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Phylogenetics and phylogeography

Section edited by Craig Moritz and Herve Philippe

This section considers studies in the phylogeny and phylogeography of organisms.

Page 12 of 12

  1. The fossil record has suggested that clade growth may differ in marine and terrestrial taxa, supporting equilibrial models in the former and expansionist models in the latter. However, incomplete sampling may ...

    Authors: Robert B Davis, David B Nicholson, Emily LR Saunders and Peter J Mayhew
    Citation: BMC Evolutionary Biology 2011 11:252
    Content type: Research article Published on:

  2. The red yeasts are an early diverged group of basidiomycetes comprising sexual and asexual species. Sexuality is based on two compatible mating types and sexual identity is determined by MAT loci that encode home...

    Authors: Marco A Coelho, Paula Gonçalves and José P Sampaio
    Citation: BMC Evolutionary Biology 2011 11:249
    Content type: Research article Published on:

  4. The fungal genus Serpula (Serpulaceae, Boletales) comprises several saprotrophic (brown rot) taxa, including the aggressive house-infecting dry rot fungus Serpula lacrymans. Recent phylogenetic analyses have indi...

    Authors: Inger Skrede, Ingeborg B Engh, Manfred Binder, Tor Carlsen, Håvard Kauserud and Mika Bendiksby
    Citation: BMC Evolutionary Biology 2011 11:230
    Content type: Research article Published on:

  5. Interspecific hybridization may lead to the introgression of genes and genomes across species barriers and contribute to a reticulate evolutionary pattern and thus taxonomic uncertainties. Since several previo...

    Authors: Jiang Liu, Li Yu, Michael L Arnold, Chun-Hua Wu, Shi-Fang Wu, Xin Lu and Ya-Ping Zhang
    Citation: BMC Evolutionary Biology 2011 11:223
    Content type: Research article Published on:

  6. Metacrangonyctidae (Amphipoda, Crustacea) is an enigmatic continental subterranean water family of marine origin (thalassoid). One of the species in the genus, Metacrangonyx longipes, is endemic to the Balearic i...

    Authors: Maria M Bauzà-Ribot, Damià Jaume, Joan J Fornós, Carlos Juan and Joan Pons
    Citation: BMC Evolutionary Biology 2011 11:221
    Content type: Research article Published on:

  7. The rate and mode of lineage diversification might be shaped by clade-specific traits. In Madagascar, many groups of organisms are characterized by tiny distribution ranges and small body sizes, and this high ...

    Authors: Katharina C Wollenberg, David R Vieites, Frank Glaw and Miguel Vences
    Citation: BMC Evolutionary Biology 2011 11:217
    Content type: Research article Published on:

  8. The glacial-interglacial oscillations caused severe range modifications of biota. Thermophilic species became extinct in the North and survived in southern retreats, e.g. the Mediterranean Basin. These repeate...

    Authors: Jan C Habel, Luc Lens, Dennis Rödder and Thomas Schmitt
    Citation: BMC Evolutionary Biology 2011 11:215
    Content type: Research article Published on:

  9. Despite phylogeographical patterns being well characterised in a large number of species, and generalised patterns emerging, the carnivores do not all appear to show consistent trends. While some species tend ...

    Authors: Amber GF Teacher, Jessica A Thomas and Ian Barnes
    Citation: BMC Evolutionary Biology 2011 11:214
    Content type: Research article Published on:

  10. Cortinarius species in section Calochroi display local, clinal and circumboreal patterns of distribution across the Northern Hemisphere where these ectomycorrhizal fungi occur with host trees throughout their geo...

    Authors: Sigisfredo Garnica, Philipp Spahn, Bernhard Oertel, Joseph Ammirati and Franz Oberwinkler
    Citation: BMC Evolutionary Biology 2011 11:213
    Content type: Research article Published on:

  11. The mesic habitats of eastern Australia harbour a highly diverse fauna. We examined the impact of climatic oscillations and recognised biogeographic barriers on the evolutionary history of the delicate skink (Lam...

