated anisotropies cau...

  15. Equation for disentangling time-ordered exponentials with arbitrary quadratic generators

    International Nuclear Information System (INIS)

    In many quantum-mechanical constructions, it is necessary to disentangle an operator-valued time-ordered exponential with time-dependent generators quadratic in the creation and annihilation operators. By disentangling, one understands the finding of the matrix elements of the time-ordered exponential or, in a more general formulation. The solution of the problem can also be reduced to calculation of a matrix time-ordered exponential that solves the corresponding classical problem. However, in either case the evolution equations in their usual form do not enable one to take into account explicitly the symmetry of the system. In this paper the methods of Weyl analysis are used to find an ordinary differential equation on a matrix Lie algebra that is invariant with respect to the adjoint action of the dynamical symmetry group of a quadratic Hamiltonian and replaces the operator evolution equation for the Green's function

  16. The Lyman-alpha Forest as a tool for disentangling non-Gaussianities

    CERN Document Server

    Chongchitnan, Sirichai

    2014-01-01

    Detection of primordial non-Gaussianity will give us an unprecedented detail of the physics of inflation. As observational probes are now exploring new expanses of the inflationary landscape, it is crucial to distinguish and disentangle effects of various non-Gaussianities beyond f_NL. In this work, we calculate the effects of non-Gaussianities parametrized by f_NL and the cubic-order g_NL, on the Lyman-$\\alpha$-forest flux measurements. We give the forms of the bias due to f_NL and g_NL, which can be deduced from accurate measurements of the transmitted flux. We show how these two effects can be cleanly disentangled via a flux transformation, which also keeps the error in check.

  17. Capitate glandular trichomes in Aldama discolor (Heliantheae - Asteraceae): morphology, metabolite profile and sesquiterpene biosynthesis.

    Science.gov (United States)

    Bombo, A B; Appezzato-da-Glória, B; Aschenbrenner, A-K; Spring, O

    2016-05-01

    The capitate glandular trichome is the most common type described in Asteraceae species. It is known for its ability to produce various plant metabolites of ecological and economic importance, among which sesquiterpene lactones are predominant. In this paper, we applied microscopy, phytochemical and molecular genetics techniques to characterise the capitate glandular trichome in Aldama discolor, a native Brazilian species of Asteraceae, with pharmacological potential. It was found that formation of trichomes on leaf primordia of germinating seeds starts between 24 h and 48 h after radicle growth indicates germination. The start of metabolic activity of trichomes was indicated by separation of the cuticle from the cell wall of secretory cells at the trichome tip after 72 h. This coincided with the accumulation of budlein A, the major sesquiterpene lactone of A. discolor capitate glandular trichomes, in extracts of leaf primordia after 96 h. In the same timeframe of 72-96 h post-germination, gene expression studies showed up-regulation of the putative germacrene A synthase (pGAS2) and putative germacrene A oxidase (pGAO) of A. discolor in the transcriptome of these samples, indicating the start of sesquiterpene lactone biosynthesis. Sequencing of the two genes revealed high similarity to HaGAS and HaGAO from sunflower, which shows that key steps of this pathway are highly conserved. The processes of trichome differentiation, metabolic activity and genetic regulation in A. discolor and in sunflower appear to be typical for other species of the subtribe Helianthinae. PMID:26642998

  18. Inbreeding effects on fitness traits in the heterocarpic herb Leontodon autumnalis L. (Asteraceae)

    Science.gov (United States)

    Picó, F. X.; Koubek, T.

    2003-12-01

    Heterocarpic plants are characterized by the production of distinct types of fruits that usually differ in their ecological behavior. In the Asteraceae, differences are mainly found between peripheral non-dispersal and central dispersal achenes (single-seeded fruits). Inbreeding depression is considered as an evolutionary force as it may reduce several fitness traits, and in the case of heterocarpic plants, it could influence fitness traits (e.g., seed set, germination rate, growth rate) of each fruit morph, which may have important ecological and evolutionary consequences. In particular, differential effects on fitness traits and dispersal of selfed and outcrossed progeny can strongly determine the viability of extant populations and the potential to colonize new habitats. We conducted a hand-pollination experiment in greenhouse conditions to test whether inbreeding affects the fitness of achene morphs in the heterocarpic herb Leontodon autumnalis (Asteraceae). Results show that achene morphs significantly differ in their ecological behavior, peripheral achenes germinating more and faster than central achenes. The significant interaction between pollination treatment and achene morph for germination probability might indicate a link between dormancy and mating system in L. autumnalis: germination was higher for outcrossed achenes in central achenes whereas the opposite pattern was exhibited by peripheral achenes. Selfing dramatically reduced seed set, probably as a consequence of strong self-incompatibility mechanisms rather than inbreeding effects. Inbreeding depression significantly affected late life-cycle traits, such as growth rate and biomass at flowering. Overall, results suggest that inbreeding depression seems to be an important selective force maintaining outcrossing in L. autumnalis.

  19. Network effects and switching costs in the US wireless industry: Disentangling sources of consumer inertia

    OpenAIRE

    Weiergräber, Stefan

    2014-01-01

    I develop an empirical framework to disentangle different sources of consumer inertia in the US wireless industry. The use of a detailed data set allows me to identify preference heterogeneity from consumer type-specific market shares and switching costs from churn rates. Identification of a localized network effect comes from comparing the dynamics of distinct local markets. The central condition for identification is that neither the characteristics defining consumer heterogeneity nor the c...

  20. Disentangling the frequency and severity of bullying and victimization in the association with empathy

    OpenAIRE

    Noorden, T.H.J. van; Bukowski, W.M.; Haselager, G.J.T.; Lansu, T.A.M.; Cillessen, A.H.N.

    2016-01-01

    This study disentangled the frequency and perceived severity of experienced bullying and victimization by investigating their associations with cognitive and affective empathy. Participants were 800 children (7–12 years old) from third- to fifth-grade classrooms who completed self-report measures of the frequency and perceived severity of their bullying and victimization and of cognitive and affective empathy. Results showed that the frequency and perceived severity of bullying were moderatel...

  1. Social Network Influences on Adolescent Substance Use: Disentangling Structural Equivalence from Cohesion

    OpenAIRE

    FUJIMOTO, KAYO; Valente, Thomas W.

    2012-01-01

    This study investigates two contagion mechanisms of peer influence based on direct communication (cohesion) versus comparison through peers who occupy similar network positions (structural equivalence) in the context of adolescents' drinking alcohol and smoking. To date, the two contagion mechanisms have been considered observationally inseparable, but this study attempts to disentangle structural equivalence from cohesion as a contagion mechanism by examining the extent to which the transmis...

  2. Servitization: Disentangling the impact of service business model innovation on manufacturing firm performance

    OpenAIRE

    Visnjic, Ivanka; Van Looy, Bart

    2014-01-01

    As manufacturing businesses operate in an ever more competitive, global economy where products are easily commoditized, innovating by adding services to the core product offering has become a popular strategy. Contrary to the economic benefits expected, recent findings pinpoint implementation hurdles that lead to a potential performance decline, the so-called ‘servitization paradox’. In this paper, we analyze this paradox by disentangling the value creation and value appropriation processes o...

  3. Disentangling the Age, Period, and Cohort Effects using a Modeling Approach

    OpenAIRE

    Portrait, France; Alessie, R.J.M.; Deeg, Dorly

    2002-01-01

    Disentangling age, period, and cohort effects in explaining health trends is crucial to assess future prevalences of health disorders. The identification problem -- age, period, and cohort effects are perfectly linearly related -- is tackled by modeling cohort and period effects using lifetime macro-indicators. This approach -- innovative in analyses on health trends -- handles theidentification problem and explains mechanisms underlying cohort and period effects. The modeling approach is com...

  4. Phylogenetic comparative approaches for studying niche conservatism

    OpenAIRE

    COOPER, NATALIE; Jetz, Walter; Freckleton, Rob P.

    2010-01-01

    Analyses of phylogenetic niche conservatism (PNC) are becoming increasingly common. However, each analysis makes subtly different assumptions about the evolutionary mechanism that generates patterns of niche conservatism. To understand PNC, analyses should be conducted with reference to a clear underlying model, using appropriate methods. Here, we outline five macroevolutionary models that may underlie patterns of PNC (drift, niche retention, phylogenetic inertia, niche filling ? shifti...

  5. Antibacterial, antifungal and cytotoxic activities of eight Asteraceae and two Rubiaceae plants from colombian biodiversity Atividades antibactariana, antifúngica e citotóxica de oito plantas Asteraceae e duas Rubiaceae da biodiversidade colombiana

    OpenAIRE

    Jaime Niño; Narváez, Diana M.; Oscar M. Mosquera; Yaned M Correa

    2006-01-01

    Thirty crude extracts of eight plants belonging to Asteraceae and two to Rubiaceae families collected at different places from the Regional Natural Park Ucumarí (RNPU), Colombia, were tested for their antibacterial activity against two Gram-positive and two Gram-negative bacteria and three fungi. Both the antibacterial and the antimycotic activities were tested by the agar well diffusion method. The cytotoxic activity on the same plant extracts was determined through the brine shrimp lethalit...

  6. Estudo farmacobotânico de partes vegetativas aéreas de Baccharis anomala DC., Asteraceae Pharmacobotanical study of aerial vegetative parts of Baccharis anomala DC., Asteraceae

    Directory of Open Access Journals (Sweden)

    Jane M. Budel

    2008-12-01

    Full Text Available O gênero Baccharis pertence à família Asteraceae e se destaca por incluir espécies medicinais. Baccharis anomala DC., conhecida como "uva-do-mato" e "cambará-de-cipó", é utilizada popularmente como diurético e estudos fitoquímicos constataram a presença de taninos e saponinas. Este trabalho objetivou realizar estudo farmacobotânico de folha e caule dessa espécie. O material foi submetido a microtécnicas fotônica e eletrônica de varredura usuais. A lâmina foliar possui epiderme uniestratificada revestida por cutícula delgada e estriada. Estômatos anomocíticos ocorrem somente na face abaxial. Em ambas as faces aparecem dois tipos de tricomas tectores pluricelulares unisseriados, um com ápice agudo e outro com célula apical flageliforme. O mesofilo é isobilateral e a nervura central é plano-convexa, sendo percorrida por um feixe vascular colateral. O pecíolo mostra três feixes vasculares que se dispõem em arco aberto. O caule tem secção circular e epiderme unisseriada, com tricomas similares aos da folha. Colênquima angular e clorênquima alternam-se no córtex e fibras perivasculares apõem-se ao floema. Evidencia-se uma zona cambial, cujas células formam xilema no sentido centrípeto e floema, centrifugamente, e a medula compõe-se de células parenquimáticas. Dutos secretores acompanham o sistema vascular na folha e no caule.The genus Baccharis belongs to the family Asteraceae and includes medicinal species. Baccharis anomala DC., popularly known as "uva-do-mato" and "cambará-do-cipó" in Portuguese, is used as diuretic in folk medicine and phytochemical studies have demonstrated the presence of tannins and saponins. This work has aimed at studying the macro and microscopic aspects of the leaf and stem of this species. The botanical material was prepared according to standard light and scanning microtechniques. The leaf blade has uniseriate epidermis coated with a thin and striate cuticle. Anomocytic stomata are

  7. Sex-mediated herbivory by galling insects on Baccharis concinna (Asteraceae Herbivoria por insetos galhadores mediada pelo sexo em Baccharis concinna (Asteraceae

    Directory of Open Access Journals (Sweden)

    Marco Antonio A. Carneiro

    2006-09-01

    Full Text Available The interaction patterns between the dioecious shrub Baccharis concinna Barroso (Asteraceae and its speciose galling insect community were studied in southeastern Brazil. Two hypotheses were tested in this study: "the differential reproduction and growth hypothesis" that predicts that male plants present fewer reproductive structures and are larger than female plants; and the 'sex-biased herbivory hypothesis' that predicts that male plants support a larger abundance of insect galls than female plants. Plants did not show sexual dimorphism in growth (= mean leaf number. However, male plants had longer shoots and a lower average number of inflorescences than female plants. These results corroborate the hypothesis that male plants grow more and reproduce less than female plants. No statistically significant difference was found in the number of galls between male and female plants, but a sex by environmental effect on gall number was detected. When each species of galling insect was individually analyzed per population of the host plant, the rates of attack varied between sex and population of the host plant, and they were highly variable among the species of galling insects. These results highlight the importance of the interaction between sex and environment in the community structure of galling insects and indicate that other variables besides host sex may influence the patterns of attack by galling herbivores.Os padrões de interação entre o arbusto dióico Baccharis concinna Barroso (Asteraceae e sua diversa comunidade de insetos galhadores foram estudados na região sudeste do Brasil. Duas hipóteses foram testadas neste estudo: "a hipótese do crescimento e reprodução diferenciais", que prevê que plantas masculinas apresentam menos estruturas reprodutivas e são maiores do que plantas femininas; e a "hipótese da herbivoria mediada pelo sexo" que prevê que plantas masculinas sustentam uma maior abundância de insetos galhadores do que

  8. Anatomia e histoquímica dos órgãos vegetativos de Siegesbeckia orientalis (Asteraceae Anatomy and histochemistry of the vegetative organs of Siegesbeckia orientalis (Asteraceae

    Directory of Open Access Journals (Sweden)

    D.B. Aguilera

    2004-12-01

    Full Text Available Descreveu-se a anatomia dos órgãos vegetativos de S. orientalis, em estrutura primária, enfatizando a caracterização e histoquímica de suas estruturas secretoras. Folhas, caules e raízes foram fixados em FAA50 e em sulfato ferroso e estocados em etanol 70%. Cortes transversais e longitudinais foram submetidos ao azul-de-toluidina pH 4,0, ao vermelho-de-rutênio, à reação de PAS, ao reativo Xylidine Ponceau, ao Sudan Black B e ao reativo Dragendorff. Anatomicamente, os órgãos vegetativos de S. orientalis são semelhantes aos caracteres descritos para Asteraceae. As raízes laterais são triarcas e o caule, um eustelo. Ductos estão ausentes na raiz e presentes no caule e na folha. Estas estruturas são de pequeno diâmetro, sendo delimitadas por quatro a cinco células epiteliais. No caule, os ductos estavam presentes no córtex, próximos à endoderme e na medula; nas folhas, associados aos feixes vasculares, tanto para o lado do xilema quanto para o do floema. As folhas são dorsiventrais e anfiestomáticas. Três tipos de estruturas secretoras foram observados: ductos, hidatódios e tricomas glandulares. Os testes histoquímicos aplicados demonstraram a presença de compostos fenólicos e alcalóides nos ductos e, nos tricomas, de compostos lipofílicos e fenólicos. Esses resultados indicam a complexidade da secreção produzida pelas estruturas secretoras na espécie.The anatomy of the vegetative organs of S. orientalis in primary structure was described, emphasizing the characterization and histochemistry of its secretory structures. Leaves, stems and roots were fixed in FAA50 and ferrous sulphate and stored in 70% ethanol. Cross and longitudinal sections were submitted to toluidine blue pH 4.0, ruthenium red, PAS reaction, Ponceau Xylidine reactive, Sudan Black B and Dragendorff reactive. Anatomically, S. orientalis vegetative organs are similar to the characters described for the Asteraceae. The lateral roots are triarches and

  9. WOOD ANATOMY OF TWO SPECIES OF THE GENUS Heterothalamus Lessing (ASTERACEAE FROM RIO GRANDE DO SUL (BRAZIL

    Directory of Open Access Journals (Sweden)

    Anabela Silveira de Oliveira

    2010-08-01

    Full Text Available The present work describes the wood anatomy of Heterothalamus alienus and Heterothalamus rupestris (Astereae - Asteraceae, as part of the secondary xylem study in the named genus. For the two species it was recorded some features usually mentioned in the literature for the Asteraceae, as typically small vessels, grouped in a dendritic pattern, the presence of only simple perforation plates and of paratracheal parenchyma. Heterothalamus alienus shows spiral thickenings in the wood vessels and storied vasicentric axial parenchyma. Heterothalamus rupestris differs itself by the absence of spiral thickenings in wood vessels and by no storied axial parenchyma, in paratracheal vasicentric to unilateral patterns. Photomicrographs, quantitative data of anatomical features and a comparison between the two  species of wood are also provided.

  10. Next-generation sampling: Pairing genomics with herbarium specimens provides species-level signal in Solidago (Asteraceae) 1

    OpenAIRE

    Beck, James B.; John C. Semple

    2015-01-01

    Premise of the study: The ability to conduct species delimitation and phylogeny reconstruction with genomic data sets obtained exclusively from herbarium specimens would rapidly enhance our knowledge of large, taxonomically contentious plant genera. In this study, the utility of genotyping by sequencing is assessed in the notoriously difficult genus Solidago (Asteraceae) by attempting to obtain an informative single-nucleotide polymorphism data set from a set of specimens collected between 19...

  11. Cytotoxic effect of some medicinal plants from Asteraceae family on J-45.01 leukemic cell line--pilot study.

    Science.gov (United States)

    Wegiera, Magdalena; Smolarz, Helena D; Jedruch, Marcin; Korczak, Magdalena; Koproń, Kamila

    2012-01-01

    In this study the in vitro cytotoxic properties of ethanol extracts from the herbs, inflorescents and roots of selected Asteraceae species: Arctium lappa, Artemisia absinthium, Calendula officinalis, Centaurea cyanus, Tanacetum vulgare and Tragopogon pratensis on J-45.01 human acute T leukemia cell line was examined. All tested samples possess antileukemic properties and induce cells death via apoptosis. The correlation between antileukemic activity and total polyphenol content was determined. PMID:22568040

  12. Anatomical characters of the medicinal leaf and stem of Gymnanthemum amygdalinum (Delile) Sch.Bip. ex Walp. (Asteraceae)

    OpenAIRE

    Márcia do Rocio Duarte; Ariane Gonçalves Silva

    2013-01-01

    Gymnanthemum amygdalinum (Delile) Sch.Bip. ex Walp. (Asteraceae), better known by its former name Vernonia amygdalina Delile, is a small shrub used in folk medicine as an antipyretic, laxative, antimalarial and anthelmintic. Studies have demonstrated that different vegetal extracts possess antioxidant, antimicrobial and antiparasitic activities. Among the bioactive metabolites, there are sesquiterpene lactones, saponins, polyphenols and flavonoids. This study investigated the leaf and stem mi...

  13. Podospermic acid, 1,3,5-tri-O-(7,8-dihydrocaffeoyl) quinic acid from Podospermum laciniatum (Asteraceae)

    DEFF Research Database (Denmark)

    Zidorn, Christian; Petersen, Bent O.; Udovicic ́, Vedrana;

    2005-01-01

    A phytochemical investigation of Podospermum laciniatum (L.) DC. (Asteraceae) yielded the new quinic acid derivative podospermic acid (1,3,5-tridihydrocaffeoylquinic acid), which was named after the genus it was isolated from. The structure was established by HR mass spectrometry and extensive 1D...... and 2D NMR spectroscopy. Podospermic acid is the first naturally occurring dihydrocaffeoylquinic acid derivative. The chemosystematic impact and the radical scavenging activity of the new compound are discussed briefly. (C) 2004 Elsevier Ltd. All rights reserved....

  14. Bioactivity of the extracts and isolation of lignans and a sesquiterpene from the aerial parts of Centaurea pamphylica (Asteraceae)

    OpenAIRE

    Shoeb M.; Macmanus S.M.; Kong-Thoo-Lin P.; Celik S.; Jaspars M.; Nahar L.; Sarker S.D

    2007-01-01

    Centaurea pamphylica Boiss. & Heldr. (Family: Asteraceae), commonly known as ‘pamphylia daisy', is a Turkish endemic species of the genus Centaurea that comprises ca. 500 species, many of which have been used as traditional medicines.  The n-hexane, dichloromethane (DCM) and methanol (MeOH) extracts of the aerial parts of C. pamphylica were assessed for antioxidant activity and general toxicity using, respectively, the 2,2-diphenyl-1-picrylhydrazyl (DPPH), and ...

  15. The application of multiplex fluorimetric sensor for the analysis of flavonoids content in the medicinal herbs family Asteraceae, Lamiaceae, Rosaceae

    OpenAIRE

    Sytar, Oksana; Bruckova, Klaudia; Elena HUNKOVA; Zivcak, Marek; Konate, Kiessoun; Brestic, Marian

    2015-01-01

    Background The aim of our research work was to quantify total flavonoid contents in the leaves of 13 plant species family Asteraceae, 8 representatives of family Lamiaceae and 9 plant species belonging to family Rosaceae, using the multiplex fluorimetric sensor. Fluorescence was measured using optical fluorescence apparatus Multiplex(R) 3 (Force-A, France) for non-destructive flavonoids estimation. The content of total flavonoids was estimated by FLAV index (expressed in relative units), that...

  16. Phylogeny and putative hybridization in the subtribe Paranepheliinae (Liabeae, Asteraceae), implications for classification, biogeography, and Andean orogeny%Paranepheliinae亚族(菊科,Liabeae族)的系统发育和可能的属间杂交

    Institute of Scientific and Technical Information of China (English)

    Akiko SOEJIMA; 文军; Mario ZAPATA; Michael O. DILLON

    2008-01-01

    The nuclear ribosomal ITS region and the chloroplast trnL-trnF (trnLF) intergenic region were sequenced for 45 accessions of Paranephelius and six accessions of Pseudonoseris, the two genera of the subtribe Paranepheliinae (Liabeae, Asteraceae) distributed in the alpine regions of the Andes. This data set was used to estimate relationships between these genera and within each genus to aid in evaluating morphological variation and classification. Our results with both ITS and trnLF markers support the monophyly of subtribe Paranepheliinae, and place Pseudonoseris discolor as the first diverged taxon sister to the clade containing Paranephelius. Pseudonoseris szyszylowiczii exhibited intraspecific divergence supporting intergeneric hybridization between Pseudonoseris and Paranephelius. Within Paranephelius, genetic divergence is low and not adequate to fully resolve phylogenetic relationships at the species level, but two genetically and morphologically recognizable groups were revealed by the ITS data. Several accessions possessing multiple ITS sequences represent putative hybrids between the two groups. These putative hybrids have caused some taxonomic confusion and difficulties in establishing species boundaries in Paranephelius. The divergence time estimates based on ITS sequences indicated that the stem of subtribe Paranepheliinae dates to 13 million years ago, but the diversification of the crown clade of the extant members began in the early Pleistocene or late Pliocene, perhaps associated with the uplift of the Andes and the climatic changes of global cooling.

  17. The space of ultrametric phylogenetic trees.

    Science.gov (United States)

    Gavryushkin, Alex; Drummond, Alexei J

    2016-08-21

    The reliability of a phylogenetic inference method from genomic sequence data is ensured by its statistical consistency. Bayesian inference methods produce a sample of phylogenetic trees from the posterior distribution given sequence data. Hence the question of statistical consistency of such methods is equivalent to the consistency of the summary of the sample. More generally, statistical consistency is ensured by the tree space used to analyse the sample. In this paper, we consider two standard parameterisations of phylogenetic time-trees used in evolutionary models: inter-coalescent interval lengths and absolute times of divergence events. For each of these parameterisations we introduce a natural metric space on ultrametric phylogenetic trees. We compare the introduced spaces with existing models of tree space and formulate several formal requirements that a metric space on phylogenetic trees must possess in order to be a satisfactory space for statistical analysis, and justify them. We show that only a few known constructions of the space of phylogenetic trees satisfy these requirements. However, our results suggest that these basic requirements are not enough to distinguish between the two metric spaces we introduce and that the choice between metric spaces requires additional properties to be considered. Particularly, that the summary tree minimising the square distance to the trees from the sample might be different for different parameterisations. This suggests that further fundamental insight is needed into the problem of statistical consistency of phylogenetic inference methods. PMID:27188249

  18. Discriminating the effects of phylogenetic hypothesis, tree resolution and clade age estimates on phylogenetic signal measurements.

    Science.gov (United States)

    Seger, G D S; Duarte, L D S; Debastiani, V J; Kindel, A; Jarenkow, J A

    2013-09-01

    Understanding how species traits evolved over time is the central question to comprehend assembly rules that govern the phylogenetic structure of communities. The measurement of phylogenetic signal (PS) in ecologically relevant traits is a first step to understand phylogenetically structured community patterns. The different methods available to estimate PS make it difficult to choose which is most appropriate. Furthermore, alternative phylogenetic tree hypotheses, node resolution and clade age estimates might influence PS measurements. In this study, we evaluated to what extent these parameters affect different methods of PS analysis, and discuss advantages and disadvantages when selecting which method to use. We measured fruit/seed traits and flowering/fruiting phenology of endozoochoric species occurring in Southern Brazilian Araucaria forests and evaluated their PS using Mantel regressions, phylogenetic eigenvector regressions (PVR) and K statistic. Mantel regressions always gave less significant results compared to PVR and K statistic in all combinations of phylogenetic trees constructed. Moreover, a better phylogenetic resolution affected PS, independently of the method used to estimate it. Morphological seed traits tended to show higher PS than diaspores traits, while PS in flowering/fruiting phenology depended mostly on the method used to estimate it. This study demonstrates that different PS estimates are obtained depending on the chosen method and the phylogenetic tree resolution. This finding has implications for inferences on phylogenetic niche conservatism or ecological processes determining phylogenetic community structure. PMID:23368095

  19. Primer reporte de empleo de marcadores AFLP en Asteraceae en Cuba

    Directory of Open Access Journals (Sweden)

    Grecia Montalvo Fernández

    2012-08-01

    Full Text Available Título en ingles: First report of the employment of AFLP markers in Asteraceae in Cuba. Resumen: Rhodogeron coronopifolius Griseb., es una especie vegetal de la familia Asteraceae, que se encuentra en peligro crítico de extinción. Es endémico de la provincia Villa Clara en la región central de Cuba. Habita en el matorral xeromorfo sub espinoso sobre serpentina. Existen solo cinco poblaciones naturales dentro de un área protegida, la principal causa de amenaza es la fragmentación de su hábitat por acciones antrópicas. Debido a su situación de conservación, se hace necesario realizar estudios de la diversidad genética de las poblaciones naturales para así generar información básica y diseñar una estrategia de conservación. El objetivo de este trabajo fue analizar de manera preliminar la diversidad genética de cuatro poblaciones de esta especie utilizando marcadores AFLP (Polimorfismo de Longitud de Fragmentos Amplificados. Se emplearon dos combinaciones de iniciadores y se evaluó el porcentaje de polimorfismo así como la similitud entre los individuos.  Se obtuvieron 165 loci de los cuales el 78,7 % fueron polimórficos. La población de mayor polimorfismo fue Corojito con 85,2%, de manera general el polimorfismo fue alto con valores entre 75 y  87%. La similitud entre los individuos también fue alta con un promedio de 0,74. El agrupamiento genético fue independiente a la población de procedencia, lo que sugiere que existe intercambio genético entre las poblaciones y que estas comparten más del 80 % de los alelos que fueron analizados. Los resultados obtenidos son importantes para el mantenimiento in situ de la especie y para tomar decisiones en aras de su conservación. Palabras clave: Rhodogeron coronopifolius, peligro de extinción, polimorfismo, conservación. Abstract: Rhodogeron coronopifolius Griseb., is a specie of Asteraceae family, in critical danger of extinction. It is an endemic of Villa Clara city in the

  20. Leaf and stem microscopic identification of Tithonia diversifolia (Hemsl. A. Gray (Asteraceae

    Directory of Open Access Journals (Sweden)

    Márcia do Rocio Duarte

    2012-03-01

    Full Text Available Tithonia diversifolia (Hemsl. A. Gray is an Asteraceae shrub, popularly known as Mexican sunflower and cultivated for ornamental and therapeutic uses in different countries. In folk medicine, it is of value for treating diabetes, malaria and infectious diseases. These indications have been corroborated by various pharmacological assays. Given the lack of data on anatomical aspects of T. diversifolia, this work aimed to investigate the leaf and stem microscopic characters of this medicinal plant and potential vegetal drug. Samples of mature leaves and young stems were sectioned and stained. Histochemical tests and scanning electron microscopy were also performed. The leaf has anomocytic stomata on both sides, dorsiventral mesophyll and several collateral vascular bundles arranged as a ring in the midrib. The stem shows angular-tangential collenchyma, an evident endodermis and sclerenchymatic caps adjoining the phloem. The main characters for anatomical identification are the different types of trichome (non-glandular, capitate and non-capitate glandular, the midrib features and the localization of the secretory ducts near the vascular system.Tithonia diversifolia (Hemsl. A. Gray é um arbusto da família Asteraceae, popularmente conhecido como girassol-mexicano e cultivado como ornamental e medicinal em vários países. Tradicionalmente, é usado no tratamento de diabetes, malária e doenças infecciosas. Essas indicações têm sido corroboradas por diversos ensaios farmacológicos. Em razão das escassas informações sobre aspectos anatômicos de T. diversifolia, este trabalho objetivou investigar os caracteres microscópicos foliares e caulinares dessa planta medicinal e potencial droga vegetal. Amostras de folhas adultas e caules jovens foram fixadas, seccionadas e coradas. Testes histoquímicos e microscopia eletrônica de varredura foram também realizados. A folha apresenta estômatos anomocíticos em ambas as superfícies, mesofilo

  1. Phylogenetic structure in tropical hummingbird communities

    DEFF Research Database (Denmark)

    Graham, Catherine H; Parra, Juan L; Rahbek, Carsten;

    2009-01-01

    sustaining an expensive means of locomotion at high elevations. We found that communities in the lowlands on opposite sides of the Andes tend to be phylogenetically similar despite their large differences in species composition, a pattern implicating the Andes as an important dispersal barrier. In contrast......How biotic interactions, current and historical environment, and biogeographic barriers determine community structure is a fundamental question in ecology and evolution, especially in diverse tropical regions. To evaluate patterns of local and regional diversity, we quantified the phylogenetic...... composition of 189 hummingbird communities in Ecuador. We assessed how species and phylogenetic composition changed along environmental gradients and across biogeographic barriers. We show that humid, low-elevation communities are phylogenetically overdispersed (coexistence of distant relatives), a pattern...

  2. Advances in phylogenetic studies of Nematoda

    Institute of Scientific and Technical Information of China (English)

    2002-01-01

    Nematoda is a metazoan group with extremely high diversity only next to Insecta. Caenorhabditis elegans is now a favorable experimental model animal in modern developmental biology, genetics and genomics studies. However, the phylogeny of Nematoda and the phylogenetic position of the phylum within animal kingdom have long been in debate. Recent molecular phylogenetic studies gave great challenges to the traditional nematode classification. The new phylogenies not only placed the Nematoda in the Ecdysozoan and divided the phylum into five clades, but also provided new insights into animal molecular identification and phylogenetic biodiversity studies. The present paper reviews major progress and remaining problems in the current molecular phylogenetic studies of Nematoda, and prospects the developmental tendencies of this field.

  3. Marine turtle mitogenome phylogenetics and evolution

    DEFF Research Database (Denmark)

    Duchene, S.; Frey, A.; Alfaro-Núñez, A.;

    2012-01-01

    . Analyses of partial mitochondrial sequences and some nuclear markers have revealed phylogenetic inconsistencies within Cheloniidae, especially regarding the placement of the flatback. Population genetic studies based on D-Loop sequences have shown considerable structuring in species with broad geographic...

  4. TIPP: taxonomic identification and phylogenetic profiling

    Science.gov (United States)

    Nguyen, Nam-phuong; Mirarab, Siavash; Liu, Bo; Pop, Mihai; Warnow, Tandy

    2014-01-01

    Motivation: Abundance profiling (also called ‘phylogenetic profiling’) is a crucial step in understanding the diversity of a metagenomic sample, and one of the basic techniques used for this is taxonomic identification of the metagenomic reads. Results: We present taxon identification and phylogenetic profiling (TIPP), a new marker-based taxon identification and abundance profiling method. TIPP combines SAT\\'e-enabled phylogenetic placement a phylogenetic placement method, with statistical techniques to control the classification precision and recall, and results in improved abundance profiles. TIPP is highly accurate even in the presence of high indel errors and novel genomes, and matches or improves on previous approaches, including NBC, mOTU, PhymmBL, MetaPhyler and MetaPhlAn. Availability and implementation: Software and supplementary materials are available at http://www.cs.utexas.edu/users/phylo/software/sepp/tipp-submission/. Contact: warnow@illinois.edu Supplementary information: Supplementary data are available at Bioinformatics online. PMID:25359891

  5. Phylogenetic relationships in the family Alloherpesviridae

    OpenAIRE

    Waltzek, T.B.; Kelley, G.O.; Alfaro, M.E.; Kurobe, T.; Davison, A J; Hedrick, R.P.

    2009-01-01

    Phylogenetic relationships among herpesviruses (HVs) of mammals, birds, and reptiles have been studied extensively, whereas those among other HVs are relatively unexplored. We have reconstructed the phylogenetic relationships among 13 fish and amphibian HVs using maximum likelihood and Bayesian analyses of amino acid sequences predicted from parts of the DNA polymerase and terminase genes. The relationships among 6 of these viruses were confirmed using the partial DNA polymerase data plus the...

  6. On the analysis of phylogenetically paired designs

    OpenAIRE

    Funk, Jennifer L.; Rakovski, Cyril S; Macpherson, J Michael

    2015-01-01

    As phylogenetically controlled experimental designs become increasingly common in ecology, the need arises for a standardized statistical treatment of these datasets. Phylogenetically paired designs circumvent the need for resolved phylogenies and have been used to compare species groups, particularly in the areas of invasion biology and adaptation. Despite the widespread use of this approach, the statistical analysis of paired designs has not been critically evaluated. We propose a mixed mod...

  7. Consequences of recombination on traditional phylogenetic analysis

    DEFF Research Database (Denmark)

    Schierup, M H; Hein, J

    2000-01-01

    We investigate the shape of a phylogenetic tree reconstructed from sequences evolving under the coalescent with recombination. The motivation is that evolutionary inferences are often made from phylogenetic trees reconstructed from population data even though recombination may well occur (mtDNA or...... recombination leads to a large overestimation of the substitution rate heterogeneity and the loss of the molecular clock. These results are discussed in relation to viral and mtDNA data sets. Udgivelsesdato: 2000-Oct...

  8. Phylogenetic Position of Barbus lacerta Heckel, 1843

    OpenAIRE

    Mustafa Korkmaz

    2015-01-01

    The genus Barbus is characterized by a complex taxonomical structure, due to high number of species and its morphological plasticity; it counts more than 25 species in Europe, displaying different ecological preferences. 21 taxon’s from Barbus genus including Barbus lacerta was used in phylogenetic analysis. Cytochrome oxidase I (COI) gene sequence analysis of Barbus lacerta is presented firstly in this study. A phylogenetic tree (neighbor-joining and maximum likelihood analysis) was reco...

  9. Phylogenetic niche conservatism in C4 grasses.

    Science.gov (United States)

    Liu, Hui; Edwards, Erika J; Freckleton, Robert P; Osborne, Colin P

    2012-11-01

    Photosynthetic pathway is used widely to discriminate plant functional types in studies of global change. However, independent evolutionary lineages of C(4) grasses with different variants of C(4) photosynthesis show different biogeographical relationships with mean annual precipitation, suggesting phylogenetic niche conservatism (PNC). To investigate how phylogeny and photosynthetic type differentiate C(4) grasses, we compiled a dataset of morphological and habitat information of 185 genera belonging to two monophyletic subfamilies, Chloridoideae and Panicoideae, which together account for 90 % of the world's C(4) grass species. We evaluated evolutionary variance and covariance of morphological and habitat traits. Strong phylogenetic signals were found in both morphological and habitat traits, arising mainly from the divergence of the two subfamilies. Genera in Chloridoideae had significantly smaller culm heights, leaf widths, 1,000-seed weights and stomata; they also appeared more in dry, open or saline habitats than those of Panicoideae. Controlling for phylogenetic structure showed significant covariation among morphological traits, supporting the hypothesis of phylogenetically independent scaling effects. However, associations between morphological and habitat traits showed limited phylogenetic covariance. Subfamily was a better explanation than photosynthetic type for the variance in most morphological traits. Morphology, habitat water availability, shading, and productivity are therefore all involved in the PNC of C(4) grass lineages. This study emphasized the importance of phylogenetic history in the ecology and biogeography of C(4) grasses, suggesting that divergent lineages need to be considered to fully understand the impacts of global change on plant distributions. PMID:22569558

  10. Charles Darwin, beetles and phylogenetics

    Science.gov (United States)

    Beutel, Rolf G.; Friedrich, Frank; Leschen, Richard A. B.

    2009-11-01

    . This has changed dramatically. With very large data sets and high throughput sampling, phylogenetic questions can be addressed without prior knowledge of morphological characters. Nevertheless, molecular studies have not lead to the great breakthrough in beetle systematics—yet. Especially the phylogeny of the extremely species rich suborder Polyphaga remains incompletely resolved. Coordinated efforts of molecular workers and of morphologists using innovative techniques may lead to more profound insights in the near future. The final aim is to develop a well-founded phylogeny, which truly reflects the evolution of this immensely species rich group of organisms.

  11. Phylogenetic distribution of fungal sterols.

    Directory of Open Access Journals (Sweden)

    John D Weete

    Full Text Available BACKGROUND: Ergosterol has been considered the "fungal sterol" for almost 125 years; however, additional sterol data superimposed on a recent molecular phylogeny of kingdom Fungi reveals a different and more complex situation. METHODOLOGY/PRINCIPAL FINDINGS: The interpretation of sterol distribution data in a modern phylogenetic context indicates that there is a clear trend from cholesterol and other Delta(5 sterols in the earliest diverging fungal species to ergosterol in later diverging fungi. There are, however, deviations from this pattern in certain clades. Sterols of the diverse zoosporic and zygosporic forms exhibit structural diversity with cholesterol and 24-ethyl -Delta(5 sterols in zoosporic taxa, and 24-methyl sterols in zygosporic fungi. For example, each of the three monophyletic lineages of zygosporic fungi has distinctive major sterols, ergosterol in Mucorales, 22-dihydroergosterol in Dimargaritales, Harpellales, and Kickxellales (DHK clade, and 24-methyl cholesterol in Entomophthorales. Other departures from ergosterol as the dominant sterol include: 24-ethyl cholesterol in Glomeromycota, 24-ethyl cholest-7-enol and 24-ethyl-cholesta-7,24(28-dienol in rust fungi, brassicasterol in Taphrinales and hypogeous pezizalean species, and cholesterol in Pneumocystis. CONCLUSIONS/SIGNIFICANCE: Five dominant end products of sterol biosynthesis (cholesterol, ergosterol, 24-methyl cholesterol, 24-ethyl cholesterol, brassicasterol, and intermediates in the formation of 24-ethyl cholesterol, are major sterols in 175 species of Fungi. Although most fungi in the most speciose clades have ergosterol as a major sterol, sterols are more varied than currently understood, and their distribution supports certain clades of Fungi in current fungal phylogenies. In addition to the intellectual importance of understanding evolution of sterol synthesis in fungi, there is practical importance because certain antifungal drugs (e.g., azoles target reactions in

  12. Jumps and Betas: A New Framework for Disentangling and Estimating Systematic Risks

    DEFF Research Database (Denmark)

    Todorov, Viktor; Bollerslev, Tim

    market portfolio, we find the estimated diffusive and jump betas with respect to the market to be quite dif- ferent for many of the stocks. Our findings have direct and important implications for empirical asset pricing finance and practical portfolio and risk management decisions.......We provide a new theoretical framework for disentangling and estimating sensitivity towards systematic diffusive and jump risks in the context of factor pricing models. Our estimates of the sensitivities towards systematic risks, or betas, are based on the notion of increasingly finer sampled...

  13. Disentangling electronic and vibronic coherences in two-dimensional echo spectra

    CERN Document Server

    Kreisbeck, Christoph; Aspuru-Guzik, Alan

    2013-01-01

    The prevalence of long-lasting oscillatory signals in the 2d echo-spectroscopy of light-harvesting complexes has led to a search for possible mechanisms. We investigate how two causes of oscillatory signals are intertwined: (i) electronic coherences supporting delocalized wave-like motion, and (ii) narrow bands in the vibronic spectral density. To disentangle the vibronic and electronic contributions we introduce a time-windowed Fourier transform of the signal amplitude. We find that 2d spectra can be dominated by excitations of pathways which are absent in excitonic energy transport. This leads to an underestimation of the life-time of electronic coherences by 2d spectra.

  14. Disentangling electronic and vibronic coherences in two-dimensional echo spectra.

    Science.gov (United States)

    Kreisbeck, Christoph; Kramer, Tobias; Aspuru-Guzik, Alán

    2013-08-15

    The prevalence of long-lasting oscillatory signals in two-dimensional (2D) echo spectroscopy of light-harvesting complexes has led to a search for possible mechanisms. We investigate how two causes of oscillatory signals are intertwined: (i) electronic coherences supporting delocalized wavelike motion and (ii) narrow bands in the vibronic spectral density. To disentangle the vibronic and electronic contributions, we introduce a time-windowed Fourier transform of the signal amplitude. We find that 2D spectra can be dominated by excitations of pathways which are absent in excitonic energy transport. This leads to an underestimation of the lifetime of electronic coherences by 2D spectra. PMID:23879880

  15. Antioxidant activities of extracts from Barkleyanthus salicifolius (Asteraceae) and Penstemon gentianoides (Scrophulariaceae).

    Science.gov (United States)

    Domínguez, Mariana; Nieto, Antonio; Marin, Juan C; Keck, Anna-Sigrid; Jeffery, Elizabeth; Céspedes, Carlos L

    2005-07-27

    Various extracts of the aerial parts of Barkleyanthus salicifolius (Asteraceae) and Penstemon gentianoides (Scrophulariaceae) have been used in folk medicine to treat many ailments, particularly inflammation and migraine. Neither the bioactive components responsible nor the mechanisms involved have been evaluated. Here are reported antioxidant activities of their methanol, dichloromethane, and ethyl acetate extracts. Samples were evaluated for oxygen radical absorption capacity (ORAC), ferric reducing antioxidant power (FRAP), 2,2-diphenyl-1-picryl-hydrazyl (DPPH) radical scavenging, and inhibition of the formation of thiobarbituric acid reactive species (TBARS), a measure of lipid peroxidation. Antioxidant activities were strongly correlated with total polyphenol content. The most active extracts from P. gentianoides in scavenging DPPH radicals and inhibiting TBARS formation were the methanol extract (A) and a further ethyl acetate extract of this (E). Partition E was further divided into eight fractions, and both E and the fractions were compared for activity against butylated hydroxytoluene, quercetin, and tocopherol. Partition E and the most active fractions, 5 and 6, were found to have I(50) values of 14.1, 38.6, and 41.8 ppm, respectively, against DPPH and 18.5, 26.0, and 12.7 ppm, respectively, against TBARS formation. Consistent with this finding, partition E and fractions 4-6 had the greatest ORAC and FRAP values. These results show that these plants could be useful antioxidant sources. PMID:16028970

  16. Growth rates, reproductive phenology, and pollination ecology of Espeletia grandiflora (Asteraceae), a giant Andean caulescent rosette.

    Science.gov (United States)

    Fagua, J C; Gonzalez, V H

    2007-01-01

    From March 2001 to December 2002, we studied the reproductive phenology, pollination ecology, and growth rates of Espeletia grandiflora Humb. and Bonpl. (Asteraceae), a giant caulescent rosette from the Páramos of the Eastern Andes of Colombia. Espeletia grandiflora was found to be predominantly allogamous and strongly self-incompatible. Bumblebees (Bombus rubicundus and B. funebris) were the major pollinators of E. grandiflora, although moths, hummingbirds, flies, and beetles also visited flowers. Inflorescence development began in March and continued through August to September. Plants flowered for 30 - 96 days with a peak from the beginning of October through November. The percentage of flowering plants strongly differed among size classes and between both years. Seed dispersal occurred as early as September through May of the following year. The average absolute growth rate for juveniles and adults rate was 7.6 cm/year. Given the scarcity of floral visitors at high altitudes due to climatic conditions, we suggest that even small contributions from a wide range of pollinators might be advantageous for pollination of E. grandiflora. Long-term studies on different populations of E. grandiflora are required to determine if the high growth rates are representative, to quantify the variation in the flowering behavior within and among populations, and to establish if nocturnal pollination is a trait that is exclusive to our population of E. grandiflora. PMID:17066366

  17. Isolation and structural elucidation of secondary metabolites of plants of the families asteraceae and urticaceae

    International Nuclear Information System (INIS)

    A phytochemistry study of plant's species of the Asteraceae and Urticaceae family is proposed in order to isolate and to elucidate the structure of active principles; due to the fact that several studies have found that some of these families have compounds with anti-inflammatory activity, mainly lactonas sesquiterpenicas . The phytochemistry study was carried out through the application of chromatography techniques, for the separation and purification of the compounds. Includes chromatography of column, fine and liquid layer of high resolution. On the other hand, spectroscopic techniques were used for the elucidation, mainly of nuclear magnetic resonance (RMN) as much of one as of two dimensions. In this way, it was possible to isolate 14 compounds in Decachaeta thieleana and 10 in Phenax mexicanus, from which 6 correspond compounds of innovative structure. The comparison of the results obtained in Decachaeta thieleana (with previous studies) evidences that specimens, orphologically identical (the same species, but different locations), possess totally different compounds. This suggests that the studied specimens do not correspond to the same species. However, the determination of such a cause not only evade the objectives of this work but also the area of study of Chemistry

  18. Preliminary Results on the Phytophagous Insect Fauna on Onopordum acanthium (Asteraceae in Bulgaria

    Directory of Open Access Journals (Sweden)

    Vili Harizanova

    2010-01-01

    Full Text Available The Scotch thistle, Onopordum acanthium (Asteraceae has the Eurasian origin and represents an invasive weed in the USA and Australia. It is a serious problem in pastures,along roadsides, rangeland, etc. The weed is very common in Bulgaria and in 2009-2010several sites with large populations of O. acanthium have been located. The weekly surveys of some of the sites, mainly in the region of Plovdiv, revealed a significant diversity of phytophagous insect species, some of which had very high population density.More than 30 species have already been identified and observations on the phenology and biology of some of them have been conducted. For some of the species, such as endophagous Larinus latus, Lixus cardui, Eublemma amoena, Trichosirocalus briesei, or ectophagous Cassida rubiginosa etc. found during our surveys, there are reports in the literature describing them as having been already introduced as successful biocontrol agents in Australia. Endophagous species like lepidopteran Myelois circumvoluta and Pyroderces argyrogrammos which feed on the stems and the head, and the tephritid flies ephritis postica and Chaetostomella cylindrica which feed on the capitula, seem quite destructive for the weed, but need to be further studied regarding host specificity. Species like Vanessacardui and Brachycaudus cardui were found regularly, but in low population density, mainly due to the high rate of parasitism.

  19. Anatomy and ultrastructure of floral nectary of lnula helenium L (Asteraceae

    Directory of Open Access Journals (Sweden)

    Aneta Sulborska

    2011-04-01

    Full Text Available Floral nectaries of Inula helenium L. only occurred in disc florets and were situated above the inferior ovary. The shape of the investigated glands (five-armed star with rounded tips and deep incisions - observed from above clearly differed from the shape of the nectaries of other Asteraceae, also the height of nectary was much lower (129 µm. The glandular tissue of the nectaries of elecampane was composed of a single-layered epidermis and 5--9 layers of secretory cells. Nectar was released through modified stomata, mainly arranged in the top part of the gland. The secretory cells were characterised by granular cytoplasm and the presence of a large, often lobate, cell nucleus. In the cytosol, numerous amoeboid plastids, mitochondria, Golgi bodies and ribosomes were present. In small vacuoles, myelin-like structures, fibrous material and vesicles with the content of substances which can be secretion, were observed. The plastid stroma showed different electron density and the presence of internal tubules and plastoglobules. Vesicular extensions forming bright zones were visible between the membranes of the nuclear envelope. Adjacent to the plasmalemma, as well as between the plasmalemma and the cell wall, secretory vesicles occurred, indicating the granulocrine mechanism of nectar secretion.

  20. Patterns of MADS-box gene expression mark flower-type development in Gerbera hybrida (Asteraceae

    Directory of Open Access Journals (Sweden)

    Teeri Teemu H

    2006-06-01

    Full Text Available Abstract Background The inflorescence of the cut-flower crop Gerbera hybrida (Asteraceae consists of two principal flower types, ray and disc, which form a tightly packed head, or capitulum. Despite great interest in plant morphological evolution and the tractability of the gerbera system, very little is known regarding genetic mechanisms involved in flower type specification. Here, we provide comparative staging of ray and disc flower development and microarray screening for differentially expressed genes, accomplished via microdissection of hundreds of coordinately developing flower primordia. Results Using a 9K gerbera cDNA microarray we identified a number of genes with putative specificity to individual flower types. Intrestingly, several of these encode homologs of MADS-box transcription factors otherwise known to regulate flower organ development. From these and previously obtained data, we hypothesize the functions and protein-protein interactions of several gerbera MADS-box factors. Conclusion Our RNA expression results suggest that flower-type specific MADS protein complexes may play a central role in differential development of ray and disc flowers across the gerbera capitulum, and that some commonality is shared with known protein functions in floral organ determination. These findings support the intriguing conjecture that the gerbera flowering head is more than a mere floral analog at the level of gene regulation.

