Ultrafast approximation for phylogenetic bootstrap

BQ Minh, MAT Nguyen… - Molecular biology and …, 2013 - academic.oup.com
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 …

DAMBE5: a comprehensive software package for data analysis in molecular biology and evolution

X Xia - Molecular biology and evolution, 2013 - academic.oup.com
Since its first release in 2001 as mainly a software package for phylogenetic analysis, data
analysis for molecular biology and evolution (DAMBE) has gained many new functions that …

The sections of Alternaria: formalizing species-group concepts

DP Lawrence, PB Gannibal, TL Peever, BM Pryor - Mycologia, 2013 - Taylor & Francis
The systematics of Alternaria and allied genera traditionally has been based on the
characteristics of conidia and the sporulation apparatus. This emphasis on morphology in …

[HTML][HTML] Amblyomma cajennense (Fabricius, 1787) (Acari: Ixodidae), the Cayenne tick: phylogeography and evidence for allopatric speciation

L Beati, S Nava, EJ Burkman, DM Barros-Battesti… - BMC Evolutionary …, 2013 - Springer
Background Amblyomma cajennense F. is one of the best known and studied ticks in the
New World because of its very wide distribution, its economical importance as pest of …

Pushing short DNA fragments to the limit: phylogenetic relationships of 'hydrobioid'gastropods (Caenogastropoda: Rissooidea)

T Wilke, M Haase, R Hershler, HP Liu, B Misof… - Molecular phylogenetics …, 2013 - Elsevier
Although phylogenetic studies are increasingly utilizing multi-locus datasets, a review of
GenBank data for the Gastropoda indicates a strong bias towards a few short gene …

[HTML][HTML] Assessing phylogenetic relationships among Galliformes: a multigene phylogeny with expanded taxon sampling in Phasianidae

N Wang, RT Kimball, EL Braun, B Liang, Z Zhang - PloS one, 2013 - journals.plos.org
Galliform birds (relatives of the chicken and turkey) have attracted substantial attention due
to their importance to society and value as model systems. This makes understanding the …

Phylotranscriptomics: saturated third codon positions radically influence the estimation of trees based on next-gen data

JW Breinholt, AY Kawahara - Genome Biology and Evolution, 2013 - academic.oup.com
Recent advancements in molecular sequencing techniques have led to a surge in the
number of phylogenetic studies that incorporate large amounts of genetic data. We test the …

Fixed, free, and fixed: the fickle phylogeny of extant Crinoidea (Echinodermata) and their Permian–Triassic origin

GW Rouse, LS Jermiin, NG Wilson, I Eeckhaut… - Molecular Phylogenetics …, 2013 - Elsevier
Although the status of Crinoidea (sea lilies and featherstars) as sister group to all other living
echinoderms is well-established, relationships among crinoids, particularly extant forms, are …

Recent Diversification of a Marine Genus (Tursiops spp.) Tracks Habitat Preference and Environmental Change

AE Moura, SCA Nielsen, JT Vilstrup… - Systematic …, 2013 - academic.oup.com
Understanding the evolution of diversity and the resulting systematics in marine systems is
confounded by the lack of clear boundaries in oceanic habitats, especially for highly mobile …

The evolutionary history of T richoptera (I nsecta): A case of successful adaptation to life in freshwater

T Malm, KA Johanson, N Wahlberg - Systematic Entomology, 2013 - Wiley Online Library
The insect order T richoptera (caddisflies) forms the second most species‐rich monophyletic
group of animals in freshwater. So far, several attempts have been made to elucidate its …