    Authors: David G Chapple, Conrad J Hoskin, Stephanie NJ Chapple and Michael B Thompson
    Citation: BMC Evolutionary Biology 2011 11:191
    Content type: Research article Published on:

  12. The Coral Triangle (CT), bounded by the Philippines, the Malay Peninsula, and New Guinea, is the epicenter of marine biodiversity. Hypotheses that explain the source of this rich biodiversity include 1) the ce...

    Authors: Michelle R Gaither, Brian W Bowen, Tiana-Rae Bordenave, Luiz A Rocha, Stephen J Newman, Juan A Gomez, Lynne van Herwerden and Matthew T Craig
    Citation: BMC Evolutionary Biology 2011 11:189
    Content type: Research article Published on:

  13. Researchers conducting molecular phylogenetic studies are frequently faced with the decision of what to do when weak branch support is obtained for key nodes of importance. As one solution, the researcher may ...

    Authors: Akito Y Kawahara, Issei Ohshima, Atsushi Kawakita, Jerome C Regier, Charles Mitter, Michael P Cummings, Donald R Davis, David L Wagner, Jurate De Prins and Carlos Lopez-Vaamonde
    Citation: BMC Evolutionary Biology 2011 11:182
    Content type: Research article Published on:

  14. Introgressive events (e.g., hybridization, gene flow, horizontal gene transfer) and incomplete lineage sorting of ancestral polymorphisms are a challenge for phylogenetic analyses since different genes may exh...

    Authors: Juan S Escobar, Céline Scornavacca, Alberto Cenci, Claire Guilhaumon, Sylvain Santoni, Emmanuel JP Douzery, Vincent Ranwez, Sylvain Glémin and Jacques David
    Citation: BMC Evolutionary Biology 2011 11:181
    Content type: Research article Published on:

  15. We characterized variation and chemical composition of epicuticular hydrocarbons (CHCs) in the seven species of the Drosophila buzzatii cluster with gas chromatography/mass spectrometry. Despite the critical role...

    Authors: Cássia C de Oliveira, Maura H Manfrin, Fábio de M Sene, Larry L Jackson and William J Etges
    Citation: BMC Evolutionary Biology 2011 11:179
    Content type: Research article Published on:

  16. Non-pollinating Sycophaginae (Hymenoptera, Chalcidoidea) form small communities within Urostigma and Sycomorus fig trees. The species show differences in galling habits and exhibit apterous, winged or dimorphic m...

    Authors: Astrid Cruaud, Roula Jabbour-Zahab, Gwenaëlle Genson, Finn Kjellberg, Noppol Kobmoo, Simon van Noort, Yang Da-Rong, Peng Yan-Qiong, Rosichon Ubaidillah, Paul E Hanson, Otilene Santos-Mattos, Fernando HA Farache, Rodrigo AS Pereira, Carole Kerdelhué and Jean-Yves Rasplus
    Citation: BMC Evolutionary Biology 2011 11:178
    Content type: Research article Published on:

  17. Freshwater harbors approximately 12,000 fish species accounting for 43% of the diversity of all modern fish. A single ancestral lineage evolved into about two-thirds of this enormous biodiversity (≈ 7900 spp.)...

    Authors: Masanori Nakatani, Masaki Miya, Kohji Mabuchi, Kenji Saitoh and Mutsumi Nishida
    Citation: BMC Evolutionary Biology 2011 11:177
    Content type: Research article Published on:

  18. Ecosystem engineers facilitate habitat formation and enhance biodiversity, but when they become invasive, they present a critical threat to native communities because they can drastically alter the receiving h...