  1. Polyphenolic-polysaccharide conjugates from plants of Rosaceae/Asteraceae family as potential radioprotectors.

    Science.gov (United States)

    Zbikowska, Halina Malgorzata; Szejk, Magdalena; Saluk, Joanna; Pawlaczyk-Graja, Izabela; Gancarz, Roman; Olejnik, Alicja Klaudia

    2016-05-01

    Polyphenolic-polysaccharide macromolecular, water-soluble glycoconjugates, isolated from the selected medicinal plants of Rosaceae/Asteraceae family: from leaves of Fragaria vesca L., Rubus plicatus Whe. et N. E., and from flowering parts of Sanguisorba officinalis L., and Erigeron canadensis L., were investigated for their ability to protect proteins and lipids of human plasma against γ-radiation-induced oxidative damage. Treatment of plasma with plant conjugates (6, 30, 150μg/ml) prior exposure to 100Gy radiation resulted in a significant inhibition of lipid peroxidation, evaluated by TBARS levels; conjugates isolated from E. canadensis and R. plicatus and a reference flavonoid quercetin showed similar high potential (approx. 70% inhibition, at 6μg/ml). The conjugates prevented radiation-induced oxidation of protein thiols and significantly improved plasma total antioxidant capacity, estimated with Ellman's reagent and ABTS(.+) assay, respectively. The results demonstrate by the first time a significant radioprotective capability of the polyphenolic-polysaccharide conjugates isolated from E. canadensis, R. plicatus, S. officinalis and to the less extent from F. vesca. The abilities of these substances to inhibit radiation-induced lipid peroxidation and thiol oxidation in plasma seems to be mediated, but not limited to ROS scavenging activity. PMID:26848834

  2. Morpho-anatomy and ontogeny of the underground system of Chrysolaena simplex (Less.) Dematt. (Asteraceae).

    Science.gov (United States)

    Santos, Vanessa S; Souza, Vinicius P; Vilhalva, Divina A A; Ferreira, Fernanda P S; Paula, José R; Rezende, Maria Helena

    2016-03-01

    The occurrence of thickened underground systems in Asteraceae is widely reported in the literature. Given the great complexity of underground systems, which may originate from roots, stems, or both, morpho-anatomical analyses are essential to ensure the use of correct terminology. The goals of this study were to describe the morpho-anatomy and ontogeny, investigate the occurrence of secondary metabolites and evaluate the effects of seasonality on the underground system of Chrysolaena simplex (Less.) Dematt. Samples were studied using standard protocols of plant anatomy, scanning electron microscopy, histochemical and phytochemical. The underground system of C. simplex was categorised as a rhizophore which started from cotyledonary node. In adult individuals, with rhizophores completely developed, the primary roots degenerated and adventitious radicular systems are formed. The buds in the subterranean portions promote the rhizophore growing, and form aerial stems when exposed to light. Lipophilic droplets were evident in the parenchymatous cells of the cortex and pith, endodermis and buds. Inulin-type fructans were observed in the stem axis and buds of the rhizophore. The presence of buds, secondary metabolites and the storage of fructans and lipids in the rhizophore can be seen as adaptive traits. PMID:26871494

  3. Evaluation of inflorescence visitors as pollinators of Echinacea angustifolia (Asteraceae): comparison of techniques.

    Science.gov (United States)

    Wist, Tyler J; Davis, Arthur R

    2013-10-01

    Inflorescences (heads or capitula) of the putative self-incompatible species, purple coneflower (Echinacea angustifolia (DC) Cronq. (Asteraceae)), were visited by insects representing the Coleoptera, Diptera, Hymenoptera, and Lepidoptera, in accordance with a generalist pollination syndrome. Measurement of the effectiveness of insect species as pollinators was accomplished by permitting solitary visits to receptive, central disc florets of virgin (previously bagged) heads. Four parameters were quantified: total stigmatic pollen load and proportion of pollen grains germinated, numbers of pollen tubes at style bases, and percentages of total receptive florets that had retracted (shrivelled) styles. Quantifying total and germinated pollen grains proved ineffective, partly owing to the tendency of self-pollen to initiate pollen tubes. The most effective pollinators were Apidae, especially bumble bees (Bombus spp.) and the European honey bee (Apis mellifera L.) (mean: 39 - 61% of styles retracted). Other noteworthy pollinators were cloudless sulfur butterflies (Phoebis sennae L.--Pieridae; mean 47% of style bases with pollen tubes), golden blister beetles (Epicauta ferruginea Say--Meloidae; 44%), and grasshopper bee flies (Systoechus vulgaris Loew--Bombyliidae; 22%). Sunflower leafcutter bees (Megachile pugnata Say) were less effective (4% of styles retracted). Promisingly, analysis of the proportion of retracted styles provided similar results to the established technique of pollen-tube quantification, but had the significant advantages of being completed more rapidly, without a microscope, and in the field. The quantitative technique of retracted-style analysis appears well suited for prompt measurement of inflorescence-visiting insects as pollinators of many asteraceans. PMID:24224247

  4. Cytotoxic and genotoxic activity of Achillea millefolium L., Asteraceae, aqueous extracts

    Directory of Open Access Journals (Sweden)

    Saulo M. Sousa

    2011-02-01

    Full Text Available The yarrow, Achillea millefoilum L. is an important species of Asteraceae family with common utilization in folk medicine of many countries. The aim of this study was to investigate the cytotoxic and genotoxic effects of aqueous extracts from yarrow leaves on Lactuca sativa (lettuce root tip meristem cells by cytogenetic studies, since studies of this nature do not exist for the yarrow extracts. For this, lettuce seeds were treated for 72 h with different concentrations of yarrow aqueous extracts (5, 10, 20 and 30 mg/mL. The percentage of germination, root development and cellular behavior were analyzed and the results showed that the highest concentration of aqueous extracts reduced the mitotic index (MI, the seed germination and the root development of L. sativa. More yet, the extracts also induced chromosome aberrations (CA and cellular death in the roots cells of L. sativa indicating precaution in the therapeutic use of A. millefolium and reinforcing the utilization of L. sativa in the screening of cytogenotoxic substances once that this species showed a good sensibility to the extract application.

  5. Recent assembly of the global herbaceous flora: evidence from the paper daisies (Asteraceae: Gnaphalieae).

    Science.gov (United States)

    Nie, Ze-Long; Funk, Vicki A; Meng, Ying; Deng, Tao; Sun, Hang; Wen, Jun

    2016-03-01

    The global flora is thought to contain a large proportion of herbs, and understanding the general spatiotemporal processes that shaped the global distribution of these communities is one of the most difficult issues in biogeography. We explored patterns of world-wide biogeography in a species-rich herbaceous group, the paper daisy tribe Gnaphalieae (Asteraceae), based on the hitherto largest taxon sampling, a total of 835 terminal accessions representing 80% of the genera, and encompassing the global geographic range of the tribe, with nuclear internal transcribed spacer (ITS) and external transcribed spacer (ETS) sequences. Biogeographic analyses indicate that Gnaphalieae originated in southern Africa during the Oligocene, followed by repeated migrations into the rest of Africa and the Mediterranean region, with subsequent entries into other continents during various periods starting in the Miocene. Expansions in the late Miocene to Pliocene appear to have been the driving force that shaped the global distribution of the tribe as forests were progressively broken up by the mid-continent aridification and savannas and grasslands expanded into the interior of the major continents. This pattern of recent colonizations may explain the world-wide distribution of many other organisms in open ecosystems and it is highlighted here as an emerging pattern in the evolution of the global flora. PMID:26528674

  6. The effects of extraction method on recovery rutin from Calendula officinalis L. (Asteraceae

    Directory of Open Access Journals (Sweden)

    Frederico Severino Martins

    2014-01-01

    Full Text Available Background: Calendula officinalis L. (Asteraceae is a Mediterranean specie, but in Europe and America it is cultivated for ornamental or medicinal purposes. This species is widely used for presenting activities, antiinflammatory antibacterial and antioxidant. However the therapeutic action is linked to the amount of assets of the extracted raw material. The extraction method of bioactive compounds is an important step in the manufacturing of herbal medicines, because secondary metabolites with therapeutic potential are usually found in small quantities in plant materials. Objective: Due the medical and commercial importance of C. officinalis, this study aimed to evaluate the impact of the extraction method on the quality of herbal extract and optimize the extraction of rutin from C. officinalis. Materials and Methods : The extraction of rutin was performed by ultrasound and shaker and the optimized conditions were determined by response surface methodology. Results: The results of ultrasound extraction assisted (UEA and maceration dynamic (MD showed that rutin yield ranged from 0.218 to 2.28% (w/w when extract by ultrasound and 0.1-1.44% by MD. The optimal extraction condition for rutin (2.48% to UEA or 1.46% to MD from C. officinalis by UEA or MD were a 19-22 min extraction, ethanol: water ratio of 35-40% and 0.05-0.056 mg/mL to raw material: solvent ratio. Conclusion: The UEA is more efficient to extraction rutin.

  7. Determinants of extinction in fragmented plant populations: Crepis sancta (Asteraceae) in urban environments.

    Science.gov (United States)

    Dornier, Antoine; Cheptou, Pierre-Olivier

    2012-07-01

    Local populations are subject to recurrent extinctions, and small populations are particularly prone to extinction. Both demographic (stochasticity and the Allee effect) and genetic factors (drift load and inbreeding depression) potentially affect extinction. In fragmented populations, regular dispersal may boost population sizes (demographic rescue effect) or/and reduce the local inbreeding level and genetic drift (genetic rescue effect), which can affect extinction risks. We studied extinction processes in highly fragmented populations of the common species Crepis sancta (Asteraceae) in urban habitats exhibiting a rapid turnover of patches. A four-year demographic monitoring survey and microsatellite genotyping of individuals allowed us to study the determinants of extinction. We documented a low genetic structure and an absence of inbreeding (estimated by multilocus heterozygosity), which suggest that genetic factors were not a major cause of patch extinction. On the contrary, local population size was the main factor in extinction, whereas connectivity was shown to decrease patch extinction, which we interpreted as a demographic rescue effect that was likely due to better pollination services for reproduction. This coupling of demographic and genetic tools highlighted the importance of dispersal in local patch extinctions of small fragmented populations connected by gene flow. PMID:22200853

  8. Effects of Pterocaulon polystachyum DC. (Asteraceae on onion (Allium cepa root-tip cells

    Directory of Open Access Journals (Sweden)

    Michelle Frainer Knoll

    2006-01-01

    Full Text Available In Brazil leaf infusions of the plant Pterocaulon polystachyum DC (Asteraceae are used to treat digestive problems. We used plants from six P. polystachyum populations to prepare fresh aqueous leaf infusions at the concentration normally used in Brazil (2.5 g L-1 and at twice (5 g L-1 and four times (10 g L-1 this concentration. We rooted onion bulbs in a water control or one of the infusions for 24 h and used the in vivo onion (Allium cepa root-tip cell test to investigate the potential mutagenicity of the infusions by calculating the mitotic index for the control and the experimental treatments and comparing them using the Chi-squared test (chi2, p = 0.05. There was a highly significant decrease in the mitotic index of root-tip cells treated with infusion as compared to those exposed to water only. These results indicate that P. polystachyum infusions present cytotoxic and anti-proliferative activity and therefore have therapeutic potential.

  9. Control of Three Stored−Product Beetles with Artemisia haussknechtii (Boiss (Asteraceae Essential Oil

    Directory of Open Access Journals (Sweden)

    Seyed Mehdi Hashemi

    2012-12-01

    Full Text Available Fumigant toxicity of the essential oil of aerial parts from Artemisia haussknechtii (Boiss (Asteraceae was investigated against the cowpea weevil Callosobruchus maculatus (Fab., the rice weevil Sitophilus oryzae (L., and the red flour beetle Tribolium castaneum (Herbst. Dry ground plants were subjected to hydro−distillation using a Clevenger−type apparatus and the chemical composition of the volatile oil was studied by gas chromatography−mass spectrometry (GC−MS. The major components of the oil were camphor (29.24%, 1, 8−cineol (27.62%, yomogi alcohol (5.23%, and camphene (4.80%. The essential oil in same concentrations was assayed against (1−7 days old adults of insect species and percentage mortality was recorded after 24, 48, and 72 h exposure times. LC50 values were varied between 19.84 and 103.59 μL L-1 air, depending on insect species and exposure time. Callosobruchus maculatus was more susceptible than other species. These results suggested that A. haussknechtii oil might have potential as a control agent against C. maculatus, S. oryzae and T. castaneum.

  10. The Anthelmintic Activity of Vernonia Amygdalina (Asteraceae and Alstonia Boonei De Wild (Apocynaceae

    Directory of Open Access Journals (Sweden)

    Ketor, E.C.

    2012-01-01

    Full Text Available Intestinal worms affect a host of individuals resulting in malnutrition, stunted growth, intellectual retardation and cognitive deficits. The aim of this study is to investigate the antihelminthic activity of Alstonia boonei De Wild (Apocynaceae and Vernonia amygdalina (Asteraceae using earth-worms (Lumbricus terretris. The worms were directly exposed to 50, 100, and 200 mg/ml of aque-ous and ethanolic bark extracts of Alstonia boonei and leaf extract of Vernonia amygdalina and piperazine citrate in a petri dish and in an organ bath. The control group was exposed to distilled water. The time of paralysis and death were determined within a period of 6 h in the petri dish method whiles spontaneous movements of the worms before and after drug administration were recorded on a slow moving kymograph drum in the organ bath method. All doses of the aqueous and ethanolic extracts significantly (P ≤ 0.001 reduced the time of paralysis and time of death compared to the vehicle treated group. The time of paralysis and time of death in the tissue bath method corresponded to that obtained by direct exposure. The extracts exhibited anthelmintic ac-tivity and thus could be an inexpensive and readily available source of anthelmintic treatment.

  11. Polyphenolic content and antioxidant activity of some wild Saudi Arabian asteraceae plants

    Institute of Scientific and Technical Information of China (English)

    Abdelaaty A Shahat; Abeer Y Ibrahim; Mansour S Elsaid

    2014-01-01

    Objective:To study the antioxidant properties of crude extract of differentAsteraceae plants. Methods:The antioxidant properties of six extracts were evaluated using different antioxidant tests, including free radical scavenging, reducing power, metal chelation, superoxide anion radical scavenging, total antioxidant capacity and inhibition of lipid peroxidation activities.Results:Picris cyanocarpa(P. cyanocarpa) andAnthemis deserti(A. deserti) had powerful antioxidant properties as radical scavenger, reducing agent and superoxide anion radical scavenger while Achillia fragrantissima(A. fragrantissima) andArtemissia monosperma(A. monosperma) were the most efficient as ion chelator(100% at100,200 and400 μg/mL)A. fragrantissima and Rhantarium appoposum(R. appoposum) showed100% inhibition on peroxidation of linoleic acid emulsion at200 and400 μg/mL, while butylatedhydroxy toluene and ascorbic acid showed100 and95% inhibition percentage at400 μg/mL, respectively.Those various antioxidant activities were compared to standard antioxidants such as butylated hydroxyl toluene and ascorbic acid. Conclusions:In most testsP. cyanocarpa andA. deserti had powerful antioxidant properties as radical scavenger, reducing agent and superoxide anion radical scavenger.

  12. Estudio de la propagación sexual del arboloco Montanoa quadrangularis Schultz Bipontianus Asteraceae

    Directory of Open Access Journals (Sweden)

    William Escobar-Torres

    2010-04-01

    Full Text Available Sexual propagation of arboloco Montanoa quadrangularis Schultz Bipontianus (Asteraceae. Objective. To develop sexual propagationmethodologies for Montanoa quadrangularis Schultz Bipontianus (arboloco. Materials and methods. Seeds were harvested from treesgrown at the Chilaca environmental station (Geoambiente Ltda. located in Pacho, Cundinamarca, Colombia. The study was carried out intwo phases: firstly, substrate effect on germination responses was evaluated in seedbed conditions. Substrates evaluated were: local soil,local soil mixed with worm humus, and peat. Additionally, two spatial arrangements were assessed: seeds sown at random and at 0.5 cmin depth. Secondly, in nursery conditions the effect of the substrates local soil, local soil mixed with worm humus and peat, as well as theeffect of developmental stages of the plants (with 2, 4, and 6 leaves on their further growth and development were evaluated. Results. Inseedbed conditions, the germination capacity was highly influenced by peat substrate (83.67% whereas in local soil the germinationcapacity was 40.83%. In nursery conditions, 6-leaf plants grown in local soil mixed with worm humus showed the best responses onparameters such as plant total length (9.51 cm, leaf area (36.69 cm2, and total dry weight (0.10 g. Conclusions. The type of substrateused in seedbed conditions influenced the germination capacity of M. quadrangularis seeds. The substrate and the developmental stage ofthe plant had a significant influence on the growth and development of arboloco plants.

  13. Disentanglement time of the crystallites in RPDM irradiated with a low neutron flux

    International Nuclear Information System (INIS)

    Electrical insulators of organic type are composed by a rigid nucleus of some type of epoxy resin and for a housing commonly made of EPDM (ethylene-propylene-diene monomer). In the electrical industry, organic insulators with housings made of different kinds of rubber have been employed since more than 20 years in high voltage transmission lines. However, the mechanisms of deterioration of the rubber are still unclear. In fact the progressive deterioration can to produce the unexpected failure of the material. The wide range of mechanical and electrical properties achieved by the polymers cannot be obtained with other type of material. Organic insulators have the advantages of low density, easy handling and good resistance to vandalism. However, environmental agents can damage them. In fact, rain, dust deposition, corona effect and ultraviolet radiation, among others, deteriorate the quality of the polymeric housing employed as watersheds. In the present work we analyse the disentanglement of the crystalline phase in the EPDM by means of the application of an electro-rheological model, recently published. We have performed dynamical mechanical analysis in EPDM samples obtained from commercial insulators. Samples were checked under different doses of irradiation with a low neutron flux. Irradiated sample with the largest crystalline degree exhibits the smallest relaxation time. Cross-linking process developed during the irradiation would appear to have a small effect on the disentanglement of crystals, in contrast to the chain-scission process. (author)

  14. Morphological and molecular convergences in mammalian phylogenetics.

    Science.gov (United States)

    Zou, Zhengting; Zhang, Jianzhi

    2016-01-01

    Phylogenetic trees reconstructed from molecular sequences are often considered more reliable than those reconstructed from morphological characters, in part because convergent evolution, which confounds phylogenetic reconstruction, is believed to be rarer for molecular sequences than for morphologies. However, neither the validity of this belief nor its underlying cause is known. Here comparing thousands of characters of each type that have been used for inferring the phylogeny of mammals, we find that on average morphological characters indeed experience much more convergences than amino acid sites, but this disparity is explained by fewer states per character rather than an intrinsically higher susceptibility to convergence for morphologies than sequences. We show by computer simulation and actual data analysis that a simple method for identifying and removing convergence-prone characters improves phylogenetic accuracy, potentially enabling, when necessary, the inclusion of morphologies and hence fossils for reliable tree inference. PMID:27585543

  15. Análise de amostras de flores de Calêndula (Calendula officinalis L., Asteraceae) comercializadas na grande Curitiba

    OpenAIRE

    Lais Mondadori Otramario Santos; Luciana Aparecida de Oliveira; Eliane Patrícia Sichinel Tibulo; Cristina Peitz de Lima

    2015-01-01

    A espécie Calendula officinalis L. é uma planta herbácea pertencente à família Asteraceae, suas flores apresentam propriedades antimicrobianas, emolientes, antiinflamatórias e tonificantes da pele. Os flavonoides são utilizados como marcadores para avaliar a qualidade da droga vegetal. O objetivo do presente trabalho foi avaliar a identidade e qualidade de seis amostras de flores de C. officinalis L. comercializadas na Grande Curitiba (PR). Foram realizados os ensaios de identificação macrosc...

  16. Novel anthraquinone derivatives produced by Phoma sorghina, an endophyte found in association with the medicinal plant Tithonia diversifolia (Asteraceae)

    Energy Technology Data Exchange (ETDEWEB)

    Borges, Warley de Souza; Pupo, Monica Tallarico [Sao Paulo Univ., Ribeirao Preto, SP (Brazil). Faculdade de Ciencias Farmaceuticas]. E-mail: mtpupo@fcfrp.usp.br

    2006-09-15

    Three known anthraquinones (1,7-dihydroxy-3-methyl-9,10-anthraquinone, 1,6-dihydroxy- 3-methyl-9,10-anthraquinone and 1-hydroxy-3-methyl-9,10-anthraquinone), one new anthraquinone (1,7-dihydroxy-3-hydroxymethyl-9,10-anthraquinone), and two new hexahydro anthraquinone derivatives, dendryols E and F, were isolated from the culture of the endophytic fungus Phoma sorghina, found in association with Tithonia diversifolia (Asteraceae). Their structures were identified on the basis of spectroscopic data, mainly 1D and 2D NMR. (author)

  17. Morfoanatomia do eixo vegetativo aéreo de Ayapana triplinervis (Vahl) R.M. King & H. Rob. (Asteraceae)

    OpenAIRE

    M.I.S. Nery; R.C.V. Potiguara; T.Y.S. Kikuchi; T.B. Garcia; A.L.F.A. Lins

    2014-01-01

    Ayapana triplinervis (Asteraceae) é uma erva medicinal da Amazônia conhecida como "Japana branca" e "Japana roxa" utilizada como tônico, digestivo, antidiarréico dentre outros. Objetivou-se caracterizar neste estudo a morfoanatomia caulinar e foliar de A. triplinervis, para corroborar se esta espécie apresenta morfotipos, além de fornecer dados para sua identificação. Amostras foram coletadas no Horto de Plantas Medicinais da Universidade Federal Rural da Amazônia e Embrapa Amazônia Oriental,...

  18. Genetics of colonization in Hypochaeris tenuifolia (Asteraceae, Lactuceae) on Volcán Lonquimay, Chile.

    Science.gov (United States)

    Tremetsberger, K; Stuessy, T F; Samuel, R M; Baeza, C M; Fay, M F

    2003-10-01

    Understanding the genetics of colonizing populations has been, and continues to remain, an important focus in evolutionary biology. Different theoretical models predict varying levels of genetic variation in colonizing populations depending upon strength of founder effect, gene flow and rate of population growth and immigration following colonization. We analyse overall genetic variation using amplified fragment length polymorphism markers in colonizing populations of Hypochaeris tenuifolia (Asteraceae) in the southern Andes. Volcán Lonquimay newly erupted on 25 December 1988, producing a side cone, La Navidad, and sent lava and ash into surrounding areas. Many domesticated animals (estimated at 10 000) and many natural plant populations were destroyed. Into this new open habitat have come immigrant populations of several angiosperm species, most conspicuously H. tenuifolia that forms leaf rosettes with flowering scapes to 15 cm and orange-yellow heads 1-2 cm in diameter. Genetic diversity in five founder populations in the eruption zone is compared with that from five nearby survivor populations, as well as with eight isolated northern and four southern populations from throughout the entire range of the species in Chile. Results from 477 individuals representing 447 different multilocus phenotypes, yielded 170 DNA fragments of which 144 (85%) were polymorphic. Genetic diversity within founder populations is neither lower than in survivor populations nor in isolated populations throughout the range of the species, but it is lower among founder populations than among other populations immediately and distantly outside the zone of disturbance. Closest genetic similarity occurs between founders and nearby survivor populations as well as those in adjacent southern regions. PMID:12969468

  19. Chemical constituents of Papulaspora immersa, an endophyte from Smallanthus sonchifolius (Asteraceae), and their cytotoxic activity.

    Science.gov (United States)

    Gallo, Margareth Borges Coutinho; Cavalcanti, Bruno Coêlho; Barros, Francisco Washington Araújo; Odorico de Moraes, Manoel; Costa-Lotufo, Letícia Veras; Pessoa, Cláudia; Bastos, Jairo Kenupp; Pupo, Mônica Tallarico

    2010-12-01

    Papulaspora immersa H. H. Hotson was isolated from roots and leaves of Smallanthus sonchifolius (Poepp. and Endl.) H. Rob. (Asteraceae), traditionally known as Yacon. The fungus was cultured in rice, and, from the AcOEt fraction, 14 compounds were isolated. Among them, (22E,24R)-8,14-epoxyergosta-4,22-diene-3,6-dione (4), 2,3-epoxy-1,2,3,4-tetrahydronaphthalene-c-1,c-4,8-triol (10), and the chromone papulasporin (13) were new secondary metabolites. The spectral data of the known natural products were compared with the literature data, and their structures were established as the (24R)-stigmast-4-en-3-one (1), 24-methylenecycloartan-3β-ol (2), (22E,24R)-ergosta-4,6,8(14),22-tetraen-3-one (3), (-)-(3R,4R)-4-hydroxymellein (5), (-)-(3R)-5-hydroxymellein (6), 6,8-dihydroxy-3-methylisocoumarin (7), (-)-(4S)-4,8-dihydroxy-α-tetralone (8), naphthalene-1,8-diol (9), 6,7,8-trihydroxy-3-methylisocoumarin (11), 7-hydroxy-2,5-dimethylchromone (12), and tyrosol (14). Compound 4 showed the highest cytotoxic activity against the human tumor cell lines MDA-MB435 (melanoma), HCT-8 (colon), SF295 (glioblastoma), and HL-60 (promyelocytic leukemia), with IC₅₀ values of 3.3, 14.7, 5.0 and 1.6 μM, respectively. Strong synergistic effects were also observed with compound 5 and some of the isolated steroidal compounds. PMID:21162007

  20. Effects of origin, seasons and storage under different temperatures on germination of Senecio vulgaris (Asteraceae) seeds.

    Science.gov (United States)

    Ndihokubwayo, Noel; Nguyen, Viet-Thang; Cheng, Dandan

    2016-01-01

    Invasive plants colonize new environments, become pests and cause biodiversity loss, economic loss and health damage. Senecio vulgaris L. (Common groundsel, Asteraceae), a widely distributing cosmopolitan weed in the temperate area, is reported with large populations in the north-eastern and south-western part, but not in southern, central, or north-western parts of China. We studied the germination behavior of S. vulgaris to explain the distribution and the biological invasion of this species in China. We used seeds originating from six native and six invasive populations to conduct germination experiments in a climate chamber and under outdoor condition. When incubated in a climate chamber (15 °C), seeds from the majority of the populations showed >90% germination percentage (GP) and the GP was equal for seeds with a native and invasive origin. The mean germination time (MGT) was significantly different among the populations. Under outdoor conditions, significant effects of origin, storage conditions (stored at 4 °C or ambient room temperature, ca. 27 °C) and seasons (in summer or autumn) were observed on the GP while the MGT was only affected by the season. In autumn, the GP (38.6%) was higher and the MGT was slightly longer than that in summer. In autumn, seeds stored at 4 °C showed higher GP than those stored at ambient room temperature (ca.27 °C), and seeds from invasive populations revealed higher GP than those from native populations. The results implied that the high temperature in summer has a negative impact on the germination and might cause viability loss or secondary dormancy to S. vulgaris seeds. Our study offers a clue to exploring what factor limits the distribution of S. vulgaris in China by explaining why, in the cities in South-East China and central China such as Wuhan, S. vulgaris cannot establish natural and viable populations. PMID:27602303

  1. Diversity of pyrrolizidine alkaloids in native and invasive Senecio pterophorus (Asteraceae): implications for toxicity.

    Science.gov (United States)

    Castells, Eva; Mulder, Patrick P J; Pérez-Trujillo, Míriam

    2014-12-01

    Changes in plant chemical defenses after invasion could have consequences on the invaded ecosystems by modifying the interactions between plants and herbivores and facilitating invasion success. However, no comprehensive biogeographical studies have yet determined the phenotypic levels of plant chemical defenses, as consumed by local herbivores, covering large distributional areas of a species. Senecio pterophorus is a perennial shrub native to Eastern South Africa, expanded into Western South Africa and introduced into Australia and Europe. As other Asteraceae, S. pterophorus contains pyrrolizidine alkaloids (PAs) toxic to vertebrate and invertebrate herbivores. Here we analyzed S. pterophorus PAs by LC-MS/MS on foliage sampled across its entire distributional range, including the native and all non-native areas. PA concentrations and diversity was very high: we found 57 compounds belonging to 6 distinct necine base-types, including the highly toxic 1,2-unsaturated PAs (retronecine and otonecines) and the less toxic 1,2-saturated PAs (platynecine and rosmarinecines). Plants from different origins diverged in their PA absolute and relative concentrations. Rosmarinine was the most abundant compound in Australia and South Africa, but it was nearly absent in Europe. We characterized three plant chemotypes: retrorsine-senkirkine chemotype in Eastern South Africa, rosmarinine chemotype in Australia and Western South Africa, and acetylseneciphylline chemotype in Europe. PA absolute concentrations were highest in Australia. The increased absolute and relative concentrations of retronecine PAs from Australia and Europe, respectively, indicate that S. pterophorus is potentially more toxic in the invasive range than in the native range. PMID:25269662

  2. Quantum control of finite-time disentanglement in qubit-qubit and qubit-qutrit systems

    Energy Technology Data Exchange (ETDEWEB)

    Ali, Mazhar

    2009-07-13

    This thesis is a theoretical study of entanglement dynamics and its control of qubit-qubit and qubit-qutrit systems. In particular, we focus on the decay of entanglement of quantum states interacting with dissipative environments. Qubit-qubit entanglement may vanish suddenly while interacting with statistically independent vacuum reservoirs. Such finite- time disentanglement is called sudden death of entanglement (ESD). We investigate entanglement sudden death of qubit-qubit and qubit-qutrit systems interacting with statistically independent reservoirs at zero- and finite-temperature. It is shown that for zero-temperature reservoirs, some entangled states exhibit sudden death while others lose their entanglement only after infinite time. Thus, there are two possible routes of entanglement decay, namely sudden death and asymptotic decay. We demonstrate that starting with an initial condition which leads to finite-time disentanglement, we can alter the future course of entanglement by local unitary actions. In other words, it is possible to put the quantum states on other track of decay once they are on a particular route of decay. We show that one can accelerate or delay sudden death. However, there is a critical time such that if local actions are taken before that critical time then sudden death can be delayed to infinity. Any local unitary action taken after that critical time can only accelerate or delay sudden death. In finite-temperature reservoirs, we demonstrate that a whole class of entangled states exhibit sudden death. This conclusion is valid if at least one of the reservoirs is at finite-temperature. However, we show that we can still hasten or delay sudden death by local unitary transformations up to some finite time. We also study sudden death for qubit-qutrit systems. Similar to qubit-qubit systems, some states exhibit sudden death while others do not. However, the process of disentanglement can be effected due to existence of quantum interference

  3. Disentangling the ICL with the CHEFs in the Pandora galaxy cluster

    Science.gov (United States)

    Jimenez-Teja, Yolanda; Dupke, Renato A.

    2016-01-01

    The intracluster light (ICL) is important for understanding the metal enrichment of the intracluster gas and constraining cosmological parameters independently of the other methods. However, its measurement it is not trivial due to the necessity of disentangling the light of stars locked up in galaxies from the proper ICL. Currently, there is no standard method to efficiently measure the ICL (Rudick et al. 2011, ApJ, 732, 48), and different approaches relying on the binding energy of the cluster galaxies, the density of the material, or the surface brightness distribution, have been tried. Moreover, a suitable way to disentangle the limits of the brightest cluster galaxy (BCG) and the ICL still has not been developed.The CHEFs (from Chebyshev-Fourier bases, Jiménez-Teja & Benítez 2012, ApJ, 745, 150) are a mathematical tool especially designed to model the two-dimensional light distribution of galaxies. We use the CHEFs and tools from differential geometry to infer the light contribution of the ICL to the total brightness, without imposing any artificial thresholds and avoiding the ambiguity introduced by free parameters that are usually set in these studies (Rudick et al. 2011).We use the extremely deep optical images from Abell 2744, the Pandora cluster, a multi-cluster merger, observed by the Hubble Frontier Fields project to show the efficiency of this new method. The CHEFs can accurately fit and remove all the galaxies close to the cluster center, including the BCG. The limits of the BCG are marked out by determining the points where the surface curvature changes, thus disentangling the ICL from the BCG light in a completely natural way. Once we have the residual image just containing ICL and background, we extrapolate the value of this latter from images of individual pointings close to the main Pandora field. We finally estimate the ICL to be ~24% of the total light, which is very consistent with the predictions from numerical simulations (Montes

  4. Teaching Effectiveness Research in the Past Decade: The Role of Theory and Research Design in Disentangling Meta-Analysis Results

    Science.gov (United States)

    Seidel, Tina; Shavelson, Richard J.

    2007-01-01

    This meta-analysis summarizes teaching effectiveness studies of the past decade and investigates the role of theory and research design in disentangling results. Compared to past analyses based on the process-product model, a framework based on cognitive models of teaching and learning proved useful in analyzing studies and accounting for…

  5. Phylogenetic Memory of Developing Mammalian Dentition

    Czech Academy of Sciences Publication Activity Database

    Peterková, Renata; Lesot, H.; Peterka, Miroslav

    2006-01-01

    Roč. 306, č. 3 (2006), s. 234-250. ISSN 1552-5007 R&D Projects: GA ČR GA304/05/2665; GA MŠk OC B23.002 Institutional research plan: CEZ:AV0Z50390512 Keywords : Phylogenetic Memory Subject RIV: EB - Genetics ; Molecular Biology Impact factor: 2.756, year: 2006

  6. DNA barcoding and phylogenetic relationships in Timaliidae.

    Science.gov (United States)

    Huang, Z H; Ke, D H

    2015-01-01

    The Timaliidae, a diverse family of oscine passerine birds, has long been a subject of debate regarding its phylogeny. The mitochondrial cytochrome c oxidase subunit I (COI) gene has been used as a powerful marker for identification and phylogenetic studies of animal species. In the present study, we analyzed the COI barcodes of 71 species from 21 genera belonging to the family Timaliidae. Every bird species possessed a barcode distinct from that of other bird species. Kimura two-parameter (K2P) distances were calculated between barcodes. The average genetic distance between species was 18 times higher than the average genetic distance within species. The neighbor-joining method was used to construct a phylogenetic tree and all the species could be discriminated by their distinct clades within the phylogenetic tree. The results indicate that some currently recognized babbler genera might not be monophyletic, with the COI gene data supporting the hypothesis of polyphyly for Garrulax, Alcippe, and Minla. Thus, DNA barcoding is an effective molecular tool for Timaliidae species identification and phylogenetic inference. PMID:26125793

  7. Phylogenetic and phylogenomic overview of the Polyporales.

    Science.gov (United States)

    Binder, Manfred; Justo, Alfredo; Riley, Robert; Salamov, Asaf; Lopez-Giraldez, Francesc; Sjökvist, Elisabet; Copeland, Alex; Foster, Brian; Sun, Hui; Larsson, Ellen; Larsson, Karl-Henrik; Townsend, Jeffrey; Grigoriev, Igor V; Hibbett, David S

    2013-01-01

    We present a phylogenetic and phylogenomic overview of the Polyporales. The newly sequenced genomes of Bjerkandera adusta, Ganoderma sp., and Phlebia brevispora are introduced and an overview of 10 currently available Polyporales genomes is provided. The new genomes are 39 500 000-49 900 00 bp and encode for 12 910-16 170 genes. We searched available genomes for single-copy genes and performed phylogenetic informativeness analyses to evaluate their potential for phylogenetic systematics of the Polyporales. Phylogenomic datasets (25, 71, 356 genes) were assembled for the 10 Polyporales species with genome data and compared with the most comprehensive dataset of Polyporales to date (six-gene dataset for 373 taxa, including taxa with missing data). Maximum likelihood and Bayesian phylogenetic analyses of genomic datasets yielded identical topologies, and the corresponding clades also were recovered in the 373-taxa dataset although with different support values in some datasets. Three previously recognized lineages of Polyporales, antrodia, core polyporoid and phlebioid clades, are supported in most datasets, while the status of the residual polyporoid clade remains uncertain and certain taxa (e.g. Gelatoporia, Grifola, Tyromyces) apparently do not belong to any of the major lineages of Polyporales. The most promising candidate single-copy genes are presented, and nodes in the Polyporales phylogeny critical for the suprageneric taxonomy of the order are identified and discussed. PMID:23935031

  8. Genomic repeat abundances contain phylogenetic signal

    Czech Academy of Sciences Publication Activity Database

    Dodsworth, S.; Chase, M.W.; Kelly, L.J.; Leitch, I.J.; Macas, Jiří; Novák, Petr; Piednoël, M.; Weiß-Schneeweiss, H.; Leitch, A.R.

    2015-01-01

    Roč. 64, č. 1 (2015), s. 112-126. ISSN 1063-5157 R&D Projects: GA ČR GBP501/12/G090 Institutional support: RVO:60077344 Keywords : Repetitive DNA * continuous characters * genomics * next-generation sequencing * phylogenetics Subject RIV: EB - Genetics ; Molecular Biology Impact factor: 14.387, year: 2014

  9. Phylogenetic Relationships and Biogeographic History of Iriarteeae

    DEFF Research Database (Denmark)

    Bacon, Christine D.; Florez, Alexander; Balslev, Henrik;

    sequence data for 11 loci (5 chloroplast and 6 nuclear) to reconstruct a coalescent species tree and infer relationships amongst genera and species to, in turn, allow for tests of biogeography and community phylogenetics in the tribe. Our results define inter-generic relationships and resolve all genera as...

  10. Disentangling Scale Approaches in Governance Research: Comparing Monocentric, Multilevel, and Adaptive Governance

    Directory of Open Access Journals (Sweden)

    Maartje van. Lieshout

    2010-12-01

    Full Text Available The question of how to govern the multiscale problems in today's network society is an important topic in the fields of public administration, political sciences, and environmental sciences. How scales are defined, studied, and dealt with varies substantially within and across these fields. This paper aims to reduce the existing conceptual confusion regarding scales by disentangling three representative approaches that address both governance and scaling: monocentric governance, multilevel governance, and adaptive governance. It does so by analyzing the differences in (1 underlying views on governing, (2 assumptions about scales, (3 dominant problem definitions regarding scales, and (4 preferred responses for dealing with multiple scales. Finally, this paper identifies research opportunities within and across these approaches.

  11. Disentanglement, Bell-nonlocality violation and teleportation capacity of the decaying tripartite states

    International Nuclear Information System (INIS)

    Dynamics of disentanglement as measured by the tripartite negativity and Bell nonlocality as measured by the extent of violation of the multipartite Bell-type inequalities are investigated in this work. It is shown definitively that for the initial three-qubit Greenberger–Horne–Zeilinger (GHZ) or W class state preparation, the Bell nonlocality suffers sudden death under the influence of thermal reservoirs. Moreover, all the Bell-nonlocal states are useful for nonclassical teleportation, while there are entangled states that do not violate any Bell-type inequalities, but still yield nonclassical teleportation fidelity. - Highlights: ► Comparison of different aspects of quantum correlations. ► Robustness of the initial tripartite GHZ and W class states against decoherence. ► Bell-nonlocality sudden death under the influence of thermal reservoir. ► A nonzero minimum tripartite negativity is needed for nonclassical teleportation. ► All the Bell-nonlocal states yield nonclassical teleportation fidelity.

  12. Disentangling bulk from surface contributions in the electronic structure of black phosphorus

    Science.gov (United States)

    Golias, E.; Krivenkov, M.; Sánchez-Barriga, J.

    2016-02-01

    Most recently, black phosphorus has come into focus as a promising material for future applications in nanoelectronic devices due to its unique electronic and transport properties. Here, we use angle-resolved photoemission spectroscopy in conjunction with ab initio calculations within the framework of density-functional theory to disentangle surface from the bulk contributions in the electronic structure of black phosphorus. We find good agreement between our theoretical predictions for the intra- and interlayer energy-momentum dispersions and the experimentally obtained three-dimensional band structure of this material. Our results provide compelling evidence for the existence of surface-resonant states near the top of the valence band, which can play an important role in the performance of electronic devices based on black phosphorus.

  13. Exact computation and large angular momentum asymptotics of 3nj symbols: Semiclassical disentangling of spin networks

    International Nuclear Information System (INIS)

    Spin networks, namely, the 3nj symbols of quantum angular momentum theory and their generalizations to groups other than SU(2) and to quantum groups, permeate many areas of pure and applied science. The issues of their computation and characterization for large values of their entries are a challenge for diverse fields, such as spectroscopy and quantum chemistry, molecular and condensed matter physics, quantum computing, and the geometry of space time. Here we record progress both in their efficient calculation and in the study of the large j asymptotics. For the 9j symbol, a prototypical entangled network, we present and extensively check numerically formulas that illustrate the passage to the semiclassical limit, manifesting both the occurrence of disentangling and the discrete-continuum transition.

  14. Disentangling type 2 diabetes and metformin treatment signatures in the human gut microbiota

    DEFF Research Database (Denmark)

    Forslund, Kristoffer; Hildebrand, Falk ; Nielsen, Trine N.;

    2015-01-01

    the microbiota, which may obscure microbial causes, protective factors or diagnostically relevant signals. Our study addresses disease and drug signatures in the human gut microbiome of type 2 diabetes mellitus (T2D). Two previous quantitative gut metagenomics studies of T2D patients that were......In recent years, several associations between common chronic human disorders and altered gut microbiome composition and function have been reported1,2. In most of these reports, treatment regimens were not controlled for and conclusions could thus be confounded by the effects of various drugs on...... metformin treatment, we report a unified signature of gut microbiome shifts in T2D with a depletion of butyrate-producing taxa3,4. These in turn cause functional microbiome shifts, in part alleviated by metformin-induced changes. Overall, the present study emphasizes the need to disentangle gut microbiota...

  15. Disentangling genetic and environmental risk factors for individual diseases from multiplex comorbidity networks

    CERN Document Server

    Klimek, Peter; Thurner, Stefan

    2016-01-01

    Most disorders are caused by a combination of multiple genetic and/or environmental factors. If two diseases are caused by the same molecular mechanism, they tend to co-occur in patients. Here we provide a quantitative method to disentangle how much genetic or environmental risk factors contribute to the pathogenesis of 358 individual diseases, respectively. We pool data on genetic, pathway-based, and toxicogenomic disease-causing mechanisms with disease co-occurrence data obtained from almost two million patients. From this data we construct a multilayer network where nodes represent disorders that are connected by links that either represent phenotypic comorbidity of the patients or the involvement of a certain molecular mechanism. From the similarity of phenotypic and mechanism-based networks for each disorder we derive measure that allows us to quantify the relative importance of various molecular mechanisms for a given disease. We find that most diseases are dominated by genetic risk factors, while envir...

  16. 3D Coincidence Imaging Disentangles Intense Field Double Detachment of SF6(–).

    Science.gov (United States)

    Kandhasamy, Durai Murugan; Albeck, Yishai; Jagtap, Krishna; Strasser, Daniel

    2015-07-23

    The efficient intense field double detachment of molecular anions observed in SF6(–) is studied by 3D coincidence imaging of the dissociation products. The dissociation anisotropy and kinetic energy release distributions are determined for the energetically lowest double detachment channel by virtue of disentangling the SF5(+) + F fragmentation products. The observed nearly isotropic dissociation with respect to the linear laser polarization and surprisingly high kinetic energy release events suggest that the dissociation occurs on a highly excited state. Rydberg (SF6(+))* states composed of a highly repulsive dication core and a Rydberg electron are proposed to explain the observed kinetic energy release, accounting also for the efficient production of all possible cationic fragments at equivalent laser intensities. PMID:26098224

  17. Functional trait composition of aquatic plants can serve to disentangle multiple interacting stressors in lowland streams.

    Science.gov (United States)

    Baattrup-Pedersen, Annette; Göthe, Emma; Riis, Tenna; O'Hare, Matthew T

    2016-02-01

    Historically, close attention has been paid to negative impacts associated with nutrient loads to streams and rivers, but today hydromorphological alterations are considered increasingly implicated when lowland streams do not achieve good ecological status. Here, we explore if trait-abundance patterns of aquatic plants change along gradients in hydromorphological degradation and eutrophication in lowland stream sites located in Denmark. Specifically, we hypothesised that: i) changes in trait-abundance patterns occur along gradients in hydromorphological degradation and ii) trait-abundance patterns can serve to disentangle effects of eutrophication and hydromorphological degradation in lowland streams reflecting that the mechanisms behind changes differ. We used monitoring data from a total of 147 stream reaches with combined data on aquatic plant species abundance, catchment land use, hydromorphological alterations (i.e. planform, cross section, weed cutting) and water chemistry parameters. Traits related to life form, dispersal, reproduction and survival together with ecological preference values for nutrients and light (Ellenberg N and L) were allocated to 41 species representing 79% of the total species pool. We found clear evidence that habitat degradation (hydromorphological alterations and eutrophication) mediated selective changes in the trait-abundance patterns of the plant community. Specific traits could distinguish hydromorphological degradation (free-floating, surface; anchored floating leaves; anchored heterophylly) from eutrophication (free-floating, submerged; leaf area). We provide a conceptual framework for interpretation of how eutrophication and hydromorphological degradation interact and how this is reflected in trait-abundance patterns in aquatic plant communities in lowland streams. Our findings support the merit of trait-based approaches in biomonitoring as they shed light on mechanisms controlling structural changes under environmental

  18. Mobile EEG on the bike: disentangling attentional and physical contributions to auditory attention tasks

    Science.gov (United States)

    Zink, Rob; Hunyadi, Borbála; Van Huffel, Sabine; De Vos, Maarten

    2016-08-01

    Objective. In the past few years there has been a growing interest in studying brain functioning in natural, real-life situations. Mobile EEG allows to study the brain in real unconstrained environments but it faces the intrinsic challenge that it is impossible to disentangle observed changes in brain activity due to increase in cognitive demands by the complex natural environment or due to the physical involvement. In this work we aim to disentangle the influence of cognitive demands and distractions that arise from such outdoor unconstrained recordings. Approach. We evaluate the ERP and single trial characteristics of a three-class auditory oddball paradigm recorded in outdoor scenario’s while peddling on a fixed bike or biking freely around. In addition we also carefully evaluate the trial specific motion artifacts through independent gyro measurements and control for muscle artifacts. Main results. A decrease in P300 amplitude was observed in the free biking condition as compared to the fixed bike conditions. Above chance P300 single-trial classification in highly dynamic real life environments while biking outdoors was achieved. Certain significant artifact patterns were identified in the free biking condition, but neither these nor the increase in movement (as derived from continuous gyrometer measurements) can explain the differences in classification accuracy and P300 waveform differences with full clarity. The increased cognitive load in real-life scenarios is shown to play a major role in the observed differences. Significance. Our findings suggest that auditory oddball results measured in natural real-life scenarios are influenced mainly by increased cognitive load due to being in an unconstrained environment.

  19. Phyloclimatic modeling: combining phylogenetics and bioclimatic modeling.

    Science.gov (United States)

    Yesson, C; Culham, A

    2006-10-01

    We investigate the impact of past climates on plant diversification by tracking the "footprint" of climate change on a phylogenetic tree. Diversity within the cosmopolitan carnivorous plant genus Drosera (Droseraceae) is focused within Mediterranean climate regions. We explore whether this diversity is temporally linked to Mediterranean-type climatic shifts of the mid-Miocene and whether climate preferences are conservative over phylogenetic timescales. Phyloclimatic modeling combines environmental niche (bioclimatic) modeling with phylogenetics in order to study evolutionary patterns in relation to climate change. We present the largest and most complete such example to date using Drosera. The bioclimatic models of extant species demonstrate clear phylogenetic patterns; this is particularly evident for the tuberous sundews from southwestern Australia (subgenus Ergaleium). We employ a method for establishing confidence intervals of node ages on a phylogeny using replicates from a Bayesian phylogenetic analysis. This chronogram shows that many clades, including subgenus Ergaleium and section Bryastrum, diversified during the establishment of the Mediterranean-type climate. Ancestral reconstructions of bioclimatic models demonstrate a pattern of preference for this climate type within these groups. Ancestral bioclimatic models are projected into palaeo-climate reconstructions for the time periods indicated by the chronogram. We present two such examples that each generate plausible estimates of ancestral lineage distribution, which are similar to their current distributions. This is the first study to attempt bioclimatic projections on evolutionary time scales. The sundews appear to have diversified in response to local climate development. Some groups are specialized for Mediterranean climates, others show wide-ranging generalism. This demonstrates that Phyloclimatic modeling could be repeated for other plant groups and is fundamental to the understanding of

  20. Repeated reunions and splits feature the highly dynamic evolution of 5S and 35S ribosomal RNA genes (rDNA) in the Asteraceae family

    Czech Academy of Sciences Publication Activity Database

    Garcia, S.; Panero, J.L.; Široký, Jiří; Kovařík, Aleš

    2010-01-01

    Roč. 10, č. 176 (2010), s. 1-18. ISSN 1471-2229 Institutional research plan: CEZ:AV0Z50040507; CEZ:AV0Z50040702 Keywords : organization of rDNA unit * intergenic spacer * Asteraceae Subject RIV: BO - Biophysics Impact factor: 4.085, year: 2010

  1. On the distribution of Cerastium smolikanum (Caryophyllaceae) and Centaurea vlachorum (Asteraceae) in the Balkan Peninsula

    DEFF Research Database (Denmark)

    Shuka, Lulezim; Tan, Kit

    2009-01-01

    Cerastium smolikanum (Caryophyllaceae) and Centaurea vlachorum (Asteraceae) are reported for the first () and () are reported for the first time in C and NE Albania. These two taxa were previously considered serpentine endemics restricted to a few localities in NW Greece and the extension to their...

  2. Identity and generic placement of Phestinia costella Hampson (Lepidoptera: Pyralidae: Phycitinae) reared on the invasive plant Chromolaena odorata (L.) R. M. King & H. Rob (Asteraceae)

    Science.gov (United States)

    We provide descriptions and illustrations for identification of Phestinia costella Hampson, a stem gall producer on the invasive plant Chromolaena odorata (L.) R. M. King & H. Robinson (Asteraceae) that has been investigated for biological control measures. Specimens collected from C. odorata on Tr...

  3. (Un)targeted metabolomics in Asteraceae: probing the applicability of essential-oil profiles of senecio L. (Senecioneae) taxa in chemotaxonomy.

