Showing papers in "Molecular Phylogenetics and Evolution in 2010"

TL;DR: A Statistical Dispersal-Vicariance Analysis (S-DIVA) is used to statistically evaluate the alternative ancestral ranges at each node in a tree accounting for phylogenetic uncertainty and uncertainty in DIVA optimization.

TL;DR: The field of phylogeography as mentioned in this paper was originally proposed by Avise and colleagues, who integrated phylogenetics and popu- lation genetics for investigating the connection between micro- and macroevolutionary phenomena.

TL;DR: FASconCAT is a user-friendly software that concatenates rapidly different kinds of sequence data into one supermatrix file that is directly loadable in phylogenetic programs like PAUP *, RAxML or MrBayes.

TL;DR: A new clade of Symbiodinium isolated from soritid foraminifera from Hawai'i is described, which is thought to be the first of its kind reported since 2001.

TL;DR: The first comprehensive phylogenetic analysis of Acariformes using sequence data from the nuclear small subunit rRNA gene (18S rDNA) and the mitochondrial cytochrome c oxidase subunit I (COI, amino acids) confirms the monophyly of Acari and recognizes two orders within Acari: Sarcoptiformes, consisting of Endeostigmata and Oribatida+Astigmata, and Trombidiformes.

TL;DR: Using Bayesian relaxed molecular clock analysis, it is shown that the BACR is likely to represent a gradual diversification spanning most of the Lower Cretaceous rather than a sudden radiation.

TL;DR: The data refute the recently proposed hypothesis of a southern Holocene colonization of the Atlantic Forest from northern refugia, suggesting instead persistence of forested habitats in the south.

TL;DR: This study investigated the phylogenetic relationships among carnivoran families, and performed molecular dating analyses of the inferred nodes, leading to consistent and robust resolution of all supra-familial nodes in the carnivoran tree.

TL;DR: This work examined geographic patterns of intraspecific and interspecific genetic variation to detect whether incongruences in nuclear or plastid DNA phylogenies occur, and found that N. antarctica was a sister to a clade of evergreen species and N. pumilio likely diverged earlier.

TL;DR: It is concluded that, far from a hindrance, mtDNA is generally a useful tool that should continue to facilitate delimitation of avian species and other criteria must be employed.

TL;DR: The results confirm previous findings suggesting that the dog was domesticated from the Eurasian wolf and are congruent with the Near East domestication of the cat and indicate numerous problems with current classification.

TL;DR: Xylaria appears to be a paraphyletic genus, with most of the 11 genera submerged within it, and apparently diverged from Xylaria and the other genera early.

TL;DR: The maximum likelihood and Bayesian analysis of DNA sequences provides strong support for the monophyly of the Chloridoideae; a new tribal and subtribal classification for all known genera is proposed.

TL;DR: The largest molecular phylogeny of Neotropical cichlid fishes produced to date is reported, combining data from three mitochondrial and two nuclear markers for 57 named genera and 154 species from South and Central America.

TL;DR: The phylogenetic relationships of the Danioninae are examined and the resulting topology supports some conclusions drawn by recent studies on the group and certain portions of the traditional classification, but the results also contradict key aspects of theTraditional classification.

TL;DR: The results suggest that cox1 might not be an optimal gene for implementing molecular clocks in deep phylogenies for beetles because it shows relatively slow rates at first and second codon positions but very fast rates at third ones, while nad5, nad4 and nad2 perform better, as they exhibit more homogeneous rates amongcodon positions.

TL;DR: Dated biogeographic analyses suggest that Momordica originated in tropical Africa and that the Asian species are the result of one long-distance dispersal event about 19million years ago and the pantropical vegetableMomordica charantia is of African, not Asian origin as had previously been suggested.

TL;DR: A summary phylogenetic hypothesis is provided that will be broadly applicable to investigations of the historical biogeography, processes of diversification, and evolution of trait variation in this well studied avian group.

TL;DR: Unless certain other subfamilial names are to be disregarded, the use of Tetragonopterinae should continue to be restricted to species of T Petragonopterus because other genera previously referred to this subfamily grouped in clades A or C, quite distant from Tetragonsopterus.

TL;DR: A new tree from maximum likelihood analysis is presented, including data for 362 hylid taxa for up to 11 genes (4 mitochondrial, 7 nuclear), including 70 additional taxa and >270 sequences not included in the previously most comprehensive analysis.

TL;DR: An unexpected diversity, distribution, and ancient origin of a group of commercially valuable mushrooms that may provide an economic incentive for conservation and support the hypothesis of a tropical origin of the ectomycorrhizal symbiosis is revealed.

TL;DR: The evolutionary history of the endemic Lake Tanganyika cichlid tribe Tropheini, the sister group of the species flocks of Lake Malawi and the Lake Victoria region, was reconstructed from 2009 bp DNA sequence of two mitochondrial genes and AFLP markers.

TL;DR: The intra and interspecific variation detected in this study provides a genetic basis for seven species groups of echinostomes which will help accurately identify agents of disease as well as reveal cryptic aspects of trematode biology.

TL;DR: It is argued that this may be an artefact of the existence of unsampled or extinct sexual lineages, and a revision of the single species status of E. virens is suggested.

TL;DR: The results show that the evolution of the genus Ovis is a striking example of successive speciation events occurring along the migration routes propagating from the ancestral area, followed by a migration to North America through North-Eastern Asia and the Bering Strait and a diversification of the species in Eurasia less than 3 million years ago.

TL;DR: The results strongly support the monophyly of Sceloporus (including Sator) and many of the relationships within it and a phylogeny for 122 phrynosomatid species based on maximum likelihood analysis of the combined data is presented, which provides a strongly-supported hypothesis for relationships.

TL;DR: Results showed a pattern of isolation by distance and a positive but weak correlation between some soil properties and genetic distances, which indicates that these populations may have been shaped genetically but not morphologically, by the environment.

TL;DR: A molecular investigation of 41 cultured strains, for which nuclear-encoded ITS rDNA and partial actin I sequences were determined, revealed considerable differences in their evolutionary dynamics as well as sequence variation in Asterochloris.

TL;DR: All data sets suggest a monophyly of the New World taxa and argue for long distance dispersal from the Old World, rather than a vicariance explanation.

TL;DR: The evolutionary history of Mimosoideae is reconstructed using the most comprehensive sampling to date, with an emphasis on African species, and the phylogenetic relationships among the five recognized genera within Acacieae are reconstructed to elucidate the paleo-biogeography of mimosoids and their adaptation to open habitats in the Cenozoic.