    Authors: Peter R Teske, Marc Rius, Christopher D McQuaid, Craig A Styan, Maxine P Piggott, Saïd Benhissoune, Claudio Fuentes-Grünewald, Kathy Walls, Mike Page, Catherine RM Attard, Georgina M Cooke, Claire F McClusky, Sam C Banks, Nigel P Barker and Luciano B Beheregaray
    Citation: BMC Evolutionary Biology 2011 11:176
    Content type: Research article Published on:

  19. Microhylidae is a geographically widespread family of anurans. Although several extensive molecular analyses have attempted to elucidate their subfamilial relationships, and correlate these with Mesozoic and C...

    Authors: Atsushi Kurabayashi, Masafumi Matsui, Daicus M Belabut, Hoi-Sen Yong, Norhayati Ahmad, Ahmad Sudin, Mitsuru Kuramoto, Amir Hamidy and Masayuki Sumida
    Citation: BMC Evolutionary Biology 2011 11:175
    Content type: Research article Published on:

  20. HIV susceptibility and pathogenicity exhibit both interindividual and intergroup variability. The etiology of intergroup variability is still poorly understood, and could be partly linked to genetic difference...

    Authors: Yann C Klimentidis, Brahim Aissani, Mark D Shriver, David B Allison and Sadeep Shrestha
    Citation: BMC Evolutionary Biology 2011 11:173
    Content type: Research article Published on:

  21. The Iberian Peninsula is recognized as an important refugial area for species survival and diversification during the climatic cycles of the Quaternary. Recent phylogeographic studies have revealed Iberia as a...

    Authors: Andreia Miraldo, Godfrey M Hewitt, Octavio S Paulo and Brent C Emerson
    Citation: BMC Evolutionary Biology 2011 11:170
    Content type: Research article Published on:

  22. Plasmodium falciparum is the most malignant agent of human malaria. It belongs to the taxon Laverania, which includes other ape-infecting Plasmodium species. The origin of the Laverania is still debated. P. falci...

    Authors: Christian Pick, Ingo Ebersberger, Tobias Spielmann, Iris Bruchhaus and Thorsten Burmester
    Citation: BMC Evolutionary Biology 2011 11:167
    Content type: Research article Published on:

  23. Lysozyme c (chicken-type lysozyme) has an important role in host defense, and has been extensively studied as a model in molecular biology, enzymology, protein chemistry, and crystallography. Traditionally, lysoz...

    Authors: David M Irwin, Jason M Biegel and Caro-Beth Stewart
    Citation: BMC Evolutionary Biology 2011 11:166
    Content type: Research article Published on:

  25. The Old World warbler genus Sylvia has been used extensively as a model system in a variety of ecological, genetic, and morphological studies. The genus is comprised of about 25 species, and 70% of these species ...

    Authors: Gary Voelker and Jessica E Light
    Citation: BMC Evolutionary Biology 2011 11:163
    Content type: Research article Published on:

  26. Studies of the phylogeography of Mexican species are steadily revealing genetic patterns shared by different species, which will help to unravel the complex biogeographic history of the region. Campostoma ornatum

    Authors: Omar Domínguez-Domínguez, Marta Vila, Rodolfo Pérez-Rodríguez, Nuria Remón and Ignacio Doadrio
    Citation: BMC Evolutionary Biology 2011 11:153
    Content type: Research article Published on:

  28. Ribosomal 5S genes are well known for the critical role they play in ribosome folding and functionality. These genes are thought to evolve in a concerted fashion, with high rates of homogenization of gene copi...

    Authors: Danillo Pinhal, Tatiana S Yoshimura, Carlos S Araki and Cesar Martins
    Citation: BMC Evolutionary Biology 2011 11:151
    Content type: Research article Published on:

  29. The genus Corbicula is one of the most invasive groups of molluscs. It includes both sexual and androgenetic lineages. The present study re-assessed the different morphotypes and haplotypes of West European Corbi...