    Science.gov (United States)

    Radulović, Niko S; Mladenović, Marko Z; Blagojević, Polina D

    2014-09-01

    The possible applicability of (un)targeted metabolomics (volatile metabolites) for revealing taxonomic/evolutionary relationships among Senecio L. species (Asteraceae; tribe Senecioneae) was explored. Essential-oil compositional data of selected Senecio/Senecioneae/Asteraceae taxa (93 samples in total) were mutually compared by means of multivariate statistical analysis (MVA), i.e., agglomerative hierarchical clustering and principal component analysis. The MVA input data set included the very first compositional data on the essential oil extracted from the aerial parts of S. viscosus L. as well as on four different Serbian populations of S. vernalis Waldst. & Kit. (oils from aerial parts and roots; eight samples in total). This metabolomic screening of Senecio/Senecioneae/Asteraceae species (herein presented results and data from the literature) pointed to short-chain alk-1-enes (e.g., oct-1-ene, non-1-ene, and undec-1-ene), with up to now restricted general occurrence in Plantae, as characteristic chemotaxonomic markers/targets for future metabolomic studies of Senecio/Senecioneae taxa. The MVA additionally showed that the evolution of the terpene metabolism (volatile mono- and sesquiterpenoids) within the Asteraceae tribe Senecioneae was not genera specific. However, the MVA did confirm plant-organ specific production/accumulation of volatiles within S. vernalis and suggested the existence of at least two volatile chemotypes for this species. PMID:25238075

  4. CHROMOSOME STUDIES IN VERNONIA CINCTA AND V. SCORPIOIDES (ASTERACEAE, VERNONIEAE ESTUDIOS CROMOSÓMICOS EN VERNONIA CINCTA y V. SCORPIOIDES (ASTERACEAE, VERNONIEAE

    Directory of Open Access Journals (Sweden)

    Massimiliano Dematteis

    2010-11-01

    Full Text Available

    Vernonia eineta Griseb. and V. seorpioides (Lam. Pers. (Asteraeeae, Vernonieae are two closely related taxa which have been considered by different authors either the same species or two varieties of the same species or two different species. In the present study a detailed chromosome analysis was carried out in an attempt to clarify the status and relationships of these two taxa. The cytological study revealed that Vernonia eineta has 2n=60 chromosomes and a
    karyotype formula composed of 36m + 16sm + St, whereas V. seorpioides presents 2n=66 and a karyotype with 34m + 20sm + 12t. Besides, V. eineta showed two chromosome pairs bearing satellites on the short arms, one m pair with linear satellite and one t pair with macrosatellite; while V. seorpioides presented one mchromosome pair carrying a linear satellite in the long armo In addition to the chromosome number, these species showed certain other karyotypic differences, mainly in theirformula, total chromosome length and asymmetry leve!. Chromosomal information here reported supports the specific status of both taxa. The presence of telocentric chromosomes in V. cincta and V. seorpioides would distinguish them from the remainder New World species of Vernoniawhich commonly have metacentric and submetacentric chromosomes.
    The karyotypic differences between V. cincta and V. seorpioides may be explained by the occurrence of structural rearrangements such as centric fusions or traslocations. This hypothesis is well supported by the similar total karyotype length of both taxa and the higher mean chromosome length of V. cincta, which presents a lower number of telocentric chromosomes than V. seorpioides.
    Vernonia cincta Griseb. y V. seorpioides V. (Lam. Pers.. (Asteraceae, Vernonieae son dos taxones estrechamente relacionados que han sido considerados por diferentes

  5. Intoxicação experimental pelos frutos de Xanthium cavanillesii (Asteraceae em ovinos Experimental poisoning by the burs of Xanthium cavanillesii (Asteraceae in sheep

    Directory of Open Access Journals (Sweden)

    Alexandre Paulino Loretti

    1999-04-01

    Full Text Available Os frutos moídos de Xanthium cavanillesii foram administrados por via oral, em doses únicas ou fracionadas, a 15 ovinos adultos. Nove ovinos morreram. Doses a partir de 2 g/kg em uma única administração foram letais para os ovinos. Doses únicas de 1,25 g/kg e doses de 2,5 g/kg subdivididas em duas administrações diárias (1,25 g/kg em dois dias consecutivos não causaram a intoxicação. Sinais clínicos foram observados apenas nos animais que morreram. Iniciavam entre 5 horas e 20 horas após o início da administração dos frutos. A evolução do quadro clínico foi superaguda (90 minutos a 3 horas ou aguda (9 a 13 horas. Sinais clínicos incluíam apatia, anorexia, hipomotilidade ruminal, tremores musculares generalizados, incoordenação motora, andar rígido, relutância em caminhar, instabilidade, quedas e decúbito. Muitos animais apresentavam corrimento nasal seromucoso que dificultava a respiração. Nas fases terminais havia tiques, sialorréia, convulsões, nistagmo, movimentos de pedalagem e períodos de apnéia seguidos de morte. Os principais achados de necropsia incluíam acentuação do padrão lobular do fígado acompanhada de petéquias distribuídas aleatoriamente na superfície capsular e de corte, distensão da vesícula biliar associada a edema e hemorragias na parede, ascite, hidrotórax, edema gelatinoso e translúcido da região perirrenal, conteúdo do ceco e alça proximal do cólon ascendente ressequido, compactado, recoberto por muco e estrias de sangue coagulado. Havia petéquias e sufusões disseminadas. A principal lesão microscópica consistia em acentuada necrose coagulativa hepatocelular centrolobular ou massiva acompanhada de congestão e hemorragia e vacuolização ou tumefação dos hepatócitos remanescentes.The ground burs of Xanthium cavanillesii (Asteraceae were force fed to 15 adult sheep in single doses or divided in two doses. Nine sheep died. Doses of 2 g/kg and above were lethal for the

  6. Strong phylogenetic signals and phylogenetic niche conservatism in ecophysiological traits across divergent lineages of Magnoliaceae

    OpenAIRE

    Hui Liu; Qiuyuan Xu; Pengcheng He; Santiago, Louis S.; Keming Yang; Qing Ye

    2015-01-01

    The early diverged Magnoliaceae shows a historical temperate-tropical distribution among lineages indicating divergent evolution, yet which ecophysiological traits are phylogenetically conserved, and whether these traits are involved in correlated evolution remain unclear. Integrating phylogeny and 20 ecophysiological traits of 27 species, from the four largest sections of Magnoliaceae, we tested the phylogenetic signals of these traits and the correlated evolution between trait pairs. Phylog...

  7. Molecular Phylogenetic: Organism Taxonomy Method Based on Evolution History

    OpenAIRE

    N.L.P Indi Dharmayanti

    2011-01-01

    Phylogenetic is described as taxonomy classification of an organism based on its evolution history namely its phylogeny and as a part of systematic science that has objective to determine phylogeny of organism according to its characteristic. Phylogenetic analysis from amino acid and protein usually became important area in sequence analysis. Phylogenetic analysis can be used to follow the rapid change of a species such as virus. The phylogenetic evolution tree is a two dimensional of a spec...

  8. Disentangling the relationship of the Australian marsupial orders using retrotransposon and evolutionary network analyses.

    Science.gov (United States)

    Gallus, Susanne; Janke, Axel; Kumar, Vikas; Nilsson, Maria A

    2015-04-01

    The ancestors to the Australian marsupials entered Australia around 60 (54-72) Ma from Antarctica, and radiated into the four living orders Peramelemorphia, Dasyuromorphia, Diprotodontia, and Notoryctemorphia. The relationship between the four Australian marsupial orders has been a long-standing question, because different phylogenetic studies have not been able to consistently reconstruct the same topology. Initial in silico analysis of the Tasmanian devil genome and experimental screening in the seven marsupial orders revealed 20 informative transposable element insertions for resolving the inter- and intraordinal relationships of Australian and South American orders. However, the retrotransposon insertions support three conflicting topologies regarding Peramelemorphia, Dasyuromorphia, and Notoryctemorphia, indicating that the split between the three orders may be best understood as a network. This finding is supported by a phylogenetic reanalysis of nuclear gene sequences, using a consensus network approach that allows depicting hidden phylogenetic conflict, otherwise lost when forcing the data into a bifurcating tree. The consensus network analysis agrees with the transposable element analysis in that all possible topologies regarding Peramelemorphia, Dasyuromorphia, and Notoryctemorphia in a rooted four-taxon topology are equally well supported. In addition, retrotransposon insertion data support the South American order Didelphimorphia being the sistergroup to all other living marsupial orders. The four Australian orders originated within 3 Myr at the Cretaceous-Paleogene boundary. The rapid divergences left conflicting phylogenetic information in the genome possibly generated by incomplete lineage sorting or introgressive hybridization, leaving the relationship among Australian marsupial orders unresolvable as a bifurcating process millions of years later. PMID:25786431

  9. Statistical assignment of DNA sequences using Bayesian phylogenetics

    DEFF Research Database (Denmark)

    Terkelsen, Kasper Munch; Boomsma, Wouter Krogh; Huelsenbeck, John P;

    2008-01-01

    We provide a new automated statistical method for DNA barcoding based on a Bayesian phylogenetic analysis. The method is based on automated database sequence retrieval, alignment, and phylogenetic analysis using a custom-built program for Bayesian phylogenetic analysis. We show on real data that...

  10. Clustering with phylogenetic tools in astrophysics

    CERN Document Server

    Fraix-Burnet, Didier

    2016-01-01

    Phylogenetic approaches are finding more and more applications outside the field of biology. Astrophysics is no exception since an overwhelming amount of multivariate data has appeared in the last twenty years or so. In particular, the diversification of galaxies throughout the evolution of the Universe quite naturally invokes phylogenetic approaches. We have demonstrated that Maximum Parsimony brings useful astrophysical results, and we now proceed toward the analyses of large datasets for galaxies. In this talk I present how we solve the major difficulties for this goal: the choice of the parameters, their discretization, and the analysis of a high number of objects with an unsupervised NP-hard classification technique like cladistics. 1. Introduction How do the galaxy form, and when? How did the galaxy evolve and transform themselves to create the diversity we observe? What are the progenitors to present-day galaxies? To answer these big questions, observations throughout the Universe and the physical mode...

  11. Phylogenetic Analysis of PRRSV from Danish Pigs

    DEFF Research Database (Denmark)

    Hjulsager, Charlotte Kristiane; Breum, Solvej Østergaard; Larsen, Lars Erik

    visualized with NJ-plot software. Genbank entries of Danish PRRSV sequences from the 1990’ties were included in the phylogenetic analysis. Translated sequences were aligned with current vaccine isolates. Results Both PRRSV EU and US type viruses were isolated from material submitted from Danish pigs in the...... phylogenetic analysis, in order to asses the applicability of vaccines currently used to control PRRSV infection in Danish pig herds. Materials and methods Lung tissue from samples submitted to the National Veterinary Institute during 2003-2008 for PRRSV diagnosis were screened for PRRSV by real-time RT......-PCR, essentially as described by Egli et al. 2001, on RNA extracted with RNeasy Mini Kit (QIAGEN). Complete open reading frames (ORF) ORF5 and ORF7 were PCR amplified as described (Oleksiewicz et al. 1998) and sequenced. Sequences were aligned and Neighbour-Joining trees were constructed with ClustalX. Trees were...

  12. The phylogenetics of succession can guide restoration

    DEFF Research Database (Denmark)

    Shooner, Stephanie; Chisholm, Chelsea Lee; Davies, T. Jonathan

    2015-01-01

    Phylogenetic tools have increasingly been used in community ecology to describe the evolutionary relationships among co-occurring species. In studies of succession, such tools may allow us to identify the evolutionary lineages most suited for particular stages of succession and habitat...... phylogenetically random subset of species from the local species pool. Over time, there appears to be selection for particular lineages that come to be filtered across space and environment. The species most appropriate for mine site restoration might, therefore, depend on the successional stage of the community...... appropriate for mine site restoration might, therefore, depend on the successional stage of the community and the local species composition. For example, in later succession, it could be more beneficial to facilitate establishment of more distant relatives. Our findings can improve management practices by...

  13. Concepts of Classification and Taxonomy. Phylogenetic Classification

    CERN Document Server

    Fraix-Burnet, Didier

    2016-01-01

    Phylogenetic approaches to classification have been heavily developed in biology by bioinformaticians. But these techniques have applications in other fields, in particular in linguistics. Their main characteristics is to search for relationships between the objects or species in study, instead of grouping them by similarity. They are thus rather well suited for any kind of evolutionary objects. For nearly fifteen years, astrocladistics has explored the use of Maximum Parsimony (or cladistics) for astronomical objects like galaxies or globular clusters. In this lesson we will learn how it works. 1 Why phylogenetic tools in astrophysics? 1.1 History of classification The need for classifying living organisms is very ancient, and the first classification system can be dated back to the Greeks. The goal was very practical since it was intended to distinguish between eatable and toxic aliments, or kind and dangerous animals. Simple resemblance was used and has been used for centuries. Basically, until the XVIIIth...

  14. A phylogenetic analysis of Aquifex pyrophilus

    Science.gov (United States)

    Burggraf, S.; Olsen, G. J.; Stetter, K. O.; Woese, C. R.

    1992-01-01

    The 16S rRNA of the bacterion Aquifex pyrophilus, a microaerophilic, oxygen-reducing hyperthermophile, has been sequenced directly from the the PCR amplified gene. Phylogenetic analyses show the Aq. pyrophilus lineage to be probably the deepest (earliest) in the (eu)bacterial tree. The addition of this deep branching to the bacterial tree further supports the argument that the Bacteria are of thermophilic ancestry.

  15. A Consistent Phylogenetic Backbone for the Fungi

    OpenAIRE

    Ebersberger, Ingo; de Matos Simoes, Ricardo; Kupczok, Anne; Gube, Matthias; Kothe, Erika; Voigt, Kerstin; von Haeseler, Arndt

    2011-01-01

    The kingdom of fungi provides model organisms for biotechnology, cell biology, genetics, and life sciences in general. Only when their phylogenetic relationships are stably resolved, can individual results from fungal research be integrated into a holistic picture of biology. However, and despite recent progress, many deep relationships within the fungi remain unclear. Here, we present the first phylogenomic study of an entire eukaryotic kingdom that uses a consistency criterion to strengthen...

  16. Phylogenetic invariants for stationary base composition

    OpenAIRE

    Allman, Elizabeth S.; Rhodes, John A.

    2004-01-01

    Changing base composition during the evolution of biological sequences can mislead some of the phylogenetic inference techniques in current use. However, detecting whether such a process has occurred may be difficult, since convergent evolution may lead to similar base frequencies emerging from different lineages. To study this situation, algebraic models of biological sequence evolution are introduced in which the base composition is fixed throughout evolution. Basic properties of the associ...

  17. Phylogenetic conservatism of functional traits in microorganisms

    OpenAIRE

    Martiny, Adam C.; Treseder, Kathleen; Pusch, Gordon

    2012-01-01

    A central question in biology is how biodiversity influences ecosystem functioning. Underlying this is the relationship between organismal phylogeny and the presence of specific functional traits. The relationship is complicated by gene loss and convergent evolution, resulting in the polyphyletic distribution of many traits. In microorganisms, lateral gene transfer can further distort the linkage between phylogeny and the presence of specific functional traits. To identify the phylogenetic co...

  18. Phylogenetic tree shapes resolve disease transmission patterns

    OpenAIRE

    Colijn, Caroline; Gardy, Jennifer

    2014-01-01

    Background and Objectives: Whole-genome sequencing is becoming popular as a tool for understanding outbreaks of communicable diseases, with phylogenetic trees being used to identify individual transmission events or to characterize outbreak-level overall transmission dynamics. Existing methods to infer transmission dynamics from sequence data rely on well-characterized infectious periods, epidemiological and clinical metadata which may not always be available, and typically require computatio...

  19. Incongruencies in Vaccinia Virus Phylogenetic Trees

    Directory of Open Access Journals (Sweden)

    Chad Smithson

    2014-10-01

    Full Text Available Over the years, as more complete poxvirus genomes have been sequenced, phylogenetic studies of these viruses have become more prevalent. In general, the results show similar relationships between the poxvirus species; however, some inconsistencies are notable. Previous analyses of the viral genomes contained within the vaccinia virus (VACV-Dryvax vaccine revealed that their phylogenetic relationships were sometimes clouded by low bootstrapping confidence. To analyze the VACV-Dryvax genomes in detail, a new tool-set was developed and integrated into the Base-By-Base bioinformatics software package. Analyses showed that fewer unique positions were present in each VACV-Dryvax genome than expected. A series of patterns, each containing several single nucleotide polymorphisms (SNPs were identified that were counter to the results of the phylogenetic analysis. The VACV genomes were found to contain short DNA sequence blocks that matched more distantly related clades. Additionally, similar non-conforming SNP patterns were observed in (1 the variola virus clade; (2 some cowpox clades; and (3 VACV-CVA, the direct ancestor of VACV-MVA. Thus, traces of past recombination events are common in the various orthopoxvirus clades, including those associated with smallpox and cowpox viruses.

  20. A Consistent Phylogenetic Backbone for the Fungi

    Science.gov (United States)

    Ebersberger, Ingo; de Matos Simoes, Ricardo; Kupczok, Anne; Gube, Matthias; Kothe, Erika; Voigt, Kerstin; von Haeseler, Arndt

    2012-01-01

    The kingdom of fungi provides model organisms for biotechnology, cell biology, genetics, and life sciences in general. Only when their phylogenetic relationships are stably resolved, can individual results from fungal research be integrated into a holistic picture of biology. However, and despite recent progress, many deep relationships within the fungi remain unclear. Here, we present the first phylogenomic study of an entire eukaryotic kingdom that uses a consistency criterion to strengthen phylogenetic conclusions. We reason that branches (splits) recovered with independent data and different tree reconstruction methods are likely to reflect true evolutionary relationships. Two complementary phylogenomic data sets based on 99 fungal genomes and 109 fungal expressed sequence tag (EST) sets analyzed with four different tree reconstruction methods shed light from different angles on the fungal tree of life. Eleven additional data sets address specifically the phylogenetic position of Blastocladiomycota, Ustilaginomycotina, and Dothideomycetes, respectively. The combined evidence from the resulting trees supports the deep-level stability of the fungal groups toward a comprehensive natural system of the fungi. In addition, our analysis reveals methodologically interesting aspects. Enrichment for EST encoded data—a common practice in phylogenomic analyses—introduces a strong bias toward slowly evolving and functionally correlated genes. Consequently, the generalization of phylogenomic data sets as collections of randomly selected genes cannot be taken for granted. A thorough characterization of the data to assess possible influences on the tree reconstruction should therefore become a standard in phylogenomic analyses. PMID:22114356

  1. The phylogenetic affinities of the extinct glyptodonts.

    Science.gov (United States)

    Delsuc, Frédéric; Gibb, Gillian C; Kuch, Melanie; Billet, Guillaume; Hautier, Lionel; Southon, John; Rouillard, Jean-Marie; Fernicola, Juan Carlos; Vizcaíno, Sergio F; MacPhee, Ross D E; Poinar, Hendrik N

    2016-02-22

    Among the fossils of hitherto unknown mammals that Darwin collected in South America between 1832 and 1833 during the Beagle expedition were examples of the large, heavily armored herbivores later known as glyptodonts. Ever since, glyptodonts have fascinated evolutionary biologists because of their remarkable skeletal adaptations and seemingly isolated phylogenetic position even within their natural group, the cingulate xenarthrans (armadillos and their allies). In possessing a carapace comprised of fused osteoderms, the glyptodonts were clearly related to other cingulates, but their precise phylogenetic position as suggested by morphology remains unresolved. To provide a molecular perspective on this issue, we designed sequence-capture baits using in silico reconstructed ancestral sequences and successfully assembled the complete mitochondrial genome of Doedicurus sp., one of the largest glyptodonts. Our phylogenetic reconstructions establish that glyptodonts are in fact deeply nested within the armadillo crown-group, representing a distinct subfamily (Glyptodontinae) within family Chlamyphoridae. Molecular dating suggests that glyptodonts diverged no earlier than around 35 million years ago, in good agreement with their fossil record. Our results highlight the derived nature of the glyptodont morphotype, one aspect of which is a spectacular increase in body size until their extinction at the end of the last ice age. PMID:26906483

  2. Patogenicidade de Alternaria cichorii sobre espécies da família Asteraceae no Brasil

    Directory of Open Access Journals (Sweden)

    Lima Milton L. Paz

    2003-01-01

    Full Text Available Em 2001, plantas de chicória (Cichorium endivia originárias do município de Catalão-GO apresentando sintomas de manchas e queima foliar foram recebidas na Clínica Fitopatológica da Embrapa Hortaliças (CNPH. Tecidos submetidos à câmara úmida produziram esporulação fúngica, de onde foi obtida cultura monospórica em BDA + cloranfenicol. Para o teste de patogenecidade, o fungo foi multiplicado em meio de cultura suco de tomate ágar (ST e inoculado em plantas de chicória da cultivar comercial AG-3804, em casa-de-vegetação. Após dez dias de incubação, verificou-se nas plantas inoculadas a presença de sintomas, semelhantes àqueles observados inicialmente. O patógeno foi reisolado a partir destas lesões, completando os postulados de Koch. Em seguida, visando testar a possibilidade deste patógeno infetar outras plantas da família Asteraceae, conídios produzidos em ST e atomizados em plantas de alface (Lactuca sativa (três variedades, almeirão (Cichorium intybus (duas variedades, Catalonha (Cichorium intybus folha fina, serralha (Sonchus oleraceus e uma outra variedade de chicória. Houve infecção em todas as plantas inoculadas, sendo que os sintomas variaram nas espécies e nas variedades testadas. Em chicória os sintomas surgiram mais cedo e se desenvolveram rapidamente. O fungo foi caracterizado morfológica e morfometricamente permitindo identificá-lo como sendo Alternaria cichorii. Não se encontra registro desta espécie de Alternaria infetando plantas da família Asteraceae no Brasil. Neste trabalho relata-se pela primeira vez, a ocorrência de A. cichorii infetando chicória no Brasil e o potencial deste fungo como patógeno de outras espécies da família Asteraceae.

  3. Ant-Based Phylogenetic Reconstruction (ABPR): A new distance algorithm for phylogenetic estimation based on ant colony optimization

    OpenAIRE

    Karla Vittori; Alexandre C B Delbem; Pereira, Sérgio L

    2008-01-01

    We propose a new distance algorithm for phylogenetic estimation based on Ant Colony Optimization (ACO), named Ant-Based Phylogenetic Reconstruction (ABPR). ABPR joins two taxa iteratively based on evolutionary distance among sequences, while also accounting for the quality of the phylogenetic tree built according to the total length of the tree. Similar to optimization algorithms for phylogenetic estimation, the algorithm allows exploration of a larger set of nearly optimal solutions. We appl...

  4. Morfoanatomia e ontogênese do fruto e semente de Vernonia platensis (Spreng. Less. (Asteraceae Morphology, anatomy and ontogeny of the fruit and seed of Vernonia platensis (Spreng. Less. (Asteraceae

    Directory of Open Access Journals (Sweden)

    Natália Arias Galastri

    2010-03-01

    Full Text Available Asteraceae possui cerca de 23.000 espécies e Vernonieae tem sua maior representatividade no Brasil, sendo Vernonia o maior gênero da tribo. Devido à ampla ocorrência nos Cerrados, V. platensis foi selecionada para a realização deste trabalho, que objetiva descrever a morfoanatomia e o desenvolvimento do pericarpo e da semente desta espécie, comparando os resultados com a literatura. O material coletado foi processado segundo técnicas usuais. O ovário é ínfero, bicarpelar, sincárpico, unilocular, com um óvulo anátropo, unitegumentado, tenuinucelado, formado em placentação basal. A parede ovariana é homogênea, com células mais densas perifericamente. O tegumento possui três regiões, destacando-se evidente endotélio. Na maturidade, a maioria das camadas colapsa, mantendo-se as fibras mesocárpicas externas; o pápus duplo persiste formado por células lignificadas. A semente madura apresenta testa restrita a uma faixa de células colapsadas; o endosperma é celular, persistindo residualmente na maturidade, e o embrião exibe eixo hipocótilo-radícula axial, espesso e curto. Em apenas 40% das cipselas maduras analisadas, há sementes completamente desenvolvidas. As observações deste trabalho corroboram pesquisas anteriores com Asteraceae, mas destaca-se o papel nutritivo do tegumento no desenvolvimento seminal e a baixa produção de sementes em V. platensis.The Asteraceae comprises approximately 23,000 species and Vernonieae is best represented in Brazil; Vernonia is the largest genus in this tribe. Due to occurrence in extensive areas of Cerrado, Vernonia platensis was selected for this work that aims to describe the morphology, anatomy and development of the pericarp and seed of this species, comparing the results with the literature. The collected material was processed by conventional techniques. The ovary is inferior, bicarpellate, syncarpous, unilocular with a single anatropous ovule, unitegmic, tenuinucelate

  5. Análise morfoanatômica das partes aéreas de Wedelia paludosa DC. (Acmela brasiliensis, Sphagneticola trilobata), Asteraceae Morphoanatomic analysis of aerial parts of Wedelia paludosa DC. (Acmela brasiliensis, Sphagneticola trilobata), Asteraceae

    OpenAIRE

    Thaisa Baccarin; Czepula, Alexandra I.; Renê A. Ferreira; Lucinda-Silva, Ruth M.

    2009-01-01

    O presente trabalho teve por objetivo o estabelecimento de parâmetros para análise morfo-anatômica das partes aéreas (caule e folhas) da planta Wedelia paludosa DC., Asteraceae. A droga vegetal e o respectivo pó foram submetidos às análises macro e microscópica após preparação de lâminas semi-permanentes de cortes transversais e paradérmicos. O pó foi analisado após diafanização com cloral hidratado. É uma planta herbácea com caule castanho-avermelhado, folhas opostas, curto-pecioladas e memb...

  6. Molecular evidence for an African origin of the Hawaiian endemic Hesperomannia (Asteraceae)

    Science.gov (United States)

    Kim, Hyi-Gyung; Keeley, Sterling C.; Vroom, Peter S.; Jansen, Robert K.

    1998-01-01

    Identification of the progenitors of plants endemic to oceanic islands often is complicated by extreme morphological divergence between island and continental taxa. This is especially true for the Hawaiian Islands, which are 3,900 km from any continental source. We examine the origin of Hesperomannia, a genus of three species endemic to Hawaii that always have been placed in the tribe Mutisieae of the sunflower family. Phylogenetic analyses of representatives from all tribes in this family using the chloroplast gene ndhF (where ndhF is the ND5 protein of chloroplast NADH dehydrogenase) indicate that Hesperomannia belongs to the tribe Vernonieae. Phylogenetic comparisons within the Vernonieae using sequences of both ndhF and the internal transcribed spacer regions of nuclear ribosomal DNA reveal that Hesperomannia is sister to African species of Vernonia. Long-distance dispersal northeastward from Africa to southeast Asia and across the many Pacific Ocean island chains is the most likely explanation for this unusual biogeographic connection. The 17- to 26-million-year divergence time between African Vernonia and Hesperomannia estimated by the DNA sequences predates the age of the eight existing Hawaiian Islands. These estimates are consistent with an hypothesis that the progenitor of Hesperomannia arrived at one of the low islands of the Hawaiian-Emperor chain between the late Oligocene and mid-Miocene when these islands were above sea level. Subsequent to its arrival the southeast Pacific island chains served as steppingstones for dispersal to the existing Hawaiian Islands. PMID:9860987

  7. Disentangling the Relative Importance of Changes in Climate and Land-Use Intensity in Driving Recent Bird Population Trends

    OpenAIRE

    Eglington, Sarah M.; Pearce-Higgins, James W.

    2012-01-01

    Threats to biodiversity resulting from habitat destruction and deterioration have been documented for many species, whilst climate change is regarded as increasingly impacting upon species' distribution and abundance. However, few studies have disentangled the relative importance of these two drivers in causing recent population declines. We quantify the relative importance of both processes by modelling annual variation in population growth of 18 farmland bird species in the UK as a function...

  8. Disentangling the contribution of multiple land covers to fire‐mediated carbon emissions in Amazonia during the 2010 drought

    OpenAIRE

    Anderson, Liana; Aragão, Luiz; Gloor, Emanuel; Saatchi, Sassan; Malhi, Yadvinder; Barlow, Bernard Josiah; De Berenguer Cesar, Erika

    2015-01-01

    In less than 15 years, the Amazon region experienced three major droughts. Links between droughts and fires have been demonstrated for the 1997/1998, 2005, and 2010 droughts. In 2010, emissions of 510 ± 120 Tg C were associated to fire alone in Amazonia. Existing approaches have, however, not yet disentangled the proportional contribution of multiple land cover sources to this total. We develop a novel integration of multisensor and multitemporal satellite-derived data on land cover, active f...

  9. The in vitro antioxidant and antimicrobial activities of the essential oil and methanol extracts of Achillea biebersteini Afan. (Asteraceae).

    Science.gov (United States)

    Sökmen, Atalay; Sökmen, Münevver; Daferera, Dimitra; Polissiou, Moschos; Candan, Ferda; Unlü, Mehmet; Akpulat, H Aşkin

    2004-06-01

    The essential oil and methanol extracts from A. biebersteinii Afan. (Asteraceae) were evaluated for their antimicrobial and antioxidant activities in vitro. The oil showed stronger antimicrobial activity than the extracts. Their antioxidant features were also evaluated using diphenyl-1-picrylhydrazyl (DPPH), inhibition of superoxide and hydroxyl radicals and inhibition of the lipid peroxidation assays. Particularly, polar subfraction of the methanol extract showed antioxidant activity. The GC-MS analysis of the oil has resulted in the identification of 23 components; piperitone, eucalyptol, camphor, chrysanthenone and borneol were the main components. Antimicrobial activity tests carried out with the fractions of the oil showed that the activity was mainly observed in those containing eucalyptol and camphor, in particular, followed by borneol and piperitone. PMID:15287068

  10. Evaluation of the Main Polyphenolic Compounds in Aromatic Plants of Asteraceae and Solanaceae Families of Bulgarian Origin

    Directory of Open Access Journals (Sweden)

    M. Docheva

    2013-03-01

    Full Text Available Bulgarian specimens of Asteraceae and Solanaceae families are very scarce studied concerning the polyphenolic compounds. The aim of this investigation was to obtain fingerprint chromatographic profiles and to quantify the main polyphenols. HPLC–PDA on Kromasil and Purospher columns was employed for the separation of the components by applying two methods (TFA and AcAc. Better separation and reliable quantification of the polyphenols in Achillea species were obtained by the TFA method on Kromasil column. Chromatographic profiling and quantification of polyphenols in A. campestris was successful by using the TFA method on both columns. The polyphenols of A. vulgaris were better separated by AcAc method on Purospher column. Caffeoylquinic acids and rutin were present in higher quantities in Achillea asplenifolia and tobacco (Djebel. Fingerprint chromatographic profiles and reliable quantification of the polyphenolic compounds were achieved by considering the differences in the polyphenol complex and the specificity of the plant matrix.

  11. In vitro antileishmanial, antiplasmodial and cytotoxic activities of phenolics and triterpenoids from Baccharis dracunculifolia D. C. (Asteraceae).

    Science.gov (United States)

    da Silva Filho, A A; Resende, D O; Fukui, M J; Santos, F F; Pauletti, P M; Cunha, W R; Silva, M L A; Gregório, L E; Bastos, J K; Nanayakkara, N P D

    2009-12-01

    Baccharis dracunculifolia (Asteraceae), the most important plant source of the Brazilian green propolis (GPE), displayed in vitro activity against Leishmania donovani, with an IC(50) value of 45 microg/mL, while GPE presented an IC(50) value of 49 microg/mL. Among the isolated compounds of B. dracunculifolia, ursolic acid, and hautriwaic acid lactone showed IC(50) values of 3.7 microg/mL and 7.0 microg/mL, respectively. Uvaol, acacetin, and ermanin displayed moderate antileishmanial activity. Regarding the antiplasmodial assay against Plasmodium falciparum, BdE and GPE gave similar IC(50) values (about 20 microg/mL), while Hautriwaic acid lactone led to an IC(50) value of 0.8 microg/mL (D6 clone). PMID:19540316

  12. Distribución geográfica y riqueza del género Cosmos (Asteraceae: Coreopsideae)

    OpenAIRE

    Georgina Vargas-Amado; Arturo Castro-Castro; Mollie Harker; José Luis Villaseñor; Enrique Ortiz; Aarón Rodríguez

    2013-01-01

    Cosmos es uno de los géneros monofiléticos más diversos de la tribu Coreopsideae (Asteraceae). El grupo incluye 35 especies y 4 taxa infraespecíficos restringidos al continente americano. El objetivo del presente trabajo fue evaluar la distribución geográfica y la riqueza de Cosmos a través de un sistema de información geográfica (SIG). Se estimó el área de distribución geográfica de los taxa con más de un registro. También se evaluó la riqueza de las especies de Cosmos por región política, p...

  13. Cytological study on the genus Syncalathium (Asteraceae-Lactuceae), an endemic taxon to alpine scree of the Sino-Himalayas

    Institute of Scientific and Technical Information of China (English)

    Jian-Wen ZHANG; Ze-Long NIE; Hang SUN

    2009-01-01

    Cytological characters of four species in Syncalathium (Asteraceae: Lactuceae), a small genus with six identified species endemic to alpine scree of the Sino-Himalayan region, are surveyed in this report. Three species ( Syncalathium pilosum, Syncalathium chrysocephalum, and Syncalathium disciforme ) are examined for the first time. Combined with our previous counts, five species have been cytologically investigated from the genus and the results indicated that all species are diploid with the basic somatic chromosome number of x=8. The karyotype asymmetry of Syncalathium souliei is 2A, distinct from the other four species of 1 A, and the remaining species are divided into two subgroups with different karyotypes, consistent with their morphological features. The significance of the cytological evolution of Syncalathium is briefly discussed.

  14. Analysis of the free amino acid content in pollen of nine Asteraceae species of known allergenic activity.

    Science.gov (United States)

    Mondal, A K; Parui, S; Mandal, S

    1998-01-01

    The study reports the free amino acid composition of the pollen of nine members of the family Asteraceae, i.e. Ageratum conyzoides L., Blumea oxyodonta DC., Eupatorium odoratum L., Gnaphalium indicum L., Mikania scandens Willd., Parthenium hysterophorus L., Spilanthes acmella Murr., Vernonia cinerea (L.) Lees. and Xanthium strumarium L. by thin layer chromatography. The amino acid content was found to vary from 0.5-4.0% of the total dry weight. Fourteen amino acids were identified, among which amino-n-butyric acid, aspartic acid and proline were present in almost all pollen samples. The other major amino acids present in free form included arginine, cystine, glutamic acid, glycine, isoleucine, leucine, methionine, ornithine, tryptophan and tyrosine. PMID:9852488

  15. A Note on Encodings of Phylogenetic Networks of Bounded Level

    CERN Document Server

    Gambette, Philippe

    2009-01-01

    Driven by the need for better models that allow one to shed light into the question how life's diversity has evolved, phylogenetic networks have now joined phylogenetic trees in the center of phylogenetics research. Like phylogenetic trees, such networks canonically induce collections of phylogenetic trees, clusters, and triplets, respectively. Thus it is not surprising that many network approaches aim to reconstruct a phylogenetic network from such collections. Related to the well-studied perfect phylogeny problem, the following question is of fundamental importance in this context: When does one of the above collections encode (i.e. uniquely describe) the network that induces it? In this note, we present a complete answer to this question for the special case of a level-1 (phylogenetic) network by characterizing those level-1 networks for which an encoding in terms of one (or equivalently all) of the above collections exists. Given that this type of network forms the first layer of the rich hierarchy of lev...

  16. Disentanglement, Bell-nonlocality violation and teleportation capacity of the decaying tripartite states

    Energy Technology Data Exchange (ETDEWEB)

    Hu, Ming-Liang, E-mail: mingliang0301@163.com

    2012-09-15

    Dynamics of disentanglement as measured by the tripartite negativity and Bell nonlocality as measured by the extent of violation of the multipartite Bell-type inequalities are investigated in this work. It is shown definitively that for the initial three-qubit Greenberger-Horne-Zeilinger (GHZ) or W class state preparation, the Bell nonlocality suffers sudden death under the influence of thermal reservoirs. Moreover, all the Bell-nonlocal states are useful for nonclassical teleportation, while there are entangled states that do not violate any Bell-type inequalities, but still yield nonclassical teleportation fidelity. - Highlights: Black-Right-Pointing-Pointer Comparison of different aspects of quantum correlations. Black-Right-Pointing-Pointer Robustness of the initial tripartite GHZ and W class states against decoherence. Black-Right-Pointing-Pointer Bell-nonlocality sudden death under the influence of thermal reservoir. Black-Right-Pointing-Pointer A nonzero minimum tripartite negativity is needed for nonclassical teleportation. Black-Right-Pointing-Pointer All the Bell-nonlocal states yield nonclassical teleportation fidelity.

  17. Disentangling Religion and Culture: Americanizing Islam as the Price of Assimilation

    Directory of Open Access Journals (Sweden)

    JOHN H. MORGAN

    2013-12-01

    Full Text Available This essay is an exploration into the social inevitabilities of culture shifts within the American Muslim community’s self-understanding of their faith. Rather than a theological explication of the reasons why and why not Islam may or can or will not assimilate in America, our approach will be strictly sociological thereby side-stepping the intricate dialectic of theological niceties in deference to the social realities of culture change. As a social psychologist, my duty is to acknowledge the inevitabilities of behavioral shifts brought about due to social and cultural pressures resulting from immigration into an alien cultural weltanschauung, i.e., worldview. Therefore in this essay, we will explicate the meaning and nature of de-ethnicization and re-enculturation as we endeavor to disentangle religion from culture, recognizing that much of what goes under the flag of religious orthodoxy is really culturally-mandated behavior and worldview. The assimilation process, however, will bear heavily upon the necessity for Muslim clergy in America to become professional by Western standards and we will in the process explore the complexities of religious secularism as a way of becoming an “American” Muslim. Finally, we will suggest liturgical and architectural “adjustments” to Western modes of public worship while indicating linguistic niceties which will prove helpful in the assimilation process which we have chosen here to call the “Islamicization of America”.

  18. Disentangling the neural mechanisms involved in Hinduism- and Buddhism-related meditations.

    Science.gov (United States)

    Tomasino, Barbara; Chiesa, Alberto; Fabbro, Franco

    2014-10-01

    The most diffuse forms of meditation derive from Hinduism and Buddhism spiritual traditions. Different cognitive processes are set in place to reach these meditation states. According to an historical-philological hypothesis (Wynne, 2009) the two forms of meditation could be disentangled. While mindfulness is the focus of Buddhist meditation reached by focusing sustained attention on the body, on breathing and on the content of the thoughts, reaching an ineffable state of nothigness accompanied by a loss of sense of self and duality (Samadhi) is the main focus of Hinduism-inspired meditation. It is possible that these different practices activate separate brain networks. We tested this hypothesis by conducting an activation likelihood estimation (ALE) meta-analysis of functional magnetic resonance imaging (fMRI) studies. The network related to Buddhism-inspired meditation (16 experiments, 263 subjects, and 96 activation foci) included activations in some frontal lobe structures associated with executive attention, possibly confirming the fundamental role of mindfulness shared by many Buddhist meditations. By contrast, the network related to Hinduism-inspired meditation (8 experiments, 54 activation foci and 66 subjects) triggered a left lateralized network of areas including the postcentral gyrus, the superior parietal lobe, the hippocampus and the right middle cingulate cortex. The dissociation between anterior and posterior networks support the notion that different meditation styles and traditions are characterized by different patterns of neural activation. PMID:24975229

  19. Planck intermediate results. XLVIII. Disentangling Galactic dust emission and cosmic infrared background anisotropies

    CERN Document Server

    Aghanim, N; Aumont, J; Baccigalupi, C; Ballardini, M; Banday, A J; Barreiro, R B; Bartolo, N; Basak, S; Benabed, K; Bernard, J -P; Bersanelli, M; Bielewicz, P; Bonavera, L; Bond, J R; Borrill, J; Bouchet, F R; Boulanger, F; Burigana, C; Calabrese, E; Cardoso, J -F; Carron, J; Chiang, H C; Colombo, L P L; Comis, B; Couchot, F; Coulais, A; Crill, B P; Curto, A; Cuttaia, F; de Bernardis, P; de Zotti, G; Delabrouille, J; Di Valentino, E; Dickinson, C; Diego, J M; Doré, O; Douspis, M; Ducout, A; Dupac, X; Dusini, S; Elsner, F; Enßlin, T A; Eriksen, H K; Falgarone, E; Fantaye, Y; Finelli, F; Forastieri, F; Frailis, M; Fraisse, A A; Franceschi, E; Frolov, A; Galeotta, S; Galli, S; Ganga, K; Génova-Santos, R T; Gerbino, M; Ghosh, T; Giraud-Héraud, Y; González-Nuevo, J; Górski, K M; Gruppuso, A; Gudmundsson, J E; Hansen, F K; Helou, G; Henrot-Versillé, S; Herranz, D; Hivon, E; Huang, Z; Jaffe, A H; Jones, W C; Keihänen, E; Keskitalo, R; Kiiveri, K; Kisner, T S; Krachmalnicoff, N; Kunz, M; Kurki-Suonio, H; Lamarre, J -M; Langer, M; Lasenby, A; Lattanzi, M; Lawrence, C R; Jeune, M Le; Levrier, F; Lilje, P B; Lilley, M; Lindholm, V; López-Caniego, M; Ma, Y -Z; Macías-Pérez, J F; Maggio, G; Maino, D; Mandolesi, N; Mangilli, A; Maris, M; Martin, P G; Martínez-González, E; Matarrese, S; Mauri, N; McEwen, J D; Melchiorri, A; Mennella, A; Migliaccio, M; Miville-Deschênes, M -A; Molinari, D; Moneti, A; Montier, L; Morgante, G; Moss, A; Natoli, P; Oxborrow, C A; Pagano, L; Paoletti, D; Patanchon, G; Perdereau, O; Perotto, L; Pettorino, V; Piacentini, F; Plaszczynski, S; Polastri, L; Polenta, G; Puget, J -L; Rachen, J P; Racine, B; Reinecke, M; Remazeilles, M; Renzi, A; Rocha, G; Rosset, C; Rossetti, M; Roudier, G; Rubiño-Martín, J A; Ruiz-Granados, B; Salvati, L; Sandri, M; Savelainen, M; Scott, D; Sirignano, C; Sirri, G; Soler, J D; Spencer, L D; Suur-Uski, A -S; Tauber, J A; Tavagnacco, D; Tenti, M; Toffolatti, L; Tomasi, M; Tristram, M; Trombetti, T; Valiviita, J; Van Tent, F; Vielva, P; Villa, F; Vittorio, N; Wandelt, B D; Wehus, I K; Zacchei, A; Zonca, A

    2016-01-01

    Using the Planck 2015 data release (PR2) temperature observations, we perform the separation of Galactic thermal dust emission and cosmic infrared background (CIB) anisotropies. For this purpose, we implement a specifically tailored component-separation method, the so-called generalized needlet internal linear combination (GNILC) method. This makes use of the spatial information (angular power spectrum) to disentangle the Galactic dust emission and CIB anisotropies. A significantly improved all-sky map of the Planck thermal dust, with reduced CIB contamination, is produced at 353, 545, and 857 GHz. From the reduction of the CIB contamination in the thermal dust maps, we are able to provide a more accurate estimate of the local dust temperature and dust spectral index over the sky with reduced dispersion at high latitudes. We find that $T = (19.4 \\pm 1.3)$ K and $\\beta = 1.6 \\pm 0.1$ on the whole sky, while $T = (19.4 \\pm 1.5)$ K and $\\beta = 1.6 \\pm 0.2$ on 21 % of the sky at high latitudes, where the error b...

  20. DISENTANGLING THE NATURE OF THE RADIO EMISSION IN WOLF-RAYET STARS

    International Nuclear Information System (INIS)

    We present quasi-simultaneous, multi-frequency Very Large Array observations at 4.8, 8.4, and 22.5 GHz of a sample of 13 Wolf-Rayet (WR) stars, aimed at disentangling the nature of their radio emission and the possible detection of a non-thermal behavior in close binary systems. We detected 12 stars from our sample, for which we derived spectral information and estimated their mass-loss rates. From our data, we identified four thermal sources (WR 89, 113, 138, and 141), and three sources with a composite spectrum (similar contribution of thermal and non-thermal emission; WR 8, 98, and 156). On the other hand, from the comparison with previous observations, we confirm the non-thermal spectrum of one (WR 105), and also found evidence of a composite spectrum for WR 79a, 98a, 104, and 133. Finally, we discuss the possible scenarios to explain the nature of the emission for the observed objects.

  1. Exploring the influential factors in incident clearance time: Disentangling causation from self-selection bias.

    Science.gov (United States)

    Ding, Chuan; Ma, Xiaolei; Wang, Yinhai; Wang, Yunpeng

    2015-12-01

    Understanding the relationships between influential factors and incident clearance time is crucial to make effective countermeasures for incident management agencies. Although there have been a certain number of achievements on incident clearance time modeling, limited effort is made to investigate the relative role of incident response time and its self-selection in influencing the clearance time. To fill this gap, this study uses the endogenous switching model to explore the influential factors in incident clearance time, and aims to disentangle causation from self-selection bias caused by response process. Under the joint two-stage model framework, the binary probit model and switching regression model are formulated for both incident response time and clearance time, respectively. Based on the freeway incident data collected in Washington State, full information maximum likelihood (FIML) method is utilized to estimate the endogenous switching model parameters. Significant factors affecting incident response time and clearance time can be identified, including incident, temporal, geographical, environmental, traffic and operational attributes. The estimate results reveal the influential effects of incident, temporal, geographical, environmental, traffic and operational factors on incident response time and clearance time. In addition, the causality of incident response time itself and its self-selection correction on incident clearance time are found to be indispensable. These findings suggest that the causal effect of response time on incident clearance time will be overestimated if the self-selection bias is not considered. PMID:26373988

  2. The role of ADHD in academic adversity: disentangling ADHD effects from other personal and contextual factors.

    Science.gov (United States)

    Martin, Andrew J

    2014-12-01

    Students with attention-deficit/hyperactivity disorder (ADHD) experience significant academic difficulties that can lead to numerous negative academic consequences. With a focus on adverse academic outcomes, this study seeks to disentangle variance attributable to ADHD from variance attributable to salient personal and contextual covariates. Responses from 136 students with ADHD and 3,779 non-ADHD peers from 9 high schools were analyzed using logistic regression. Dependent measures included academic failure, grade repetition, school refusal, changing classes and school, school exclusion, and schoolwork noncompletion. Covariates comprised personal (e.g., sociodemographics, personality, prior achievement, specific learning disabilities, motivation) and contextual (e.g., school size, school socioeconomic status, school average achievement) factors. Findings indicated that, after accounting for personal and contextual covariates, ADHD explained significant variance in numerous adversities (schoolwork noncompletion, school suspension, school expulsion, changing schools, grade repetition). Thus, beyond the effects of numerous personal and contextual covariates, ADHD has a distinct presence in students' academic adversity. Also interesting, after accounting for other personal and contextual factors, was academic adversity with which ADHD was not associated. Findings provide direction for educational intervention targeting ADHD and associated factors found to be significant in the study. PMID:24820011

  3. Spatial network surrogates for disentangling complex system structure from spatial embedding of nodes

    Science.gov (United States)

    Wiedermann, Marc; Donges, Jonathan F.; Kurths, Jürgen; Donner, Reik V.

    2016-04-01

    Networks with nodes embedded in a metric space have gained increasing interest in recent years. The effects of spatial embedding on the networks' structural characteristics, however, are rarely taken into account when studying their macroscopic properties. Here, we propose a hierarchy of null models to generate random surrogates from a given spatially embedded network that can preserve certain global and local statistics associated with the nodes' embedding in a metric space. Comparing the original network's and the resulting surrogates' global characteristics allows one to quantify to what extent these characteristics are already predetermined by the spatial embedding of the nodes and links. We apply our framework to various real-world spatial networks and show that the proposed models capture macroscopic properties of the networks under study much better than standard random network models that do not account for the nodes' spatial embedding. Depending on the actual performance of the proposed null models, the networks are categorized into different classes. Since many real-world complex networks are in fact spatial networks, the proposed approach is relevant for disentangling the underlying complex system structure from spatial embedding of nodes in many fields, ranging from social systems over infrastructure and neurophysiology to climatology.

  4. Disentangling the ICL with the CHEFs: Abell 2744 as a Case Study

    Science.gov (United States)

    Jiménez-Teja, Y.; Dupke, R.

    2016-03-01

    Measurements of the intracluster light (ICL) are still prone to methodological ambiguities, and there are multiple techniques in the literature to address them, mostly based on the binding energy, the local density distribution, or the surface brightness. A common issue with these methods is the a priori assumption of a number of hypotheses on either the ICL morphology, its surface brightness level, or some properties of the brightest cluster galaxy (BCG). The discrepancy in the results is high, and numerical simulations just place a boundary on the ICL fraction in present-day galaxy clusters in the range 10%-50%. We developed a new algorithm based on the Chebyshev-Fourier functions to estimate the ICL fraction without relying on any a priori assumption about the physical or geometrical characteristics of the ICL. We are able to not only disentangle the ICL from the galactic luminosity but mark out the limits of the BCG from the ICL in a natural way. We test our technique with the recently released data of the cluster Abell 2744, observed by the Frontier Fields program. The complexity of this multiple merging cluster system and the formidable depth of these images make it a challenging test case to prove the efficiency of our algorithm. We found a final ICL fraction of 19.17 ± 2.87%, which is very consistent with numerical simulations.

  5. Disentangling the ICL with the CHEFs: Abell 2744 as a case study

    CERN Document Server

    Jimenez-Teja, Y

    2016-01-01

    Measurements of the intracluster light (ICL) are still prone to methodological ambiguities and there are multiple techniques in the literature for that purpose, mostly based on the binding energy, the local density distribution, or the surface brightness. A common issue with these methods is the a priori assumption of a number of hypotheses on either the ICL morphology, its surface brightness level or some properties of the brightest cluster galaxy (BCG). The discrepancy on the results is high, and numerical simulations just bound the ICL fraction in present-day galaxy clusters to the range 10-50%. We developed a new algorithm based on the Chebyshev-Fourier functions (CHEFs) to estimate the ICL fraction without relying on any a priori assumption on the physical or geometrical characteristics of the ICL. We are able to not only disentangle the ICL from the galatic luminosity but mark out the limits of the BCG from the ICL in a natural way. We test our tecnique with the recently released data of the cluster Abe...

  6. Disentangling vegetation diversity from climate-energy and habitat heterogeneity for explaining animal geographic patterns.

    Science.gov (United States)

    Jiménez-Alfaro, Borja; Chytrý, Milan; Mucina, Ladislav; Grace, James B; Rejmánek, Marcel

    2016-03-01

    Broad-scale animal diversity patterns have been traditionally explained by hypotheses focused on climate-energy and habitat heterogeneity, without considering the direct influence of vegetation structure and composition. However, integrating these factors when considering plant-animal correlates still poses a major challenge because plant communities are controlled by abiotic factors that may, at the same time, influence animal distributions. By testing whether the number and variation of plant community types in Europe explain country-level diversity in six animal groups, we propose a conceptual framework in which vegetation diversity represents a bridge between abiotic factors and animal diversity. We show that vegetation diversity explains variation in animal richness not accounted for by altitudinal range or potential evapotranspiration, being the best predictor for butterflies, beetles, and amphibians. Moreover, the dissimilarity of plant community types explains the highest proportion of variation in animal assemblages across the studied regions, an effect that outperforms the effect of climate and their shared contribution with pure spatial variation. Our results at the country level suggest that vegetation diversity, as estimated from broad-scale classifications of plant communities, may contribute to our understanding of animal richness and may be disentangled, at least to a degree, from climate-energy and abiotic habitat heterogeneity. PMID:26900451

  7. Disentangling associations between poverty at various levels of aggregation and mental health.

    Science.gov (United States)

    Drukker, Marjan; Gunther, Nicole; van Os, Jim

    2007-01-01

    The present editorial discusses whether socioeconomic status of the individual and of the neighbourhood could be important in prevalence, treatment and prevention of psychiatric morbidity. Previous research showed that patients diagnosed with mental disorders are concentrated in socioeconomically disadvantaged areas. This could be the result of (1) an association between individual socioeconomic status and mental health, (2) an association between neighbourhood socioeconomic status and mental health, or (3) social selection. Research disentangling associations between individual and neighbourhood socioeconomic status on the one hand and mental health outcomes on the other, reported that neighbourhood socioeconomic disadvantage was associated with individual mental health over and above individual-level socioeconomic status, indicating deleterious effects for all inhabitants both poor and affluent. In conclusion, subjective mental health outcomes showed stronger evidence for an effect of neighbourhood socioeconomic status than research focussing on treated incidence. Within the group of patients, however, service use was higher in patients living in disadvantaged neighbourhoods. Social capital was identified as one of the mechanisms whereby neighbourhood socioeconomic disadvantage may become associated with observed reductions in mental health. After controlling for individual socioeconomic status, there is evidence for an association between neighbourhood socioeconomic status and objective as well as subjective mental health in adults. Evidence for such an association in young children is even stronger. PMID:17427598

  8. The use of whole-exome sequencing to disentangle complex phenotypes.

    Science.gov (United States)

    Williams, Hywel J; Hurst, John R; Ocaka, Louise; James, Chela; Pao, Caroline; Chanudet, Estelle; Lescai, Francesco; Stanescu, Horia C; Kleta, Robert; Rosser, Elisabeth; Bacchelli, Chiara; Beales, Philip

    2016-02-01

    The success of whole-exome sequencing to identify mutations causing single-gene disorders has been well documented. In contrast whole-exome sequencing has so far had limited success in the identification of variants causing more complex phenotypes that seem unlikely to be due to the disruption of a single gene. We describe a family where two male offspring of healthy first cousin parents present a complex phenotype consisting of peripheral neuropathy and bronchiectasis that has not been described previously in the literature. Due to the fact that both children had the same problems in the context of parental consanguinity we hypothesised illness resulted from either X-linked or autosomal recessive inheritance. Through the use of whole-exome sequencing we were able to simplify this complex phenotype and identified a causative mutation (p.R1070*) in the gene periaxin (PRX), a gene previously shown to cause peripheral neuropathy (Dejerine-Sottas syndrome) when this mutation is present. For the bronchiectasis phenotype we were unable to identify a causal single mutation or compound heterozygote, reflecting the heterogeneous nature of this phenotype. In conclusion, in this study we show that whole-exome sequencing has the power to disentangle complex phenotypes through the identification of causative genetic mutations for distinct clinical disorders that were previously masked. PMID:26059842

  9. Disentangling star formation and AGN activity in powerful infrared luminous radio galaxies at 1

    CERN Document Server

    Drouart, Guillaume; De Breuck, Carlos; Fioc, Michel; Lehnert, Matthew; Seymour, Nick; Stern, Dan; Vernet, Joel

    2016-01-01

    High-redshift radio galaxies present signs of both star formation and AGN activity, making them ideal candidates to investigate the connection and coevolution of AGN and star formation in the progenitors of present-day massive galaxies. We make use of a sample of 11 powerful radio galaxies spanning 1disentangle the relative contribution of the AGN and star formation by combining the galaxyevolutioncodePEGASE.3 with an AGN torus model. We find that three components are necessary to reproduce the observed SEDs: an evolved and massive stellar component, a submm bright young starburst, and an AGN torus. We find that powerful radio galaxies form at very high-redshift, but experience episodic and important growth at 1

  10. Disentangling the Relationship of the Australian Marsupial Orders Using Retrotransposon and Evolutionary Network Analyses

    OpenAIRE

    Gallus, Susanne; Janke, Axel; Kumar, Vikas; Nilsson, Maria A.