    Authors: Lise-Marie Pigneur, Jonathan Marescaux, Kathleen Roland, Emilie Etoundi, Jean-Pierre Descy and Karine Van Doninck
    Citation: BMC Evolutionary Biology 2011 11:147
    Content type: Research article Published on:

  30. Failure to account for covariation patterns in helical regions of ribosomal RNA (rRNA) genes has the potential to misdirect the estimation of the phylogenetic signal of the data. Furthermore, the extremes of l...

    Authors: Harald O Letsch and Karl M Kjer
    Citation: BMC Evolutionary Biology 2011 11:146
    Content type: Research article Published on:

  31. Earth history events such as climate change are believed to have played a major role in shaping patterns of genetic structure and diversity in species. However, there is a lag between the time of historical ev...

    Authors: Brian Tilston Smith, Patricia Escalante, Blanca E Hernández Baños, Adolfo G Navarro-Sigüenza, Sievert Rohwer and John Klicka
    Citation: BMC Evolutionary Biology 2011 11:136
    Content type: Research article Published on:

  32. Publication of the first diatom genome, that of Thalassiosira pseudonana, established it as a model species for experimental and genomic studies of diatoms. Virtually every ensuing study has treated T. pseudonana

    Authors: Andrew J Alverson, Bánk Beszteri, Matthew L Julius and Edward C Theriot
    Citation: BMC Evolutionary Biology 2011 11:125
    Content type: Research article Published on:

  35. The Eastern Arc Mountains of Africa have become one of the focal systems with which to explore the patterns and mechanisms of diversification among montane species and populations. One unresolved question is t...

    Authors: Jérôme Fuchs, Jon Fjeldså and Rauri CK Bowie
    Citation: BMC Evolutionary Biology 2011 11:117
    Content type: Research article Published on:

  36. Cetacea (dolphins, porpoises, and whales) is a clade of aquatic species that includes the most massive, deepest diving, and largest brained mammals. Understanding the temporal pattern of diversification in the...

    Authors: Jonathan H Geisler, Michael R McGowen, Guang Yang and John Gatesy
    Citation: BMC Evolutionary Biology 2011 11:112
    Content type: Research article Published on:

  37. The classification of the Musaceae (banana) family species and their phylogenetic inter-relationships remain controversial, in part due to limited nucleotide information to complement the morphological and phy...

    Authors: Pavla Christelová, Miroslav Valárik, Eva Hřibová, Edmond De Langhe and Jaroslav Doležel
    Citation: BMC Evolutionary Biology 2011 11:103
    Content type: Research article Published on:

  38. Representatives of Cetacea have the greatest absolute brain size among animals, and the largest relative brain size aside from humans. Despite this, genes implicated in the evolution of large brain size in pri...

    Authors: Michael R McGowen, Stephen H Montgomery, Clay Clark and John Gatesy
    Citation: BMC Evolutionary Biology 2011 11:98
    Content type: Research article Published on:

  39. Deep-sea hydrothermal vent animals occupy patchy and ephemeral habitats supported by chemosynthetic primary production. Volcanic and tectonic activities controlling the turnover of these habitats contribute to...

    Authors: D Katharine Coykendall, Shannon B Johnson, Stephen A Karl, Richard A Lutz and Robert C Vrijenhoek
    Citation: BMC Evolutionary Biology 2011 11:96
    Content type: Research article Published on:

  40. Studies on genome size variation in animals are rarely done at lower taxonomic levels, e.g., slightly above/below the species level. Yet, such variation might provide important clues on the tempo and mode of g...

    Authors: Claus-Peter Stelzer, Simone Riss and Peter Stadler
    Citation: BMC Evolutionary Biology 2011 11:90
    Content type: Research article Published on:

  41. Social Amoebae or Dictyostelia are eukaryotic microbes with a unique life cycle consisting of both uni- and multicellular stages. They have long fascinated molecular, developmental and evolutionary biologists,...