    2015-01-01

    The ancestors to the Australian marsupials entered Australia around 60 (54-72) million years ago from Antarctica, and radiated into the four living orders Peramelemorphia, Dasyuromorphia, Diprotodontia and Notoryctemorphia. The relationship between the four Australian marsupial orders has been a long-standing question, because different phylogenetic studies were not able to consistently reconstruct the same topology. Initial in silico analysis of the Tasmanian devil genome and experimental sc...

  11. Phylogenetic and biogeographic analysis of sphaerexochine trilobites.

    Directory of Open Access Journals (Sweden)

    Curtis R Congreve

    Full Text Available BACKGROUND: Sphaerexochinae is a speciose and widely distributed group of cheirurid trilobites. Their temporal range extends from the earliest Ordovician through the Silurian, and they survived the end Ordovician mass extinction event (the second largest mass extinction in Earth history. Prior to this study, the individual evolutionary relationships within the group had yet to be determined utilizing rigorous phylogenetic methods. Understanding these evolutionary relationships is important for producing a stable classification of the group, and will be useful in elucidating the effects the end Ordovician mass extinction had on the evolutionary and biogeographic history of the group. METHODOLOGY/PRINCIPAL FINDINGS: Cladistic parsimony analysis of cheirurid trilobites assigned to the subfamily Sphaerexochinae was conducted to evaluate phylogenetic patterns and produce a hypothesis of relationship for the group. This study utilized the program TNT, and the analysis included thirty-one taxa and thirty-nine characters. The results of this analysis were then used in a Lieberman-modified Brooks Parsimony Analysis to analyze biogeographic patterns during the Ordovician-Silurian. CONCLUSIONS/SIGNIFICANCE: The genus Sphaerexochus was found to be monophyletic, consisting of two smaller clades (one composed entirely of Ordovician species and another composed of Silurian and Ordovician species. By contrast, the genus Kawina was found to be paraphyletic. It is a basal grade that also contains taxa formerly assigned to Cydonocephalus. Phylogenetic patterns suggest Sphaerexochinae is a relatively distinctive trilobite clade because it appears to have been largely unaffected by the end Ordovician mass extinction. Finally, the biogeographic analysis yields two major conclusions about Sphaerexochus biogeography: Bohemia and Avalonia were close enough during the Silurian to exchange taxa; and during the Ordovician there was dispersal between Eastern Laurentia and

  12. High-resolution phylogenetic microbial community profiling

    Energy Technology Data Exchange (ETDEWEB)

    Singer, Esther; Coleman-Derr, Devin; Bowman, Brett; Schwientek, Patrick; Clum, Alicia; Copeland, Alex; Ciobanu, Doina; Cheng, Jan-Fang; Gies, Esther; Hallam, Steve; Tringe, Susannah; Woyke, Tanja

    2014-03-17

    The representation of bacterial and archaeal genome sequences is strongly biased towards cultivated organisms, which belong to merely four phylogenetic groups. Functional information and inter-phylum level relationships are still largely underexplored for candidate phyla, which are often referred to as microbial dark matter. Furthermore, a large portion of the 16S rRNA gene records in the GenBank database are labeled as environmental samples and unclassified, which is in part due to low read accuracy, potential chimeric sequences produced during PCR amplifications and the low resolution of short amplicons. In order to improve the phylogenetic classification of novel species and advance our knowledge of the ecosystem function of uncultivated microorganisms, high-throughput full length 16S rRNA gene sequencing methodologies with reduced biases are needed. We evaluated the performance of PacBio single-molecule real-time (SMRT) sequencing in high-resolution phylogenetic microbial community profiling. For this purpose, we compared PacBio and Illumina metagenomic shotgun and 16S rRNA gene sequencing of a mock community as well as of an environmental sample from Sakinaw Lake, British Columbia. Sakinaw Lake is known to contain a large age of microbial species from candidate phyla. Sequencing results show that community structure based on PacBio shotgun and 16S rRNA gene sequences is highly similar in both the mock and the environmental communities. Resolution power and community representation accuracy from SMRT sequencing data appeared to be independent of GC content of microbial genomes and was higher when compared to Illumina-based metagenome shotgun and 16S rRNA gene (iTag) sequences, e.g. full-length sequencing resolved all 23 OTUs in the mock community, while iTags did not resolve closely related species. SMRT sequencing hence offers various potential benefits when characterizing uncharted microbial communities.

  13. Concepts of Classification and Taxonomy Phylogenetic Classification

    Science.gov (United States)

    Fraix-Burnet, D.

    2016-05-01

    Phylogenetic approaches to classification have been heavily developed in biology by bioinformaticians. But these techniques have applications in other fields, in particular in linguistics. Their main characteristics is to search for relationships between the objects or species in study, instead of grouping them by similarity. They are thus rather well suited for any kind of evolutionary objects. For nearly fifteen years, astrocladistics has explored the use of Maximum Parsimony (or cladistics) for astronomical objects like galaxies or globular clusters. In this lesson we will learn how it works.

  14. Phylogenetic position of the spirochetal genus Cristispira

    DEFF Research Database (Denmark)

    Paster, B.J.; Pelletier, D.A.; Dewhirst, F.E.; Weisburg, W.G.; Fussing, V.; Poulsen, Lars K.; Dannenberg, S.; Schroeder, I.

    1996-01-01

    Comparative sequence analysis of 16S rRNA genes was used to determine the phylogenetic relationship of the genus Cristispira to other spirochetes. Since Cristispira organisms cannot presently be grown in vitro, 16S rRNA genes were amplified directly from bacterial DNA isolated from Cristispira a...... genus within this family. A fluorescently labeled DNA probe designed from the CP1 sequence was used for in situ hybridization experiments to verify that the sequence obtained was derived from the observed Cristispira cells....

  15. Always look on both sides: phylogenetic information conveyed by simple sequence repeat allele sequences.

    Directory of Open Access Journals (Sweden)

    Stéphanie Barthe

    Full Text Available Simple sequence repeat (SSR markers are widely used tools for inferences about genetic diversity, phylogeography and spatial genetic structure. Their applications assume that variation among alleles is essentially caused by an expansion or contraction of the number of repeats and that, accessorily, mutations in the target sequences follow the stepwise mutation model (SMM. Generally speaking, PCR amplicon sizes are used as direct indicators of the number of SSR repeats composing an allele with the data analysis either ignoring the extent of allele size differences or assuming that there is a direct correlation between differences in amplicon size and evolutionary distance. However, without precisely knowing the kind and distribution of polymorphism within an allele (SSR and the associated flanking region (FR sequences, it is hard to say what kind of evolutionary message is conveyed by such a synthetic descriptor of polymorphism as DNA amplicon size. In this study, we sequenced several SSR alleles in multiple populations of three divergent tree genera and disentangled the types of polymorphisms contained in each portion of the DNA amplicon containing an SSR. The patterns of diversity provided by amplicon size variation, SSR variation itself, insertions/deletions (indels, and single nucleotide polymorphisms (SNPs observed in the FRs were compared. Amplicon size variation largely reflected SSR repeat number. The amount of variation was as large in FRs as in the SSR itself. The former contributed significantly to the phylogenetic information and sometimes was the main source of differentiation among individuals and populations contained by FR and SSR regions of SSR markers. The presence of mutations occurring at different rates within a marker's sequence offers the opportunity to analyse evolutionary events occurring on various timescales, but at the same time calls for caution in the interpretation of SSR marker data when the distribution of within

  16. A Distance Measure for Genome Phylogenetic Analysis

    Science.gov (United States)

    Cao, Minh Duc; Allison, Lloyd; Dix, Trevor

    Phylogenetic analyses of species based on single genes or parts of the genomes are often inconsistent because of factors such as variable rates of evolution and horizontal gene transfer. The availability of more and more sequenced genomes allows phylogeny construction from complete genomes that is less sensitive to such inconsistency. For such long sequences, construction methods like maximum parsimony and maximum likelihood are often not possible due to their intensive computational requirement. Another class of tree construction methods, namely distance-based methods, require a measure of distances between any two genomes. Some measures such as evolutionary edit distance of gene order and gene content are computational expensive or do not perform well when the gene content of the organisms are similar. This study presents an information theoretic measure of genetic distances between genomes based on the biological compression algorithm expert model. We demonstrate that our distance measure can be applied to reconstruct the consensus phylogenetic tree of a number of Plasmodium parasites from their genomes, the statistical bias of which would mislead conventional analysis methods. Our approach is also used to successfully construct a plausible evolutionary tree for the γ-Proteobacteria group whose genomes are known to contain many horizontally transferred genes.

  17. Epitope discovery with phylogenetic hidden Markov models.

    LENUS (Irish Health Repository)

    Lacerda, Miguel

    2010-05-01

    Existing methods for the prediction of immunologically active T-cell epitopes are based on the amino acid sequence or structure of pathogen proteins. Additional information regarding the locations of epitopes may be acquired by considering the evolution of viruses in hosts with different immune backgrounds. In particular, immune-dependent evolutionary patterns at sites within or near T-cell epitopes can be used to enhance epitope identification. We have developed a mutation-selection model of T-cell epitope evolution that allows the human leukocyte antigen (HLA) genotype of the host to influence the evolutionary process. This is one of the first examples of the incorporation of environmental parameters into a phylogenetic model and has many other potential applications where the selection pressures exerted on an organism can be related directly to environmental factors. We combine this novel evolutionary model with a hidden Markov model to identify contiguous amino acid positions that appear to evolve under immune pressure in the presence of specific host immune alleles and that therefore represent potential epitopes. This phylogenetic hidden Markov model provides a rigorous probabilistic framework that can be combined with sequence or structural information to improve epitope prediction. As a demonstration, we apply the model to a data set of HIV-1 protein-coding sequences and host HLA genotypes.

  18. Phylogenetic analysis of honey bee behavioral evolution.

    Science.gov (United States)

    Raffiudin, Rika; Crozier, Ross H

    2007-05-01

    DNA sequences from three mitochondrial (rrnL, cox2, nad2) and one nuclear gene (itpr) from all 9 known honey bee species (Apis), a 10th possible species, Apis dorsata binghami, and three outgroup species (Bombus terrestris, Melipona bicolor and Trigona fimbriata) were used to infer Apis phylogenetic relationships using Bayesian analysis. The dwarf honey bees were confirmed as basal, and the giant and cavity-nesting species to be monophyletic. All nodes were strongly supported except that grouping Apis cerana with A. nigrocincta. Two thousand post-burnin trees from the phylogenetic analysis were used in a Bayesian comparative analysis to explore the evolution of dance type, nest structure, comb structure and dance sound within Apis. The ancestral honey bee species was inferred with high support to have nested in the open, and to have more likely than not had a silent vertical waggle dance and a single comb. The common ancestor of the giant and cavity-dwelling bees is strongly inferred to have had a buzzing vertical directional dance. All pairwise combinations of characters showed strong association, but the multiple comparisons problem reduces the ability to infer associations between states between characters. Nevertheless, a buzzing dance is significantly associated with cavity-nesting, several vertical combs, and dancing vertically, a horizontal dance is significantly associated with a nest with a single comb wrapped around the support, and open nesting with a single pendant comb and a silent waggle dance. PMID:17123837

  19. Phylogenetic diversity of Mesorhizobium in chickpea

    Indian Academy of Sciences (India)

    Dong Hyun Kim; Mayank Kaashyap; Abhishek Rathore; Roma R Das; Swathi Parupalli; Hari D Upadhyaya; S Gopalakrishnan; Pooran M Gaur; Sarvjeet Singh; Jagmeet Kaur; Mohammad Yasin; Rajeev K Varshney

    2014-06-01

    Crop domestication, in general, has reduced genetic diversity in cultivated gene pool of chickpea (Cicer arietinum) as compared with wild species (C. reticulatum, C. bijugum). To explore impact of domestication on symbiosis, 10 accessions of chickpeas, including 4 accessions of C. arietinum, and 3 accessions of each of C. reticulatum and C. bijugum species, were selected and DNAs were extracted from their nodules. To distinguish chickpea symbiont, preliminary sequences analysis was attempted with 9 genes (16S rRNA, atpD, dnaJ, glnA, gyrB, nifH, nifK, nodD and recA) of which 3 genes (gyrB, nifK and nodD) were selected based on sufficient sequence diversity for further phylogenetic analysis. Phylogenetic analysis and sequence diversity for 3 genes demonstrated that sequences from C. reticulatum were more diverse. Nodule occupancy by dominant symbiont also indicated that C. reticulatum (60%) could have more various symbionts than cultivated chickpea (80%). The study demonstrated that wild chickpeas (C. reticulatum) could be used for selecting more diverse symbionts in the field conditions and it implies that chickpea domestication affected symbiosis negatively in addition to reducing genetic diversity.

  20. A phylogenetic blueprint for a modern whale.

    Science.gov (United States)

    Gatesy, John; Geisler, Jonathan H; Chang, Joseph; Buell, Carl; Berta, Annalisa; Meredith, Robert W; Springer, Mark S; McGowen, Michael R

    2013-02-01

    The emergence of Cetacea in the Paleogene represents one of the most profound macroevolutionary transitions within Mammalia. The move from a terrestrial habitat to a committed aquatic lifestyle engendered wholesale changes in anatomy, physiology, and behavior. The results of this remarkable transformation are extant whales that include the largest, biggest brained, fastest swimming, loudest, deepest diving mammals, some of which can detect prey with a sophisticated echolocation system (Odontoceti - toothed whales), and others that batch feed using racks of baleen (Mysticeti - baleen whales). A broad-scale reconstruction of the evolutionary remodeling that culminated in extant cetaceans has not yet been based on integration of genomic and paleontological information. Here, we first place Cetacea relative to extant mammalian diversity, and assess the distribution of support among molecular datasets for relationships within Artiodactyla (even-toed ungulates, including Cetacea). We then merge trees derived from three large concatenations of molecular and fossil data to yield a composite hypothesis that encompasses many critical events in the evolutionary history of Cetacea. By combining diverse evidence, we infer a phylogenetic blueprint that outlines the stepwise evolutionary development of modern whales. This hypothesis represents a starting point for more detailed, comprehensive phylogenetic reconstructions in the future, and also highlights the synergistic interaction between modern (genomic) and traditional (morphological+paleontological) approaches that ultimately must be exploited to provide a rich understanding of evolutionary history across the entire tree of Life. PMID:23103570

  1. Preliminary results on the conservation of Lamyropsis Microcephala (Moris) Dittrich & Greuter (Asteraceae), a threatened endemic species of the Gennargentu massif, Sardinia (Italy)

    OpenAIRE

    Bacchetta, Gianluigi; Fenu, Giuseppe; Mattana, Efisio; Ulian, Tiziana

    2007-01-01

    Lamyropsis microcephala (Moris) Dittrich & Greuter (Asteraceae) is a perennial species, narrow endemic of Sardinia (Italy) and known only in two sites of the Gennargentu massif. The aims of this study are to investigate characteristics of the ecology and biology of the species which might be important for its conservation and reassess its conservation status. Here we show the preliminary results of this study, with a focus on the abundance and distribution of the species, its reproductive ...

  2. A proposal for chemical characterization and quality evaluation of botanical raw materials using glandular trichome microsampling of yacón (Polymnia sonchifolia, Asteraceae), an Andean medicinal plant

    OpenAIRE

    K. Schorr; F.B. Da Costa

    2003-01-01

    A proposal for chemical characterisation and quality evaluation of botanical raw materials by analysing the glandular trichomes from the leaves of two different populations of yacón (Polymnia sonchifolia Poeppig & Endlicher, Asteraceae) is described. This species is an Andean medicinal plant and the tea prepared with their leaves displays hypoglycemic property. The method was based on the glandular trichome microsampling using LC/DAD. Qualitative chromatographic fingerprints of the glands wer...

  3. Revisión taxonómica del complejo Centaurea alba L. (Asteraceae) en la Península Ibérica

    OpenAIRE

    Devesa, J. A.; López, E

    2011-01-01

    Taxonomic revision of the Centaurea alba L. complex (Asteraceae) in the Iberian Peninsula.- A taxonomic revision of the Centaurea alba L. complex (Centaurea L. sect. Centaurea) in the Iberian Peninsula is presented, which is represented by two species, C. alba and C. costae Willk. Three subspecies of C. alba with reasonably well-defined areas are recognized: C. alba subsp. alba, with three varieties –alba, macrocephala Pau and latronum (Pau) E. López & Devesa-, C. alba subsp. aristifera (Pau...

  4. Clave interactiva para los géneros de la familia Asteraceae (Compositae presentes en la reserva municipal de Cogua (Cundinamarca, Colombia

    Directory of Open Access Journals (Sweden)

    Gómez Juan Carlos

    2005-07-01

    Full Text Available En el trabajo científico y práctico con plantas, identificar las especies es fundamental. Esta identificación se realiza con el uso de claves, las cuales proporcionan la identidad correcta de una especie a través de un proceso de eliminación por contraste. En este trabajo se planteó elaborar una clave interactiva para los géneros de la familia Asteraceae (Compositae reportados en la Reserva Municipal de Cogua (Cundinamarca, Colombia, como herramienta para el reconocimiento de la flora local. Se obtuvo una clave interactiva en formato DELTA para los 31 géneros de la familia Asteraceae registrados en la reserva, con un listado de 173 caracteres diagnósticos para la familia, que engloban la variabilidad de las 57 especies estudiadas. Además, fue ilustrada con fotografías y dibujos de las especies y de los caracteres para facilitar el proceso de identificación, y se preparó para ser publicada en Internet de manera que pueda ser utilizada desde la red o quemada en un CD sin necesidad de conexión. La clave demostró ser eficiente para identificar los géneros de
    Asteraceae presentes en la reserva, utilizando solamente los caracteres de tipo vegetativo, con escaso uso de los caracteres de inflorescencia, y nulo requerimiento de caracteres florales. Esto es un resultado asombroso y no esperado para la familia Asteraceae, cuyas claves tradicionales requieren, desde el comienzo caracteres reproductivos. Es posible apreciar así la alta efectividad de la clave y la gran utilidad del programa DELTA.

  5. Phylogenetic positions of several amitochondriate protozoa-Evidence from phylogenetic analysis of DNA topoisomerase II

    Institute of Scientific and Technical Information of China (English)

    HE De; DONG Jiuhong; WEN Jianfan; XIN Dedong; LU Siqi

    2005-01-01

    Several groups of parasitic protozoa, as represented by Giardia, Trichomonas, Entamoeba and Microsporida, were once widely considered to be the most primitive extant eukaryotic group―Archezoa. The main evidence for this is their 'lacking mitochondria' and possessing some other primitive features between prokaryotes and eukaryotes, and being basal to all eukaryotes with mitochondria in phylogenies inferred from many molecules. Some authors even proposed that these organisms diverged before the endosymbiotic origin of mitochondria within eukaryotes. This view was once considered to be very significant to the study of origin and evolution of eukaryotic cells (eukaryotes). However, in recent years this has been challenged by accumulating evidence from new studies. Here the sequences of DNA topoisomerase II in G. lamblia, T. vaginalis and E. histolytica were identified first by PCR and sequencing, then combining with the sequence data of the microsporidia Encephalitozoon cunicul and other eukaryotic groups of different evolutionary positions from GenBank, phylogenetic trees were constructed by various methods to investigate the evolutionary positions of these amitochondriate protozoa. Our results showed that since the characteristics of DNA topoisomerase II make it avoid the defect of 'long-branch attraction' appearing in the previous phylogenetic analyses, our trees can not only reflect effectively the relationship of different major eukaryotic groups, which is widely accepted, but also reveal phylogenetic positions for these amitochondriate protozoa, which is different from the previous phylogenetic trees. They are not the earliest-branching eukaryotes, but diverged after some mitochondriate organisms such as kinetoplastids and mycetozoan; they are not a united group but occupy different phylogenetic positions. Combining with the recent cytological findings of mitochondria-like organelles in them, we think that though some of them (e.g. diplomonads, as represented

  6. Disentangling residence time and temperature sensitivity of microbial decomposition in a global soil carbon model

    Directory of Open Access Journals (Sweden)

    J.-F. Exbrayat

    2014-03-01

    Full Text Available Recent studies have identified the first-order parameterization of microbial decomposition as a major source of uncertainty in simulations and projections of the terrestrial carbon balance. Here, we use a reduced complexity model representative of the current state-of-the-art parameterization of soil organic carbon decomposition. We undertake a systematic sensitivity analysis to disentangle the effect of the time-invariant baseline residence time (k and the sensitvity of microbial decomposition to temperature (Q10 on soil carbon dynamics at regional and global scales. Our simulations produce a range in total soil carbon at equilibrium of ~ 592 to 2745 Pg C which is similar to the ~ 561 to 2938 Pg C range in pre-industrial soil carbon in models used in the fifth phase of the Coupled Model Intercomparison Project. This range depends primarily on the value of k, although the impact of Q10 is not trivial at regional scales. As climate changes through the historical period, and into the future, k is primarily responsible for the magnitude of the response in soil carbon, whereas Q10 determines whether the soil remains a sink, or becomes a source in the future mostly by its effect on mid-latitudes carbon balance. If we restrict our simulations to those simulating total soil carbon stocks consistent with observations of current stocks, the projected range in total soil carbon change is reduced by 42% for the historical simulations and 45% for the future projections. However, while this observation-based selection dismisses outliers it does not increase confidence in the future sign of the soil carbon feedback. We conclude that despite this result, future estimates of soil carbon, and how soil carbon responds to climate change should be constrained by available observational data sets.

  7. Disentangling Topographic and Climatic Change during the Late Cretaceous and Cenozoic in the Western US Cordillera

    Science.gov (United States)

    Snell, K. E.; Eiler, J. M.; Wernicke, B. P.; Peppe, D. J.; Fox, D. L.; Fetrow, A. C.; Passey, B. H.

    2014-12-01

    A diverse suite of tectonic and climatic drivers influenced the topographic evolution of the western USA Cordillera. Despite years of study, considerable uncertainty remains about fundamentals of this evolution, such as the timing and magnitude of maximum average elevations for the different physiographic provinces; the drivers and topographic effects of different episodes of extension during the Cenozoic; and the relative relief of peaks and intermontane basins within the Cordillera at different times and in different places. Numerous tectonic models have been developed to explain the evolution of the Cordillera, and understanding these details is key for distinguishing between these different models. In addition, the topographic changes in the Cordillera have important implications for regional and local climate of the western US at different times in the past, and may drive important differences in local climatic responses to global climate changes through the Cenozoic. The majority of the tools that currently exist for quantitatively reconstructing changes in topography through time and space rely on paleoclimate proxy data. Thus it is also important to be able to disentangle climatic change from elevation change in terrestrial paleoclimate records. To address some of these outstanding questions, we have generated and compiled paleotemperature estimates from the Late Cretaceous through the Miocene of the western US. In this presentation, we will focus on the latest installment of the project, which utilizes Oligocene paleotemperature records from central Utah and South Dakota and Miocene-Holocene paleotemperature records from Kansas. The data are dominantly composed of mean annual temperature estimates from leaf margin analysis and summer temperature estimates from carbonate clumped isotope thermometry. We will discuss how these data compare to temperature data from the Paleogene from the western US, what general trends exist within all the data and how these

  8. Disentangling the eruption source parameters that control the climate effects of volcanic eruptions

    Science.gov (United States)

    Marshall, Lauren; Schmidt, Anja; Mann, Graham; Carslaw, Kenneth; Dhomse, Sandip; Haywood, Jim; Jones, Andy

    2016-04-01

    Climatic cooling in the 1-2 years following a major volcanic eruption does not scale linearly with the mass of SO2 injected into the atmosphere. The injection height of the emissions, the latitude of the volcano, the season and large scale atmospheric circulations, also influence the climatic response. Complex couplings exist between stratospheric chemistry and circulations, and aerosol induced heating and aerosol microphysical processes such as condensation and evaporation. As yet, there has been no systematic assessment of these relationships when considering different eruption source parameters. A series of simulations with a global composition-climate model with interactive stratospheric chemistry and aerosol microphysics are conducted, in which the eruption latitude and injection height are varied. Parameter combinations are chosen such that injections sample areas in the atmosphere where different chemical and dynamical influences are important (e.g. tropical vs. high latitude eruptions, injections near the tropopause vs. injections in the upper stratosphere). Each experiment is repeated for varying SO2 injection magnitudes. We focus on the analysis of aerosol properties such as the stratospheric aerosol optical depth, effective radius and heating rates, and resultant perturbations to radiative fluxes. Initial results demonstrate the non-linearity in the climatic response as the injection magnitude is increased. Future work will focus on disentangling the contribution of each parameter to the climatic response with additional simulations to investigate the effect of season and the Quasi Biennial Oscillation. Results will aid in the understanding of the impact of past, present and future volcanic eruptions. By analysing sulfate deposition to the polar ice caps, we will assess the uncertainty in, and validity of, the historic volcanic radiative forcing deduced from ice cores.

  9. Disentangling the effects of insomnia and night work on cardiovascular diseases: a study in nursing professionals

    Directory of Open Access Journals (Sweden)

    A. Silva-Costa

    2015-02-01

    Full Text Available Cardiovascular diseases (CVDs are known to be associated with poor sleep quality in general populations, but they have not been consistently associated with specific work schedules. Studies of CVD generally do not simultaneously consider sleep and work schedules, but that approach could help to disentangle their effects. We investigated the association between insomnia and a self-reported physician diagnosis of CVD in day and night workers, considering all sleep episodes during nocturnal and diurnal sleep. A cross-sectional study was conducted in 1307 female nursing professionals from 3 public hospitals, using baseline data from the “Health and Work in Nursing - a Cohort Study.” Participants were divided into two groups: i day workers with no previous experience in night shifts (n=281 and whose data on insomnia were related to nocturnal sleep and ii those who worked exclusively at night (n=340 and had data on both nocturnal and diurnal sleep episodes, as they often sleep at daytime. Multiple logistic regression analysis was performed. Among day workers, insomnia complaints increased the odds of CVD 2.79-fold (95% CI=1.01-6.71 compared with workers who had no complaints. Among night workers, reports of insomnia during both nocturnal and diurnal sleep increased the odds of reported CVD 3.07-fold (95% CI=1.30-7.24. Workers with insomnia had similar probabilities of reporting CVD regardless of their work schedule, suggesting a relationship to insomnia and not to night work per se. The results also highlighted the importance of including evaluation of all sleep episodes (diurnal plus nocturnal sleep for night workers.

  10. Disentangling the effects of insomnia and night work on cardiovascular diseases: a study in nursing professionals

    Energy Technology Data Exchange (ETDEWEB)

    Silva-Costa, A. [Escola Nacional de Saúde Pública, Fundação Oswaldo Cruz (Fiocruz), Rio de Janeiro, RJ (Brazil); Griep, R.H.; Rotenberg, L. [Laboratório de Educação em Ambiente e Saúde, Instituto Oswaldo Cruz (Fiocruz), Rio de Janeiro, RJ (Brazil)

    2014-11-21

    Cardiovascular diseases (CVDs) are known to be associated with poor sleep quality in general populations, but they have not been consistently associated with specific work schedules. Studies of CVD generally do not simultaneously consider sleep and work schedules, but that approach could help to disentangle their effects. We investigated the association between insomnia and a self-reported physician diagnosis of CVD in day and night workers, considering all sleep episodes during nocturnal and diurnal sleep. A cross-sectional study was conducted in 1307 female nursing professionals from 3 public hospitals, using baseline data from the “Health and Work in Nursing - a Cohort Study.” Participants were divided into two groups: i) day workers with no previous experience in night shifts (n=281) and whose data on insomnia were related to nocturnal sleep and ii) those who worked exclusively at night (n=340) and had data on both nocturnal and diurnal sleep episodes, as they often sleep at daytime. Multiple logistic regression analysis was performed. Among day workers, insomnia complaints increased the odds of CVD 2.79-fold (95% CI=1.01-6.71) compared with workers who had no complaints. Among night workers, reports of insomnia during both nocturnal and diurnal sleep increased the odds of reported CVD 3.07-fold (95% CI=1.30-7.24). Workers with insomnia had similar probabilities of reporting CVD regardless of their work schedule, suggesting a relationship to insomnia and not to night work per se. The results also highlighted the importance of including evaluation of all sleep episodes (diurnal plus nocturnal sleep) for night workers.

  11. Disentangling legacy effects from environmental filters of postfire assembly of boreal tree assemblages.

    Science.gov (United States)

    Brown, Carissa D; Liu, Juxin; Yan, Guohua; Johnstone, Jill F

    2015-11-01

    Disturbance plays a key role in driving ecological responses by creating opportunities for new ecological communities to assemble and by directly influencing the outcomes of assembly. Legacy effects (such as seed banks) and environmental filters can both influence community assembly, but their effects are impossible to separate with observational data. Here, we used seeding experiments in sites covering a broad range of postdisturbance conditions to tease apart the effects of seed availability, environmental factors, and disturbance characteristics on early community assembly after fire. We added seed of four common boreal trees to experimental plots in 55 replicate sites in recently burned areas of black spruce forest in northwestern North America. Seed addition treatments increased the probability of occurrence for all species, indicating a widespread potential for seed limitation to affect patterns of recruitment after fire. Small-seeded. species (aspen and birch) were most sensitive to environmental factors such as soil moisture and organic layer depth, suggesting a role for niche-based environmental filtering in community assembly. Fire characteristics related to severity and frequency were also important drivers of seedling regeneration, indicating the potential for disturbance to mediate environmental filters and legacy effects on seed availability. Because effects of seed availability are typically impossible to disentangle from environmental constraints on recruitment in observational studies, legacy effects contingent on vegetation history may be misinterpreted as being driven by strong environmental filters. Results from the seeding experiments suggest that vegetation legacies affecting seed availability play a pivotal role in shaping patterns of community assembly after fire in these low-diversity boreal forests. PMID:27070021

  12. Disentangling the Role of Climate, Topography and Vegetation in Species Richness Gradients.

    Directory of Open Access Journals (Sweden)

    Mario R Moura

    Full Text Available Environmental gradients (EG related to climate, topography and vegetation are among the most important drivers of broad scale patterns of species richness. However, these different EG do not necessarily drive species richness in similar ways, potentially presenting synergistic associations when driving species richness. Understanding the synergism among EG allows us to address key questions arising from the effects of global climate and land use changes on biodiversity. Herein, we use variation partitioning (also know as commonality analysis to disentangle unique and shared contributions of different EG in explaining species richness of Neotropical vertebrates. We use three broad sets of predictors to represent the environmental variability in (i climate (annual mean temperature, temperature annual range, annual precipitation and precipitation range, (ii topography (mean elevation, range and coefficient of variation of elevation, and (iii vegetation (land cover diversity, standard deviation and range of forest canopy height. The shared contribution between two types of EG is used to quantify synergistic processes operating among EG, offering new perspectives on the causal relationships driving species richness. To account for spatially structured processes, we use Spatial EigenVector Mapping models. We perform analyses across groups with distinct dispersal abilities (amphibians, non-volant mammals, bats and birds and discuss the influence of vagility on the partitioning results. Our findings indicate that broad scale patterns of vertebrate richness are mainly affected by the synergism between climate and vegetation, followed by the unique contribution of climate. Climatic factors were relatively more important in explaining species richness of good dispersers. Most of the variation in vegetation that explains vertebrate richness is climatically structured, supporting the productivity hypothesis. Further, the weak synergism between topography and

  13. Disentangling the Attention Network Test: Behavioral, Event Related Potentials and neural source analyses.

    Directory of Open Access Journals (Sweden)

    Alejandro eGalvao-Carmona

    2014-10-01

    Full Text Available Background. The study of the attentional system remains a challenge for current neuroscience. The Attention Network Test (ANT was designed to study simultaneously three different attentional networks (alerting, orienting and executive based in subtraction of different experimental conditions. However, some studies recommend caution with these calculations due to the interactions between the attentional networks. In particular, it is highly relevant that several interpretations about attentional impairment have arisen from these calculations in diverse pathologies. Event Related Potentials (ERPs and neural source analysis can be applied to disentangle the relationships between these attentional networks not specifically shown by behavioural measures. Results. This study shows that there is a basic level of alerting (tonic alerting in the no cue condition, represented by a slow negative trend in the ERP trace prior to the onset of the target stimuli. A progressive increase in the CNV amplitude related to the amount of information provided by the cue conditions is also shown. Neural source analysis reveals specific modulations of the CNV related to a task-related expectancy presented in the no cue condition; a late modulation triggered by the central cue condition and probably representing a generic motor preparation; and an early and late modulation for spatial cue condition suggesting specific motor and sensory preactivation. Finally, the first component in the information processing of the target stimuli modulated by the interaction between orienting network and the executive system can be represented by N1. Conclusions. The ANT is useful as a paradigm to study specific attentional mechanisms and their interactions. However, calculation of network effects is based in subtractions with non-comparable experimental conditions, as evidenced by the present data, which can induce misinterpretations in the study of the attentional capacity in human

  14. Disentangling the effects of insomnia and night work on cardiovascular diseases: a study in nursing professionals

    International Nuclear Information System (INIS)

    Cardiovascular diseases (CVDs) are known to be associated with poor sleep quality in general populations, but they have not been consistently associated with specific work schedules. Studies of CVD generally do not simultaneously consider sleep and work schedules, but that approach could help to disentangle their effects. We investigated the association between insomnia and a self-reported physician diagnosis of CVD in day and night workers, considering all sleep episodes during nocturnal and diurnal sleep. A cross-sectional study was conducted in 1307 female nursing professionals from 3 public hospitals, using baseline data from the “Health and Work in Nursing - a Cohort Study.” Participants were divided into two groups: i) day workers with no previous experience in night shifts (n=281) and whose data on insomnia were related to nocturnal sleep and ii) those who worked exclusively at night (n=340) and had data on both nocturnal and diurnal sleep episodes, as they often sleep at daytime. Multiple logistic regression analysis was performed. Among day workers, insomnia complaints increased the odds of CVD 2.79-fold (95% CI=1.01-6.71) compared with workers who had no complaints. Among night workers, reports of insomnia during both nocturnal and diurnal sleep increased the odds of reported CVD 3.07-fold (95% CI=1.30-7.24). Workers with insomnia had similar probabilities of reporting CVD regardless of their work schedule, suggesting a relationship to insomnia and not to night work per se. The results also highlighted the importance of including evaluation of all sleep episodes (diurnal plus nocturnal sleep) for night workers

  15. Fast Computations for Measures of Phylogenetic Beta Diversity

    OpenAIRE

    Tsirogiannis, Constantinos; Sandel, Brody

    2016-01-01

    For many applications in ecology, it is important to examine the phylogenetic relations between two communities of species. More formally, let T be a phylogenetic tree and let A and B be two samples of its tips, representing the examined communities. We want to compute a value that expresses the phylogenetic diversity between A and B in T . There exist several measures that can do this; these are the so-called phylogenetic beta diversity (β-diversity) measures. Two popular measures of this ki...

  16. Phylogenetic Structure of Foliar Spectral Traits in Tropical Forest Canopies

    Directory of Open Access Journals (Sweden)

    Kelly M. McManus

    2016-02-01

    Full Text Available The Spectranomics approach to tropical forest remote sensing has established a link between foliar reflectance spectra and the phylogenetic composition of tropical canopy tree communities vis-à-vis the taxonomic organization of biochemical trait variation. However, a direct relationship between phylogenetic affiliation and foliar reflectance spectra of species has not been established. We sought to develop this relationship by quantifying the extent to which underlying patterns of phylogenetic structure drive interspecific variation among foliar reflectance spectra within three Neotropical canopy tree communities with varying levels of soil fertility. We interpreted the resulting spectral patterns of phylogenetic signal in the context of foliar biochemical traits that may contribute to the spectral-phylogenetic link. We utilized a multi-model ensemble to elucidate trait-spectral relationships, and quantified phylogenetic signal for spectral wavelengths and traits using Pagel’s lambda statistic. Foliar reflectance spectra showed evidence of phylogenetic influence primarily within the visible and shortwave infrared spectral regions. These regions were also selected by the multi-model ensemble as those most important to the quantitative prediction of several foliar biochemical traits. Patterns of phylogenetic organization of spectra and traits varied across sites and with soil fertility, indicative of the complex interactions between the environmental and phylogenetic controls underlying patterns of biodiversity.

  17. Concomitant chemopreventive and antibacterial effects of some Iranian plants from the genus Cousinia (Asteraceae Efeitos quimiopreventivo e antibacteriano concomintantes de algumas plantas iranianas do gênero Cousinia (Asteraceae

    Directory of Open Access Journals (Sweden)

    Ahmad Reza Shahverdi

    2007-09-01

    Full Text Available During the past several years, various species of Cousinia (Asteraceae have been authenticated in Iran. However, data concerning their biological activities remain limited. The main purpose of this research was to assess potential cytotoxicity and matrix metalloproteinases (MMP inhibitory effects of seven ethanol extracts of Cousinia using a cell line model (Fibrosarcoma-WEHI 164. We further investigated the antibacterial activity of these Cousinia ethanol extracts, using disk diffusion method. Among the ethanol extracts, the total extract of C. sulabadensis elicited significant inhibition of MMP activity in a dose-response fashion (49.2 ± 0.51, p Durante os últimos anos, várias espécies de Cousinia (Asteraceae têm sido identificadas no Irã. No entanto, dados acerca de suas atividades biológicas permanecem limitados. O principal propósito desta pesquisa foi avaliar a potencial citotoxidade e os efeitos inibitórios de metaloproteinases da matriz (MMP de sete extratos etanólicos de Cousinia utilizando um modelo de linhagem celular (Fibrosarcoma-WEHI 164. Além disso, investigamos a atividade antibacteriana destes extratos etanólicos de Cousinia, utilizando o método de difusão em disco. Dentre os extratos etanólicos, o extrato total de C. sulabadensis promoveu inibição significativa da atividade de MMP de maneira dose-resposta (49,2 ± 0,51, p < 0,05. Todavia, este extrato exibiu o menor efeito de citotoxicidade em todas as concentrações testadas. A concentração necessária para produzir uma taxa de 50% de morte celular (IC50 com C. shulabadensis foi 304,5 ± 0,61 µg/mL. A IC50 calculada para a citotoxicidade dos outros extratos de espécies de Cousinia situou-se entre 18,4 ± 0,59 e 87,9 ± 0,58 µg/mL. A maior atividade antibacteriana foi observada para o extrato total de Cousinia phyllocephala. Em conclusão, este estudo corrobora que espécies de Cousinia mostram uma notável inibição da atividade de metaloproteinases da

  18. Anatomia de raiz, caule e folha e identificação de estruturas secretoras de Achillea millefolium L. (Asteraceae = Anatomy of root, stem and leaf and identification of secretory structures of Achillea millefolium L. (Asteraceae

    Directory of Open Access Journals (Sweden)

    Simone de Jesus Dematei Gregio

    2006-10-01

    Full Text Available Realizou-se o estudo anatômico dos órgãos vegetativos raiz, caule e folha, e extraíram-se os óleos essenciais das diferentes partes da planta, identificando-se as possíveis estruturas secretoras desses óleos. Utilizou-se material fresco para a realização dos testes histoquímicos e para a confecção de lâminas semipermanentes, as quais se coraram com Safrablau. Para a confecção de lâminas permanentes, utilizou-se material fixado em FAA 50%, incluído em historesina. Observaram-se pêlos tectores no escapo e na folha, enquanto que pêlos glandulares foram encontrados no escapo e na flor. Canais secretores de origem esquizógena acompanham os feixes vasculares no rizoma, no escapo, na folha e na bráctea da flor. Na raiz, esses canais estão ausentes. Na folha e na inflorescência fechada, observouse maior quantidade de óleos essenciais. A folha é anfistomática e os estômatos, do tipo anomocítico, estão presentes também no escapo. A estrutura geral de Achillea millefolium é semelhante à de outras espécies da família Asteraceae.An anatomic study of the vegetative organs: root, stem and leaf was made. The essential oils were extracted from the plant identifying the possible secretory structures. Fresh material was used in order to perform histochemical tests and to prepare semi-permanent slides, which were colored with Safrabau. For the preparation of the semi-permanent slides, material fixed in FAA 50% was used including historesina. Tector hairs can be observed in the scape and flower. Secretory channels of schizogeneous origin follow the vascular bundles in the rhizome, scape, leaf and bract of the flower. In the root, these channels are absent. In the leaf and in the unopened inflorescence there is a greater quantity of the essential oils. The leaf is amphistomatic and the stomata of anomocytic type are present in the scape as well. The general structure of the Achillea millefolium is similar to the structures of the

  19. Meiotic analysis of the germoplasm of three medicinal species from Asteraceae family Análise meiótica do germoplasma de três espécies medicinais da família Asteraceae

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    Denise Olkoski

    2008-09-01

    Full Text Available Cytogenetic characterization was carried out on 12 accessions from Aster squamatus (Spreng. Hieron., Pterocaulon polystachyum DC, and Solidago microglossa DC by studying their meiotic behavior and pollen viability. These species are from the Asteraceae family, native to Rio Grande do Sul State, Brazil, and are important for medicinal use. Young inflorescences with four accessions of each species were collected, fixed in ethanol-acetic acid (3:1, and conserved in ethanol 70% until use. The method used was that of squashing the anthers and coloring with acetic orcein 2%. Meiosis was regular in all accessions, presenting chromosomal associations preferentially bivalent, where n=10 was found for Aster squamatus and n=9 for Pterocaulon polystachyum, and Solidago microglossa. The studied accessions presented a Meiotic Index (MI that varied from 65% to 87% in Aster squamatus, 85% to 92% in Pterocaulon polystachyum, and 64% to 92% in Solidago microglossa, indicating meiotic stability, although irregularities appeared during the cellular division. The pollen viability estimative was high in all studied accessions. These results indicate that the studied species can be included in future studies of genetic breeding.Foi realizada a caracterização citogenética de doze acessos de Aster squamatus, Pterocaulon polystachyum e Solidago microglossa, espécies da família Asteraceae, nativas do Rio Grande do Sul, Brasil, por meio do estudo do comportamento meiótico e da viabilidade polínica, que possuem grande importância para uso medicinal. Inflorescências jovens de quatro acessos de cada espécie foram fixadas em álcool-ácido acético (3:1 e conservadas em álcool 70% até o uso. O método utilizado foi o de esmagamento de anteras e a coloração com orceína acética 2%. A meiose foi regular em todos os acessos, apresentando associações cromossômicas preferencialmente em bivalentes, encontrando-se n=10 para Aster squamatus e n=9 para Pterocaulon

  20. Repeated reunions and splits feature the highly dynamic evolution of 5S and 35S ribosomal RNA genes (rDNA in the Asteraceae family

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    Garcia Sònia

    2010-08-01

    Full Text Available Abstract Background In flowering plants and animals the most common ribosomal RNA genes (rDNA organisation is that in which 35S (encoding 18S-5.8S-26S rRNA and 5S genes are physically separated occupying different chromosomal loci. However, recent observations established that both genes have been unified to a single 35S-5S unit in the genus Artemisia (Asteraceae, a genomic arrangement typical of primitive eukaryotes such as yeast, among others. Here we aim to reveal the origin, distribution and mechanisms leading to the linked organisation of rDNA in the Asteraceae by analysing unit structure (PCR, Southern blot, sequencing, gene copy number (quantitative PCR and chromosomal position (FISH of 5S and 35S rRNA genes in ~200 species representing the family diversity and other closely related groups. Results Dominant linked rDNA genotype was found within three large groups in subfamily Asteroideae: tribe Anthemideae (93% of the studied cases, tribe Gnaphalieae (100% and in the "Heliantheae alliance" (23%. The remaining five tribes of the Asteroideae displayed canonical non linked arrangement of rDNA, as did the other groups in the Asteraceae. Nevertheless, low copy linked genes were identified among several species that amplified unlinked units. The conserved position of functional 5S insertions downstream from the 26S gene suggests a unique, perhaps retrotransposon-mediated integration event at the base of subfamily Asteroideae. Further evolution likely involved divergence of 26S-5S intergenic spacers, amplification and homogenisation of units across the chromosomes and concomitant elimination of unlinked arrays. However, the opposite trend, from linked towards unlinked arrangement was also surmised in few species indicating possible reversibility of these processes. Conclusions Our results indicate that nearly 25% of Asteraceae species may have evolved unusual linked arrangement of rRNA genes. Thus, in plants, fundamental changes in intrinsic

  1. Dating human cultural capacity using phylogenetic principles.

    Science.gov (United States)

    Lind, J; Lindenfors, P; Ghirlanda, S; Lidén, K; Enquist, M

    2013-01-01

    Humans have genetically based unique abilities making complex culture possible; an assemblage of traits which we term "cultural capacity". The age of this capacity has for long been subject to controversy. We apply phylogenetic principles to date this capacity, integrating evidence from archaeology, genetics, paleoanthropology, and linguistics. We show that cultural capacity is older than the first split in the modern human lineage, and at least 170,000 years old, based on data on hyoid bone morphology, FOXP2 alleles, agreement between genetic and language trees, fire use, burials, and the early appearance of tools comparable to those of modern hunter-gatherers. We cannot exclude that Neanderthals had cultural capacity some 500,000 years ago. A capacity for complex culture, therefore, must have existed before complex culture itself. It may even originated long before. This seeming paradox is resolved by theoretical models suggesting that cultural evolution is exceedingly slow in its initial stages. PMID:23648831

  2. Phylogenetic position of the spirochetal genus Cristispira

    DEFF Research Database (Denmark)

    Paster, B.J.; Pelletier, D.A.; Dewhirst, F.E.;

    1996-01-01

    a cell-laden crystalline styles of the oyster Crassostrea virginica. The amplified products were then cloned into Escherichia coli plasmids. Sequence comparisons of the gene coding for 16S rRNA (rDNA) insert of one clone, designated CP1, indicated that it was spirochetal. The sequence of the 16S rDNA...... insert of another clone was mycoplasmal. The CP1 sequence possessed most of the individual base signatures that are unique to 16S rRNA (or rDNA) sequences of known spirochetes. CP1 branched deeply among other spirochetal genera within the family Spirochaetaceae, and accordingly, it represents a separate......Comparative sequence analysis of 16S rRNA genes was used to determine the phylogenetic relationship of the genus Cristispira to other spirochetes. Since Cristispira organisms cannot presently be grown in vitro, 16S rRNA genes were amplified directly from bacterial DNA isolated from Cristispira...

  3. Phylogenetic diversity (PD and biodiversity conservation: some bioinformatics challenges

    Directory of Open Access Journals (Sweden)

    Daniel P. Faith

    2006-01-01

    Full Text Available Biodiversity conservation addresses information challenges through estimations encapsulated in measures of diversity. A quantitative measure of phylogenetic diversity, “PD”, has been defined as the minimum total length of all the phylogenetic branches required to span a given set of taxa on the phylogenetic tree (Faith 1992a. While a recent paper incorrectly characterizes PD as not including information about deeper phylogenetic branches, PD applications over the past decade document the proper incorporation of shared deep branches when assessing the total PD of a set of taxa. Current PD applications to macroinvertebrate taxa in streams of New South Wales, Australia illustrate the practical importance of this definition. Phylogenetic lineages, often corresponding to new, “cryptic”, taxa, are restricted to a small number of stream localities. A recent case of human impact causing loss of taxa in one locality implies a higher PD value for another locality, because it now uniquely represents a deeper branch. This molecular-based phylogenetic pattern supports the use of DNA barcoding programs for biodiversity conservation planning. Here, PD assessments side-step the contentious use of barcoding-based “species” designations. Bio-informatics challenges include combining different phylogenetic evidence, optimization problems for conservation planning, and effective integration of phylogenetic information with environmental and socio-economic data.

  4. Disentangling the drivers of coarse woody debris behavior and carbon gas emissions during fire

    Science.gov (United States)

    Zhao, Weiwei; van der Werf, Guido R.; van Logtestijn, Richard S. P.; van Hal, Jurgen R.; Cornelissen, Johannes H. C.

    2016-04-01

    The turnover of coarse woody debris, a key terrestrial carbon pool, plays fundamental roles in global carbon cycling. Biological decomposition and fire are two main fates for dead wood turnover. Compared to slow decomposition, fire rapidly transfers organic carbon from the earth surface to the atmosphere. Both a-biotic environmental factors and biotic wood properties determine coarse wood combustion and thereby its carbon gas emissions during fire. Moisture is a key inhibitory environmental factor for fire. The properties of dead wood strongly affect how it burns either directly or indirectly through interacting with moisture. Coarse wood properties vary between plant species and between various decay stages. Moreover, if we put a piece of dead wood in the context of a forest fuel bed, the soil and wood contact might also greatly affect their fire behavior. Using controlled laboratory burns, we disentangled the effects of all these driving factors: tree species (one gymnosperms needle-leaf species, three angiosperms broad-leaf species), wood decay stages (freshly dead, middle decayed, very strongly decayed), moisture content (air-dried, 30% moisture content in mass), and soil-wood contact (on versus 3cm above the ground surface) on dead wood flammability and carbon gas efflux (CO2 and CO released in grams) during fire. Wood density was measured for all coarse wood samples used in our experiment. We found that compared to other drivers, wood decay stages have predominant positive effects on coarse wood combustion (for wood mass burned, R2=0.72 when air-dried and R2=0.52 at 30% moisture content) and associated carbon gas emissions (for CO2andCO (g) released, R2=0.55 when air-dried and R2=0.42 at 30% moisture content) during fire. Thus, wood decay accelerates wood combustion and its CO2 and CO emissions during fire, which can be mainly attributed to the decreasing wood density (for wood mass burned, R2=0.91 when air-dried and R2=0.63 at 30% moisture content) as wood

  5. Disentangling the functional roles of morphology and motion in the swimming of fish.

    Science.gov (United States)

    Tytell, Eric D; Borazjani, Iman; Sotiropoulos, Fotis; Baker, T Vernon; Anderson, Erik J; Lauder, George V

    2010-12-01

    In fishes the shape of the body and the swimming mode generally are correlated. Slender-bodied fishes such as eels, lampreys, and many sharks tend to swim in the anguilliform mode, in which much of the body undulates at high amplitude. Fishes with broad tails and a narrow caudal peduncle, in contrast, tend to swim in the carangiform mode, in which the tail undulates at high amplitude. Such fishes also tend to have different wake structures. Carangiform swimmers generally produce two staggered vortices per tail beat and a strong downstream jet, while anguilliform swimmers produce a more complex wake, containing at least two pairs of vortices per tail beat and relatively little downstream flow. Are these differences a result of the different swimming modes or of the different body shapes, or both? Disentangling the functional roles requires a multipronged approach, using experiments on live fishes as well as computational simulations and physical models. We present experimental results from swimming eels (anguilliform), bluegill sunfish (carangiform), and rainbow trout (subcarangiform) that demonstrate differences in the wakes and in swimming performance. The swimming of mackerel and lamprey was also simulated computationally with realistic body shapes and both swimming modes: the normal carangiform mackerel and anguilliform lamprey, then an anguilliform mackerel and carangiform lamprey. The gross structure of simulated wakes (single versus double vortex row) depended strongly on Strouhal number, while body shape influenced the complexity of the vortex row, and the swimming mode had the weakest effect. Performance was affected even by small differences in the wakes: both experimental and computational results indicate that anguilliform swimmers are more efficient at lower swimming speeds, while carangiform swimmers are more efficient at high speed. At high Reynolds number, the lamprey-shaped swimmer produced a more complex wake than the mackerel-shaped swimmer

  6. Open Reading Frame Phylogenetic Analysis on the Cloud

    Directory of Open Access Journals (Sweden)

    Che-Lun Hung

    2013-01-01

    Full Text Available Phylogenetic analysis has become essential in researching the evolutionary relationships between viruses. These relationships are depicted on phylogenetic trees, in which viruses are grouped based on sequence similarity. Viral evolutionary relationships are identified from open reading frames rather than from complete sequences. Recently, cloud computing has become popular for developing internet-based bioinformatics tools. Biocloud is an efficient, scalable, and robust bioinformatics computing service. In this paper, we propose a cloud-based open reading frame phylogenetic analysis service. The proposed service integrates the Hadoop framework, virtualization technology, and phylogenetic analysis methods to provide a high-availability, large-scale bioservice. In a case study, we analyze the phylogenetic relationships among Norovirus. Evolutionary relationships are elucidated by aligning different open reading frame sequences. The proposed platform correctly identifies the evolutionary relationships between members of Norovirus.

  7. Open reading frame phylogenetic analysis on the cloud.

    Science.gov (United States)

    Hung, Che-Lun; Lin, Chun-Yuan

    2013-01-01

    Phylogenetic analysis has become essential in researching the evolutionary relationships between viruses. These relationships are depicted on phylogenetic trees, in which viruses are grouped based on sequence similarity. Viral evolutionary relationships are identified from open reading frames rather than from complete sequences. Recently, cloud computing has become popular for developing internet-based bioinformatics tools. Biocloud is an efficient, scalable, and robust bioinformatics computing service. In this paper, we propose a cloud-based open reading frame phylogenetic analysis service. The proposed service integrates the Hadoop framework, virtualization technology, and phylogenetic analysis methods to provide a high-availability, large-scale bioservice. In a case study, we analyze the phylogenetic relationships among Norovirus. Evolutionary relationships are elucidated by aligning different open reading frame sequences. The proposed platform correctly identifies the evolutionary relationships between members of Norovirus. PMID:23671843

  8. Visualising very large phylogenetic trees in three dimensional hyperbolic space

    Directory of Open Access Journals (Sweden)

    Liberles David A

    2004-04-01

    Full Text Available Abstract Background Common existing phylogenetic tree visualisation tools are not able to display readable trees with more than a few thousand nodes. These existing methodologies are based in two dimensional space. Results We introduce the idea of visualising phylogenetic trees in three dimensional hyperbolic space with the Walrus graph visualisation tool and have developed a conversion tool that enables the conversion of standard phylogenetic tree formats to Walrus' format. With Walrus, it becomes possible to visualise and navigate phylogenetic trees with more than 100,000 nodes. Conclusion Walrus enables desktop visualisation of very large phylogenetic trees in 3 dimensional hyperbolic space. This application is potentially useful for visualisation of the tree of life and for functional genomics derivatives, like The Adaptive Evolution Database (TAED.

  9. Fly pollination of Gorteria diffusa (Asteraceae), and a possible mimetic function for dark spots on the capitulum

    International Nuclear Information System (INIS)

    We investigated the functional significance of raised black spots on the ray florets of Gorteria diffusa (Asteraceae) in South Africa. Field observations showed that G. diffusa is pollinated by a small bee-fly, Megapalpus nitidus (Bombyliidae). which is strikingly similar to the raised spots that occur on some of the ray florets. Removal of the spots resulted in a significant decrease in the rate of fly visits to capitula, but did not significantly affect seed set. Replacement of the spots with simple ink spots also significantly reduced the rate of pollinator visits, suggesting that flies respond to details in the structure of the spots. Investigations using scanning electron microscopy showed that the spots of G. diffusa consist of a complex of different cell types. Differences in epidermal sculpturing may partly explain the UV reflectance pattern of these spots, which is similar to that of the flies. Mate flies are strongly attracted to the spots, as well as to other flies sitting in the capitula, although female flies also visit the capitula. We conclude that the spots of G. diffusa mimic resting flies, thereby eliciting mate-seeking and aggregation responses in fly pollinators. Similar dark spots have evolved in unrelated South African Gazania. Dimorphotheca, and Pelargonium species pollinated by bee-flies

  10. Fly pollination of Gorteria diffusa (Asteraceae), and a possible mimetic function for dark spots on the capitulum.

    Science.gov (United States)

    Johnson, S; Midgley, J

    1997-04-01

    We investigated the functional significance of raised black spots on the ray florets of Gorteria diffusa (Asteraceae) in South Africa. Field observations showed that G. diffusa is pollinated by a small bee-fly, Megapalpus nitidus (Bombyliidae), which is strikingly similar to the raised spots that occur on some of the ray florets. Removal of the spots resulted in a significant decrease in the rate of fly visits to capitula, but did not significantly affect seed set. Replacement of the spots with simple ink spots also significantly reduced the rate of pollinator visits, suggesting that flies respond to details in the structure of the spots. Investigations using scanning electron microscopy showed that the spots of G. diffusa consist of a complex of different cell types. Differences in epidermal sculpturing may partly explain the UV reflectance pattern of these spots, which is similar to that of the flies. Male flies are strongly attracted to the spots, as well as to other flies sitting in the capitula, although female flies also visit the capitula. We conclude that the spots of G. diffusa mimic resting flies, thereby eliciting mate-seeking and aggregation responses in fly pollinators. Similar dark spots have evolved in unrelated South African Gazania, Dimorphotheca, and Pelargonium species pollinated by bee-flies. PMID:21708596

  11. On the road to diploidization? Homoeolog loss in independently formed populations of the allopolyploid Tragopogon miscellus (Asteraceae

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    Soltis Pamela S

    2009-06-01

    Full Text Available Abstract Background Polyploidy (whole-genome duplication is an important speciation mechanism, particularly in plants. Gene loss, silencing, and the formation of novel gene complexes are some of the consequences that the new polyploid genome may experience. Despite the recurrent nature of polyploidy, little is known about the genomic outcome of independent polyploidization events. Here, we analyze the fate of genes duplicated by polyploidy (homoeologs in multiple individuals from ten natural populations of Tragopogon miscellus (Asteraceae, all of which formed independently from T. dubius and T. pratensis less than 80 years ago. Results Of the 13 loci analyzed in 84 T. miscellus individuals, 11 showed loss of at least one parental homoeolog in the young allopolyploids. Two loci were retained in duplicate for all polyploid individuals included in this study. Nearly half (48% of the individuals examined lost a homoeolog of at least one locus, with several individuals showing loss at more than one locus. Patterns of loss were stochastic among individuals from the independently formed populations, except that the T. dubius copy was lost twice as often as T. pratensis. Conclusion This study represents the most extensive survey of the fate of genes duplicated by allopolyploidy in individuals from natural populations. Our results indicate that the road to genome downsizing and ultimate genetic diploidization may occur quickly through homoeolog loss, but with some genes consistently maintained as duplicates. Other genes consistently show evidence of homoeolog loss, suggesting repetitive aspects to polyploid genome evolution.

  12. Multiple introductions and gene flow in subtropical South American populations of the fireweed, Senecio madagascariensis(Asteraceae)

    Science.gov (United States)

    Mäder, Geraldo; Castro, Luana; Bonatto, Sandro Luis; de Freitas, Loreta Brandão

    2016-01-01

    Abstract Non-indigenous plants exhibit different attributes that make them aggressive competitors with indigenous plants and serious threats to biodiversity.Senecio madagascariensis (fireweed, Asteraceae), a native from southern Africa, is a strong competitor in agricultural activities and has toxic alkaloids that may result in high cattle mortality. In Brazil, this weed was collected for the first time in 1995 and has since spread quickly throughout the Pampas region. To better understand the invasion of the fireweed in South America, we used a genetic characterization with internal transcribed spacer (ITS) and microsatellite markers. Based on the ITS data, the southern Brazil populations of S. madagascariensis shared genetic homology with samples taken from the Hawaiian Islands and South Africa. Microsatellite analysis showed the genetic diversity split in two clusters, perhaps intimating the independent introduction of each species into South America. Although fireweed was introduced recently in southern Brazil, the considerable levels of genetic diversity, gene flow, and inbreeding may indicate success in the species establishment in this environment. PMID:27007907

  13. Phenolic Profiling of the South American “Baylahuen” Tea (Haplopappus spp., Asteraceae by HPLC-DAD-ESI-MS

    Directory of Open Access Journals (Sweden)

    Guillermo Schmeda-Hirschmann

    2015-01-01

    Full Text Available The aerial parts of several Haplopappus species (Asteraceae, known under the common name “baylahuen”, are used as herbal teas in Chile and Argentina. In Chile, “baylahuen” comprises H. multifolius, H. taeda, H. baylahuen and H. rigidus. Little is known about the chemical identity of the infusion constituents in spite of widespread consumption. The aim of the present work was the characterization of phenolics occurring in the infusions and methanol extracts of “baylahuen” by HPLC-DAD-ESI-MS. A simple HPLC-DAD-ESI-MS method was developed for the fast identification and differentiation of Haplopappus spp. used as a tea source, based on the phenolics from the tea and methanol extracts. Some 27 phenolics were tentatively identified in the infusions and methanol extract, including 10 caffeoyl quinic and feruloyl quinic acid derivatives and 17 flavonoids. The HPLC patterns of the Haplopappus tea and methanol extract allow a clear differentiation at the species level. The occurrence of hydroxycinnamic acid derivatives and flavonoids can explain the reputed nutraceutical and health beneficial properties of this herbal tea.

  14. Inhibition of pancreatic lipase by extracts of Baccharis trimera (Less. DC., Asteraceae: evaluation of antinutrients and effect on glycosidases

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    Stefânia P. de Souza

    2011-06-01

    Full Text Available In order to confirm the traditional use of Baccharis trimera (Less. DC., Asteraceae, for the reduction of weight, plant extracts were evaluated on the activity of pancreatic lipase (PL, an enzyme responsible for hydrolysis of triacylglycerols in the diet for its subsequent absorption. The aqueous and infused extracts did not show inhibitory activity on the PL, the ethanol inhibited 16% (66 ALI/g and methanol extract inhibited 78% (241 ALI/g. The methanol extract of B. trimera (MEB was subjected to a wash with decreasing solvent polarity (n-hexane, ethyl acetate and methanol and only the methanol fraction inhibited the lipase by 72% (230 ALI/g. We evaluated the MEB and infused inhibitory activity on the enzymes α-amylase and α and β-glycosidases. The α-amylase was not inhibited by any of the extracts, the enzyme α-glucosidase was inhibited by both extracts in the same proportion (46.9±0.1 and β-glucosidase was inhibited by 73% by the methanol extract and 65% by the infused. We also evaluated the presence of anti-nutrients. We detected the presence of saponins, polyphenols and trypsin inhibitors in the two samples. Tests performed in vivo can assess at which therapeutic concentration the presence of these anti-nutrients can be harmful to health.

  15. Combined treatment with caffeic and ferulic acid from Baccharis uncinella C. DC. (Asteraceae) protects against metabolic syndrome in mice.

    Science.gov (United States)

    Bocco, B M; Fernandes, G W; Lorena, F B; Cysneiros, R M; Christoffolete, M A; Grecco, S S; Lancellotti, C L; Romoff, P; Lago, J H G; Bianco, A C; Ribeiro, M O

    2016-03-01

    Fractionation of the EtOH extract from aerial parts of Baccharis uncinella C. DC. (Asteraceae) led to isolation of caffeic and ferulic acids, which were identified from spectroscopic and spectrometric evidence. These compounds exhibit antioxidant and anti-inflammatory properties and have been shown to be effective in the prevention/treatment of metabolic syndrome. This study investigated whether the combined treatment of caffeic and ferulic acids exhibits a more significant beneficial effect in a mouse model with metabolic syndrome. The combination treatment with caffeic and ferulic acids was tested for 60 days in C57 mice kept on a high-fat (40%) diet. The data obtained indicated that treatment with caffeic and ferulic acids prevented gain in body weight induced by the high-fat diet and improved hyperglycemia, hypercholesterolemia and hypertriglyceridemia. The expression of a number of metabolically relevant genes was affected in the liver of these animals, showing that caffeic and ferulic acid treatment results in increased cholesterol uptake and reduced hepatic triglyceride synthesis in the liver, which is a likely explanation for the prevention of hepatic steatosis. In conclusion, the combined treatment of caffeic and ferulic acids displayed major positive effects towards prevention of multiple aspects of the metabolic syndrome and liver steatosis in an obese mouse model. PMID:26840707

  16. Morphological and anatomical features of cypsela of some crepis taxa (asteraceae) from turkey and their taxonomic importance

    International Nuclear Information System (INIS)

    Fruit morphology and anatomy have taxonomic importance in Asteraceae. The fruits structures of Crepis from Turkey, which include five species (C. alpina, C. smyrnaea, C. pulchra, C. zacintha, C. sancta) and two subspecies (C. foetida subsp. foetida and C. foetida subsp. rhoeadifolia) were studied for fruit morphological and anatomical characters with one-way analysis of variance, cluster analysis and principal component analysis. Fruit size, shape, color, and the presence of beak were observed with stereomicroscopy. Whereas the surface patterns of fruit and pappus were examined using scanning electron microscopy (SEM). Furthermore, pericarp structure, thicknesses of testa and endosperm, and number of rib, cotyledon width in cypsela were studied anatomically. Results indicated that cypsela sizes, the presence or absence of beak on the cypsela, fruit and pappus surfaces, pericarp. Thickness of testa and endosperm, and number of ribs are of major importance to illustrate interspecific relations among the examined taxa. Also, this investigation is a preliminary study, which was performed to use fruit morphological and anatomical characters for their practicality on the classification of taxa within the genus. (author)

  17. Selfing ability and dispersal are positively related, but not affected by range position: a multispecies study on southern African Asteraceae.

    Science.gov (United States)

    de Waal, C; Rodger, J G; Anderson, B; Ellis, A G

    2014-05-01

    Dispersal and breeding system traits are thought to affect colonization success. As species have attained their present distribution ranges through colonization, these traits may vary geographically. Although several theories predict associations between dispersal ability, selfing ability and the relative position of a population within its geographic range, there is little theoretical or empirical consensus on exactly how these three variables are related. We investigated relationships between dispersal ability, selfing ability and range position across 28 populations of 13 annual, wind-dispersed Asteraceae species from the Namaqualand region of South Africa. Controlling for phylogeny, relative dispersal ability--assessed from vertical fall time of fruits--was positively related to an index of autofertility--determined from hand-pollination experiments. These findings support the existence of two discrete syndromes: high selfing ability associated with good dispersal and obligate outcrossing associated with lower dispersal ability. This is consistent with the hypothesis that selection for colonization success drives the evolution of an association between these traits. However, no general effect of range position on dispersal or breeding system traits was evident. This suggests selection on both breeding system and dispersal traits acts consistently across distribution ranges. PMID:24735437

  18. A New Alkamide with an Endoperoxide Structure from Acmella ciliata (Asteraceae and Its in Vitro Antiplasmodial Activity

    Directory of Open Access Journals (Sweden)

    Narjara Silveira

    2016-06-01

    Full Text Available From the aerial parts of Acmella ciliata (H.B.K. Cassini (basionym Spilanthes ciliata Kunth; Asteraceae, three alkamides were isolated and identified by mass- and NMR spectroscopic methods as (2E,6E,8E-N-isobutyl-2,6,8-decatrienamide (spilanthol, (1, N-(2-phenethyl-2E-en-6,8-nonadiynamide (2 and (2E,7Z-6,9-endoperoxy-N-isobutyl-2,7-decadienamide (3. While 1 and 2 are known alkamides, compound 3 has not been described until now. It was found that the unusual cyclic peroxide 3 exists as a racemate of both enantiomers of each alkamide; the 6,9-cis- as well as the 6,9-trans-configured diastereomers, the former represents the major, the latter the minor constituent of the mixture. In vitro tests for activity against the human pathogenic parasites Trypanosoma brucei rhodesiense and Plasmodium falciparum revealed that 1 and 3 possess activity against the NF54 strain of the latter (IC50 values of 4.5 and 5.1 µM, respectively while 2 was almost inactive. Compound 3 was also tested against multiresistant P. falciparum K1 and was found to be even more active against this parasite strain (IC50 = 2.1 µM with considerable selectivity (IC50 against L6 rat skeletal myoblasts = 168 µM.

  19. Multiple introductions and gene flow in subtropical South American populations of the fireweed, Senecio madagascariensis(Asteraceae

    Directory of Open Access Journals (Sweden)

    Geraldo Mäder

    2016-03-01

    Full Text Available Abstract Non-indigenous plants exhibit different attributes that make them aggressive competitors with indigenous plants and serious threats to biodiversity.Senecio madagascariensis (fireweed, Asteraceae, a native from southern Africa, is a strong competitor in agricultural activities and has toxic alkaloids that may result in high cattle mortality. In Brazil, this weed was collected for the first time in 1995 and has since spread quickly throughout the Pampas region. To better understand the invasion of the fireweed in South America, we used a genetic characterization with internal transcribed spacer (ITS and microsatellite markers. Based on the ITS data, the southern Brazil populations of S. madagascariensis shared genetic homology with samples taken from the Hawaiian Islands and South Africa. Microsatellite analysis showed the genetic diversity split in two clusters, perhaps intimating the independent introduction of each species into South America. Although fireweed was introduced recently in southern Brazil, the considerable levels of genetic diversity, gene flow, and inbreeding may indicate success in the species establishment in this environment.

  20. Multiple introductions and gene flow in subtropical South American populations of the fireweed, Senecio madagascariensis(Asteraceae).

    Science.gov (United States)

    Mäder, Geraldo; Castro, Luana; Bonatto, Sandro Luis; Freitas, Loreta Brandão de

    2016-03-01

    Non-indigenous plants exhibit different attributes that make them aggressive competitors with indigenous plants and serious threats to biodiversity.Senecio madagascariensis (fireweed, Asteraceae), a native from southern Africa, is a strong competitor in agricultural activities and has toxic alkaloids that may result in high cattle mortality. In Brazil, this weed was collected for the first time in 1995 and has since spread quickly throughout the Pampas region. To better understand the invasion of the fireweed in South America, we used a genetic characterization with internal transcribed spacer (ITS) and microsatellite markers. Based on the ITS data, the southern Brazil populations of S. madagascariensis shared genetic homology with samples taken from the Hawaiian Islands and South Africa. Microsatellite analysis showed the genetic diversity split in two clusters, perhaps intimating the independent introduction of each species into South America. Although fireweed was introduced recently in southern Brazil, the considerable levels of genetic diversity, gene flow, and inbreeding may indicate success in the species establishment in this environment. PMID:27007907

  1. Studies on the potential antioxidant properties of Senecio stabianus Lacaita (Asteraceae) and its inhibitory activity against carbohydrate-hydrolysing enzymes.

    Science.gov (United States)

    Tundis, Rosa; Menichini, Federica; Loizzo, Monica R; Bonesi, Marco; Solimene, Umberto; Menichini, Francesco

    2012-01-01

    This study showed for the first time the antioxidant and hypoglycaemic properties of the methanol, n-hexane and ethyl acetate extracts from Senecio stabianus Lacaita, a plant that belongs to the Asteraceae family. The antioxidant activities were carried out using two different in vitro assays, namely 2,2-diphenyl-1-picrylhydrazyl (DPPH) test and 2,2'-azinobis(3-ethylbenzthiazoline-6-sulphonate) (ABTS) test. The ethyl acetate extract showed the highest activity with inhibitory concentration 50% (IC(50)) values of 35.5 and 32.7 µg mL(-1) on DPPH test and ABTS test, respectively. This activity may be related to a good total phenol and flavonoid content. All extracts were also tested for their potential inhibitory activity of α-amylase and α-glucosidase digestive enzymes. The n-hexane extract exhibited the highest α-amylase inhibition with an IC(50) value of 0.21 mg mL(-1). Through bioassay-guided fractionation processes seven fractions (A-G) were obtained and tested. Based on the phytochemical analysis, the activity of n-hexane extract may be related to the presence of monoterpenes and sesquiterpenes. PMID:21644170

  2. Morfoanatomia do eixo vegetativo aéreo de Ayapana triplinervis (Vahl R.M. King & H. Rob. (Asteraceae

    Directory of Open Access Journals (Sweden)

    M.I.S. Nery

    2014-03-01

    Full Text Available Ayapana triplinervis (Asteraceae é uma erva medicinal da Amazônia conhecida como "Japana branca" e "Japana roxa" utilizada como tônico, digestivo, antidiarréico dentre outros. Objetivou-se caracterizar neste estudo a morfoanatomia caulinar e foliar de A. triplinervis, para corroborar se esta espécie apresenta morfotipos, além de fornecer dados para sua identificação. Amostras foram coletadas no Horto de Plantas Medicinais da Universidade Federal Rural da Amazônia e Embrapa Amazônia Oriental, analisadas morfologicamente e segundo técnicas usuais em anatomia vegetal. O caule é cilíndrico branco ou roxo, com epiderme unisseriada persistente e endoderme com bainha amilífera e estrias de Caspary. As folhas são simples, opostas, triplinervadas, com base atenuada ou decorrente. Possuem estômatos anomocíticos, cera em placas ou granular, glândulas peroladas, mesofilo dorsiventral com feixes colaterais e ductos secretores. A. triplinervis apresentou caracteres morfoanatômicos diferentes entre os tipos branca e roxa, o que possibilita a distinção dos dois morfotipos.

  3. Next-generation sequencing of the Chrysanthemum nankingense (Asteraceae transcriptome permits large-scale unigene assembly and SSR marker discovery.

    Directory of Open Access Journals (Sweden)

    Haibin Wang

    Full Text Available BACKGROUND: Simple sequence repeats (SSRs are ubiquitous in eukaryotic genomes. Chrysanthemum is one of the largest genera in the Asteraceae family. Only few Chrysanthemum expressed sequence tag (EST sequences have been acquired to date, so the number of available EST-SSR markers is very low. METHODOLOGY/PRINCIPAL FINDINGS: Illumina paired-end sequencing technology produced over 53 million sequencing reads from C. nankingense mRNA. The subsequent de novo assembly yielded 70,895 unigenes, of which 45,789 (64.59% unigenes showed similarity to the sequences in NCBI database. Out of 45,789 sequences, 107 have hits to the Chrysanthemum Nr protein database; 679 and 277 sequences have hits to the database of Helianthus and Lactuca species, respectively. MISA software identified a large number of putative EST-SSRs, allowing 1,788 primer pairs to be designed from the de novo transcriptome sequence and a further 363 from archival EST sequence. Among 100 primer pairs randomly chosen, 81 markers have amplicons and 20 are polymorphic for genotypes analysis in Chrysanthemum. The results showed that most (but not all of the assays were transferable across species and that they exposed a significant amount of allelic diversity. CONCLUSIONS/SIGNIFICANCE: SSR markers acquired by transcriptome sequencing are potentially useful for marker-assisted breeding and genetic analysis in the genus Chrysanthemum and its related genera.

  4. Anatomical characters of the medicinal leaf and stem of Gymnanthemum amygdalinum (Delile Sch.Bip. ex Walp. (Asteraceae

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    Márcia do Rocio Duarte

    2013-12-01

    Full Text Available Gymnanthemum amygdalinum (Delile Sch.Bip. ex Walp. (Asteraceae, better known by its former name Vernonia amygdalina Delile, is a small shrub used in folk medicine as an antipyretic, laxative, antimalarial and anthelmintic. Studies have demonstrated that different vegetal extracts possess antioxidant, antimicrobial and antiparasitic activities. Among the bioactive metabolites, there are sesquiterpene lactones, saponins, polyphenols and flavonoids. This study investigated the leaf and stem microscopic characters of G. amygdalinum, aiming to expand the knowledge on this medicinal species and indicate anatomical structures. Plant material was fixed and sectioned by freehand and using a microtome. The sections were either stained or underwent standard histochemical tests. Scanning electron microscopy was performed to investigate epidermal relief. The leaf is amphistomatic with anomocytic stomata. There are striate cuticle, glandular and non-glandular trichomes and dorsiventral mesophyll. In transverse section, the midrib and the petiole have a plano-convex shape. Both show several collateral vascular bundles and few crystals of calcium oxalate. In the stem, the epidermis persists and the phellogen has a peripheral origin. It presents typical endodermis and sclerenchymatic caps adjoining the phloem. The aspects that contribute to characterizing the species are stomata on both leaf surfaces, midrib and petiole features, the endodermis and sclerenchymatic caps in the stem, as well as the different types of trichome on both aerial organs.

  5. Toxic essential oils: anxiolytic, antinociceptive and antimicrobial properties of the yarrow Achillea umbellata Sibth. et Sm. (Asteraceae) volatiles.

    Science.gov (United States)

    Radulović, Niko S; Dekić, Milan S; Ranđelović, Pavle J; Stojanović, Nikola M; Zarubica, Aleksandra R; Stojanović-Radić, Zorica Z

    2012-06-01

    Many plant species are used for medicinal purposes without the knowledge of their possible toxic effect. The ethnopharmacologically renowned genus Achillea L. (Asteraceae) is even more troublesome in this respect since different taxa are believed to have the same beneficial properties as A. millefolium. According to the median lethal i.p. dose (LD(50)=853 mg/kg, mice), the volatiles of Achillea umbellata Sibth. et Sm. are more toxic than the thujone-containing essential oils (LD(50)>960 mg/kg). A GC-MS analysis of A. umbellata oil revealed the presence of a series of fragranyl esters (six new natural products). The major constituents of this oil, the rare monoterpene alcohol fragranol and fragranyl acetate, and one more ester (benzoate), as well as the oil itself, showed antianxiety, analgesic and, in some instances, paralyzing properties at 50-150 mg/kg but these are very likely sign of intoxication and not of possible beneficial effects of the plant volatiles. Testing of antimicrobial activity demonstrated that the oil possesses moderate activity against pathogenic microorganisms, but the effect of the oil differs in pro- and eukaryotic cells. According to the results obtained, fragranol may be considered as the main active principle responsible for the observed activity/toxicity. PMID:22449535

  6. Disentangling visual and olfactory signals in mushroom-mimicking Dracula orchids using realistic three-dimensional printed flowers.

    Science.gov (United States)

    Policha, Tobias; Davis, Aleah; Barnadas, Melinda; Dentinger, Bryn T M; Raguso, Robert A; Roy, Bitty A

    2016-05-01

    Flowers use olfactory and visual signals to communicate with pollinators. Disentangling the relative contributions and potential synergies between signals remains a challenge. Understanding the perceptual biases exploited by floral mimicry illuminates the evolution of these signals. Here, we disentangle the olfactory and visual components of Dracula lafleurii, which mimics mushrooms in size, shape, color and scent, and is pollinated by mushroom-associated flies. To decouple signals, we used three-dimensional printing to produce realistic artificial flower molds that were color matched and cast using scent-free surgical silicone, to which we could add scent. We used GC-MS to measure scents in co-occurring mushrooms, and related orchids, and used these scents in field experiments. By combining silicone flower parts with real floral organs, we created chimeras that identified the mushroom-like labellum as a source of volatile attraction. In addition, we showed remarkable overlap in the volatile chemistry between D. lafleurii and co-occurring mushrooms. The characters defining the genus Dracula - a mushroom-like, 'gilled' labellum and a showy, patterned calyx - enhance pollinator attraction by exploiting the visual and chemosensory perceptual biases of drosophilid flies. Our techniques for the manipulation of complex traits in a nonmodel system not conducive to gene silencing or selective breeding are useful for other systems. PMID:26877229

  7. Phylogenetic biodiversity assessment based on systematic nomenclature

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    Ross H Crozier

    2006-01-01

    Full Text Available Biodiversity assessment demands objective measures, because ultimately conservation decisions must prioritize the use of limited resources for preserving taxa. The most general framework for the objective assessment of conservation worth are those that assess evolutionary distinctiveness, e.g. Genetic (Crozier 1992 and Phylogenetic Diversity (Faith 1992, and Evolutionary History (Nee & May 1997. These measures all attempt to assess the conservation worth of any scheme based on how much of the encompassing phylogeny of organisms is preserved. However, their general applicability is limited by the small proportion of taxa that have been reliably placed in a phylogeny. Given that phylogenizaton of many interesting taxa or important is unlikely to occur soon, we present a framework for using taxonomy as a reasonable surrogate for phylogeny. Combining this framework with exhaustive searches for combinations of sites containing maximal diversity, we provide a proof-of-concept for assessing conservation schemes for systematized but un-phylogenised taxa spread over a series of sites. This is illustrated with data from four studies, on North Queensland flightless insects (Yeates et al. 2002, ants from a Florida Transect (Lubertazzi & Tschinkel 2003, New England bog ants (Gotelli & Ellison 2002 and a simulated distribution of the known New Zealand Lepidosauria (Daugherty et al. 1994. The results support this approach, indicating that species, genus and site numbers predict evolutionary history, to a degree depending on the size of the data set.

  8. Phylogenetic analyses of Andromedeae (Ericaceae subfam. Vaccinioideae).

    Science.gov (United States)

    Kron, K A; Judd, W S; Crayn, D M

    1999-09-01

    Phylogenetic relationships within the Andromedeae and closely related taxa were investigated by means of cladistic analyses based on phenotypic (morphology, anatomy, chromosome number, and secondary chemistry) and molecular (rbcL and matK nucleotide sequences) characters. An analysis based on combined molecular and phenotypic characters indicates that the tribe is composed of two major clades-the Gaultheria group (incl. Andromeda, Chamaedaphne, Diplycosia, Gaultheria, Leucothoë, Pernettya, Tepuia, and Zenobia) and the Lyonia group (incl. Agarista, Craibiodendron, Lyonia, and Pieris). Andromedeae are shown to be paraphyletic in all analyses because the Vaccinieae link with some or all of the genera of the Gaultheria group. Oxydendrum is sister to the clade containing the Vaccinieae, Gaultheria group, and Lyonia group. The monophyly of Agarista, Lyonia, Pieris, and Gaultheria (incl. Pernettya) is supported, while that of Leucothoë is problematic. The close relationship of Andromeda and Zenobia is novel and was strongly supported in the molecular (but not morphological) analyses. Diplycosia, Tepuia, Gaultheria, and Pernettya form a well-supported clade, which can be diagnosed by the presence of fleshy calyx lobes and methyl salicylate. Recognition of Andromedeae is not reflective of our understanding of geneological relationships and should be abandoned; the Lyonia group is formally recognized at the tribal level. PMID:10487817

  9. Phycas: software for Bayesian phylogenetic analysis.

    Science.gov (United States)

    Lewis, Paul O; Holder, Mark T; Swofford, David L

    2015-05-01

    Phycas is open source, freely available Bayesian phylogenetics software written primarily in C++ but with a Python interface. Phycas specializes in Bayesian model selection for nucleotide sequence data, particularly the estimation of marginal likelihoods, central to computing Bayes Factors. Marginal likelihoods can be estimated using newer methods (Thermodynamic Integration and Generalized Steppingstone) that are more accurate than the widely used Harmonic Mean estimator. In addition, Phycas supports two posterior predictive approaches to model selection: Gelfand-Ghosh and Conditional Predictive Ordinates. The General Time Reversible family of substitution models, as well as a codon model, are available, and data can be partitioned with all parameters unlinked except tree topology and edge lengths. Phycas provides for analyses in which the prior on tree topologies allows polytomous trees as well as fully resolved trees, and provides for several choices for edge length priors, including a hierarchical model as well as the recently described compound Dirichlet prior, which helps avoid overly informative induced priors on tree length. PMID:25577605

  10. PHYLOGENETIC STUDY OF SOME STRAINS OF DUNALIELLA

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    Duc Tran

    2013-01-01

    Full Text Available Dunaliella strains were isolated from a key site for salt production in Vietnam (Vinh Hao, Binh Thuan province. The strains were identified based on Internal Transcribed Spacer (ITS markers. The phylogenetic tree revealed these strains belong to the clades of Dunaliella salina and Dunaliella viridis. Results of this study confirm the ubiquitous nature of Dunaliella and suggest that strains of Dunaliella salina might be acquired locally worldwide for the production of beta-carotene. The identification of these species infers the presence of other Dunaliella species (Dunaliella tertiolecta, Dunaliella primolecta, Dunaliella parva, but further investigation would be required to confirm their presence in Vietnam. We anticipate the physiological and biochemical characteristics of these local species will be compared with imported strains in a future effort. This will facilitate selection of strains with the best potential for exploitation in the food, aquaculture and biofuel industries. The Dunaliella strains isolated and identified in this study are maintained at the Laboratory of Algal Biotechnology, International University and will be made available for research and educational institutions.

  11. Comprehensive phylogenetic analysis of bacterial reverse transcriptases.

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    Nicolás Toro

    Full Text Available Much less is known about reverse transcriptases (RTs in prokaryotes than in eukaryotes, with most prokaryotic enzymes still uncharacterized. Two surveys involving BLAST searches for RT genes in prokaryotic genomes revealed the presence of large numbers of diverse, uncharacterized RTs and RT-like sequences. Here, using consistent annotation across all sequenced bacterial species from GenBank and other sources via RAST, available from the PATRIC (Pathogenic Resource Integration Center platform, we have compiled the data for currently annotated reverse transcriptases from completely sequenced bacterial genomes. RT sequences are broadly distributed across bacterial phyla, but green sulfur bacteria and cyanobacteria have the highest levels of RT sequence diversity (≤85% identity per genome. By contrast, phylum Actinobacteria, for which a large number of genomes have been sequenced, was found to have a low RT sequence diversity. Phylogenetic analyses revealed that bacterial RTs could be classified into 17 main groups: group II introns, retrons/retron-like RTs, diversity-generating retroelements (DGRs, Abi-like RTs, CRISPR-Cas-associated RTs, group II-like RTs (G2L, and 11 other groups of RTs of unknown function. Proteobacteria had the highest potential functional diversity, as they possessed most of the RT groups. Group II introns and DGRs were the most widely distributed RTs in bacterial phyla. Our results provide insights into bacterial RT phylogeny and the basis for an update of annotation systems based on sequence/domain homology.

  12. A phylogenetic re-evaluation of Arthrinium.

    Science.gov (United States)

    Crous, Pedro W; Groenewald, Johannes Z

    2013-07-01

    Although the genus Arthrinium (sexual morph Apiospora) is commonly isolated as an endophyte from a range of substrates, and is extremely interesting for the pharmaceutical industry, its molecular phylogeny has never been resolved. Based on morphology and DNA sequence data of the large subunit nuclear ribosomal RNA gene (LSU, 28S) and the internal transcribed spacers (ITS) and 5.8S rRNA gene of the nrDNA operon, the genus Arthrinium is shown to belong to Apiosporaceae in Xylariales. Arthrinium is morphologically and phylogenetically circumscribed, and the sexual genus Apiospora treated as synonym on the basis that Arthinium is older, more commonly encountered, and more frequently used in literature. An epitype is designated for Arthrinium pterospermum, and several well-known species are redefined based on their morphology and sequence data of the translation elongation factor 1-alpha (TEF), beta-tubulin (TUB) and internal transcribed spacer (ITS1, 5.8S, ITS2) gene regions. Newly described are A. hydei on Bambusa tuldoides from Hong Kong, A. kogelbergense on dead culms of Restionaceae from South Africa, A. malaysianum on Macaranga hullettii from Malaysia, A. ovatum on Arundinaria hindsii from Hong Kong, A. phragmites on Phragmites australis from Italy, A. pseudospegazzinii on Macaranga hullettii from Malaysia, A. pseudosinense on bamboo from The Netherlands, and A. xenocordella from soil in Zimbabwe. Furthermore, the genera Pteroconium and Cordella are also reduced to synonymy, rejecting spore shape and the presence of setae as characters of generic significance separating them from Arthrinium. PMID:23898419

  13. Fast Structural Search in Phylogenetic Databases

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    William H. Piel

    2005-01-01

    Full Text Available As the size of phylogenetic databases grows, the need for efficiently searching these databases arises. Thanks to previous and ongoing research, searching by attribute value and by text has become commonplace in these databases. However, searching by topological or physical structure, especially for large databases and especially for approximate matches, is still an art. We propose structural search techniques that, given a query or pattern tree P and a database of phylogenies D, find trees in D that are sufficiently close to P . The “closeness” is a measure of the topological relationships in P that are found to be the same or similar in a tree D in D. We develop a filtering technique that accelerates searches and present algorithms for rooted and unrooted trees where the trees can be weighted or unweighted. Experimental results on comparing the similarity measure with existing tree metrics and on evaluating the efficiency of the search techniques demonstrate that the proposed approach is promising

  14. Phylogenetic characterization of archaea in saltpan sediments.

    Science.gov (United States)

    Ahmad, Nasier; Johri, Sarojini; Sultan, Phalisteen; Abdin, Malik Z; Qazi, Ghulam N

    2011-06-01

    A study was undertaken to investigate the presence of archaeal diversity in saltpan sediments of Goa, India by 16S rDNA-dependent molecular phylogeny. Small subunit rRNA (16S rDNA) from saltpan sediment metagenome were amplified by polymerase chain reaction (PCR) using primers specific to the domain archaea. 10 unique phylotypes were obtained by PCR based RFLP of 16S rRNA genes using endonuclease Msp 1, which was most suitable to score the genetic diversity. These phylotypes spanned a wide range within the domain archaea including both crenarchaeota and euryarcheaota. None of the retrieved crenarchaeota sequences could be grouped with previously cultured crenarchaeota however; two sequences were related with haloarchaea. Most of the sequences determined were closely related to the sequences that had been previously obtained from metagenome of a variety of marine environments. The phylogenetic study of a site investigated for the first time revealed the presence of low archaeal population but showed yet unclassified species, may specially adapted to the salt pan sediment of Goa. PMID:22654153

  15. Modeling body size evolution in Felidae under alternative phylogenetic hypotheses

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    José Alexandre Felizola Diniz-Filho

    2009-01-01

    Full Text Available The use of phylogenetic comparative methods in ecological research has advanced during the last twenty years, mainly due to accurate phylogenetic reconstructions based on molecular data and computational and statistical advances. We used phylogenetic correlograms and phylogenetic eigenvector regression (PVR to model body size evolution in 35 worldwide Felidae (Mammalia, Carnivora species using two alternative phylogenies and published body size data. The purpose was not to contrast the phylogenetic hypotheses but to evaluate how analyses of body size evolution patterns can be affected by the phylogeny used for comparative analyses (CA. Both phylogenies produced a strong phylogenetic pattern, with closely related species having similar body sizes and the similarity decreasing with increasing distances in time. The PVR explained 65% to 67% of body size variation and all Moran's I values for the PVR residuals were non-significant, indicating that both these models explained phylogenetic structures in trait variation. Even though our results did not suggest that any phylogeny can be used for CA with the same power, or that “good” phylogenies are unnecessary for the correct interpretation of the evolutionary dynamics of ecological, biogeographical, physiological or behavioral patterns, it does suggest that developments in CA can, and indeed should, proceed without waiting for perfect and fully resolved phylogenies.

  16. The best of both worlds: Phylogenetic eigenvector regression and mapping

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    José Alexandre Felizola Diniz Filho

    2015-09-01

    Full Text Available Eigenfunction analyses have been widely used to model patterns of autocorrelation in time, space and phylogeny. In a phylogenetic context, Diniz-Filho et al. (1998 proposed what they called Phylogenetic Eigenvector Regression (PVR, in which pairwise phylogenetic distances among species are submitted to a Principal Coordinate Analysis, and eigenvectors are then used as explanatory variables in regression, correlation or ANOVAs. More recently, a new approach called Phylogenetic Eigenvector Mapping (PEM was proposed, with the main advantage of explicitly incorporating a model-based warping in phylogenetic distance in which an Ornstein-Uhlenbeck (O-U process is fitted to data before eigenvector extraction. Here we compared PVR and PEM in respect to estimated phylogenetic signal, correlated evolution under alternative evolutionary models and phylogenetic imputation, using simulated data. Despite similarity between the two approaches, PEM has a slightly higher prediction ability and is more general than the original PVR. Even so, in a conceptual sense, PEM may provide a technique in the best of both worlds, combining the flexibility of data-driven and empirical eigenfunction analyses and the sounding insights provided by evolutionary models well known in comparative analyses.

  17. Caracterização morfoanatômica das folhas de Eremanthus erythropappus (DC. MacLeisch, Asteraceae Leaf morpho-anatomical characterization of Eremanthus erythropappus (DC. MacLeisch, Asteraceae

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    Rafael C. Dutra

    2010-12-01

    Full Text Available Eremanthus erythropappus (DC. MacLeisch (Asteraceae, popularmente conhecida como "candeia-da-serra", é uma espécie utilizada na medicina tradicional como cicatrizante e antimicrobiano. O objetivo do presente trabalho foi comparar o número de tricomas glandulares nas folhas jovens e adultas de E. erythropappus, assim como realizar a caracterização morfoanatômica destas folhas. Secções transversais e paradérmicas das folhas foram submetidas às microtécnicas fotônicas e à microscopia eletrônica de varredura. A quantificação dos tricomas glandulares foi realizada em folhas jovens e adultas com auxílio de câmara clara. As folhas são alternas ou fasciculadas e a lâmina foliar possui epiderme uniestratificada, revestida por cutícula delgada e lisa e mesofilo dorsiventral. Em ambas as faces da epiderme, ocorrem estômatos predominantemente anomocíticos e tricomas glandulares inseridos em depressões. Na face abaxial observam-se numerosos tricomas tectores. O parênquima paliçádico é uniestratificado e o parênquima voltado para a face abaxial é formado por três a cinco camadas de células com disposição compacta. As folhas jovens e adultas apresentam respectivamente 21,78±5,83 e 17,80±6,69 tricomas glandulares na face adaxial. A análise morfoanatômica das folhas de E. erythropappus mostra-se um método rápido e prático para a identificação e controle de qualidade de espécies vegetais utilizadas na terapêutica.Eremanthus erythropappus (DC. MacLeisch (Asteraceae, commonly known as 'candeia-da-serra', is a plant used in folk medicine as wound healing and antimicrobial. The aim of this study was to compare the number of glandular trichomes between the young and the mature leaves, as well as to perform the morpho-anatomical characterization of E. erythropappus leaves. Transverse and paradermal sections of the leaves were prepared according to light and scanning microtechniques for the morpho-anatomical characterization

  18. Análise morfoanatômica das partes aéreas de Wedelia paludosa DC. (Acmela brasiliensis, Sphagneticola trilobata, Asteraceae Morphoanatomic analysis of aerial parts of Wedelia paludosa DC. (Acmela brasiliensis, Sphagneticola trilobata, Asteraceae

    Directory of Open Access Journals (Sweden)

    Thaisa Baccarin

    2009-06-01

    Full Text Available O presente trabalho teve por objetivo o estabelecimento de parâmetros para análise morfo-anatômica das partes aéreas (caule e folhas da planta Wedelia paludosa DC., Asteraceae. A droga vegetal e o respectivo pó foram submetidos às análises macro e microscópica após preparação de lâminas semi-permanentes de cortes transversais e paradérmicos. O pó foi analisado após diafanização com cloral hidratado. É uma planta herbácea com caule castanho-avermelhado, folhas opostas, curto-pecioladas e membranáceas, apresentando pêlos nas duas faces, estreitada em direção à base acima do meio provida de dois pequenos lobos laterais e um terminal, maior e denteado. A planta apresenta secção circular de caule, que em crescimento primário, possui epiderme, colênquima angular, parênquima cortical e cilindro vascular, assim como oxalato de cálcio (várias drusas e alguns cristais prismáticos. A folha é simples, contendo tricomas tectores e estômato anomocítico. O mesofilo possui organização dorso-ventral e a nervura central, em corte transversal, apresenta-se côncavo-convexo com três feixes colaterais e presença de drusas de oxalato de cálcio nas células parenquimáticas. No pó obtido da droga vegetal foram verificadas as mesmas estruturas microscópicas observadas na droga vegetal rasurada. Os parâmetros morfo-anatômicos estabelecidos neste trabalho permitem o controle de qualidade macro e microscópico da planta tanto rasurada como na forma de pó.This study aimed to establish parameters for morphoanatomical analysis of the aerial parts (stem and leaves of the plant Wedelia paludosa DC., Asteraceae. The drug and its respective powder were characterized by macro and microscopic analysis after obtaining semi-permanent lamina of transverse and paradermal sections. The powder was analyzed after being cleared with chloral hydrate. It is an herbaceous plant with reddish-brown stems, opposite leaves, short-petiolated and

  19. Carotenogenesis diversification in phylogenetic lineages of Rhodophyta.

    Science.gov (United States)

    Takaichi, Shinichi; Yokoyama, Akiko; Mochimaru, Mari; Uchida, Hiroko; Murakami, Akio

    2016-06-01

    Carotenoid composition is very diverse in Rhodophyta. In this study, we investigated whether this variation is related to the phylogeny of this group. Rhodophyta consists of seven classes, and they can be divided into two groups on the basis of their morphology. The unicellular group (Cyanidiophyceae, Porphyridiophyceae, Rhodellophyceae, and Stylonematophyceae) contained only β-carotene and zeaxanthin, "ZEA-type carotenoids." In contrast, within the macrophytic group (Bangiophyceae, Compsopogonophyceae, and Florideophyceae), Compsopogonophyceae contained antheraxanthin in addition to ZEA-type carotenoids, "ANT-type carotenoids," whereas Bangiophyceae contained α-carotene and lutein along with ZEA-type carotenoids, "LUT-type carotenoids." Florideophyceae is divided into five subclasses. Ahnfeltiophycidae, Hildenbrandiophycidae, and Nemaliophycidae contained LUT-type carotenoids. In Corallinophycidae, Hapalidiales and Lithophylloideae in Corallinales contained LUT-type carotenoids, whereas Corallinoideae in Corallinales contained ANT-type carotenoids. In Rhodymeniophycidae, most orders contained LUT-type carotenoids; however, only Gracilariales contained ANT-type carotenoids. There is a clear relationship between carotenoid composition and phylogenetics in Rhodophyta. Furthermore, we searched open genome databases of several red algae for references to the synthetic enzymes of the carotenoid types detected in this study. β-Carotene and zeaxanthin might be synthesized from lycopene, as in land plants. Antheraxanthin might require zeaxanthin epoxydase, whereas α-carotene and lutein might require two additional enzymes, as in land plants. Furthermore, Glaucophyta contained ZEA-type carotenoids, and Cryptophyta contained β-carotene, α-carotene, and alloxanthin, whose acetylenic group might be synthesized from zeaxanthin by an unknown enzyme. Therefore, we conclude that the presence or absence of the four enzymes is related to diversification of carotenoid

  20. Annals of morphology. Atavisms: phylogenetic Lazarus?

    Science.gov (United States)

    Zanni, Ginevra; Opitz, John M

    2013-11-01

    Dedication: with highest respect and affection to Prof. Giovanni Neri on the eve of his official administrative retirement as Chair of the Institute of Medical Genetics of the Università Cattolica of Rome for leadership in medical genetics and medical science and friendship for decades. The concept "atavism," reversion, throwback, Rückschlag remains an epistemological challenge in biology; unwise or implausible over-interpretation of a given structure as such has led some to almost total skepticism as to its existence. Originating in botany in the 18th century it became applied to zoology (and humans) with increasing frequency over the last two centuries such that the very concept became widely discredited. Presently, atavisms have acquired a new life and reconsideration given certain reasonable criteria, including: Homology of structure of the postulated atavism to that of ancestral fossils or collateral species with plausible soft tissue reconstructions taking into account relationships of parts, obvious sites of origin and insertion of muscles, vascular channels, etc. Most parsimonious, plausible phylogenetic assumptions. Evident rudimentary or vestigial anatomical state in prior generations or in morphogenesis of a given organism. Developmental instability in prior generations, that is, some closely related species facultatively with or without the trait. Genetic identity or phylogenomic similarity inferred in ancestors and corroborated in more or less closely related species. Fluctuating asymmetry may be the basis for the striking evolutionary diversification and common atavisms in limbs; however, strong selection and developmental constraints would make atavisms in, for example, cardiac or CNS development less likely. Thus, purported atavisms must be examined critically in light of the above criteria. PMID:24166815

  1. [Phylogenetic analysis of bacteria of extreme ecosystems].