    Authors: Maria Romeralo, James C Cavender, John C Landolt, Steven L Stephenson and Sandra L Baldauf
    Citation: BMC Evolutionary Biology 2011 11:84
    Content type: Research article Published on:

  42. Colobine monkeys constitute a diverse group of primates with major radiations in Africa and Asia. However, phylogenetic relationships among genera are under debate, and recent molecular studies with incomplete...

    Authors: Christian Roos, Dietmar Zinner, Laura S Kubatko, Christiane Schwarz, Mouyu Yang, Dirk Meyer, Stephen D Nash, Jinchuan Xing, Mark A Batzer, Markus Brameier, Fabian H Leendertz, Thomas Ziegler, Dyah Perwitasari-Farajallah, Tilo Nadler, Lutz Walter and Martin Osterholz
    Citation: BMC Evolutionary Biology 2011 11:77
    Content type: Research article Published on:

  44. Dogs were an important element in many native American cultures at the time Europeans arrived. Although previous ancient DNA studies revealed the existence of unique native American mitochondrial sequences, th...

    Authors: Santiago Castroviejo-Fisher, Pontus Skoglund, Raúl Valadez, Carles Vilà and Jennifer A Leonard
    Citation: BMC Evolutionary Biology 2011 11:73
    Content type: Research article Published on:

  45. Studies on allele length polymorphism designate several glacial refugia for Norway spruce (Picea abies) in the South Carpathian Mountains, but infer only limited expansion from these refugia after the last glacia...

    Authors: Enikő K Magyari, Ágnes Major, Miklós Bálint, Judit Nédli, Mihály Braun, István Rácz and Laura Parducci
    Citation: BMC Evolutionary Biology 2011 11:66
    Content type: Research article Published on:

  46. Previous DNA-based phylogenetic studies of the Delphinidae family suggest it has undergone rapid diversification, as characterised by unresolved and poorly supported taxonomic relationships (polytomies) for so...

    Authors: Julia T Vilstrup, Simon YW Ho, Andrew D Foote, Phillip A Morin, Danielle Kreb, Michael Krützen, Guido J Parra, Kelly M Robertson, Renaud de Stephanis, Philippe Verborgh, Eske Willerslev, Ludovic Orlando and M Thomas P Gilbert
    Citation: BMC Evolutionary Biology 2011 11:65
    Content type: Research article Published on:

  47. Hainan Island is located around the conjunction of East Asia and Southeast Asia, and during the Last Glacial Maximum (LGM) was connected with the mainland. This provided an opportunity for the colonization of ...

    Authors: Min-Sheng Peng, Jun-Dong He, Hai-Xin Liu and Ya-Ping Zhang
    Citation: BMC Evolutionary Biology 2011 11:46
    Content type: Research article Published on:

  48. Mycorrhizal fungi form intimate associations with their host plants that constitute their carbon resource and habitat. Alnus spp. (Betulaceae) are known to host an exceptional species-poor and specialized ectomyc...

    Authors: Juliette Rochet, Pierre-Arthur Moreau, Sophie Manzi and Monique Gardes
    Citation: BMC Evolutionary Biology 2011 11:40
    Content type: Research article Published on:

  49. SelB is the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome. In archaea, only a subset of methanogens utilizes selenocysteine and encodes archaeal SelB (aSelB). A SelB-like (aS...

    Authors: Gemma C Atkinson, Vasili Hauryliuk and Tanel Tenson
    Citation: BMC Evolutionary Biology 2011 11:22
    Content type: Research article Published on:

  50. The archaeology of North Africa remains enigmatic, with questions of population continuity versus discontinuity taking centre-stage. Debates have focused on population transitions between the bearers of the Middl...

    Authors: Luísa Pereira, Nuno M Silva, Ricardo Franco-Duarte, Verónica Fernandes, Joana B Pereira, Marta D Costa, Haidé Martins, Pedro Soares, Doron M Behar, Martin B Richards and Vincent Macaulay
    Citation: BMC Evolutionary Biology 2010 10:390
    Content type: Research article Published on:
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