    Science.gov (United States)

    Romanovskaia, V A; Parfenova, V V; Bel'kova, N L; Sukhanova, E V; Gladka, G V; Tashireva, A A

    2014-01-01

    Phylogenetic analysis of aerobic chemoorganotrophic bacteria of the two extreme regions (Dead Sea and West Antarctic) was performed on the basis of the nucleotide sequences of the 16S rRNA gene. Thermotolerant and halotolerant spore-forming bacteria 7t1 and 7t3 of terrestrial ecosystems Dead Sea identified as Bacillus licheniformis and B. subtilis subsp. subtilis, respectively. Taking into account remote location of thermotolerant strain 6t1 from closely related strains in the cluster Staphylococcus, 6t1 strain can be regarded as Staphylococcus sp. In terrestrial ecosystems, Galindez Island (Antarctic) detected taxonomically diverse psychrotolerant bacteria. From ornithogenic soil were isolated Micrococcus luteus O-1 and Microbacterium trichothecenolyticum O-3. Strains 4r5, 5r5 and 40r5, isolated from grass and lichens, can be referred to the genus Frondihabitans. These strains are taxonomically and ecologically isolated and on the tree diagram form the joint cluster with three isolates Frondihabitans sp., isolated from the lichen Austrian Alps, and psychrotolerant associated with plants F. cladoniiphilus CafT13(T). Isolates from black lichen in the different stationary observation points on the south side of a vertical cliff identified as: Rhodococcus fascians 181n3, Sporosarcina aquimarina O-7, Staphylococcus sp. 0-10. From orange biofilm of fouling on top of the vertical cliff isolated Arthrobacter sp. 28r5g1, from the moss-- Serratia sp. 6r1g. According to the results, Frondihabitans strains most frequently encountered among chemoorganotrophic aerobic bacteria in the Antarctic phytocenoses. PMID:25007437

  2. Ant-Based Phylogenetic Reconstruction (ABPR: A new distance algorithm for phylogenetic estimation based on ant colony optimization

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    Karla Vittori

    2008-12-01

    Full Text Available We propose a new distance algorithm for phylogenetic estimation based on Ant Colony Optimization (ACO, named Ant-Based Phylogenetic Reconstruction (ABPR. ABPR joins two taxa iteratively based on evolutionary distance among sequences, while also accounting for the quality of the phylogenetic tree built according to the total length of the tree. Similar to optimization algorithms for phylogenetic estimation, the algorithm allows exploration of a larger set of nearly optimal solutions. We applied the algorithm to four empirical data sets of mitochondrial DNA ranging from 12 to 186 sequences, and from 898 to 16,608 base pairs, and covering taxonomic levels from populations to orders. We show that ABPR performs better than the commonly used Neighbor-Joining algorithm, except when sequences are too closely related (e.g., population-level sequences. The phylogenetic relationships recovered at and above species level by ABPR agree with conventional views. However, like other algorithms of phylogenetic estimation, the proposed algorithm failed to recover expected relationships when distances are too similar or when rates of evolution are very variable, leading to the problem of long-branch attraction. ABPR, as well as other ACO-based algorithms, is emerging as a fast and accurate alternative method of phylogenetic estimation for large data sets.

  3. Desenvolvimento de dentifrícios com extratos fluidos de CALENDULA OFFICINALIS l., (ASTERACEAE) e CASEARIA SYLVESTRIS Sw., (FLACOURTIACEAE),destinado ao tratamento de periodontias

    OpenAIRE

    Arantes, Angela Bonjorno

    2012-01-01

    Resumo: A Calendula officinalis L. (Asteraceae) e a Casearia sylvestris Sw. (Flacourtiaceae), são exemplares da flora medicinal que possuem propriedades terapêuticas destacandose as atividades antiinflamatória, antimicrobiana e cicatrizante, atribuídas ao sinergismo de seus constituintes químicos. No intuito de usufruir destes beneficios desenvolveu-se uma formulação dentifrícia, na forma gel, com seleção criteriosa de matérias-primas e excipientes que atendessem os requisitos farmacotécnicos...

  4. Assessing the Chemical Composition and Antimicrobial Activity of Essential Oils from Brazilian Plants—Eremanthus erythropappus (Asteraceae), Plectrantuns barbatus, and P. amboinicus (Lamiaceae)

    OpenAIRE

    Nara O. dos Santos; Bruna Mariane; João Henrique G. Lago; Patricia Sartorelli; Welton Rosa; Marisi G. Soares; Adalberto M. da Silva; Harri Lorenzi; Vallim, Marcelo A.; Pascon, Renata C.

    2015-01-01

    The chemical composition and antimicrobial activity of essential oils obtained from three Brazilian plant species—leaves and branches of Eremanthus erythropappus (Asteraceae), leaves of Plectranthus barbatus, and leaves of P. amboinicus (Lamiaceae)—were determined. Analysis by GC/MS and determination of Kovats indexes both indicated δ-elemene (leaves—42.61% and branches—23.41%) as well as (−)-α-bisabolol (leaves—24.80% and stem bark—66.16%) as major constituents of E. erythropappus essential ...

  5. Interaction between Tephritidae (Insecta, Diptera and plants of the family Asteraceae: new host and distribution records for the state of Rio Grande do Sul, Brazil

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    Marcoandre Savaris

    2015-03-01

    Full Text Available Twenty species of Tephritidae (Diptera are recorded in association with capitula of plants in the family Asteraceae. The Tephritidae genus Tetreuaresta is registered for Rio Grande do Sul for the first time. Five species of Tephritidae are newly recorded for Rio Grande do Sul, and new hosts are recorded for the following fly species: Dioxyna chilensis (Macquart, Plaumannimyia dolores (Hering, Plaumannimyia imitatrix (Hering, Plaumannimyia miseta (Hering, Plaumannimyia pallens Hering, Tomoplagia incompleta (Williston, Tomoplagia matzenbacheri Prado, Norrbom & Lewinsohn, Tomoplagia reimoseri Hendel, Xanthaciura biocellata (Thomson and Xanthaciura chrysura (Thomson.

  6. Construction and characterization of two BAC libraries representing a deep-coverage of the genome of chicory (Cichorium intybus L., Asteraceae

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    Gonthier Lucy

    2010-08-01

    Full Text Available Abstract Background The Asteraceae represents an important plant family with respect to the numbers of species present in the wild and used by man. Nonetheless, genomic resources for Asteraceae species are relatively underdeveloped, hampering within species genetic studies as well as comparative genomics studies at the family level. So far, six BAC libraries have been described for the main crops of the family, i.e. lettuce and sunflower. Here we present the characterization of BAC libraries of chicory (Cichorium intybus L. constructed from two genotypes differing in traits related to sexual and vegetative reproduction. Resolving the molecular mechanisms underlying traits controlling the reproductive system of chicory is a key determinant for hybrid development, and more generally will provide new insights into these traits, which are poorly investigated so far at the molecular level in Asteraceae. Findings Two bacterial artificial chromosome (BAC libraries, CinS2S2 and CinS1S4, were constructed from HindIII-digested high molecular weight DNA of the contrasting genotypes C15 and C30.01, respectively. C15 was hermaphrodite, non-embryogenic, and S2S2 for the S-locus implicated in self-incompatibility, whereas C30.01 was male sterile, embryogenic, and S1S4. The CinS2S2 and CinS1S4 libraries contain 89,088 and 81,408 clones. Mean insert sizes of the CinS2S2 and CinS1S4 clones are 90 and 120 kb, respectively, and provide together a coverage of 12.3 haploid genome equivalents. Contamination with mitochondrial and chloroplast DNA sequences was evaluated with four mitochondrial and four chloroplast specific probes, and was estimated to be 0.024% and 1.00% for the CinS2S2 library, and 0.028% and 2.35% for the CinS1S4 library. Using two single copy genes putatively implicated in somatic embryogenesis, screening of both libraries resulted in detection of 12 and 13 positive clones for each gene, in accordance with expected numbers. Conclusions This

  7. Influência dos processos de secagem sobre o teor de flavonoides e na atividade antioxidante dos extratos de Baccharis articulata (Lam. Pers., Asteraceae

    Directory of Open Access Journals (Sweden)

    Jackson Borgo

    2010-03-01

    Full Text Available O objetivo deste trabalho foi verificar o teor de quercetina obtido dos extratos de partes aéreas de Baccharis articulata (Lam. Pers., Asteraceae, submetidas a diferentes técnicas de secagem, bem como a avaliação de sua atividade antioxidante in vitro. Foi verificada maior concentração deste flavonoide nas amostras secas em estufa, porém não houve diferença significativa na atividade farmacológica das amostras analisadas.

  8. Underestimated diversity in one of the world’s best studied mountain ranges: The polyploid complex of Senecio carniolicus (Asteraceae) contains four species in the European Alps

    Science.gov (United States)

    GARCÍA, PEDRO ESCOBAR; HÜLBER, KARL; SONNLEITNER, MICHAELA; WINKLER, MANUELA; SAUKEL, JOHANNES; SCHNEEWEISS, GERALD M.; SCHÖNSWETTER, PETER

    2015-01-01

    Senecio carniolicus (Asteraceae) is an intricate polyploid complex distributed in the European Alps (di-, tetra- and hexaploids) and Carpathians (hexaploids only). Molecular genetic, ecological, and crossing data allowed four evolutionary groups within S. carniolicus to be identified. Here, we establish that these four groups (two vicariant diploid lineages, tetraploids and hexaploids) are also morphologically differentiated. As a consequence, we draw taxonomic conclusions by characterizing four species, including the more narrowly circumscribed S. carniolicus (lectotypified here), the taxonomically elevated S. insubricus comb. nov. (lectotypified here), and the two newly described species S. disjunctus and S. noricus. PMID:26190915

  9. Actividades biológicas e estruturas secretoras de três espécies de Asteraceae da flora aromática portuguesa

    OpenAIRE

    Rodrigues, Ana Margarida Colaço, 1982-

    2011-01-01

    Tese de mestrado. Biologia (Biologia Celular e Biotecnologia). Universidade de Lisboa, Faculdade de Ciências, 2011 A Flora Portuguesa é muito rica em espécies aromáticas, utilizadas desde há séculos, em medicina tradicional sob a forma de “chás”, extractos aquosos obtidos por infusão ou decocção de partes de plantas pertencentes maioritariamente às famílias Asteraceae e Lamiaceae. Realizou-se um estudo de actividades biológicas e metabolismo in vitro de decocções de caules/folhas e flores ...

  10. Assessment of plant development, morphology and flavonoid content in different cultivation treatments of Calendula officinalis L: , Asteraceae

    Directory of Open Access Journals (Sweden)

    Luis Fernando Nunes Alves Paim

    2010-12-01

    Full Text Available The objective of this study was to examine the influence of cultivation treatments on plant development, morphology and flavonoid content in Calendula officinalis L., Asteraceae. The cultivation treatments were liming (LIM, liming + organic fertilizer (LORG and liming + NPK chemical fertilizer (LCHEM. The experiment was completely randomized with sixty repetitions and the means were compared by ANOVA and Duncan's test (significance of 95%. The results show that LORG and LCHEM produced greater plant development compared with LIM treatment. The LORG treatment also produced plants with greater homogeneity, fresh mass, and higher numbers of flowers per plant, but lower biomass of flower produced by each individual. Morphoanatomical variations were also observed with tubular flowers with yellow centres (TCA and tubular flowers with brown centres (TAC that produced a higher content of flavonoids (1.41 and 1.44% respectively, compared with ligulate flowers with yellow centres (LCA and ligulate flowers with brown centres (LAC (0.89 and 0.95% respectively. The chemical compounds in the flowers of calendula viewed by thin-layer chromatography showed that the treatments did not have any influence on the qualitative chemical profile of the plant. However, cultivars of calendula that underwent treatment LCHEM produced a greater quantity of total flavonoids (1.14% against 1.04% for LORG and 1.03% for LIM.O objetivo deste estudo foi avaliar a influência dos tratos culturais no desenvolvimento vegetal, morfologia e teor de flavonóides para Calendula officinalis L., Asteraceae. Os tratos culturais foram: calagem (CA, calagem + adubação orgânica (CAO e calagem + adubação química NPK (CAQ. O experimento foi inteiramente casualizado com sessenta repetições e a comparação das médias realizada por ANOVA e teste de Duncan (significância de 95%. Os resultados apontam que CAO e CAQ apresentaram maior desenvolvimento vegetal comparados com tratamento CA. O

  11. Not only size matters: achene morphology affects time of seedling emergence in three heterocarpic species of Anacyclus (Anthemideae, Asteraceae

    Directory of Open Access Journals (Sweden)

    Torices, Rubén

    2013-06-01

    Full Text Available The production of two or more distinct fruit types by an individual, i.e. heterocarpy, is considered as a mixed dispersal strategy in which a proportion of the offspring is able to colonize new sites, whilst others remain near the maternal location. Here, we aimed to explore the effects of achene morphology (winged vs. unwinged achenes and achene size –measured here as achene mass– on post-dispersal life-history traits (probability and time of seedling emergence in three heterocarpic Anacyclus species (Anthemideae, Asteraceae. Morphology, size and germination performance were studied in achenes from six populations of Anacyclus clavatus (Desf. Pers., A. homogamos (Maire Humphries, and A. valentinus L. Our results show that achene morphology and size were related to their position within the capitulum, such that outer, winged achenes were significantly heavier than the inner, unwinged ones. Additionally, winged achenes germinated faster than unwinged ones. This pattern may be related to the sequential achene time of release displayed by these species. Finally, our findings cast doubt on the role of wings as structures that favor dispersal by wind in these three species of Anacyclus.La producción de dos o más tipos de frutos diferentes por un mismo individuo, i.e. heterocarpia, es considerada como una estrategia mixta de dispersión en la que una parte de la descendencia es capaz de colonizar nuevos sitios, mientras que la otra permanece cerca de la planta madre. En este trabajo, nuestro objetivo fue explorar los efectos de la morfología del aquenio (aquenios alados vs. no alados y de su tamaño –medido aquí como masa del aquenio– en la etapa del ciclo de vida siguiente a la dispersión (probabilidad de germinación y tiempo de emergencia de las plántulas de tres especies heterocárpicas del género Anacyclus (Anthemideae, Asteraceae. Se estudió la morfología, el tamaño y la germinación en aquenios de seis poblaciones de Anacyclus

  12. Disentangling the Effects of Safety-Behavior Utilization and Safety-Behavior Availability During Exposure-Based Treatment: A Placebo-Controlled Trial

    Science.gov (United States)

    Powers, Mark B.; Smits, Jasper A. J.; Telch, Michael J.

    2004-01-01

    The primary aim of the current study was to further investigate the deleterious effects of safety-seeking behaviors on fear reduction by disentangling the effects of perceived availability of threat-relevant safety behaviors during treatment versus their actual use. Participants (N=72) displaying marked claustrophobic fear were randomly assigned…

  13. Disentangling the Effects of Cognitive Development and Linguistic Expertise: A Longitudinal Study of the Acquisition of English in Internationally-Adopted Children

    Science.gov (United States)

    Snedeker, Jesse; Geren, Joy; Shafto, Carissa L.

    2012-01-01

    Early language development is characterized by predictable changes in the words children produce and the complexity of their utterances. In infants, these changes could reflect increasing linguistic expertise or cognitive maturation and development. To disentangle these factors, we compared the acquisition of English in internationally-adopted…

  14. Bioactivity of the extracts and isolation of lignans and a sesquiterpene from the aerial parts of Centaurea pamphylica (Asteraceae

    Directory of Open Access Journals (Sweden)

    Shoeb M.

    2007-06-01

    Full Text Available Centaurea pamphylica Boiss. & Heldr. (Family: Asteraceae, commonly known as ‘pamphylia daisy', is a Turkish endemic species of the genus Centaurea that comprises ca. 500 species, many of which have been used as traditional medicines.  The n-hexane, dichloromethane (DCM and methanol (MeOH extracts of the aerial parts of C. pamphylica were assessed for antioxidant activity and general toxicity using, respectively, the 2,2-diphenyl-1-picrylhydrazyl (DPPH, and the brine shrimp lethality assays. The reversed-phase preparative HPLC and PTLC were used to isolate compounds from the extracts.  The structures of these compounds [1-4] were elucidated by spectroscopic means, and also by direct comparison with the respective published data.  Both the DCM and the MeOH extract showed significant levels of antioxidant activities with the RC50 values of 72.6 x 10-2 and 47.3 ´ 10-2 mg/mL, respectively. The MeOH extract exhibited low levels of toxicity towards brine shrimps (LD50 = 125.0 ´ 10-2 mg/mL. Three major bioactive components of the MeOH extract were matairesinoside [1], arctiin [2] and matairesinol [3]. An eudesmane-type sesquiterpene, pterodontriol [4], was also isolated from the DCM extract.  Since reactive oxygen species are important contributors to various ailments, the antioxidant properties of the extracts as well as the isolated compounds may be of medicinal significance. This is the first report on the occurrence of 1-4 in C. pamphylica, and 4 in the genus Centaurea.  

  15. Asperisporium and Pantospora (Mycosphaerellaceae): epitypifications and phylogenetic placement

    NARCIS (Netherlands)

    Minnis, A.M.; Kennedy, A.H.; Grenier, D.B.; Rehner, S.A.; Bischoff, J.F.

    2012-01-01

    The species-rich family Mycosphaerellaceae contains considerable morphological diversity and includes numerous anamorphic genera, many of which are economically important plant pathogens. Recent revisions and phylogenetic research have resulted in taxonomic instability. Ameliorating this problem req

  16. Mapping phylogenetic endemism in R using georeferenced branch extents

    Science.gov (United States)

    Guerin, Greg R.; Lowe, Andrew J.

    2015-12-01

    Applications are needed to map biodiversity from large-scale species occurrence datasets whilst seamlessly integrating with existing functions in R. Phylogenetic endemism (PE) is a biodiversity measure based on range-restricted phylogenetic diversity (PD). Current implementations use area of occupancy (AOO) or frequency to estimate the spatial range of branch-length (i.e. phylogenetic range-rarity), rather than extent of occurrence (EOO; i.e. georeferenced phylogenetic endemism), which is known to produce different range estimates. We present R functions to map PD or PE weighted by AOO or EOO (new georeferenced implementation), taking as inputs georeferenced species occurrences and a phylogeny. Non-parametric statistics distinguish PD/PE from trivial correlates of species richness and sampling intensity.

  17. Markov invariants, plethysms, and phylogenetics (the long version)

    CERN Document Server

    Sumner, J G; Jermiin, L S; Jarvis, P D

    2008-01-01

    We explore model based techniques of phylogenetic tree inference exercising Markov invariants. Markov invariants are group invariant polynomials and are distinct from what is known in the literature as phylogenetic invariants, although we establish a commonality in some special cases. We show that the simplest Markov invariant forms the foundation of the Log-Det distance measure. We take as our primary tool group representation theory, and show that it provides a general framework for analysing Markov processes on trees. From this algebraic perspective, the inherent symmetries of these processes become apparent, and focusing on plethysms, we are able to define Markov invariants and give existence proofs. We give an explicit technique for constructing the invariants, valid for any number of character states and taxa. For phylogenetic trees with three and four leaves, we demonstrate that the corresponding Markov invariants can be fruitfully exploited in applied phylogenetic studies.

  18. Phylogenetic comparative methods complement discriminant function analysis in ecomorphology.

    Science.gov (United States)

    Barr, W Andrew; Scott, Robert S

    2014-04-01

    In ecomorphology, Discriminant Function Analysis (DFA) has been used as evidence for the presence of functional links between morphometric variables and ecological categories. Here we conduct simulations of characters containing phylogenetic signal to explore the performance of DFA under a variety of conditions. Characters were simulated using a phylogeny of extant antelope species from known habitats. Characters were modeled with no biomechanical relationship to the habitat category; the only sources of variation were body mass, phylogenetic signal, or random "noise." DFA on the discriminability of habitat categories was performed using subsets of the simulated characters, and Phylogenetic Generalized Least Squares (PGLS) was performed for each character. Analyses were repeated with randomized habitat assignments. When simulated characters lacked phylogenetic signal and/or habitat assignments were random, ecomorphology. PMID:24382658

  19. Phylogenetic and biological species diversity within the Neurospora tetrasperma complex.

    Science.gov (United States)

    Menkis, A; Bastiaans, E; Jacobson, D J; Johannesson, H

    2009-09-01

    The objective of this study was to explore the evolutionary history of the morphologically recognized filamentous ascomycete Neurospora tetrasperma, and to reveal the genetic and reproductive relationships among its individuals and populations. We applied both phylogenetic and biological species recognition to a collection of strains representing the geographic and genetic diversity of N. tetrasperma. First, we were able to confirm a monophyletic origin of N. tetrasperma. Furthermore, we found nine phylogenetic species within the morphospecies. When using the traditional broad biological species recognition all investigated strains of N. tetrasperma constituted a single biological species. In contrast, when using a quantitative measurement of the reproductive success, incorporating characters such as viability and fertility of offspring, we found a high congruence between the phylogenetic and biological species recognition. Taken together, phylogenetically and biologically defined groups of individuals exist in N. tetrasperma, and these should be taken into account in future studies of its life history traits. PMID:19682307

  20. Phylogenetic relationships of Salmonella based on rRNA sequences

    DEFF Research Database (Denmark)

    Christensen, H.; Nordentoft, Steen; Olsen, J.E.

    1998-01-01

    To establish the phylogenetic relationships between the subspecies of Salmonella enterica (official name Salmonella choleraesuis), Salmonella bongori and related members of Enterobacteriaceae, sequence comparison of rRNA was performed by maximum-likelihood analysis. The two Salmonella species were...

  1. Phylogenetic constraints in key functional traits behind species' climate niches

    DEFF Research Database (Denmark)

    Kellermann, Vanessa; Loeschcke, Volker; Hoffmann, Ary A; Kristensen, Torsten Nygård; Fløjgaard, Camilla; David, Jean R; Svenning, Jens-Christian; Overgaard, Johannes

    2012-01-01

    Species distributions are often constrained by climatic tolerances that are ultimately determined by evolutionary history and/or adaptive capacity, but these factors have rarely been partitioned. Here, we experimentally determined two key climatic niche traits (desiccation and cold resistance) for....... Desiccation and cold resistance were clearly linked to species distributions because significant associations between traits and climatic variables persisted even after controlling for phylogeny. We used different methods to untangle whether phylogenetic signal reflected phylogenetically related species...... adapted to similar environments or alternatively phylogenetic inertia. For desiccation resistance, weak phylogenetic inertia was detected; ancestral trait reconstruction, however, revealed a deep divergence that could be traced back to the genus level. Despite drosophilids’ high evolutionary potential...

  2. Morphological and molecular marker contributions to disentangling the cryptic Hermeuptychia hermes species complex (Nymphalidae: Satyrinae: Euptychiina).

    Science.gov (United States)

    Seraphim, N; Marín, M A; Freitas, A V L; Silva-Brandão, K L

    2014-01-01

    The genus Hermeuptychia is common and widespread through the Americas, from Argentina to the southern United States of America. All eight recognized species within Hermeuptychia are small and brown, with very similar interspecific external morphologies and intraspecifically variable ocelli patterns that render taxonomic identification based on morphology difficult. In our study, we surveyed variability within Hermeuptychia, and evaluated species boundaries based on molecular data (sequences of the 'barcode' mitochondrial DNA COI gene) and morphology (mainly male genitalia), using a phylogenetic approach. We found eight DNA-based and 12 morphological groups in our sampling. Species names were assigned based mainly on comparisons with male genitalia morphology descriptions corresponding to name-bearing type specimens. Morphological and DNA variability were highly congruent, with the exception of group H, the Hermeuptychia cucullina complex. Also, the barcode region showed a clear threshold for intra- and interspecific mean distances around 2%. Based on these results, we circumscribe the species boundaries in the genus Hermeuptychia and discuss conflicts between mitochondrial genes and classic morphological approaches for identifying and delimiting species. Our study revealed cryptic diversity within an ubiquitous genus of Neotropical butterflies. PMID:24034669

  3. Asperisporium and Pantospora (Mycosphaerellaceae): epitypifications and phylogenetic placement

    OpenAIRE

    Minnis, A.M.; Kennedy, A.H.; Grenier, D.B.; Rehner, S.A.; Bischoff, J.F.

    2012-01-01

    The species-rich family Mycosphaerellaceae contains considerable morphological diversity and includes numerous anamorphic genera, many of which are economically important plant pathogens. Recent revisions and phylogenetic research have resulted in taxonomic instability. Ameliorating this problem requires phylogenetic placement of type species of key genera. We present an examination of the type species of the anamorphic Asperisporium and Pantospora. Cultures isolated from recent port intercep...

  4. Hal: an Automated Pipeline for Phylogenetic Analyses of Genomic Data

    OpenAIRE

    Robbertse, Barbara; Yoder, Ryan J.; Boyd, Alex; Reeves, John; Spatafora, Joseph W.

    2011-01-01

    The rapid increase in genomic and genome-scale data is resulting in unprecedented levels of discrete sequence data available for phylogenetic analyses. Major analytical impasses exist, however, prior to analyzing these data with existing phylogenetic software. Obstacles include the management of large data sets without standardized naming conventions, identification and filtering of orthologous clusters of proteins or genes, and the assembly of alignments of orthologous sequence data into ind...

  5. Phylogenetic analysis and development of probes for differentiating methylotrophic bacteria.

    OpenAIRE

    Brusseau, G A; Bulygina, E S; Hanson, R S

    1994-01-01

    Fifteen small-subunit rRNAs from methylotrophic bacteria have been sequenced. Comparisons of these sequences with 22 previously published sequences further defined the phylogenetic relationships among these bacteria and illustrated the agreement between phylogeny and physiological characteristics of the bacteria. Phylogenetic trees were constructed with 16S rRNA sequences from methylotrophic bacteria and representative organisms from subdivisions within the class Proteobacteria on the basis o...

  6. Phylogenetic trees and the tropical geometry of flag varieties

    OpenAIRE

    Manon, Christopher

    2012-01-01

    International audience We will discuss some recent theorems relating the space of weighted phylogenetic trees to the tropical varieties of each flag variety of type A. We will also discuss the tropicalizations of the functions corresponding to semi-standard tableaux, in particular we relate them to familiar functions from phylogenetics. We close with some remarks on the generalization of these results to the tropical geometry of arbitrary flag varieties. This involves the family of Bergman...

  7. Linguistic Phylogenetic Inference by PAM-like Matrices

    OpenAIRE

    Delmestri, Antonella; Cristianini, Nello

    2010-01-01

    We apply to the task of linguistic phylogenetic inference a successful cognate identification learning model based on PAM-like matrices. We train our system and we employ the learned parameters for measuring the lexical distance between languages. We estimate phylogenetic trees using distance-based methods on an Indo-European database. Our results reproduce correctly all the established major language groups present in the dataset, are compatible with the Indo-European benchmark tree and incl...

  8. Phylogenetic analysis of porcine parvoviruses from swine samples in China

    OpenAIRE

    Li Dong; Chen Yingli; Xie Baoxia; Bao Huifang; Bai Xingwen; Li Pinghua; Cao Yimei; Fu Yuanfang; Sun Pu; Lu Zengjun; Hao Xiaofang; Liu Zaixin

    2011-01-01

    Abstract Background Porcine parvovirus (PPV) usually causes reproductive failure in sows. The objective of the present study was to analyze the phylogenetic distribution and perform molecular characterization of PPVs isolated in China, as well as to identify two field strains, LZ and JY. The data used in this study contained the available sequences for NS1 and VP2 from GenBank, as well as the two aforementioned Chinese strains. Results Phylogenetic analysis shows that the PPV sequences are di...

  9. Exploration of phylogenetic data using a global sequence analysis method

    Directory of Open Access Journals (Sweden)

    Giron Alain

    2005-11-01

    Full Text Available Abstract Background Molecular phylogenetic methods are based on alignments of nucleic or peptidic sequences. The tremendous increase in molecular data permits phylogenetic analyses of very long sequences and of many species, but also requires methods to help manage large datasets. Results Here we explore the phylogenetic signal present in molecular data by genomic signatures, defined as the set of frequencies of short oligonucleotides present in DNA sequences. Although violating many of the standard assumptions of traditional phylogenetic analyses – in particular explicit statements of homology inherent in character matrices – the use of the signature does permit the analysis of very long sequences, even those that are unalignable, and is therefore most useful in cases where alignment is questionable. We compare the results obtained by traditional phylogenetic methods to those inferred by the signature method for two genes: RAG1, which is easily alignable, and 18S RNA, where alignments are often ambiguous for some regions. We also apply this method to a multigene data set of 33 genes for 9 bacteria and one archea species as well as to the whole genome of a set of 16 γ-proteobacteria. In addition to delivering phylogenetic results comparable to traditional methods, the comparison of signatures for the sequences involved in the bacterial example identified putative candidates for horizontal gene transfers. Conclusion The signature method is therefore a fast tool for exploring phylogenetic data, providing not only a pretreatment for discovering new sequence relationships, but also for identifying cases of sequence evolution that could confound traditional phylogenetic analysis.

  10. FootPrinter3: phylogenetic footprinting in partially alignable sequences

    OpenAIRE

    Fang, Fei; Blanchette, Mathieu

    2006-01-01

    FootPrinter3 is a web server for predicting transcription factor binding sites by using phylogenetic footprinting. Until now, phylogenetic footprinting approaches have been based either on multiple alignment analysis (e.g. PhyloVista, PhastCons), or on motif-discovery algorithms (e.g. FootPrinter2). FootPrinter3 integrates these two approaches, making use of local multiple sequence alignment blocks when those are available and reliable, but also allowing finding motifs in unalignable regions....

  11. The evolution of HPV by means of a phylogenetic study.

    Science.gov (United States)

    Isea, Raúl; Chaves, Juan L; Montes, Esther; Rubio-Montero, Antonio J; Mayo, Rafael

    2009-01-01

    In this work we demonstrate the adequacy of revising the classification systems based on molecular phylogenetic calculations by allowing an arbitrary number of taxas that take advantage of high performance computing platforms for the Human papillomavirus (HPV) case. To do so, we have analysed several phylogenetic trees which have been calculated with the PhyloGrid tool, a workflow developed in the framework of the EELA-2 Project. PMID:19593062

  12. Statistical Phylogenetic Tree Analysis Using Differences of Means

    OpenAIRE

    Arnaoudova, Elissaveta; David C Haws; Huggins, Peter; Jaromczyk, Jerzy W; Moore, Neil; Schardl, Christopher L; Yoshida, Ruriko

    2010-01-01

    We propose a statistical method to test whether two phylogenetic trees with given alignments are significantly incongruent. Our method compares the two distributions of phylogenetic trees given by the input alignments, instead of comparing point estimations of trees. This statistical approach can be applied to gene tree analysis for example, detecting unusual events in genome evolution such as horizontal gene transfer and reshuffling. Our method uses difference of means to compare two distrib...

  13. Statistical phylogenetic tree analysis using differences of means

    OpenAIRE

    Elissaveta Arnaoudova; David C Haws; Peter Huggins; Jerzy Jaromczyk; Niel Moore; Christopher Schardl; Ruriko Yoshida

    2010-01-01

    We propose a statistical method to test whether two phylogenetic trees with given alignments are significantly incongruent. Our method compares the two distributions of phylogenetic trees given by the input alignments, instead of comparing point estimations of trees. This statistical approach can be applied to gene tree analysis for example, detecting unusual events in genome evolution such as horizontal gene transfer and reshuffling. Our method uses difference of means to compare two distri...

  14. Ecological and phylogenetic influences on maxillary dentition in snakes

    Directory of Open Access Journals (Sweden)

    Kate Jackson

    2010-12-01

    Full Text Available The maxillary dentition of snakes was used as a system with which to investigate the relative importance of the interacting forces of ecological selective pressures and phylogenetic constraints indetermining morphology. The maxillary morphology of three groups of snakes having different diets, with each group comprising two distinct lineages — boids and colubroids — was examined. Our results suggest that dietary selective pressures may be more significantthan phylogenetic history in shaping maxillary morphology.

  15. Acremonium phylogenetic overview and revision of Gliomastix, Sarocladium, and Trichothecium.

    OpenAIRE

    2011-01-01

    Over 200 new sequences are generated for members of the genus Acremonium and related taxa including ribosomal small subunit sequences (SSU) for phylogenetic analysis and large subunit (LSU) sequences for phylogeny and DNA-based identification. Phylogenetic analysis reveals that within the Hypocreales, there are two major clusters containing multiple Acremonium species. One clade contains Acremonium sclerotigenum, the genus Emericellopsis, and the genus Geosmithia as prominent elements. The se...

  16. Phylogenetic community ecology of soil biodiversity using mitochondrial metagenomics.

    Science.gov (United States)

    Andújar, Carmelo; Arribas, Paula; Ruzicka, Filip; Crampton-Platt, Alex; Timmermans, Martijn J T N; Vogler, Alfried P

    2015-07-01

    High-throughput DNA methods hold great promise for the study of taxonomically intractable mesofauna of the soil. Here, we assess species diversity and community structure in a phylogenetic framework, by sequencing total DNA from bulk specimen samples and assembly of mitochondrial genomes. The combination of mitochondrial metagenomics and DNA barcode sequencing of 1494 specimens in 69 soil samples from three geographic regions in southern Iberia revealed >300 species of soil Coleoptera (beetles) from a broad spectrum of phylogenetic lineages. A set of 214 mitochondrial sequences longer than 3000 bp was generated and used to estimate a well-supported phylogenetic tree of the order Coleoptera. Shorter sequences, including cox1 barcodes, were placed on this mitogenomic tree. Raw Illumina reads were mapped against all available sequences to test for species present in local samples. This approach simultaneously established the species richness, phylogenetic composition and community turnover at species and phylogenetic levels. We find a strong signature of vertical structuring in soil fauna that shows high local community differentiation between deep soil and superficial horizons at phylogenetic levels. Within the two vertical layers, turnover among regions was primarily at the tip (species) level and was stronger in the deep soil than leaf litter communities, pointing to layer-mediated drivers determining species diversification, spatial structure and evolutionary assembly of soil communities. This integrated phylogenetic framework opens the application of phylogenetic community ecology to the mesofauna of the soil, among the most diverse and least well-understood ecosystems, and will propel both theoretical and applied soil science. PMID:25865150

  17. Molecular Phylogenetic: Organism Taxonomy Method Based on Evolution History

    Directory of Open Access Journals (Sweden)

    N.L.P Indi Dharmayanti

    2011-03-01

    Full Text Available Phylogenetic is described as taxonomy classification of an organism based on its evolution history namely its phylogeny and as a part of systematic science that has objective to determine phylogeny of organism according to its characteristic. Phylogenetic analysis from amino acid and protein usually became important area in sequence analysis. Phylogenetic analysis can be used to follow the rapid change of a species such as virus. The phylogenetic evolution tree is a two dimensional of a species graphic that shows relationship among organisms or particularly among their gene sequences. The sequence separation are referred as taxa (singular taxon that is defined as phylogenetically distinct units on the tree. The tree consists of outer branches or leaves that represents taxa and nodes and branch represent correlation among taxa. When the nucleotide sequence from two different organism are similar, they were inferred to be descended from common ancestor. There were three methods which were used in phylogenetic, namely (1 Maximum parsimony, (2 Distance, and (3 Maximum likehoood. Those methods generally are applied to construct the evolutionary tree or the best tree for determine sequence variation in group. Every method is usually used for different analysis and data.

  18. Phylogenetic context determines the role of competition in adaptive radiation.

    Science.gov (United States)

    Tan, Jiaqi; Slattery, Matthew R; Yang, Xian; Jiang, Lin

    2016-06-29

    Understanding ecological mechanisms regulating the evolution of biodiversity is of much interest to ecologists and evolutionary biologists. Adaptive radiation constitutes an important evolutionary process that generates biodiversity. Competition has long been thought to influence adaptive radiation, but the directionality of its effect and associated mechanisms remain ambiguous. Here, we report a rigorous experimental test of the role of competition on adaptive radiation using the rapidly evolving bacterium Pseudomonas fluorescens SBW25 interacting with multiple bacterial species that differed in their phylogenetic distance to the diversifying bacterium. We showed that the inhibitive effect of competitors on the adaptive radiation of P. fluorescens decreased as their phylogenetic distance increased. To explain this phylogenetic dependency of adaptive radiation, we linked the phylogenetic distance between P. fluorescens and its competitors to their niche and competitive fitness differences. Competitive fitness differences, which showed weak phylogenetic signal, reduced P. fluorescens abundance and thus diversification, whereas phylogenetically conserved niche differences promoted diversification. These results demonstrate the context dependency of competitive effects on adaptive radiation, and highlight the importance of past evolutionary history for ongoing evolutionary processes. PMID:27335414

  19. Phylogenetic aspects of the complement system.

    Science.gov (United States)

    Zarkadis, I K; Mastellos, D; Lambris, J D

    2001-01-01

    During evolution two general systems of immunity have emerged: innate or, natural immunity and adaptive (acquired), or specific immunity. The innate system is phylogenetically older and is found in some form in all multicellular organisms, whereas the adaptive system appeared about 450 million years ago and is found in all vertebrates except jawless fish. The complement system in higher vertebrates plays an important role as an effector of both the innate and the acquired immune response, and also participates in various immunoregulatory processes. In lower vertebrates complement is activated by the alternative and lectin pathways and is primarily involved in the opsonization of foreign material. The Agnatha (the most primitive vertebrate species) possess the alternative and lectin pathways while cartilaginous fish are the first species in which the classical pathway appears following the emergence of immunoglobulins. The rest of the poikilothermic species, ranging from teleosts to reptilians, appear to contain a well-developed complement system resembling that of the homeothermic vertebrates. It seems that most of the complement components have appeared after the duplication of primordial genes encoding C3/C4/C5, fB/C2, C1s/C1r/MASP-1/MASP-2, and C6/C7/C8/C9 molecules, in a process that led to the formation of distinct activation pathways. However, unlike homeotherms, several species of poikilotherms (e.g. trout) have recently been shown to possess multiple forms of complement components (C3, factor B) that are structurally and functionally more diverse than those of higher vertebrates. We hypothesize that this remarkable diversity has allowed these animals to expand their innate capacity for immune recognition and response. Recent studies have also indicated the possible presence of complement receptors in protochordates and lower vertebrates. In conclusion, there is considerable evidence suggesting that the complement system is present in the entire lineage of

  20. Disentangling role perceptions: how perceived role breadth, discretion, instrumentality, and efficacy relate to helping and taking charge.

    Science.gov (United States)

    McAllister, Daniel J; Kamdar, Dishan; Morrison, Elizabeth Wolfe; Turban, Daniel B

    2007-09-01

    The objective of this study was to empirically disentangle role perceptions related to organizational citizenship behavior (OCB) that have been confounded in past research, investigate their unique relationships with both an affiliative (helping) and a challenging (taking charge) form of OCB, and determine their relative importance in explaining these 2 forms of OCB. The authors also examined whether role discretion and role breadth independently moderate the procedural justice-to-OCB relationship. The authors surveyed 225 engineers in India and their direct supervisors. The results showed that 3 of the 4 facets of OCB role perception explain unique variance in either helping or taking charge, and that role breadth moderates the relationships between procedural justice and both helping and taking charge. The authors discuss implications of these findings for OCB theory and research, as well as for managerial practice. PMID:17845080

  1. Modelling the dust emission from dense interstellar clouds: disentangling the effects of radiative transfer and dust properties

    CERN Document Server

    Ysard, N; Demyk, K; Guillet, V; Abergel, A; Bernard, J -P; Malinen, J; Mény, C; Montier, L; Paradis, D; Ristorcelli, I; Verstraete, L

    2012-01-01

    With Planck and Herschel, we now have the spectral coverage and angular resolution required to observe dense and cold molecular clouds. As these clouds are optically thick at short wavelength but optically thin at long wavelength, it is tricky to conclude anything about dust properties without a proper treatment of the radiative transfer (RT). Our aim is to disentangle the effects of RT and of dust properties on the variations in the dust emission to provide observers with keys to analyse the emission arising from dense clouds. We model cylindrical clouds, illuminated by the ISRF, and carry out full RT calculations. Dust temperatures are solved using DustEM for amorphous carbons and silicates, grains coated with carbon mantles, and mixed aggregates of carbon and silicate. We allow variations of the grain optical properties with wavelength and temperature. We determine observed colour temperatures, T, and emissivity spectral indices, beta, by fitting the dust emission with modified blackbodies, to compare our ...

  2. Implicit sexual attitude of heterosexual, gay and bisexual individuals: disentangling the contribution of specific associations to the overall measure.

    Directory of Open Access Journals (Sweden)

    Pasquale Anselmi

    Full Text Available The article aims to measure implicit sexual attitude in heterosexual, gay and bisexual individuals. A Many-Facet Rasch Measurement analysis was used to disentangle the contribution of specific associations to the overall IAT measure. A preference for heterosexuals relative to homosexuals is observed in heterosexual respondents, driven most by associating positive attributes with heterosexuals rather than negative attributes with homosexuals. Differently, neither the negative nor the positive evaluation of any of the target groups play a prominent role in driving the preference for homosexuals observed in gay respondents. A preference for heterosexuals relative to homosexuals is observed in bisexual respondents, that results most from ascribing negative attributes to homosexuals rather than positive attributes to heterosexuals. The results are consistent with the expression of the need for achieving a positive self-image and with the influence of shared social norms concerning sexuality.

  3. Parasite fitness traits under environmental variation: disentangling the roles of a chytrid's immediate host and external environment.

    Science.gov (United States)

    Van den Wyngaert, Silke; Vanholsbeeck, Olivier; Spaak, Piet; Ibelings, Bas W

    2014-10-01

    Parasite environments are heterogeneous at different levels. The first level of variability is the host itself. The second level represents the external environment for the hosts, to which parasites may be exposed during part of their life cycle. Both levels are expected to affect parasite fitness traits. We disentangle the main and interaction effects of variation in the immediate host environment, here the diatom Asterionella formosa (variables host cell volume and host condition through herbicide pre-exposure) and variation in the external environment (variables host density and acute herbicide exposure) on three fitness traits (infection success, development time and reproductive output) of a chytrid parasite. Herbicide exposure only decreased infection success in a low host density environment. This result reinforces the hypothesis that chytrid zoospores use photosynthesis-dependent chemical cues to locate its host. At high host densities, chemotaxis becomes less relevant due to increasing chance contact rates between host and parasite, thereby following the mass-action principle in epidemiology. Theoretical support for this finding is provided by an agent-based simulation model. The immediate host environment (cell volume) substantially affected parasite reproductive output and also interacted with the external herbicide exposed environment. On the contrary, changes in the immediate host environment through herbicide pre-exposure did not increase infection success, though it had subtle effects on zoospore development time and reproductive output. This study shows that both immediate host and external environment as well as their interaction have significant effects on parasite fitness. Disentangling these effects improves our understanding of the processes underlying parasite spread and disease dynamics. PMID:24863129

  4. Fungal catalases: function, phylogenetic origin and structure.

    Science.gov (United States)

    Hansberg, Wilhelm; Salas-Lizana, Rodolfo; Domínguez, Laura

    2012-09-15

    Most fungi have several monofunctional heme-catalases. Filamentous ascomycetes (Pezizomycotina) have two types of large-size subunit catalases (L1 and L2). L2-type are usually induced by different stressors and are extracellular enzymes; those from the L1-type are not inducible and accumulate in asexual spores. L2 catalases are important for growth and the start of cell differentiation, while L1 are required for spore germination. In addition, pezizomycetes have one to four small-size subunit catalases. Yeasts (Saccharomycotina) do not have large-subunit catalases and generally have one peroxisomal and one cytosolic small-subunit catalase. Small-subunit catalases are inhibited by substrate while large-subunit catalases are activated by H(2)O(2). Some small-subunit catalases bind NADPH preventing inhibition by substrate. We present a phylogenetic analysis revealing one or two events of horizontal gene transfers from Actinobacteria to a fungal ancestor before fungal diversification, as the origin of large-size subunit catalases. Other possible horizontal transfers of small- and large-subunit catalases genes were detected and one from bacteria to the fungus Malassezia globosa was analyzed in detail. All L2-type catalases analyzed presented a secretion signal peptide. Mucorales preserved only L2-type catalases, with one containing a secretion signal if two or more are present. Basidiomycetes have only L1-type catalases, all lacking signal peptide. Fungal small-size catalases are related to animal catalases and probably evolved from a common ancestor. However, there are several groups of small-size catalases. In particular, a conserved group of fungal sequences resemble plant catalases, whose phylogenetic origin was traced to a group of bacteria. This group probably has the heme orientation of plant catalases and could in principle bind NADPH. From almost a hundred small-subunit catalases only one fourth has a peroxisomal localization signal and in fact many fungi lack

  5. Taxonomic review of the genus Chamaemelum Miller (Asteraceae in the Iberian peninsula and the Balearic lslands

    Directory of Open Access Journals (Sweden)

    Benedí i González, Carles

    1988-01-01

    Full Text Available A taxonomic review of the genus Chamaemelum Miller (Asteraceae in the Iberian peninsula and the Balearic Islands is carried out. Two changes in nomenclature are proposed: Chamaemelum nobile ( L. All. forma discoideum (Willk. comb. & stat. nov. and C. fuscatum (Brot. Vasc. forma minor (Hoffmanns. & Link comb. & stat. nov. For each taxon the correct name as well as the corresponding synonyms are given. A dichotomic key of the recognized taxa and a list of the herharium sheets studied are provided.

    Se realiza una revisión taxonómica del género Chamaemelum Miller (Asteraceae en la Península Ibérica e Islas Baleares. Se proponen dos cambios nomenclaturles: Chamaemelum nobile (L. All. forma discoideum (Willk. comb. & stat. nov. y C. fuscatum (Brot. Vasc. forma minor (Hoffmanns. & Link comb. & stat. nov. Para cada taxon se da el nombre correcto, así como las correspondientes sinonimias. Se adjunta una clave dicotómica de los táxones reconocidos y una relación de los testimonios de herbario estudiados.

  6. Development of expressed sequence tag-simple sequence repeat markers for genetic characterization and population structure analysis of Praxelis clematidea (Asteraceae).

    Science.gov (United States)

    Wang, Q Z; Huang, M; Downie, S R; Chen, Z X

    2016-01-01

    Invasive plants tend to spread aggressively in new habitats and an understanding of their genetic diversity and population structure is useful for their management. In this study, expressed sequence tag-simple sequence repeat (EST-SSR) markers were developed for the invasive plant species Praxelis clematidea (Asteraceae) from 5548 Stevia rebaudiana (Asteraceae) expressed sequence tags (ESTs). A total of 133 microsatellite-containing ESTs (2.4%) were identified, of which 56 (42.1%) were hexanucleotide repeat motifs and 50 (37.6%) were trinucleotide repeat motifs. Of the 24 primer pairs designed from these 133 ESTs, 7 (29.2%) resulted in significant polymorphisms. The number of alleles per locus ranged from 5 to 9. The relatively high genetic diversity (H = 0.2667, I = 0.4212, and P = 100%) of P. clematidea was related to high gene flow (Nm = 1.4996) among populations. The coefficient of population differentiation (GST = 0.2500) indicated that most genetic variation occurred within populations. A Mantel test suggested that there was significant correlation between genetic distance and geographical distribution (r = 0.3192, P = 0.012). These results further support the transferability of EST-SSR markers between closely related genera of the same family. PMID:27323082

  7. Are obligatory apomicts invested in the pollen tube transmitting tissue? Comparison of the micropyle ultrastructure between sexual and apomictic dandelions (Asteraceae, Lactuceae).

    Science.gov (United States)

    Płachno, Bartosz J; Świątek, Piotr; Kozieradzka-Kiszkurno, Małgorzata; Majeský, Ľuboš; Marciniuk, Jolanta; Stolarczyk, Piotr

    2015-09-01

    With the exception of the sunflower, little information concerning the micropyle ultrastructure of the family Asteraceae is available. The aim of our study was to compare the micropyle structure in amphimictic and apomictic dandelions. Ultrastructural studies using buds and flowers during anthesis have been done on the micropyle of the sexual and apomictic Taraxacum. In all of the species that were examined, the micropylar canal was completely filled with ovule transmitting tissue and the matrix that was produced by these cells. The ovule transmitting tissue was connected to the ovarian transmitting tissue. The micropyle was asymmetrical because the integument epidermis that forms the transmitting tissue was only on the funicular side. There was a cuticle between the obturator cells and epidermal cells on the other side of integument. The micropylar transmitting tissue cells and theirs matrix reached the synergid apex. The cytoplasm of the transmitting tissue cells was especially rich in rough endoplasmic reticulum (ER), dictyosomes, and mitochondria. No major differences were detected between the micropyle structure of the amphimictic and apomictic species; thus, a structural reduction of obturator does not exist. The ovule transmitting tissue is still active in apomictic dandelions despite the presence of the embryo and endosperm. Differences and similarities between the micropyle structure in the Asteraceae that have been studied to date are discussed. PMID:25652809

  8. BLAST-EXPLORER helps you building datasets for phylogenetic analysis

    Directory of Open Access Journals (Sweden)

    Claverie Jean-Michel

    2010-01-01

    Full Text Available Abstract Background The right sampling of homologous sequences for phylogenetic or molecular evolution analyses is a crucial step, the quality of which can have a significant impact on the final interpretation of the study. There is no single way for constructing datasets suitable for phylogenetic analysis, because this task intimately depends on the scientific question we want to address, Moreover, database mining softwares such as BLAST which are routinely used for searching homologous sequences are not specifically optimized for this task. Results To fill this gap, we designed BLAST-Explorer, an original and friendly web-based application that combines a BLAST search with a suite of tools that allows interactive, phylogenetic-oriented exploration of the BLAST results and flexible selection of homologous sequences among the BLAST hits. Once the selection of the BLAST hits is done using BLAST-Explorer, the corresponding sequence can be imported locally for external analysis or passed to the phylogenetic tree reconstruction pipelines available on the Phylogeny.fr platform. Conclusions BLAST-Explorer provides a simple, intuitive and interactive graphical representation of the BLAST results and allows selection and retrieving of the BLAST hit sequences based a wide range of criterions. Although BLAST-Explorer primarily aims at helping the construction of sequence datasets for further phylogenetic study, it can also be used as a standard BLAST server with enriched output. BLAST-Explorer is available at http://www.phylogeny.fr

  9. SUMAC: Constructing Phylogenetic Supermatrices and Assessing Partially Decisive Taxon Coverage.

    Science.gov (United States)

    Freyman, William A

    2015-01-01

    The amount of phylogenetically informative sequence data in GenBank is growing at an exponential rate, and large phylogenetic trees are increasingly used in research. Tools are needed to construct phylogenetic sequence matrices from GenBank data and evaluate the effect of missing data. Supermatrix Constructor (SUMAC) is a tool to data-mine GenBank, construct phylogenetic supermatrices, and assess the phylogenetic decisiveness of a matrix given the pattern of missing sequence data. SUMAC calculates a novel metric, Missing Sequence Decisiveness Scores (MSDS), which measures how much each individual missing sequence contributes to the decisiveness of the matrix. MSDS can be used to compare supermatrices and prioritize the acquisition of new sequence data. SUMAC constructs supermatrices either through an exploratory clustering of all GenBank sequences within a taxonomic group or by using guide sequences to build homologous clusters in a more targeted manner. SUMAC assembles supermatrices for any taxonomic group recognized in GenBank and is optimized to run on multicore computer systems by parallelizing multiple stages of operation. SUMAC is implemented as a Python package that can run as a stand-alone command-line program, or its modules and objects can be incorporated within other programs. SUMAC is released under the open source GPLv3 license and is available at https://github.com/wf8/sumac. PMID:26648681

  10. [Loss of pubescence and their physiological effects on endangered rosette Espeletia paipana (Asteraceae), Boyacá-Colombia].

    Science.gov (United States)

    Buitrago, Sindy; Vanegast, Leidy; Ramos, Carolina

    2015-09-01

    Espeletia paipana is an endangered giant caulescent rosette endemic to (Asteraceae), Boyacdi-Colombia. Espelelia paipana is an endangered giant caulescent rosette endemic to Boyacá department. In order to establish whether a plant disease, characterized by the loss of leaf pubescence (PPF) and attributed to the pathogenic action of endophytic microorganisms, is the cause of the increasing mortality of population, the physiological performance of the species was evaluated with and without PPF. The incidence (% leaves affected in each of the 27 individuals in the current population) and severity (% leaf area affected on 135 leaves) of the PPF were monitored over a period of nine months, in three topographic zones of different heights. During four consecutive days in both dry and wet season, physiological parameters as chlorophyll content index (ICC), stomatal conductance (Gs) and leaf temperature (Tfol) were measured in healthy and affected leaves. The study was complemented with isolations and pathogenicity tests to identify the causal agent of the PPF. Overall, although the disease incidence in E. paipana was constant over time, the severity progressed surpassing 60 % of the leaf area. The increasing of severity in the upper side of leaves was attributed to the photo-oxidative effect of high radiation between 11:00 h and 14:00 h of the day. The reduction of functional leaf area because of the PPF, led to low Gs with serious implications for carbon fixation and thus limiting growth and biomass renewal. The effect of season in Tfol varied according to the topographic zone, while the ICC did not present a defined pattern with respect to the PPF; its low values could be associated with the production of other pigments. Finally, although it is not possible to ensure that Botrytis sp. is the causative of the loss of leaf pubescence, it is postulated as the most probably causal agent due to its high representativeness in the isolates and its infectious potential during

  11. [Relocation of Espeletia grandiflora (Asteraceae) plants as a strategy for enrichment of disturbed paramo areas (PNN Chingaza, Colombia)].

    Science.gov (United States)

    Rojas-Zamora, Oscar; Insuasty-Torres, Jennyfer; de Cardenas, Camilo los Angeles; Ríos, Orlando Vargas

    2013-03-01

    Ecological restoration of the Andean paramos faces several ecological barriers mainly at the phase of dispersal and establishment of native species. With the aim to contribute to the enrichment of degraded areas, different strategies have to be developed to overcome those barriers. In this work we studied the response of individuals of Espeletia grandiflora (Asteraceae) to the relocation as a strategy for ecological restoration programs. We also evaluated the effect of size of relocated individuals on their survival and development. The work was carried out in an experimental plot at 3 424m altitude in the sector "Lagunas de Siecha" of Chingaza National Park, Colombia. We relocated 200 plants that belonged to three different size classes: 5, 10 and 15cm of initial height. The following variables were registered: survival, plant height, number of living leaves and stem diameter of each individual. We also evaluated the differences between individuals in survival and development. In terms of survival the most efficient size classes corresponded to 15cm high; the survival was 85% after two years. The relative growth rates for height and stem diameter decreases with the increase in size, but the absolute increase in height did not show significant differences between the three sizes tested. Since the stem diameter was found the strongest survival predictor after two years of relocation activities, we suggest its use as a criterion for selection of relocation individuals. The relocation of individuals of E. grandiflora had a positive side effect, carrying other species that may contribute to the enrichment and restoration of degraded areas. Among these, we found species of the genus Hypericum, as well as Arcytophyllum nitidum and Calamagrostis effusa, which should be evaluated in terms of survival and development for the subsequent implementation of the relocation strategy. In this study we verified the successful relocation of individuals of E. grandiflora as a

  12. The selective cytotoxicity elicited by phytochemical extract from Senecio graveolens (Asteraceae) on breast cancer cells is enhanced by hypoxia.

    Science.gov (United States)

    Echiburú-Chau, Carlos; Alfaro-Lira, Susana; Brown, Nelson; Salas, Cristian O; Cuellar, Mauricio; Santander, Javier; Ogalde, Juan Pablo; Rothhammer, Francisco

    2014-04-01

    Breast cancer is the second cause of cancer‑related deaths in woman and the incidence of the disease has increased worldwide, in part due to improvements in early detection. Several drugs with anticancer effects have been extracted from plants in the last 20 years, many of which are particularly effective against breast cancer cells. In particular, we have become interested in the ethanolic extract from Senecio graveolens (synonym of S. nutans), a plant commonly called Chachacoma, in an effort to isolate compounds that could demonstrate cytotoxic effects on breast cancer cells. Senecio (Asteraceae) is the largest gender in Chile comprising approximatly 200 species. These herbs inhabit areas over 3,500 meters above the sea level in the Andes Mountains. S. graveolens is commonly used by local communities for its medicinal properties, particularly its capacity to ameliorate high-altitude-associated sickness. The cytotoxic effect of the alcoholic extract from S. graveolens, as well as its most abundant compound 4-hydroxy-3-(3-methyl-2-butenyl)acetophenone, were tested in the breast cancer cell lines ZR-75-1, MCF-7 and MDA-MB‑231, and non-tumorigenic MCF-10F cells. We show that the phytochemical extract was able to induce cytotoxicity in cancer cells but not in MCF-10F. Importantly, this effect was enhanced under hypoxic conditions. However, 4-hydroxy-3-(3-methyl-2-butenyl)acetophenone, the main compound, did not by itself show an effective anticarcinogenic activity in comparison to the whole extract. Interestingly, the cytotoxic effect of the phytochemical extract was dependent on the basal MnSOD protein expression. Thus, cytotoxicity was increased when MnSOD levels were low, but resistance was evident when protein levels were high. Additionally, the crude extract seems to trigger cell death by a variety of processes, including autophagy, apoptosis and necrosis, in MCF-7 cells. In summary, S. graveolens extract possess anticancer activity displaying a specific

  13. The antiprotozoal activity of sixteen asteraceae species native to Sudan and bioactivity-guided isolation of xanthanolides from Xanthium brasilicum.

    Science.gov (United States)

    Nour, Amal M M; Khalid, Sami A; Kaiser, Marcel; Brun, Reto; Abdallah, Wai'l E; Schmidt, Thomas J

    2009-10-01

    In vitro screening of the dichloromethane extracts of 16 Asteraceae species native to Sudan for activity against major protozoan pathogens revealed that a Xanthium brasilicum Vell. [syn. X. strumarium var. brasilicum (Vell.) Baker in Mart.] extract was the most active against Trypanosoma brucei rhodesiense, the etiological agent of East African human trypanosomiasis (IC(50) = 0.1 microg/mL). This plant extract also exhibited noticeable activities against T. cruzi (Chagas disease), Leishmania donovani (Kala-Azar) as well as Plasmodium falciparum (Malaria tropica). Bioactivity-guided fractionation resulted in the isolation of four bioactive sesquiterpene lactones (STL) of the xanthanolide series (4,5-seco-guaianolide-type). They were identified by spectroscopic means as 8-epixanthatin (1), 8-epixanthatin 1beta,5beta-epoxide (2), and as the dimers pungiolide A (4) as well as pungiolide B (5). Two further modified xanthanolide sesquiterpene lactones, xanthipungolide (3) and 4,15-dinor-1,11(13)-xanthadiene-3,5beta:12,8beta-diolide (6) were isolated. While xanthipungolide turned out to be inactive against the tested parasites, the dinor-xanthanlide showed significant activity against T. brucei rhodesiense and L. donovani. All isolated compounds were previously known from other Xanthium species but this is the first report on their occurrence in X. brasilicum, and, most notably, on their antiprotozoal activity. As the most active single compound from this extract, 8-epixanthatin 1beta,5beta-epoxide showed IC(50) values of 0.09, 2.95, 0.16 and 1.71 microg/mL (0.33, 11.3, 0.6 and 6.5 microM) against T. brucei rhodesiense, T. cruzi, L. donovani and P. falciparum, respectively, while its cytotoxicity against rat myoblast cells used as control was determined at 5.8 microg/mL (22.1 microM). Besides assessment of their antiprotozoal activity, the structural assignments for the dimeric xanthanolides pungiolide A and B were reinvestigated and fully established. PMID:19431098

  14. PhyloFinder: An intelligent search engine for phylogenetic tree databases

    OpenAIRE

    Bansal Mukul S; Burleigh J Gordon; Chen Duhong; Fernández-Baca David

    2008-01-01

    Abstract Background Bioinformatic tools are needed to store and access the rapidly growing phylogenetic data. These tools should enable users to identify existing phylogenetic trees containing a specified taxon or set of taxa and to compare a specified phylogenetic hypothesis to existing phylogenetic trees. Results PhyloFinder is an intelligent search engine for phylogenetic databases that we have implemented using trees from TreeBASE. It enables taxonomic queries, in which it identifies tree...

  15. Regionalización biogeográfica de Zacatecas, México, con base en los patrones de distribución de la familia Asteraceae The biogeographical regions of the state of Zacatecas, Mexico, based on distribution patterns of the family Asteraceae

    Directory of Open Access Journals (Sweden)

    José de Jesús Balleza

    2005-06-01

    Full Text Available Se analizaron los patrones de distribución de 456 especies de Asteraceae (Magnoliophyta nativas de Zacatecas, con el fin de proponer una regionalización biogeográfica estatal. Para ello su territorio se dividió en 28 unidades geográficas operativas (UGOs y se determinó el número de especies y el número de ejemplares recolectados en cada UGO, así como los tipos de vegetación y el intervalo altitudinal. Utilizando el coeficiente de Jaccard, se determinaron las similitudes florísticas entre las UGOs. La distribución del total de especies de Asteraceae varió desde 190 en la UGO más diversa (UGO 28 hasta 32 en la menos diversa (UGO 5; por su parte, la distribución de las especies endémicas de México también varió, desde 98 (UGO 28 hasta ocho (UGOs 5 y 6. Las UGOs con más tipos de vegetación y con intervalo altitudinal más amplio son también las que registran el número mayor de especies. El 34% de las especies se consideraron como raras, pues se registran en sólo una UGO. Los resultados indican que las Asteraceae se pueden dividir en dos grupos de especies: i aquellas que prosperan preferentemente en las condiciones de aridez que se presentan en la Altiplanicie y ii aquellas que se distribuyen básicamente en hábitats con climas templados y cálidos de la Sierra Madre Occidental. El análisis permite identificar dos «distritos» biogeográficos, subordinados a las provincias florísticas propuestas por Rzedowski (1978.The geographic distribution patterns of 456 species of Asteraceae (Magnoliophyta native to Zacatecas were analysed. The aim was to propose a state's biogeographic zonation. The state was divided in 28 operational geographic units (OGUs and for each one the number of species, the number of specimens collected, the vegetation types and the altitudinal range were determined. Floristic similarities among OGUs were obtained by using a classificatory procedure and the Jaccard's similarity coefficient. The richest OGU

  16. Automated simultaneous analysis phylogenetics (ASAP: an enabling tool for phlyogenomics

    Directory of Open Access Journals (Sweden)

    Lee Ernest K

    2008-02-01

    Full Text Available Abstract Background The availability of sequences from whole genomes to reconstruct the tree of life has the potential to enable the development of phylogenomic hypotheses in ways that have not been before possible. A significant bottleneck in the analysis of genomic-scale views of the tree of life is the time required for manual curation of genomic data into multi-gene phylogenetic matrices. Results To keep pace with the exponentially growing volume of molecular data in the genomic era, we have developed an automated technique, ASAP (Automated Simultaneous Analysis Phylogenetics, to assemble these multigene/multi species matrices and to evaluate the significance of individual genes within the context of a given phylogenetic hypothesis. Conclusion Applications of ASAP may enable scientists to re-evaluate species relationships and to develop new phylogenomic hypotheses based on genome-scale data.

  17. Phylogenetic signals in the climatic niches of the world's amphibians

    DEFF Research Database (Denmark)

    Hof, Christian; Rahbek, Carsten; Araújo, Miguel B.

    2010-01-01

    The question of whether closely related species share similar ecological requirements has attracted increasing attention, because of its importance for understanding global diversity gradients and the impacts of climate change on species distributions. In fact, the assumption that related species...... are also ecologically similar has often been made, although the prevalence of such a phylogenetic signal in ecological niches remains heavily debated. Here, we provide a global analysis of phylogenetic niche relatedness for the world's amphibians. In particular, we assess which proportion of the...... variance in the realised climatic niches is explained on higher taxonomic levels, and whether the climatic niches of species within a given taxonomic group are more similar than between taxonomic groups. We found evidence for phylogenetic signals in realised climatic niches although the strength of the...

  18. A phylogenetic overview of the antrodia clade (Basidiomycota, Polyporales).

    Science.gov (United States)

    Ortiz-Santana, Beatriz; Lindner, Daniel L; Miettinen, Otto; Justo, Alfredo; Hibbett, David S

    2013-01-01

    Phylogenetic relationships among members of the antrodia clade were investigated with molecular data from two nuclear ribosomal DNA regions, LSU and ITS. A total of 123 species representing 26 genera producing a brown rot were included in the present study. Three DNA datasets (combined LSU-ITS dataset, LSU dataset, ITS dataset) comprising sequences of 449 isolates were evaluated with three different phylogenetic analyses (maximum likelihood, maximum parsimony, Bayesian inference). We present a phylogenetic overview of the five main groups recovered: the fibroporia, laetiporus, postia, laricifomes and core antrodia groups. Not all of the main groups received strong support in the analyses, requiring further research. We were able to identify a number of well supported clades within the main groups. PMID:23935025

  19. TREEFINDER: a powerful graphical analysis environment for molecular phylogenetics

    Directory of Open Access Journals (Sweden)

    von Haeseler Arndt

    2004-06-01

    Full Text Available Abstract Background Most analysis programs for inferring molecular phylogenies are difficult to use, in particular for researchers with little programming experience. Results TREEFINDER is an easy-to-use integrative platform-independent analysis environment for molecular phylogenetics. In this paper the main features of TREEFINDER (version of April 2004 are described. TREEFINDER is written in ANSI C and Java and implements powerful statistical approaches for inferring gene tree and related analyzes. In addition, it provides a user-friendly graphical interface and a phylogenetic programming language. Conclusions TREEFINDER is a versatile framework for analyzing phylogenetic data across different platforms that is suited both for exploratory as well as advanced studies.

  20. Constructing Phylogenetic Networks Based on the Isomorphism of Datasets

    Science.gov (United States)

    Zhang, Zhibin; Li, Yanjuan

    2016-01-01

    Constructing rooted phylogenetic networks from rooted phylogenetic trees has become an important problem in molecular evolution. So far, many methods have been presented in this area, in which most efficient methods are based on the incompatible graph, such as the CASS, the LNETWORK, and the BIMLR. This paper will research the commonness of the methods based on the incompatible graph, the relationship between incompatible graph and the phylogenetic network, and the topologies of incompatible graphs. We can find out all the simplest datasets for a topology G and construct a network for every dataset. For any one dataset 𝒞, we can compute a network from the network representing the simplest dataset which is isomorphic to 𝒞. This process will save more time for the algorithms when constructing networks.

  1. Phylogenetic analysis of Ostreococcus virus sequences from the Patagonian Coast.

    Science.gov (United States)

    Manrique, Julieta M; Calvo, Andrea Y; Jones, Leandro R

    2012-10-01

    A phylogenetic analysis of new Ostreococcus virus (OV) sequences from the Patagonian Coast, Argentina, and homologous sequences from public databases was performed. This analysis showed that the Patagonian sequences represented a divergent viral clade and that the rest of OV sequences analyzed here were clustered into six additional phylogenetic groups. Analyses of 18S gene libraries supported a close relationship of the Patagonian Ostreococcus host with clade A sequences described elsewhere, corroborating previous studies indicating that clade A strains are ubiquitous. Besides the Patagonian OV sequences, several phylogenetic groupings were linked to particular geographic locations, suggesting a role for allopatric cladogenesis in viral diversification. However, and in agreement with previous observations, other viral lineages included sequences with diverse geographic origins. These findings, together with analyses of ancestral trait trajectories performed here, are consistent with an evolutionary dynamics in which geographical isolation has a role in OV diversification but can be followed by rapid dispersion to remote places. PMID:22674355

  2. Phylogenetic and recombination analysis of human bocavirus 2

    OpenAIRE

    Li Huiying; Jin Miao; Huang Canping; Yu Jiemei; Xu Ziqian; Chen Jinan; Cheng Weixia; Zhang Ming; Jin Yu; Duan Zhao-jun

    2011-01-01

    Abstract Background Human bocavirus 2(HBoV2) and other human bocavirus species (HBoV, HBoV3, and HBoV4) have been discovered recently. But the precise phylogenetic relationships among these viruses are not clear yet. Methods We collected 632 diarrhea and 162 healthy children in Lanzhou, China. Using PCR, Human bocavirus (HBoV), HBoV2, HBoV3 and HBoV4 were screened. The partial genes of NS, NP1 and VP, and two nearly complete sequences of HBoV2 were obtained. Result Phylogenetic analysis showe...

  3. Phylogenetic significance of composition and crystal morphology of magnetosome minerals.

    Science.gov (United States)

    Pósfai, Mihály; Lefèvre, Christopher T; Trubitsyn, Denis; Bazylinski, Dennis A; Frankel, Richard B

    2013-01-01

    Magnetotactic bacteria (MTB) biomineralize magnetosomes, nano-scale crystals of magnetite or greigite in membrane enclosures that comprise a permanent magnetic dipole in each cell. MTB control the mineral composition, habit, size, and crystallographic orientation of the magnetosomes, as well as their arrangement within the cell. Studies involving magnetosomes that contain mineral and biological phases require multidisciplinary efforts. Here we use crystallographic, genomic and phylogenetic perspectives to review the correlations between magnetosome mineral habits and the phylogenetic affiliations of MTB, and show that these correlations have important implications for the evolution of magnetosome synthesis, and thus magnetotaxis. PMID:24324461

  4. Phylogenetic significance of composition and crystal morphology of magnetosome minerals

    Directory of Open Access Journals (Sweden)

    Mihály ePósfai

    2013-11-01

    Full Text Available Magnetotactic bacteria (MTB biomineralize magnetosomes, nano-scale crystals of magnetite or greigite in membrane enclosures, that comprise a permanent magnetic dipole in each cell. MTB control the mineral composition, habit, size, and crystallographic orientation of the magnetosomes, as well as their arrangement within the cell. Studies involving magnetosomes that contain mineral and biological phases require multidisciplinary efforts. Here we use crystallographic, genomic and phylogenetic perspectives to review the correlations between magnetosome mineral habits and the phylogenetic affiliations of MTB, and show that these correlations have important implications for the evolution of magnetosome synthesis, and thus magnetotaxis.

  5. Atividade antibacteriana in vitro de inflorescências de Achyrocline satureioides (Lam.) DC. - Asteraceae ("macela", "marcela") sobre agentes bacterianos de interesse em alimentos In vitro antibacterial activity of inflorescences of Achyroclines satureioides (Lam.) DC. - Asteraceae ("macela", "marcela") on bacterial agents of interest in food

    OpenAIRE

    F.M Mota; H.H.C. Carvalho; J.M. Wiest

    2011-01-01

    Através de Testes de diluição em sistema de tubos múltiplos determinou-se in vitro, atividade antibacteriana em inflorescências de Achyrocline satureioides (Lam.) DC. - Asteraceae ("macela", "marcela"), expressa como Intensidade de Atividade de Inibição Bacteriana (IINIB/bacteriostasia) e Intensidade de Atividade de Inativação Bacteriana (IINAB/bactericidia), a partir de formas de extração etanólica (hidroalcoolaturas) e hídrica (decoctos), sobre inóculos padronizados de Enterococcus faecalis...

  6. Eficiência nutricional do Nitrogênio e produção de biomassa em Calendula officinalis L. (Asteraceae) em condições de casa de vegetação Nitrogen nutritional efficiency and biomass production in Calendula officinalis L. (Asteraceae) under greenhouse conditions

    OpenAIRE

    A.P. Serra; M.E Marchetti; M.C. Vieira; A.D. Robaina; C.O. Veronesi; J.M. Nascimento; Matos, F.; V.A. Conrad; H.S. Morais; F.C.N. Guimarães

    2013-01-01

    O objetivo deste trabalho foi avaliar o efeito da aplicação de diferentes doses de nitrogênio no solo e de épocas de coleta sobre a eficiência nutricional do nitrogênio e a produção de biomassa em Calendula officinalis L. (Asteraceae) em condições de casa de vegetação. O substrato utilizado foi a camada de 0 - 20 cm de Latossolo Vermelho Distroférrico. O delineamento experimental foi inteiramente casualizado, com quatro repetições. Os tratamentos foram constituídos de quatro doses de N (0, 21...

  7. Números cromosómicos de Asteraceae de la Reserva Ecológica del Pedregal de San Ángel (REPSA), México, Distrito Federal Chromosome numbers in Asteraceae of the Ecological Reserve of the Pedregal de San Ángel (REPSA), Mexico City, Mexico

    OpenAIRE

    Fabiola Soto-Trejo; Guadalupe Palomino; José Luis Villaseñor

    2011-01-01

    Se registraron los números cromosómicos mitóticos o meióticos de 31 especies de Asteraceae en la Reserva Ecológica del Pedregal de San Ángel (REPSA), y por primera vez, los conteos cromosómicos de 3 especies endémicas de México: Acourtia cordata (2n= 54), Ageratina cylindrica (2n= 34) y Viguiera buddleiiformis (n= 17). Se discuten los resultados obtenidos de acuerdo con los datos disponibles para cada especie analizada.Mitotic or meiotic chromosome numbers are recorded for 31 species of Aster...

  8. Do intrauterine or genetic influences explain the foetal origins of chronic disease? A novel experimental method for disentangling effects

    Directory of Open Access Journals (Sweden)

    Hay Dale

    2007-06-01

    Full Text Available Abstract Background There is much evidence to suggest that risk for common clinical disorders begins in foetal life. Exposure to environmental risk factors however is often not random. Many commonly used indices of prenatal adversity (e.g. maternal gestational stress, gestational diabetes, smoking in pregnancy are influenced by maternal genes and genetically influenced maternal behaviour. As mother provides the baby with both genes and prenatal environment, associations between prenatal risk factors and offspring disease maybe attributable to true prenatal risk effects or to the "confounding" effects of genetic liability that are shared by mother and offspring. Cross-fostering designs, including those that involve embryo transfer have proved useful in animal studies. However disentangling these effects in humans poses significant problems for traditional genetic epidemiological research designs. Methods We present a novel research strategy aimed at disentangling maternally provided pre-natal environmental and inherited genetic effects. Families of children aged 5 to 9 years born by assisted reproductive technologies, specifically homologous IVF, sperm donation, egg donation, embryo donation and gestational surrogacy were contacted through fertility clinics and mailed a package of questionnaires on health and mental health related risk factors and outcomes. Further data were obtained from antenatal records. Results To date 741 families from 18 fertility clinics have participated. The degree of association between maternally provided prenatal risk factor and child outcome in the group of families where the woman undergoing pregnancy and offspring are genetically related (homologous IVF, sperm donation is compared to association in the group where offspring are genetically unrelated to the woman who undergoes the pregnancy (egg donation, embryo donation, surrogacy. These comparisons can be then examined to infer the extent to which prenatal effects

  9. Disentangling neural processing of masked and masking stimulus by means of event-related contralateral – ipsilateral differences of EEG potentials

    OpenAIRE

    Verleger, Rolf; Jaśkowski, Piotr

    2008-01-01

    In spite of the excellent temporal resolution of event-related EEG potentials (ERPs), the overlapping potentials evoked by masked and masking stimuli are hard to disentangle. However, when both masked and masking stimuli consist of pairs of relevant and irrelevant stimuli, one left and one right from fixation, with the side of the relevant element varying between pairs, effects of masked and masking stimuli can be distinguished by means of the contralateral preponderance of the potentials evo...

  10. Disentangling direct and indirect effects of water table drawdown on above and belowground plant litter decomposition: Consequences for accumulation of organic matter in boreal peatlands.

    OpenAIRE

    Strakova, Petra; PenttilÀ, Timo; Laine, Jukka; Laiho, Raija

    2012-01-01

    Pristine peatlands are carbon (C) accumulating wetland ecosystems sustained by a high water table (WT) and consequent anoxia that slows down decomposition. Persistent WT drawdown as a response to climate and/or land-use change affects decomposition either directly through environmental factors such as increased oxygenation, or indirectly through changes in plant community composition. This study attempts to disentangle the direct and indirect effects of WT drawdown by measuring the relative i...

  11. Disentangling the Effects of Cognitive Development and Linguistic Expertise: A Longitudinal Study of the Acquisition of English in Internationally-Adopted Children

    OpenAIRE

    Snedeker, Jesse; Geren, Joy; Shafto, Carissa L.

    2011-01-01

    Early language development is characterized by predictable changes in the words children produce and the complexity of their utterances. In infants these changes could reflect increasing linguistic expertise or cognitive maturation and development. To disentangle these factors, we compared the acquisition of English in internationally-adopted preschoolers and internationally adopted infants. Parental reports and speech samples were collected for one year. Both groups showed the qualitative sh...

  12. Disentangling contextual effects on cause-specific mortality in a longitudinal 23-year follow-up study: impact of population density or socioeconomic environment?

    OpenAIRE

    Chaix, Basile; Rosvall, Maria; Lynch, John; Merlo, Juan

    2006-01-01

    BACKGROUND: Various studies have investigated urban/rural differences in cause-specific mortality. A separate body of literature has analysed effects of socioeconomic environment on mortality. Almost no studies have attempted to disentangle effects of population density and socioeconomic environment on mortality, beyond the effects of individual characteristics. METHODS: Considering all individuals living in the region of Scania, Sweden, from 1970-93, we performed 10 year mortality follow-ups...

  13. Atividade antibacteriana e a preditividade do condimento Artemisia dracunculus Linn. (Asteraceae, variedade inodora - estragão -, frente à Salmonella sp Antimicrobial activity and preditivity of Artemisia acunculus (Asteraceae, var. inodora - tarragon -, as condiment, against Salmonella sp

    Directory of Open Access Journals (Sweden)

    Heloisa Helena Carvalho

    2006-03-01

    Full Text Available Avaliou-se a atividade antibacteriana de extrato aquoso do condimento estragão - Artemisia dracunculus linn. (Asteraceae, variedade inodora -, frente à Salmonella enteritidis (ATCC 11076, por meio do sistema de tubos múltiplos e pelo emprego de desinibidores bacterianos, determinando-se a Intensidade de Inibição/Inativação (IINIB/IINAB, observando-se expressiva inibição, bem como ausência de inativação sobre esta salmonela. Na presença do fator matéria orgânica/sujeira representada pelo leite, estes atributos repetiram-se, embora com menor intensidade de inibição. Posteriormente, avaliou-se a preditividade de uma técnica oficial de isolamento desta bactéria, utilizando uma solução experimental de leite e caldo BHI (Brain Heart Infusion, contaminada com 10(4 UFC/mL da salmonela em estudo. Verificou-se a ausência de isolamento desta bactéria em alíquotas de 25 mL, após períodos de 24, 48 e 72 h de incubação a 36ºC, comprometendo a Validade Preditiva dos Resultados Negativos (VPR- do teste. Sugere-se que, nas investigações epidemiológicas de surtos toxiinfectivos alimentares, devem-se ser acrescidas informações sobre condimentação vegetal, entre outras, pertinentes à complexidade crescente do sistema de alimentação e nutrição.It was evaluated antibacterial activity of watery extract of the condiment tarragon - Artemisia dracunculus linn., var. inodora -, against the Salmonella enteritidis (ATCC 11076, through the system of multiple pipes and the job of bacterial inhibitors, it was determined Intensity of inhibition/inativation (IINIB/IINAB, observing expressive inhibition, as well as absence of inativation on this salmonela. In presence of the organic substance, represented by skimmed barren milk, these attributes if had repeated, even so with lesser intensity of inhnibition. Later, it was evaluated preditividade of one official technique of isolation of this bacterium, using an experimental solution of milk

  14. Molecular confirmation of the hybrid origin of the critically endangered western Mediterranean endemic Sonchus pustulatus (Asteraceae: Sonchinae).

    Science.gov (United States)

    Kim, Seung-Chul; Mejías, Jose A; Lubinsky, Pesach

    2008-07-01

    The critically endangered composite Sonchus pustulatus Willk. despite being known from fewer than ten locations in southern Spain and northern Africa, has never been characterized in robust phylogenetic context. Here, we report molecular evidence that strongly supports a hybrid origin for S. pustulatus. Although parentage cannot be identified with certainty, analysis of DNA sequence variation from the internal transcribed spacer (ITS) region of nuclear ribosomal DNA (nrDNA) supports a phylogenetic placement of S. pustulatus close to other species in the poorly known section Pustulati, whereas examination of chloroplast DNA (cpDNA) places S. pustulatus most closely with species from the sections Sonchus and Asperi. This is one of several instances of topological non-concordance reported for the genus Sonchus. Monophyly of S. pustulatus in both gene genealogies supports the null hypothesis of a single origin, and the relatively large amount of nucleotide substitutions is indicative of an origin in the range of millions of years. A hypothesis of a northern African origin of S. pustulatus followed by dispersal to the Iberian Peninsula during the Messinian salinity crisis/later Quaternary glaciations is proposed on the basis of biogeographic patterns and calibrated estimations of molecular evolution. PMID:18491031

  15. Leaf trichome density may explain herbivory patterns of Actinote sp. (Lepidoptera: Acraeidae) on Liabum mandonii (Asteraceae) in a montane humid forest (Nor Yungas, Bolivia)

    Science.gov (United States)

    Molina-Montenegro, Marco A.; Ávila, Pamela; Hurtado, Rosember; Valdivia, Alejandra I.; Gianoli, Ernesto

    2006-09-01

    Increasing evidence shows that most insect herbivores of tropical forests show specific associations with their hosts. Environmental factors as well as foliar characters can modify insect preference. In the present work, we evaluated in a montane humid forest the preference and herbivory rate of Actinote sp. caterpillars (Lepidoptera: Acraeidae) on mature and young leaves of their specific host plant Liabum mandonii (Asteraceae) in two contrasting sites. Additionally, the density of non-glandular trichomes in young and mature leaves of plant at each site was evaluated. Analysis of variance of herbivory showed significant effects of site, leaf age, and the interaction of these factors. Higher herbivory levels were found on leaves from the site with lower levels of radiation and on mature leaves. On the other hand, trichome density was significantly higher in leaves from the site with higher levels of radiation and in young leaves. This suggests trichomes may explain the observed pattern of herbivory.

  16. The first record of Baccharis L. (Asteraceae) as a host-plant genus for Nepticulidae (Lepidoptera), with description of new Stigmella species from South America.

    Science.gov (United States)

    Stonis, Jonas R; Diškus, Arūnas; Remeikis, Andrius; Remeikis, Andrius; Davis, Donald R; Solis, M Alma; Torres, Nixon Cumbicus

    2016-01-01

    We record the first Nepticulidae species found to feed on Baccharis L. (Asteraceae). Despite the high species richness of Baccharis in the Western Hemisphere, no nepticulid has ever been recorded feeding on Baccharis. In this paper we describe six new Stigmella Schrank species feeding on Baccharis: S. emarginatae Diškus & Stonis, sp. nov., S. bipartita Diškus & Stonis, sp. nov., S. tripartita Diškus & Stonis, sp. nov., S. latifoliae Remeikis, Diškus & Stonis, sp. nov., S. baccharicola Diškus & Stonis, sp. nov., and S. confertae Diškus & Stonis, sp. nov. The remaining two taxa are left unnamed. All taxa are illustrated with photographs of adults, their genitalia, and their leaf-mines. Additionally, leaf-mines on Baccharis salicifolia are documented. PMID:27395706

  17. Fumigant toxicity of essential oils from Achillea millefolium (asteraceae) and Prangos ferulacea (Apiaceae) against Sitophilus granarius and S. oryzea (col.: Curculionidae)

    Science.gov (United States)

    Şimşek, Şeyda; Pekbey, Gamze; Yaman, Cennet

    2016-04-01

    In the present study, experiments were conducted to investigate fumigant toxicity of the essential oil from Achillea millefolium (Asteraceae) and Prangos ferulacea (Apiaceae) plants for adult grain weevil (Sitophilus granarius) and rice weevil (S. oryzea) in vitro conditions. The essential oils were isolated with the water distillation method by Neo-Clevenger apparatus. During the study 10% (v/v) doses of oils in 20 cc of compressed rubber-capped glass tubes were used. After 24 hours mortality rates of the essential oils were compared. For S. granarius the toxicity of A. millefolium (98.85%) was observed to be more effective than P. ferulace (28.73%). Similarly for S. oryzea, A. millefolium (100 %) was found much more toxic than P. ferulace (9.82%). At the results of the study the essential oil of the A. millefolium has been determined as a promising insecticidal component against both pests.

  18. Evaluation of reproductive success and conservation strategies for Senecio coincyi (Asteraceae, a narrow and threatened endemic plant of central western Spain

    Directory of Open Access Journals (Sweden)

    Pérez-García Félix

    2012-01-01

    Full Text Available Senecio coincyi (Asteraceae is a threatened endemic plant of central western Spain. The reproductive biology of this species in relation to the characteristics of its habitats and the possible strategies for its conservation, were studied. The area of occupancy, habitat types and size of 13 known subpopulations of S. coincyi was evaluated. Germination tests were carried out to assess the effect of temperature and light regimes, and the possible intraspecific variation on the cypsela germination. Cypselas reached very high germination percentages (90-100% from 15ºC to 30ºC. However, the germination decreased (by about 19% at 10ºC. The light conditions assayed did not significantly affect cypsela germination. In conclusion, S. coincyi showed high sexual reproduction ability, and therefore its conservation problems are not due to agents related to its reproductive biology, but to others, such as the alteration of its habitat caused by the presence of livestock.

  19. Panorama phylogenetic diversity and distribution of Type A influenza virus.

    Directory of Open Access Journals (Sweden)

    Shuo Liu

    Full Text Available BACKGROUND: Type A influenza virus is one of important pathogens of various animals, including humans, pigs, horses, marine mammals and birds. Currently, the viral type has been classified into 16 hemagglutinin and 9 neuraminidase subtypes, but the phylogenetic diversity and distribution within the viral type largely remain unclear from the whole view. METHODOLOGY/PRINCIPAL FINDINGS: The panorama phylogenetic trees of influenza A viruses were calculated with representative sequences selected from approximately 23,000 candidates available in GenBank using web servers in NCBI and the software MEGA 4.0. Lineages and sublineages were classified according to genetic distances, topology of the phylogenetic trees and distributions of the viruses in hosts, regions and time. CONCLUSIONS/SIGNIFICANCE: Here, two panorama phylogenetic trees of type A influenza virus covering all the 16 hemagglutinin subtypes and 9 neuraminidase subtypes, respectively, were generated. The trees provided us whole views and some novel information to recognize influenza A viruses including that some subtypes of avian influenza viruses are more complicated than Eurasian and North American lineages as we thought in the past. They also provide us a framework to generalize the history and explore the future of the viral circulation and evolution in different kinds of hosts. In addition, a simple and comprehensive nomenclature system for the dozens of lineages and sublineages identified within the viral type was proposed, which if universally accepted, will facilitate communications on the viral evolution, ecology and epidemiology.

  20. A deliberate practice approach to teaching phylogenetic analysis.

    Science.gov (United States)

    Hobbs, F Collin; Johnson, Daniel J; Kearns, Katherine D

    2013-01-01

    One goal of postsecondary education is to assist students in developing expert-level understanding. Previous attempts to encourage expert-level understanding of phylogenetic analysis in college science classrooms have largely focused on isolated, or "one-shot," in-class activities. Using a deliberate practice instructional approach, we designed a set of five assignments for a 300-level plant systematics course that incrementally introduces the concepts and skills used in phylogenetic analysis. In our assignments, students learned the process of constructing phylogenetic trees through a series of increasingly difficult tasks; thus, skill development served as a framework for building content knowledge. We present results from 5 yr of final exam scores, pre- and postconcept assessments, and student surveys to assess the impact of our new pedagogical materials on student performance related to constructing and interpreting phylogenetic trees. Students improved in their ability to interpret relationships within trees and improved in several aspects related to between-tree comparisons and tree construction skills. Student feedback indicated that most students believed our approach prepared them to engage in tree construction and gave them confidence in their abilities. Overall, our data confirm that instructional approaches implementing deliberate practice address student misconceptions, improve student experiences, and foster deeper understanding of difficult scientific concepts. PMID:24297294

  1. BigFoot: Bayesian alignment and phylogenetic footprinting with MCMC

    Directory of Open Access Journals (Sweden)

    Miklós István

    2009-08-01

    Full Text Available Abstract Background We have previously combined statistical alignment and phylogenetic footprinting to detect conserved functional elements without assuming a fixed alignment. Considering a probability-weighted distribution of alignments removes sensitivity to alignment errors, properly accommodates regions of alignment uncertainty, and increases the accuracy of functional element prediction. Our method utilized standard dynamic programming hidden markov model algorithms to analyze up to four sequences. Results We present a novel approach, implemented in the software package BigFoot, for performing phylogenetic footprinting on greater numbers of sequences. We have developed a Markov chain Monte Carlo (MCMC approach which samples both sequence alignments and locations of slowly evolving regions. We implement our method as an extension of the existing StatAlign software package and test it on well-annotated regions controlling the expression of the even-skipped gene in Drosophila and the α-globin gene in vertebrates. The results exhibit how adding additional sequences to the analysis has the potential to improve the accuracy of functional predictions, and demonstrate how BigFoot outperforms existing alignment-based phylogenetic footprinting techniques. Conclusion BigFoot extends a combined alignment and phylogenetic footprinting approach to analyze larger amounts of sequence data using MCMC. Our approach is robust to alignment error and uncertainty and can be applied to a variety of biological datasets. The source code and documentation are publicly available for download from http://www.stats.ox.ac.uk/~satija/BigFoot/

  2. Land-Sparing Agriculture Best Protects Avian Phylogenetic Diversity.

    Science.gov (United States)

    Edwards, David P; Gilroy, James J; Thomas, Gavin H; Uribe, Claudia A Medina; Haugaasen, Torbjørn

    2015-09-21

    The conversion of natural habitats to farmland is a major driver of the global extinction crisis. Two strategies are promoted to mitigate the impacts of agricultural expansion on biodiversity: land sharing integrates wildlife-friendly habitats within farmland landscapes, and land sparing intensifies farming to allow the offset of natural reserves. A key question is which strategy would protect the most phylogenetic diversity--the total evolutionary history shared across all species within a community. Conserving phylogenetic diversity decreases the chance of losing unique phenotypic and ecological traits and provides benefits for ecosystem function and stability. Focusing on birds in the threatened Chocó-Andes hotspot of endemism, we tested the relative benefits of each strategy for retaining phylogenetic diversity in tropical cloud forest landscapes threatened by cattle pastures. Using landscape simulations, we find that land sharing would protect lower community-level phylogenetic diversity than land sparing and that with increasing distance from forest (from 500 to >1,500 m), land sharing is increasingly inferior to land sparing. Isolation from forest also leads to the loss of more evolutionarily distinct species from communities within land-sharing landscapes, which can be avoided with effective land sparing. Land-sharing policies that promote the integration of small-scale wildlife-friendly habitats might be of limited benefit without the simultaneous protection of larger blocks of natural habitat, which is most likely to be achieved via land-sparing measures. PMID:26344093

  3. Phylogenetic signal, feeding behaviour and brain volume in Neotropical bats.

    Science.gov (United States)

    Rojas, D; Mancina, C A; Flores-Martínez, J J; Navarro, L

    2013-09-01

    Comparative correlational studies of brain size and ecological traits (e.g. feeding habits and habitat complexity) have increased our knowledge about the selective pressures on brain evolution. Studies conducted in bats as a model system assume that shared evolutionary history has a maximum effect on the traits. However, this effect has not been quantified. In addition, the effect of levels of diet specialization on brain size remains unclear. We examined the role of diet on the evolution of brain size in Mormoopidae and Phyllostomidae using two comparative methods. Body mass explained 89% of the variance in brain volume. The effect of feeding behaviour (either characterized as feeding habits, as levels of specialization on a type of item or as handling behaviour) on brain volume was also significant albeit not consistent after controlling for body mass and the strength of the phylogenetic signal (λ). Although the strength of the phylogenetic signal of brain volume and body mass was high when tested individually, λ values in phylogenetic generalized least squares models were significantly different from 1. This suggests that phylogenetic independent contrasts models are not always the best approach for the study of ecological correlates of brain size in New World bats. PMID:23944375

  4. The macroecology of phylogenetically structured hummingbird-plant networks

    DEFF Research Database (Denmark)

    Gonzalez, Ana M. Martin; Dalsgaard, Bo; Nogues, David Bravo;

    2015-01-01

    Aim To investigate the association between hummingbird–plant network structure and species richness, phylogenetic signal on species' interaction pattern, insularity and historical and current climate. Location Fifty-four communities along a c. 10,000 km latitudinal gradient across the Americas (3...

  5. PhyloSift: phylogenetic analysis of genomes and metagenomes

    Directory of Open Access Journals (Sweden)

    Aaron E. Darling

    2014-01-01

    Full Text Available Like all organisms on the planet, environmental microbes are subject to the forces of molecular evolution. Metagenomic sequencing provides a means to access the DNA sequence of uncultured microbes. By combining DNA sequencing of microbial communities with evolutionary modeling and phylogenetic analysis we might obtain new insights into microbiology and also provide a basis for practical tools such as forensic pathogen detection. In this work we present an approach to leverage phylogenetic analysis of metagenomic sequence data to conduct several types of analysis. First, we present a method to conduct phylogeny-driven Bayesian hypothesis tests for the presence of an organism in a sample. Second, we present a means to compare community structure across a collection of many samples and develop direct associations between the abundance of certain organisms and sample metadata. Third, we apply new tools to analyze the phylogenetic diversity of microbial communities and again demonstrate how this can be associated to sample metadata. These analyses are implemented in an open source software pipeline called PhyloSift. As a pipeline, PhyloSift incorporates several other programs including LAST, HMMER, and pplacer to automate phylogenetic analysis of protein coding and RNA sequences in metagenomic datasets generated by modern sequencing platforms (e.g., Illumina, 454.

  6. Bootstrap estimation and comparison of an index of phylogenetic correlation

    Science.gov (United States)

    A common objective of bioinformatic analyses is to assess the similarity of species, given a biological trait or characteristic. Phylogenetic correlation is one means to achieve this objective. Such measures provide a means to evaluate evolutionary models and history as well as having potential appl...

  7. Metagenomic species profiling using universal phylogenetic marker genes

    DEFF Research Database (Denmark)

    Sunagawa, Shinichi; Mende, Daniel R; Zeller, Georg;

    2013-01-01

    To quantify known and unknown microorganisms at species-level resolution using shotgun sequencing data, we developed a method that establishes metagenomic operational taxonomic units (mOTUs) based on single-copy phylogenetic marker genes. Applied to 252 human fecal samples, the method revealed...

  8. Evolution & Phylogenetic Analysis: Classroom Activities for Investigating Molecular & Morphological Concepts

    Science.gov (United States)

    Franklin, Wilfred A.

    2010-01-01

    In a flexible multisession laboratory, students investigate concepts of phylogenetic analysis at both the molecular and the morphological level. Students finish by conducting their own analysis on a collection of skeletons representing the major phyla of vertebrates, a collection of primate skulls, or a collection of hominid skulls.

  9. Phylogenetic analysis of Escherichia coli strains isolated from human samples

    Directory of Open Access Journals (Sweden)

    Abdollah Derakhshandeh

    2013-12-01

    Full Text Available Escherichia coli (E. coli is a normal inhabitant of the gastrointestinal tract of vertebrates, including humans. Phylogenetic analysis has shown that E. coli is composed of four main phylogenetic groups (A, B1, B2 and D. Group A and B1 are generally associated with commensals, whereas group B2 is associated with extra-intestinal pathotypes. Most enteropathogenic isolates, however, are assigned to group D. In the present study, a total of 102 E. coli strains, isolated from human samples, were used. Phylogenetic grouping was done based on the Clermont triplex PCR method using primers targeted at three genetic markers, chuA, yjaA and TspE4.C2. Group A contained the majority of the collected isolates (69 isolates, 67.64%, followed by group B2 (18 isolates, 17.64% and D (15 isolates, 14.7% and no strains were found to belong to group B1. The distribution of phylogenetic groups in our study suggests that although the majority of strains were commensals, the prevalence of enteropathogenic and extra-intestinal pathotypes was noteworthy. Therefore, the role of E. coli in human infections including diarrhea, urinary tract infections and meningitis should be considered.

  10. Phylogenetic analysis of the Bifidobacterium genus using glycolysis enzyme sequences

    Directory of Open Access Journals (Sweden)

    Katelyn eBrandt

    2016-05-01

    Full Text Available Bifidobacteria are important members of the human gastrointestinal tract that promote the establishment of a healthy microbial consortium in the gut of infants. Recent studies have established that the Bifidobacterium genus is a polymorphic phylogenetic clade, which encompasses a diversity of species and subspecies that encode a broad range of proteins implicated in complex and non-digestible carbohydrate uptake and catabolism, ranging from human breast milk oligosaccharides, to plant fibers. Recent genomic studies have created a need to properly place Bifidobacterium species in a phylogenetic tree. Current approaches, based on core-genome analyses come at the cost of intensive sequencing and demanding analytical processes. Here, we propose a typing method based on sequences of glycolysis genes and the proteins they encode, to provide insights into diversity, typing, and phylogeny in this complex and broad genus. We show that glycolysis genes occur broadly in these genomes, to encode the machinery necessary for the biochemical spine of the cell, and provide a robust phylogenetic marker. Furthermore, glycolytic sequences-based trees are congruent with both the classical 16S rRNA phylogeny, and core genome-based strain clustering. Furthermore, these glycolysis markers can also be used to provide insights into the adaptive evolution of this genus, especially with regards to trends towards a high GC content. This streamlined method may open new avenues for phylogenetic studies on a broad scale, given the widespread occurrence of the glycolysis pathway in bacteria, and the diversity of the sequences they encode.

  11. Path integral formulation and Feynman rules for phylogenetic branching models

    International Nuclear Information System (INIS)

    A dynamical picture of phylogenetic evolution is given in terms of Markov models on a state space, comprising joint probability distributions for character types of taxonomic classes. Phylogenetic branching is a process which augments the number of taxa under consideration, and hence the rank of the underlying joint probability state tensor. We point out the combinatorial necessity for a second-quantized, or Fock space setting, incorporating discrete counting labels for taxa and character types, to allow for a description in the number basis. Rate operators describing both time evolution without branching, and also phylogenetic branching events, are identified. A detailed development of these ideas is given, using standard transcriptions from the microscopic formulation of non-equilibrium reaction-diffusion or birth-death processes. These give the relations between stochastic rate matrices, the matrix elements of the corresponding evolution operators representing them, and the integral kernels needed to implement these as path integrals. The 'free' theory (without branching) is solved, and the correct trilinear 'interaction' terms (representing branching events) are presented. The full model is developed in perturbation theory via the derivation of explicit Feynman rules which establish that the probabilities (pattern frequencies of leaf colourations) arising as matrix elements of the time evolution operator are identical with those computed via the standard analysis. Simple examples (phylogenetic trees with two or three leaves), are discussed in detail. Further implications for the work are briefly considered including the role of time reparametrization covariance

  12. Origin, evolution, and biogeography of Juglans: a phylogenetic perspective

    Science.gov (United States)

    Phylogenetic analyses of extant Juglans (Juglandaceae) using five cpDNA intergenic spacer (IGS) sequences (trnT-trnF, psbA-trnH, atpB-rbcL, trnV-16S rRNA, and trnS-trnfM) were performed to elucidate the origin, diversification, historical biogeography, and evolutionary relationships within the genus...

  13. Host specialization and phylogenetic diversity of Corynespora cassiicola.

    Science.gov (United States)

    Dixon, L J; Schlub, R L; Pernezny, K; Datnoff, L E

    2009-09-01

    The fungus Corynespora cassiicola is primarily found in the tropics and subtropics, and is widely diverse in substrate utilization and host association. Isolate characterization within C. cassiicola was undertaken to investigate how genetic diversity correlates with host specificity, growth rate, and geographic distribution. C. cassiicola isolates were collected from 68 different plant species in American Samoa, Brazil, Malaysia, and Micronesia, and Florida, Mississippi, and Tennessee within the United States. Phylogenetic analyses using four loci were performed with 143 Corynespora spp. isolates, including outgroup taxa obtained from culture collections: C. citricola, C. melongenae, C. olivacea, C. proliferata, C. sesamum, and C. smithii. Phylogenetic trees were congruent from the ribosomal DNA internal transcribed spacer region, two random hypervariable loci (caa5 and ga4), and the actin-encoding locus act1, indicating a lack of recombination within the species and asexual propagation. Fifty isolates were tested for pathogenicity on eight known C. cassiicola crop hosts: basil, bean, cowpea, cucumber, papaya, soybean, sweet potato, and tomato. Pathogenicity profiles ranged from one to four hosts, with cucumber appearing in 14 of the 16 profiles. Bootstrap analyses and Bayesian posterior probability values identified six statistically significant phylogenetic lineages. The six phylogenetic lineages correlated with host of origin, pathogenicity, and growth rate but not with geographic location. Common fungal genotypes were widely distributed geographically, indicating long-distance and global dispersal of clonal lineages. This research reveals an abundance of previously unrecognized genetic diversity within the species and provides evidence for host specialization on papaya. PMID:19671003

  14. Lipase production by diverse phylogenetic clades of Aureobasidium pullulans

    Science.gov (United States)

    Thirty-nine strains representing 12 diverse phylogenetic clades of Aureobasidium pullulans were surveyed for lipase production using a quantitative assay. Strains in clades 4 and 10 produced 0.2-0.3 U lipase/ml, while color variant strain NRRL Y-2311-1 in clade 8 produced 0.54 U lipase/ml. Strains i...

  15. Phylogenetic signal in diatom ecology: perspectives for aquatic ecosystems biomonitoring.

    Science.gov (United States)

    Keck, François; Rimet, Frédéric; Franc, Alain; Bouchez, Agnés

    2016-04-01

    Diatoms include a great diversity of taxa and are recognized as powerful bioindicators in rivers. However using diatoms for monitoring programs is costly and time consuming because most of the methodologies necessitate species-level identification. This raises the question of the optimal trade-off between taxonomic resolution and bioassessment quality. Phylogenetic tools may form the bases of new, more efficient approaches for biomonitoring if relationships between ecology and phylogeny can be demonstrated. We estimated the ecological optima of 127 diatom species for 19 environmental parameters using count data from 2119 diatom communities sampled during eight years in eastern France. Using uni- and multivariate analyses, we explored the relationships between freshwater diatom phylogeny and ecology (i.e., the phylogenetic signal). We found a significant phylogenetic signal for many of the ecological optima that were tested, but the strength of the signal varied significantly from one trait to another. Multivariate analysis also showed that the multidimensional ecological niche of diatoms can be strongly related to phylogeny. The presence of clades containing species that exhibit homogeneous ecology suggests that phylogenetic information can be useful for aquatic biomonitoring. This study highlights the presence of significant patterns of ecological optima for freshwater diatoms in relation to their phylogeny. These results suggest the presence of a signal above the species level, which is encouraging for the development of simplified methods for biomonitoring survey. PMID:27411256

  16. Disentangling the relative importance of changes in climate and land-use intensity in driving recent bird population trends.

    Directory of Open Access Journals (Sweden)

    Sarah M Eglington

    Full Text Available Threats to biodiversity resulting from habitat destruction and deterioration have been documented for many species, whilst climate change is regarded as increasingly impacting upon species' distribution and abundance. However, few studies have disentangled the relative importance of these two drivers in causing recent population declines. We quantify the relative importance of both processes by modelling annual variation in population growth of 18 farmland bird species in the UK as a function of measures of land-use intensity and weather. Modelled together, both had similar explanatory power in accounting for annual fluctuations in population growth. When these models were used to retrodict population trends for each species as a function of annual variation in land-use intensity and weather combined, and separately, retrodictions incorporating land-use intensity were more closely linked to observed population trends than retrodictions based only on weather, and closely matched the UK farmland bird index from 1970 onwards. Despite more stable land-use intensity in recent years, climate change (inferred from weather trends has not overtaken land-use intensity as the dominant driver of bird populations.

  17. Spectra disentangling applied to the Hyades binary Theta^2 Tau AB: new orbit, orbital parallax and component properties

    CERN Document Server

    Torres, K B V; Frémat, Y; Hensberge, H; Lebreton, Y; Y.,; Skoda, P

    2010-01-01

    Theta^2 Tauri is a detached and single-lined interferometric-spectroscopic binary as well as the most massive binary system of the Hyades cluster. The system revolves in an eccentric orbit with a periodicity of 140.7 days. The secondary has a similar temperature but is less evolved and fainter than the primary. It is also rotating more rapidly. Since the composite spectra are heavily blended, the direct extraction of radial velocities over the orbit of component B was hitherto unsuccessful. Using high-resolution spectroscopic data recently obtained with the Elodie (OHP, France) and Hermes (ORM, La Palma, Spain) spectrographs, and applying a spectra disentangling algorithm to three independent data sets including spectra from the Oak Ridge Observatory (USA), we derived an improved spectroscopic orbit and refined the solution by performing a combined astrometric-spectroscopic analysis based on the new spectroscopy and the long-baseline data from the Mark III optical interferometer. As a result, the velocity amp...

  18. Disentangling 2:1 resonant radial velocity orbits from eccentric ones and a case study for HD 27894

    CERN Document Server

    Kürster, Martin; Reffert, Sabine; Kostogryz, Nadiia M; Rodler, Florian

    2015-01-01

    In radial velocity observations, a pair of extrasolar planets near a 2:1 orbital resonance can be misinterpreted as a single eccentric planet, if data are sparse and measurement precision insufficient to distinguish between these models. We determine the fraction of alleged single-planet RV detected systems for which a 2:1 resonant pair of planets is also a viable model and address the question of how the models can be disentangled. By simulation we quantified the mismatch arising from applying the wrong model. Model alternatives are illustrated using the supposed single-planet system HD 27894 for which we also study the dynamical stability of near-2:1 resonant solutions. From the data scatter around the fitted single-planet Keplerians, we find that for $74\\% $ of the $254$ putative single-planet systems, a 2:1 resonant pair cannot be excluded as a viable model, since the error due to the wrong model is smaller than the scatter. For $187$ stars $\\chi ^2$-probabilities can be used to reject the Keplerian model...

  19. Disentangling community functional components in a litter-macrodetritivore model system reveals the predominance of the mass ratio hypothesis.

    Science.gov (United States)

    Bílá, Karolína; Moretti, Marco; Bello, Francesco; Dias, André Tc; Pezzatti, Gianni B; Van Oosten, Arend Raoul; Berg, Matty P

    2014-02-01

    RECENT INVESTIGATIONS HAVE SHOWN THAT TWO COMPONENTS OF COMMUNITY TRAIT COMPOSITION ARE IMPORTANT FOR KEY ECOSYSTEM PROCESSES: (i) the community-weighted mean trait value (CWM), related to the mass ratio hypothesis and dominant trait values in the community, and (ii) functional diversity (FD), related to the complementarity hypothesis and the divergence of trait values. However, no experiments controlling for the inherent dependence between CWM and FD have been conducted so far. We used a novel experimental framework to disentangle the unique and shared effects of CWM and FD in a leaf litter-macrodetritivore model system. We manipulated isopod assemblages varying in species number, CWM and FD of litter consumption rate to test the relative contribution of these community parameters in the decomposition process. We showed that CWM, but also the combination of CWM and FD, is a main factor controlling litter decomposition. When we tested individual biodiversity components separately, CWM of litter consumption rate showed a significant effect on decomposition, while FD and species richness alone did not. Our study demonstrated that (i) trait composition rather than species diversity drives litter decomposition, (ii) dominant trait values in the community (CWM) play a chief role in driving ecosystem processes, corroborating the mass ratio hypothesis, and (iii) trait dissimilarity can contribute in modulating the overall biodiversity effects. Future challenge is to assess whether the generality of our finding, that is, that dominant trait values (CWM) predominate over trait dissimilarity (FD), holds for other ecosystem processes, environmental conditions and different spatial and temporal scales. PMID:24634725

  20. PROMOCIÓN DEL CRECIMIENTO DE Baccharis macrantha (ASTERACEAE CON BACTERIAS SOLUBILIZADORAS DE FOSFATOS ASOCIADAS A SU RIZOSFERA

    Directory of Open Access Journals (Sweden)

    Luz Marina LIZARAZO FORERO

    2015-07-01

    Full Text Available El objetivo de esta investigación fue aislar y caracterizar bacterias solubilizadoras de fosfatos (BSF asociadas a la rizosfera de Baccharis macrantha y Viburnum triphyllum, y evaluar su capacidad para solubilizar fosfatos en condiciones in vitro. Además se determinó el efecto de la inoculaciónde las cepas de BSF más eficientes sobre el crecimiento de B. macrantha. Las muestras de suelo rizosférico de B. macrantha y V. triphyllum fueron colectadas en los meses de mayo-período de lluvia y septiembre-período seco del 2012. Para la cuantificación de bacterias heterótrofas cultivables y BSF se empleó el método de recuento en placa en los medios Agar Tripticasa de Soya y Pikovskaya (PVK respectivamente. La capacidad de solubilización de fosfatos de las cepas aisladas se estimó a partir del diámetro de los halos formados alrededor de las colonias en el medio de cultivo PVK después de 7 días de incubación a 28 °C. Los ensayos de inoculación en B. macrantha se realizaron con las BSF más eficientes. La inoculación de las BSF B. firmus y P. fluorescens de forma individual y como inoculante combinado mostro un efecto benéfico, incrementando significativamente el porcentaje de germinación de semillas, la altura de la plántula, la longitud de la raíz y el peso seco de B. macrantha. La inoculación de BSF podría ser considerada una estrategia para mejorar el crecimiento y establecimiento de B. macrantha en pastizales abandonados.Growth Promotion of Baccharis macrantha (Asteraceae by Phosphate Solubilizing Rhizosphere Bacteria     The objectives of this research was to isolate and characterize phosphate solubilizing bacteria (BSF associated to the rhizosphere of Baccharis macrantha and Viburnum triphyllum, and to assess their ability to solubilize phosphate under conditions in vitro. Furthermore to determine the effect of inoculation of the strains BSF more efficient on the growth of B. macrantha. Rhizosphere soil samples of B

  1. An efficient and extensible approach for compressing phylogenetic trees

    KAUST Repository

    Matthews, Suzanne J

    2011-01-01

    Background: Biologists require new algorithms to efficiently compress and store their large collections of phylogenetic trees. Our previous work showed that TreeZip is a promising approach for compressing phylogenetic trees. In this paper, we extend our TreeZip algorithm by handling trees with weighted branches. Furthermore, by using the compressed TreeZip file as input, we have designed an extensible decompressor that can extract subcollections of trees, compute majority and strict consensus trees, and merge tree collections using set operations such as union, intersection, and set difference.Results: On unweighted phylogenetic trees, TreeZip is able to compress Newick files in excess of 98%. On weighted phylogenetic trees, TreeZip is able to compress a Newick file by at least 73%. TreeZip can be combined with 7zip with little overhead, allowing space savings in excess of 99% (unweighted) and 92%(weighted). Unlike TreeZip, 7zip is not immune to branch rotations, and performs worse as the level of variability in the Newick string representation increases. Finally, since the TreeZip compressed text (TRZ) file contains all the semantic information in a collection of trees, we can easily filter and decompress a subset of trees of interest (such as the set of unique trees), or build the resulting consensus tree in a matter of seconds. We also show the ease of which set operations can be performed on TRZ files, at speeds quicker than those performed on Newick or 7zip compressed Newick files, and without loss of space savings.Conclusions: TreeZip is an efficient approach for compressing large collections of phylogenetic trees. The semantic and compact nature of the TRZ file allow it to be operated upon directly and quickly, without a need to decompress the original Newick file. We believe that TreeZip will be vital for compressing and archiving trees in the biological community. © 2011 Matthews and Williams; licensee BioMed Central Ltd.

  2. Habitat-associated phylogenetic community patterns of microbial ammonia oxidizers.

    Directory of Open Access Journals (Sweden)

    Antoni Fernàndez-Guerra

    Full Text Available Microorganisms mediating ammonia oxidation play a fundamental role in the connection between biological nitrogen fixation and anaerobic nitrogen losses. Bacteria and Archaea ammonia oxidizers (AOB and AOA, respectively have colonized similar habitats worldwide. Ammonia oxidation is the rate-limiting step in nitrification, and the ammonia monooxygenase (Amo is the key enzyme involved. The molecular ecology of this process has been extensively explored by surveying the gene of the subunit A of the Amo (amoA gene. In the present study, we explored the phylogenetic community ecology of AOB and AOA, analyzing 5776 amoA gene sequences from >300 isolation sources, and clustering habitats by environmental ontologies. As a whole, phylogenetic richness was larger in AOA than in AOB, and sediments contained the highest phylogenetic richness whereas marine plankton the lowest. We also observed that freshwater ammonia oxidizers were phylogenetically richer than their marine counterparts. AOA communities were more dissimilar to each other than those of AOB, and consistent monophyletic lineages were observed for sediments, soils, and marine plankton in AOA but not in AOB. The diversification patterns showed a more constant cladogenesis through time for AOB whereas AOA apparently experienced two fast diversification events separated by a long steady-state episode. The diversification rate (γ statistic for most of the habitats indicated γ(AOA > γ(AOB. Soil and sediment experienced earlier bursts of diversification whereas habitats usually eutrophic and rich in ammonium such as wastewater and sludge showed accelerated diversification rates towards the present. Overall, this work shows for the first time a global picture of the phylogenetic community structure of both AOB and AOA assemblages following the strictest analytical standards, and provides an ecological view on the differential evolutionary paths experienced by widespread ammonia

  3. Purificação do flavonóide trans-tilirosídeo do extrato metanólico das folhas de Gochnatia barrosii Cabrera (asteraceae e avaliação da sua atividade nematicida Purification of the flavonoid trans-tiliroside from the methanolic extract of Gochnatia barrosii Cabrera (Asteraceae leaves and evaluation of the nematicidal activity

    Directory of Open Access Journals (Sweden)

    Helvécio Martins dos Santos Júnior

    2010-10-01

    Full Text Available O fracionamento do extrato metanólico das folhas de Gochnatia barrosii Cabrera (Asteraceae resultou no isolamento do flavonol glicosídico trans-tilirosídeo [kaempferol 3-O- -D-(6''-O-E-p-cumaroil-glicopiranosídeo], que nunca tinha sido identificado na referida espécie vegetal. Em teste realizado in vitro, observou-se que tal substância a 500 μg/mL, não tem efeito sobre a mortalidade de juvenis do segundo estágio do nematóide Meloidogyne exigua Goeldi.Fractionation of the methanolic extract from Gochnatia barrosii Cabrera (Asteraceae leaves resulted in the isolation of the flavonol glycoside trans-tiliroside [kaempferol 3-O- -D-(6''-O-E-p-coumaroyl-glucopyranoside], which had never been found in such plant species. Such substance at 500 μg/mL caused no in vitro effect on the mortality of second-stage juveniles of the nematode Meloidogyne exigua Goeldi.

  4. Trophic phylogenetics: evolutionary influences on body size, feeding, and species associations in grassland arthropods.

    Science.gov (United States)

    Lind, Eric M; Vincent, John B; Weiblen, George D; Cavender-Bares, Jeannine; Borer, Elizabeth T

    2015-04-01

    Contemporary animal-plant interactions such as herbivory are widely understood to be shaped by evolutionary history. Yet questions remain about the role of plant phylogenetic diversity in generating and maintaining herbivore diversity, and whether evolutionary relatedness of producers might predict the composition of consumer communities. We tested for evidence of evolutionary associations among arthropods and the plants on which they were found, using phylogenetic analysis of naturally occurring arthropod assemblages sampled from a plant-diversity manipulation experiment. Considering phylogenetic relationships among more than 900 arthropod consumer taxa and 29 plant species in the experiment, we addressed several interrelated questions. First, our results support the hypothesis that arthropod functional traits such as body size and trophic role are phylogenetically conserved in community ecological samples. Second, herbivores tended to cooccur with closer phylogenetic relatives than would be expected at random, whereas predators and parasitoids did not show phylogenetic association patterns. Consumer specialization, as measured by association through time with monocultures of particular host plant species, showed significant phylogenetic signal, although the. strength of this association varied among plant species. Polycultures of phylogenetically dissimilar plant species supported more phylogenetically dissimilar consumer communities than did phylogenetically similar polycultures. Finally, we separated the effects of plant species richness and relatedness in predicting the phylogenetic distribution of the arthropod assemblages in this experiment. The phylogenetic diversity of plant communities predicted the phylogenetic diversity of herbivore communities even after accounting for plant species richness. The phylogenetic diversity of secondary consumers differed by guild, with predator phylogenetic diversity responding to herbivore relatedness, while parasitoid

  5. PhyPA: Phylogenetic method with pairwise sequence alignment outperforms likelihood methods in phylogenetics involving highly diverged sequences.

    Science.gov (United States)

    Xia, Xuhua

    2016-09-01

    While pairwise sequence alignment (PSA) by dynamic programming is guaranteed to generate one of the optimal alignments, multiple sequence alignment (MSA) of highly divergent sequences often results in poorly aligned sequences, plaguing all subsequent phylogenetic analysis. One way to avoid this problem is to use only PSA to reconstruct phylogenetic trees, which can only be done with distance-based methods. I compared the accuracy of this new computational approach (named PhyPA for phylogenetics by pairwise alignment) against the maximum likelihood method using MSA (the ML+MSA approach), based on nucleotide, amino acid and codon sequences simulated with different topologies and tree lengths. I present a surprising discovery that the fast PhyPA method consistently outperforms the slow ML+MSA approach for highly diverged sequences even when all optimization options were turned on for the ML+MSA approach. Only when sequences are not highly diverged (i.e., when a reliable MSA can be obtained) does the ML+MSA approach outperforms PhyPA. The true topologies are always recovered by ML with the true alignment from the simulation. However, with MSA derived from alignment programs such as MAFFT or MUSCLE, the recovered topology consistently has higher likelihood than that for the true topology. Thus, the failure to recover the true topology by the ML+MSA is not because of insufficient search of tree space, but by the distortion of phylogenetic signal by MSA methods. I have implemented in DAMBE PhyPA and two approaches making use of multi-gene data sets to derive phylogenetic support for subtrees equivalent to resampling techniques such as bootstrapping and jackknifing. PMID:27377322

  6. Extended Newick: it is time for a standard representation of phylogenetic networks

    OpenAIRE

    Valiente Gabriel; Rosselló Francesc; Cardona Gabriel

    2008-01-01

    Abstract Background Phylogenetic trees resulting from molecular phylogenetic analysis are available in Newick format from specialized databases but when it comes to phylogenetic networks, which provide an explicit representation of reticulate evolutionary events such as recombination, hybridization or lateral gene transfer, the lack of a standard format for their representation has hindered the publication of explicit phylogenetic networks in the specialized literature and their incorporation...

  7. Comparative Analysis of Begonia Plastid Genomes and Their Utility for Species-Level Phylogenetics

    Science.gov (United States)

    Harrison, Nicola; Harrison, Richard J.

    2016-01-01

    Recent, rapid radiations make species-level phylogenetics difficult to resolve. We used a multiplexed, high-throughput sequencing approach to identify informative genomic regions to resolve phylogenetic relationships at low taxonomic levels in Begonia from a survey of sixteen species. A long-range PCR method was used to generate draft plastid genomes to provide a strong phylogenetic backbone, identify fast evolving regions and provide informative molecular markers for species-level phylogenetic studies in Begonia. PMID:27058864

  8. Disentangling the roles of plant diversity and precipitation in structuring microbial community composition and function in a tropical rain forest

    Science.gov (United States)

    McGuire, Krista; Treseder, Kathleen; Fierer, Noah; Turner, Benjamin

    2010-05-01

    Shifting frequency and intensity of precipitation events is expected to impact soil fungi through a variety of complex feedbacks, although the general patterns and mechanisms are not fully understood. Precipitation and plant diversity often covary, and disentangling the relative contribution of each is important for predicting changes in global C and N fluxes. In order to test the relative contributions of plant diversity and precipitation in shaping fungal community structure and function, soil samples (0-10cm) from six established 1-ha plots across a natural precipitation gradient on the isthmus of Panama were collected. These plots co-vary in mean annual precipitation and plant diversity. Fungal DNA was sequenced using general fungal primers for the 18S region and 454 pyrosequencing. We found that total fungal taxa significantly increased with increasing mean annual precipitation, but not with plant diversity. Activity for some extracellular enzymes increased, whereas as others decreased with mean annual precipitation, indicating that the effect of shifting precipitation on nutrient transformations may be process-specific. To directly test for effects of plant species richness on fungal diversity and function, we experimentally re-created litter diversity gradients in nylon, 2 mm screen litter bags with 1, 25, and 50 species of plant leaf litter. After six months, we found a significant effect of plant litter diversity on decomposition rate, but only after the increase from one to 25 species of leaf litter. Total fungal taxa as determined by 454 sequencing and extracellular enzyme activity did not track plant species richness, suggesting that precipitation may be a more important factor than plant diversity in structuring soil fungi in tropical rain forests.

  9. Using mitochondrial and nuclear sequence data for disentangling population structure in complex pest species: a case study with Dermanyssus gallinae.

    Science.gov (United States)

    Roy, Lise; Buronfosse, Thierry

    2011-01-01

    Among global changes induced by human activities, association of breakdown of geographical barriers and impoverishered biodiversity of agroecosystems may have a strong evolutionary impact on pest species. As a consequence of trade networks' expansion, secondary contacts between incipient species, if hybrid incompatibility is not yet reached, may result in hybrid swarms, even more when empty niches are available as usual in crop fields and farms. By providing important sources of genetic novelty for organisms to adapt in changing environments, hybridization may be strongly involved in the emergence of invasive populations. Because national and international trade networks offered multiple hybridization opportunities during the previous and current centuries, population structure of many pest species is expected to be the most intricate and its inference often blurred when using fast-evolving markers. Here we show that mito-nuclear sequence datasets may be the most helpful in disentangling successive layers of admixture in the composition of pest populations. As a model we used D. gallinae s. l., a mesostigmatid mite complex of two species primarily parasitizing birds, namely D. gallinae L1 and D. gallinae s. str. The latter is a pest species, considered invading layer farms in Brazil. The structure of the pest as represented by isolates from both wild and domestic birds, from European (with a focus on France), Australian and Brazilian farms, revealed past hybridization events and very recent contact between deeply divergent lineages. The role of wild birds in the dissemination of mites appears to be null in European and Australian farms, but not in Brazilian ones. In French farms, some recent secondary contact is obviously consecutive to trade flows. Scenarios of populations' history were established, showing five different combinations of more or less dramatic bottlenecks and founder events, nearly interspecific hybridizations and recent population mixing within D

  10. Disentangling the effects of polymer coatings on silver nanoparticle agglomeration, dissolution, and toxicity to determine mechanisms of nanotoxicity

    International Nuclear Information System (INIS)

    Silver nanoparticles (AgNPs) are frequently coated with a variety of polymers, which may affect various interdependent mechanisms of toxicity or antimicrobial action, including agglomeration and dissolution rates. Here, we systematically measure how citrate, dextran, 5 and 20 kDa poly(ethylene glycol) (PEG), and poly(vinyl pyrrolidone) coatings affect AgNP agglomeration, dissolution, and toxicity. In addition, to disentangle the coatings’ effects on agglomeration from their other effects, we produce multiple stable agglomerate sizes of several of the coated ∼23 nm AgNPs ranging from singly-dispersed to mean agglomerate sizes of several hundred nanometers. These dispersions allow us to independently study the effects of agglomeration and polymer coating on dissolution rate and hemolytic toxicity. We find that both hemolytic toxicity and dissolution rate are highest for the 5 kDa PEG coating, and toxicity and dissolution rate decrease significantly with increasing agglomerate size independent of coating. This correlation between toxicity and dissolution rate suggests that both polymer coating and agglomeration may affect hemolytic toxicity largely through their effects on dissolution. Because both the AgNP dissolution rate and hemolysis decrease only moderately compared to the large increases in agglomerate size, AgNPs’ hemolytic toxicity may be caused by their large surface area and consequently high dissolution rate, rather than from other size-specific effects. At the silver concentrations used in this work, silver dissolved from AgNPs is expected to be primarily in the form of AgCl NPs, which are therefore more likely than Ag+ ions to be the primary drivers of hemolytic toxicity. In addition, all AgNPs we tested are much more toxic to horse red blood cells than sheep red blood cells, highlighting the complexity of toxic responses and the need to test toxicity in multiple biological systems.

  11. Areal changes of lentic water bodies within an agricultural basin of the Argentinean pampas. Disentangling land management from climatic causes.

    Science.gov (United States)

    Booman, Gisel Carolina; Calandroni, Mirta; Laterra, Pedro; Cabria, Fabián; Iribarne, Oscar; Vázquez, Pablo

    2012-12-01

    Wetland loss is a frequent concern for the environmental management of rural landscapes, but poor disentanglement between climatic and land management causes frequently constrains both proper diagnoses and planning. The aim of this study is to address areal changes induced by non-climatic factors on lentic water bodies (LWB) within an agricultural basin of the Argentinean Pampas, and the human activities that might be involved. The LWB of the Mar Chiquita basin (Buenos Aires province, Argentina) were mapped using Landsat images from 1998-2008 and then corrected for precipitation variability by considering the regional hydrological status on each date. LWB areal changes were statistically and spatially analyzed in relation to land use changes, channelization of streams, and drainage of small SWB in the catchment areas. We found that 12 % of the total LWB in the basin had changed (P < 0.05) due to non-climatic causes. During the evaluated decade, 30 % of the LWB that changed size had decreased while 70 % showed steady increases in area. The number of altered LWB within watersheds lineally increased or decreased according to the proportion of grasslands replaced by sown pastures, or the proportion of sown pastures replaced by crop fields, respectively. Drainage and channelization do not appear to be related to the alteration of LWB; however some of these hydrologic modifications may predate 1998, and thus earlier effects cannot be discarded. This study shows that large-scale changes in land cover (e.g., grasslands reduction) can cause a noticeable loss of hydrologic regulation at the catchment scale within a decade. PMID:22990683

  12. Disentangling the contribution of multiple land covers to fire-mediated carbon emissions in Amazonia during the 2010 drought

    Science.gov (United States)

    Anderson, Liana Oighenstein; Aragão, Luiz E. O. C.; Gloor, Manuel; Arai, Egídio; Adami, Marcos; Saatchi, Sassan S.; Malhi, Yadvinder; Shimabukuro, Yosio E.; Barlow, Jos; Berenguer, Erika; Duarte, Valdete

    2015-10-01

    In less than 15 years, the Amazon region experienced three major droughts. Links between droughts and fires have been demonstrated for the 1997/1998, 2005, and 2010 droughts. In 2010, emissions of 510 ± 120 Tg C were associated to fire alone in Amazonia. Existing approaches have, however, not yet disentangled the proportional contribution of multiple land cover sources to this total. We develop a novel integration of multisensor and multitemporal satellite-derived data on land cover, active fires, and burned area and an empirical model of fire-induced biomass loss to quantify the extent of burned areas and resulting biomass loss for multiple land covers in Mato Grosso (MT) state, southern Amazonia—the 2010 drought most impacted region. We show that 10.77% (96,855 km2) of MT burned. We estimated a gross carbon emission of 56.21 ± 22.5 Tg C from direct combustion of biomass, with an additional 29.4 ± 10 Tg C committed to be emitted in the following years due to dead wood decay. It is estimated that old-growth forest fires in the whole Brazilian Legal Amazon (BLA) have contributed to 14.81 Tg of C (11.75 Tg C to 17.87 Tg C) emissions to the atmosphere during the 2010 fire season, with an affected area of 27,555 km2. Total C loss from the 2010 fires in MT state and old-growth forest fires in the BLA represent, respectively, 77% (47% to 107%) and 86% (68.2% to 103%) of Brazil's National Plan on Climate Change annual target for Amazonia C emission reductions from deforestation.

  13. Disentangling effects of socioeconomic status on obesity: A cross-sectional study of the Spanish adult population.

    Science.gov (United States)

    Merino Ventosa, María; Urbanos-Garrido, Rosa M Maria Merino Ven Gmail Com

    2016-09-01

    This paper complements previous estimations regarding socioeconomic inequalities in obesity for Spanish adults, and provides new evidence about the mechanisms through which socioeconomic status (SES) affects obesity. Microdata from the Spanish National Health Survey (SNHS) 2011-2012 are analysed. Corrected concentration indices (CCI) are calculated to measure inequality. Path analysis is employed to disentangle direct and indirect effects of SES on obesity, where dietary patterns, physical activity and sleep habits act as mediator variables. Multivariate logistic models are used to select those exogenous variables to be included in the path diagram. Men and women are analysed separately. Our results show significant pro-rich inequality in the distribution of obesity (the poorer the more obese), particularly for women (CCI=-0.070 for men, CCI=-0.079 for women). The indirect effects of SES on obesity (those transmitted via mediator variables) are quite modest (3.3% for males, 2.4% for females) due to three reasons. Firstly, dietary habits do not show a significant mediating effect. Secondly, the mediating effect of physical activity in leisure time, although significant (14% for males, 11.1% for females), is offset by that related to main activity. Finally, sleep habits contribution to total effect of SES on obesity is statistically significant but small (roughly 1%). Our results indicate that promoting physical activity in leisure time for those with a low SES, particularly for men, would contribute to prevent obesity and to reduce health inequalities. Promotion of adequate sleep habits for women with a low SES might have a similar effect. However, interventions aimed to reduce sedentarism related to main activity, although useful to prevent obesity, would amplify the obesity socioeconomic gradient. Since effects of SES are different for men and women, socioeconomic health inequalities should be addressed also from a gender perspective. PMID:27362523

  14. Disentangling the response of forest and grassland energy exchange to heatwaves under idealized land–atmosphere coupling

    Directory of Open Access Journals (Sweden)

    C. C. van Heerwaarden

    2014-04-01

    Full Text Available This study investigates the difference in land–atmosphere interactions between grassland and forest during typical heat wave conditions in order to understand the controversial results of Teuling et al. (2010 (T10, hereafter, who have found the systematic occurrence of higher sensible heat fluxes over forest than over grassland during heat wave conditions. With a simple, but accurate coupled land–atmosphere model, we are able to reproduce the findings of T10 for both normal summer and heat wave conditions, and to carefully explore the sensitivity of the coupled land–atmosphere system to changes in incoming radiation and early-morning temperature. Our results emphasize the importance of fast processes during the onset of heat waves, since we are able to explain the results of T10 without having to take into account changes in soil moisture. In order to disentangle the contribution of differences in several static and dynamic properties between forest and grassland, we have performed an experiment in which new land use types are created that are equal to grassland, but with one of its properties replaced by that of forest. From these, we conclude that the closure of stomata in the presence of dry air is by far the most important process in creating the different behavior of grassland and forest during the onset of a heat wave. However, we conclude that for a full explanation of the results of T10 also the other properties (albedo, roughness and the ratio of minimum stomatal resistance to leaf-area index play an important, but indirect role; their influences mainly consist of strengthening the feedback that leads to the closure of the stomata by providing more energy that can be converted into sensible heat. The model experiment also confirms that, in line with the larger sensible heat flux, higher atmospheric temperatures occur over forest.

  15. Using mitochondrial and nuclear sequence data for disentangling population structure in complex pest species: a case study with Dermanyssus gallinae.

    Directory of Open Access Journals (Sweden)

    Lise Roy

    Full Text Available Among global changes induced by human activities, association of breakdown of geographical barriers and impoverishered biodiversity of agroecosystems may have a strong evolutionary impact on pest species. As a consequence of trade networks' expansion, secondary contacts between incipient species, if hybrid incompatibility is not yet reached, may result in hybrid swarms, even more when empty niches are available as usual in crop fields and farms. By providing important sources of genetic novelty for organisms to adapt in changing environments, hybridization may be strongly involved in the emergence of invasive populations. Because national and international trade networks offered multiple hybridization opportunities during the previous and current centuries, population structure of many pest species is expected to be the most intricate and its inference often blurred when using fast-evolving markers. Here we show that mito-nuclear sequence datasets may be the most helpful in disentangling successive layers of admixture in the composition of pest populations. As a model we used D. gallinae s. l., a mesostigmatid mite complex of two species primarily parasitizing birds, namely D. gallinae L1 and D. gallinae s. str. The latter is a pest species, considered invading layer farms in Brazil. The structure of the pest as represented by isolates from both wild and domestic birds, from European (with a focus on France, Australian and Brazilian farms, revealed past hybridization events and very recent contact between deeply divergent lineages. The role of wild birds in the dissemination of mites appears to be null in European and Australian farms, but not in Brazilian ones. In French farms, some recent secondary contact is obviously consecutive to trade flows. Scenarios of populations' history were established, showing five different combinations of more or less dramatic bottlenecks and founder events, nearly interspecific hybridizations and recent

  16. Worries about being judged versus being harmed: disentangling the association of social anxiety and paranoia with schizotypy.

    Directory of Open Access Journals (Sweden)

    Leslie E Horton

    Full Text Available Paranoia is a dimension of clinical and subclinical experiences in which others are believed to have harmful intentions. Mild paranoid concerns are relatively common in the general population, and more clinically severe paranoia shares features with social anxiety and is a key characteristic of schizotypy. Given that subclinical manifestations of schizotypy and paranoia may predict the occurrence of more severe symptoms, disentangling the associations of these related constructs may advance our understanding of their etiology; however no known studies to date have comprehensively evaluated how paranoia relates to social anxiety and schizotypy. The current research sought to examine the association of paranoia, assessed across a broad continuum of severity, with 1 the positive and negative schizotypy dimensions and 2 social anxiety. Specifically, the study tested a series of six competing, a priori models using confirmatory factor analysis in a sample of 862 young adults. As hypothesized, the data supported a four-factor model including positive schizotypy, negative schizotypy, social anxiety, and paranoia factors, suggesting that these are distinct constructs with differing patterns of interrelationships. Paranoia had a strong association with positive schizotypy, a moderate association with social anxiety, and a minimal association with negative schizotypy. The results are consistent with paranoia being part of a multidimensional model of schizotypy and schizophrenia. Prior studies treating schizotypy and schizophrenia as homogenous constructs often produce equivocal or non-replicable results because these dimensions are associated with distinct etiologies, presentations, and treatment responses; thus, the present conceptualization of paranoia within a multidimensional schizotypy framework should advance our understanding of these constructs.

  17. Using short vignettes to disentangle perceived capability from motivation: a test using walking and resistance training behaviors.

    Science.gov (United States)

    Rhodes, Ryan E; Williams, David M; Mistry, Chetan D

    2016-07-01

    Self-efficacy is arguably the strongest correlate of physical activity, yet some researchers suggest this is because the construct confounds ability with motivation. We examine a more circumscribed construct, called perceived capability (PC), meant to measure ability but not motivation and propose that the construct will not be related to unskilled physical activities but may be linked to skilled behaviors. The purpose of this paper was to examine whether a PC construct can be stripped of motivation using a vignette approach in both walking and resistance training behaviors. Participants were a random sample of 248 university students, who were then randomly assigned to either answer resistance training or walking behavior questions. Both groups completed a PC measure and reasons for their answer before and after reading a vignette that clarified the phrasing of capability to a literal use of the term. PC was significantly (p intention and self-reported behavior post-disambiguation, which resulted in a null relationship with walking but a small correlation with resistance training behavior. When PC was combined with intention to predict behavior, however, there was no significant (p > .05) difference in the amount of variance explained pre- to post-vignette. Thought listing showed that participants did not report capability barriers to walking and over half of the sample construed capability as motivation/other priorities pre-vignette. The findings support use of a vignette approach for researchers who wish to disentangle the assessment of PC from motivation while creating no overall loss in explained variance of physical activity. PMID:26286687

  18. Disentangling the Relationships between Net Primary Production and Precipitation in Southern Africa Savannas Using Satellite Observations from 1982 to 2010

    Directory of Open Access Journals (Sweden)

    Jane Southworth

    2013-08-01

    Full Text Available To obtain a better understanding of the variability in net primary production (NPP in savannas is important for the study of the global carbon cycle and the management of this particular ecosystem. Using satellite and precipitation data sets, we investigated the variations in NPP in southern African savannas from 1982 to 2010, and disentangled the relationships between NPP and precipitation by land cover classes and mean annual precipitation (MAP gradients. Specifically, we evaluate the utility of the third generation Global Inventory Monitoring and Modeling System (GIMMS3g normalized difference vegetation index (NDVI dataset, in comparison with Moderate-resolution Imaging Spectroradiometer (MODIS derived NPP products, and find strong relationships between the overlapping data periods (2000–2010, such that we can apply our model to derive NPP estimates to the full 29-year NDVI time-series. Generally, the northern portion of the study area is characterized by high NPP and low variability, whereas the southern portion is characteristic of low NPP and high variability. During the period 1982 through 2010, NPP has reduced at a rate of −2.13 g∙C∙m−2∙yr−1 (p < 0.1, corresponding to a decrease of 6.7% over 29 years, and about half of bush and grassland savanna has experienced a decrease in NPP. There is a significant positive relationship between mean annual NPP and MAP in bush and grassland savannas, but no significant relationship is observed in tree savannas. The relationship between mean annual NPP and MAP varies with increases in MAP, characterized as a linear relationship that breaks down when MAP exceeding around 850–900 mm.

  19. Computing the Skewness of the Phylogenetic Mean Pairwise Distance in Linear Time

    DEFF Research Database (Denmark)

    Tsirogiannis, Constantinos; Sandel, Brody Steven

    The phylogenetic Mean Pairwise Distance (MPD) is one of the most popular measures for computing the phylogenetic distance between a given group of species. More specifically, for a phylogenetic tree T and for a set of species R represented by a subset of the leaf nodes of T , the MPD of R is equa...

  20. New primers for promising single-copy genes in fungal phylogenetics and systematics

    NARCIS (Netherlands)

    Schmitt, I.; Crespo, A.; Divakar, P.K.; Fankhauser, J.D.; Herman-Sackett, E.; Kalb, K.; Nelsen, M.P.; Nelson, N.A.; Rivas-Plata, E.; Shimp, A.D.; Widhelm, T.; Lumbsch, H.T.

    2009-01-01

    Developing powerful phylogenetic markers is a key concern in fungal phylogenetics. Here we report degenerate primers that amplify the single-copy genes Mcm7 (MS456) and Tsr1 (MS277) across a wide range of Pezizomycotina (Ascomycota). Phylogenetic analyses of 59 taxa belonging to the Eurotiomycetes,

  1. Computing the Skewness of the Phylogenetic Mean Pairwise Distance in Linear Time

    DEFF Research Database (Denmark)

    Tsirogiannis, Constantinos; Sandel, Brody Steven

    The phylogenetic Mean Pairwise Distance (MPD) is one of the most popular measures for computing the phylogenetic distance between a given group of species. More specifically, for a phylogenetic tree T and for a set of species R represented by a subset of the leaf nodes of T , the MPD of R is equal...

  2. Phylogenetic Group Determination of Escherichia coli Isolated from Animals Samples

    Directory of Open Access Journals (Sweden)

    Fernanda Morcatti Coura

    2015-01-01

    Full Text Available This study analyzes the occurrence and distribution of phylogenetic groups of 391 strains of Escherichia coli isolated from poultry, cattle, and water buffalo. The frequency of the phylogroups was A = 19%, B1 = 57%, B2 = 2.3%, C = 4.6%, D = 2.8%, E = 11%, and F = 3.3%. Phylogroups A (P<0.001 and F (P=0.018 were associated with E. coli strains isolated from poultry, phylogroups B1 (P<0.001 and E (P=0.002 were associated with E. coli isolated from cattle, and phylogroups B2 (P=0.003 and D (P=0.017 were associated with E. coli isolated from water buffalo. This report demonstrated that some phylogroups are associated with the host analyzed and the results provide knowledge of the phylogenetic composition of E. coli from domestic animals.

  3. Yersinia pestis genome sequencing identifies patterns of global phylogenetic diversity.

    Science.gov (United States)

    Morelli, Giovanna; Song, Yajun; Mazzoni, Camila J; Eppinger, Mark; Roumagnac, Philippe; Wagner, David M; Feldkamp, Mirjam; Kusecek, Barica; Vogler, Amy J; Li, Yanjun; Cui, Yujun; Thomson, Nicholas R; Jombart, Thibaut; Leblois, Raphael; Lichtner, Peter; Rahalison, Lila; Petersen, Jeannine M; Balloux, Francois; Keim, Paul; Wirth, Thierry; Ravel, Jacques; Yang, Ruifu; Carniel, Elisabeth; Achtman, Mark

    2010-12-01

    Plague is a pandemic human invasive disease caused by the bacterial agent Yersinia pestis. We here report a comparison of 17 whole genomes of Y. pestis isolates from global sources. We also screened a global collection of 286 Y. pestis isolates for 933 SNPs using Sequenom MassArray SNP typing. We conducted phylogenetic analyses on this sequence variation dataset, assigned isolates to populations based on maximum parsimony and, from these results, made inferences regarding historical transmission routes. Our phylogenetic analysis suggests that Y. pestis evolved in or near China and spread through multiple radiations to Europe, South America, Africa and Southeast Asia, leading to country-specific lineages that can be traced by lineage-specific SNPs. All 626 current isolates from the United States reflect one radiation, and 82 isolates from Madagascar represent a second radiation. Subsequent local microevolution of Y. pestis is marked by sequential, geographically specific SNPs. PMID:21037571

  4. Spatial Patterns of Palm Diversity from a Phylogenetic Perspective

    DEFF Research Database (Denmark)

    Eiserhardt, Wolf L.; Svenning, J.-C.; Kissling, W. Daniel;

    With ~2,500 species and a Pantropical distribution, the palm family (Arecaceae) has emerged as an important model taxon for studies of tropical plant diversity. In a recent review we showed that palm species distributions, species composition, and species richness depend on ecological factors at....... Robust and well-resolved phylogenetic trees, in combination with comprehensive distributional and trait data, can provide important insights into the long-term causes of spatial biodiversity patterns. Palms lend themselves to such research not least due to an exceptionally good data basis, and several...... studies using a variety of approaches have recently shown that the distribution of palm diversity is strongly influenced by the phylogenetic history of the family. Here, we provide an overview of evidence for evolutionary imprints on palm diversity patterns (sensu lato), including our own studies where we...

  5. Assembly and phylogenetic structure of Neotropical palm communities

    DEFF Research Database (Denmark)

    Eiserhardt, Wolf L.; Svenning, J.-C.; Balslev, Henrik

    Diversity, composition and dynamics of Neotropical palm communities are receiving an increasing amount of attention due to their economic importance, but also because their high species richness and functional diversity render them valuable model systems for overall forest biodiversity. However, to...... better understand these palm communities, it is crucial to gain insight into the mechanisms responsible for their assembly. These can be dispersal limitation, environmental filtering, or biotic interactions. If the degree of niche conservatism is known for a group of organisms, patterns of community...... phylogenetic structure can be directly traced back to mechanisms of community assembly. We aim to examine this for Neotropical palm communities. Phylogenetic structure will be inferred on different spatial scales and for different community definitions (plot-based and environment-based). To overcome an...

  6. Phylogenetic placement of the ectomycorrhizal genus Cenococcum in Gloniaceae (Dothideomycetes).

    Science.gov (United States)

    Spatafora, Joseph W; Owensby, C Alisha; Douhan, Greg W; Boehm, Eric W A; Schoch, Conrad L

    2012-01-01

    Cenococcum is a genus of ectomycorrhizal Ascomycota that has a broad host range and geographic distribution. It is not known to produce either meiotic or mitotic spores and is known to exist only in the form of hyphae, sclerotia and host-colonized ectomycorrhizal root tips. Due to its lack of sexual and asexual spores and reproductive structures, it has proven difficult to incorporate into traditional classification within Ascomycota. Molecular phylogenetic studies of ribosomal RNA placed Cenococcum in Dothideomycetes, but the definitive identification of closely related taxa remained elusive. Here we report a phylogenetic analysis of five nuclear loci (SSU, LSU, TEF1, RPB1, RPB2) of Dothideomycetes that placed Cenococcum as a close relative of the genus Glonium of Gloniaceae (Pleosporomycetidae incertae sedis) with strong statistical support. Glonium is a genus of saprobic Dothideomycetes that produces darkly pigmented, carbonaceous, hysteriate apothecia and is not known to be biotrophic. Evolution of ectomycorhizae, Cenococcum and Dothideomycetes is discussed. PMID:22453119

  7. Phylogenetic Group Determination of Escherichia coli Isolated from Animals Samples

    Science.gov (United States)

    Morcatti Coura, Fernanda; Diniz, Soraia de Araújo; Silva, Marcos Xavier; Mussi, Jamili Maria Suhet; Barbosa, Silvia Minharro; Lage, Andrey Pereira; Heinemann, Marcos Bryan

    2015-01-01

    This study analyzes the occurrence and distribution of phylogenetic groups of 391 strains of Escherichia coli isolated from poultry, cattle, and water buffalo. The frequency of the phylogroups was A = 19%, B1 = 57%, B2 = 2.3%, C = 4.6%, D = 2.8%, E = 11%, and F = 3.3%. Phylogroups A (P < 0.001) and F (P = 0.018) were associated with E. coli strains isolated from poultry, phylogroups B1 (P < 0.001) and E (P = 0.002) were associated with E. coli isolated from cattle, and phylogroups B2 (P = 0.003) and D (P = 0.017) were associated with E. coli isolated from water buffalo. This report demonstrated that some phylogroups are associated with the host analyzed and the results provide knowledge of the phylogenetic composition of E. coli from domestic animals. PMID:26421310

  8. An explosive innovation: Phylogenetic relationships of Solanum section Gonatotrichum (Solanaceae

    Directory of Open Access Journals (Sweden)

    Stephen Stern

    2012-01-01

    Full Text Available Solanum is one of the largest plant genera and exhibits a wide range of morphological diversity. Solanum section Gonatotrichum, the focus of this study, is unique within the genus because of its fruits that swell with turgor pressure and explosively dehisce to disperse the seeds. We infer phylogenetic relationships within section Gonatotrichum using DNA sequence data from two nuclear regions (ITS and the granule-bound starch synthase gene [GBSSI or waxy] and the chloroplast region trnT-F. The resulting phylogenetic trees support the monophyly of the section with the inclusion of S. lignescens, a species not previously thought to belong to the group due to the presence of stellate hairs. This inclusion of this species in section Gonatotrichum suggests that the simple, often geniculate hairs of species in the group may represent reduced stellate hairs. The presence of heterantherous flowers appears to be derived in the section, but this character is largely lost in S. parcistrigosum.

  9. Aspergillus niger contains the cryptic phylogenetic species A. awamori

    DEFF Research Database (Denmark)

    Perrone, Giancarlo; Stea, Gaetano; Epifani, Filomena;

    2011-01-01

    . Phylogenetic analyses of sequences generated from portions of three genes coding for the proteins β-tubulin (benA), calmodulin (CaM), and the translation elongation factor-1 alpha (TEF-1α) of a population of A. niger strains isolated from grapes in Europe revealed the presence of a cryptic phylogenetic species......Aspergillus section Nigri is an important group of species for food and medical mycology, and biotechnology. The Aspergillus niger ‘aggregate’ represents its most complicated taxonomic subgroup containing eight morphologically indistinguishable taxa: A. niger, Aspergillus tubingensis, Aspergillus...... mycotoxins ochratoxin A and fumonisin B2, and they also share the production of pyranonigrin A, tensidol B, funalenone, malformins, and naphtho-γ-pyrones. In addition, sequence analysis of four putative A. awamori strains from Japan, used in the koji industrial fermentation, revealed that none of these...

  10. Self-Organized Criticality in Phylogenetic-Like Tree Growths

    OpenAIRE

    N. Vandewalle; Ausloos, M.

    1995-01-01

    A simple stochastic model of Darwinistic evolution generating phylogenetic-like trees is developed. The model is based on a branching process taking competition-correlation effects into account. In presence of finite and short range correlations, the process self-organizes into a critical steady-state in which intermittent bursts of activity of all sizes are generated. On a geological-like time scale, this behaviour agrees with punctuated equilibrium features of biological evolution. The simu...

  11. Simple method for constructing phylogenetic trees from distance matrices.

    OpenAIRE

    Li, W H

    1981-01-01

    A simple method is proposed for constructing phylogenetic trees from distance matrices. The procedure for constructing tree topologies is similar to that of the unweighted pair-group method (UPG method) but makes corrections for unequal rates of evolution among lineages. The procedure for estimating branch lengths is the same as that of the Fitch and Margoliash method (F-M method) except that it allows no negative branch lengths. The performance of the present procedure for the construction o...

  12. Assessing phenotypic correlation through the multivariate phylogenetic latent liability model

    OpenAIRE

    Cybis, Gabriela B; Janet S Sinsheimer; Bedford, Trevor; Alison E Mather; Lemey, Philippe; Suchard, Marc A.

    2015-01-01

    © Institute of Mathematical Statistics, 2015. Understanding which phenotypic traits are consistently correlated throughout evolution is a highly pertinent problem in modern evolutionary biology. Here, we propose a multivariate phylogenetic latent liability model for assessing the correlation between multiple types of data, while simultaneously controlling for their unknown shared evolutionary history informed through molecular sequences. The latent formulation enables us to consider in a sing...

  13. Characterization of a Branch of the Phylogenetic Tree

    OpenAIRE

    Samuel, Stuart; Weng, Gezhi

    2005-01-01

    We use a combination of analytic models and computer simulations to gain insight into the dynamics of evolution. Our results suggest that certain interesting phenomena should eventually emerge from the fossil record. For example, there should be a ``tortoise and hare effect'': Those genera with the smallest species death rate are likely to survive much longer than genera with large species birth and death rates. A complete characterization of the behavior of a branch of the phylogenetic tree ...

  14. Phylogenetic evidence of canine distemper virus in Serengeti's lions.

    OpenAIRE

    Harder, Timm; Kenter, Marcel; Appel, Max; Roelke-Parker, Melody; Barrett, Thomas,; Osterhaus, Albert

    1995-01-01

    textabstractRecently an epizootic, reported to be due to a morbillivirus infection, affected the lion population of the Tanzanian Serengeti National Park. A morbillivirus phosphoprotein (P) gene fragment was amplified by PCR from tissue samples of several affected lions. Sequencing of the amplificates and subsequent phylogenetic analyses revealed that a wild-type strain of canine distemper morbillivirus (CDV) was involved. Vaccination of the local domestic dog population with proven safe CDV ...

  15. A phylogenetic study of cytochrome b561 proteins

    OpenAIRE

    Verelst, Wim; Asard, Han

    2003-01-01

    Background: As an antioxidant and cofactor to numerous metabolic enzymes, ascorbate has an essential role in plants and animals. Cytochromes b561 constitute a class of intrinsic membrane proteins involved in ascorbate regeneration. Despite their importance in ascorbate metabolism, no evolutionary analysis has been presented so far on this newly described protein family. Results: Cytochromes b561 have been identified in a large number of phylogenetically distant species, but are absent in f...

  16. Evolution of the mammalian placenta revealed by phylogenetic analysis

    OpenAIRE

    Wildman, Derek E.; Chen, Caoyi; Erez, Offer; Grossman, Lawrence I.; Goodman, Morris; Romero, Roberto

    2006-01-01

    The placenta is essential for the success of therian mammalian reproduction. Intense selective pressure has shaped changes in placental anatomy and function during mammalian cladogenesis. Here we challenge the view that the hemochorial placenta is a derived feature in haplorhine primates. Using phylogenetic and statistical analyses of molecular and morphological data, we demonstrate that the ancestral eutherian mammalian placenta had the distinctive features of (i) hemochorial placental inter...

  17. Functionally and phylogenetically diverse plant communities key to soil biota

    OpenAIRE

    Milcu, Alexandru; Allan, Eric; Roscher, Christiane; Jenkins, Tania; Meyer, Sebastian T.; Flynn, Dan; Bessler, Holger; Buscot, François; Engels, Christof; Gubsch, Marlén; König, Stephan; Lipowsky, Annett; Loranger, Jessy; Renker, Carsten; Scherber, Christoph

    2013-01-01

    Recent studies assessing the role of biological diversity for ecosystem functioning indicate that the diversity of functional traits and the evolutionary history of species in a community, not the number of taxonomic units, ultimately drives the biodiversity–ecosystem-function relationship. Here, we simultaneously assessed the importance of plant functional trait and phylogenetic diversity as predictors of major trophic groups of soil biota (abundance and diversity), six years from the onset ...

  18. Phylogeny reconstruction based on protein phylogenetic profiles of organisms

    Institute of Scientific and Technical Information of China (English)

    2003-01-01

    With the coming of the Post Genomic Era, more and more genomes have been sequenced and it has become possible to study phylogeny reconstruction at genome level. The concept of protein phylogenetic profiles of organisms is defined in this work which is used in phylogeny reconstruction by proteome comparisons. This method is more stable than the prevailing molecular systematics methods and can be used widely. It will develop very fast with the rapid progress in genome sequencing.

  19. Phylogenetic relationships of the South American Doradoidea (Ostariophysi: Siluriformes)

    OpenAIRE

    José L. O Birindelli

    2014-01-01

    A phylogenetic analysis based on 311 morphological characters is presented for most species of the Doradidae, all genera of the Auchenipteridae, and representatives of 16 other catfish families. The hypothesis that was derived from the six most parsimonious trees support the monophyly of the South American Doradoidea (Doradidae plus Auchenipteridae), as well as the monophyly of the clade Doradoidea plus the African Mochokidae. In addition, the clade with Sisoroidea plus Aspredinidae was consi...

  20. Systematic, phylogenetic and pollination studies of Specklinia (Orchidaceae)

    OpenAIRE

    Karremans, Adam Philip

    2015-01-01

    The present work brings together the results of systematic, phylogenetic and pollination studies of orchid species belonging to the genus Specklinia, with special emphasis on those with a Costa Rican distribution. In the first five chapter two species' complexes within Specklinia, that of S. endotrachys and that of S. glandulosa are resolved on the bases of morphological, genetic and geographical characterisation. The species belonging to these complexes are fully illustrated and described. F...