Global elevational diversity and diversification of birds

Nature, Год журнала: 2018, Номер 555(7695), С. 246 - 250

Опубликована: Фев. 21, 2018

Язык: Английский

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Speciation dynamics during the global radiation of extant bats

Evolution, Год журнала: 2015, Номер 69(6), С. 1528 - 1545

Опубликована: Май 9, 2015

Species richness varies widely across extant clades, but the causes of this variation remain poorly understood. We investigate role diversification rate heterogeneity in shaping patterns diversity families bats. To provide a robust framework for macroevolutionary inference, we assemble time-calibrated, species-level phylogeny using supermatrix mitochondrial and nuclear sequence data. analyze Bayesian method modeling complex evolutionary dynamics. Surprisingly, find that family can largely be explained without invoking heterogeneous document only single well-supported shift dynamics bats, occurring at base subfamily Stenodermatinae. Bat is phylogenetically imbalanced, but-contrary to previous hypotheses-this pattern unexplained by any simple heterogeneity. This discordance may indicate are more than captured statistical tools available data scale. infer bats as whole almost entirely united into one cohort, with decelerating speciation through time. There also significant relationship between clade age richness, suggesting global bat still expanding.

Язык: Английский

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Impact of whole‐genome duplication events on diversification rates in angiosperms

American Journal of Botany, Год журнала: 2018, Номер 105(3), С. 348 - 363

Опубликована: Март 1, 2018

Polyploidy or whole-genome duplication (WGD) pervades the evolutionary history of angiosperms. Despite extensive progress in our understanding WGD, role these events promoting diversification is still not well understood. We seek to clarify possible association between WGD and rates flowering plants.Using a previously published phylogeny spanning all land plants (31,749 tips) inferred from analyses 1000 Plants (1KP) transcriptome data, we analyzed WGDs following numerous across used stepwise AIC approach (MEDUSA), Bayesian mixture model (BAMM), state-dependent (MuSSE) investigate patterns diversification. Sister-clade comparisons were species richness after WGDs.Based on density 1KP taxon sampling, 106 unambiguously placed angiosperm phylogeny. identified 334-530 shifts rates. found that 61 tightly linked changes rates, indicated higher speciation for subsequent rounds WGD. Additionally, 70 99 showed an increase compared sister clade.Forty-six appear be closely associated with upshifts rate Shifts do more likely than random within four-node lag phase WGD; however, younger are followed by upshift older events.

Язык: Английский

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RPANDA: an R package for macroevolutionary analyses on phylogenetic trees

Methods in Ecology and Evolution, Год журнала: 2015, Номер 7(5), С. 589 - 597

Опубликована: Дек. 15, 2015

Summary A number of approaches for studying macroevolution using phylogenetic trees have been developed in the last few years. Here, we present RPANDA , an R package that implements model‐free and model‐based comparative methods macroevolutionary analyses. The implemented are recently stemming from graph theory allow summarizing information contained trees, computing distances between clustering them accordingly. They also identifying distinct branching patterns within single trees. likelihood‐based models fitting various diversification to It includes birth–death with i) constant, ii) time‐dependent iii) environmental‐dependent speciation extinction rates. equilibrium diversity derived coalescent process, as well a inference framework fit individual‐based model Speciation by Genetic Differentiation, which is extension Hubbell's neutral biodiversity. can be used (i) characterize plotting their spectral density profiles (ii) compare cluster according similarities, (iii) identify plot (iv) alternative (v) estimate rates extinction, (vi) how these varied time environmental variables (vii) deduce estimates species richness through geological time. provides investigators set tools exploring thereby contributing ongoing development phylogenetics life sciences.

Язык: Английский

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Muroid rodent phylogenetics: 900-species tree reveals increasing diversification rates

PLoS ONE, Год журнала: 2017, Номер 12(8), С. e0183070 - e0183070

Опубликована: Авг. 16, 2017

We combined new sequence data for more than 300 muroid rodent species with our previously published sequences up to five nuclear and one mitochondrial genes generate the most widely densely sampled hypothesis of evolutionary relationships across Muroidea. An exhaustive screening procedure publically available was implemented avoid propagation taxonomic errors that are common supermatrix studies. The set carefully screened derived from all on GenBank resulted in a robust maximum likelihood phylogeny 900 approximately 1,620 muroids. Several regions were equivocally resolved previous studies now decisively resolved, we estimated chronogram using 28 fossil calibrations integrated age topological estimates date. results used update classification highlight questions needing additional data. also compared multigene like this principal supertrees concluded latter unreliable any comparative study In addition, explored diversification patterns as an explanation why rodents represent species-rich groups mammals by detecting evidence increasing net rates through time tree. suggest observation may be due combination parallel increases rate clades high average extinction rates. Five increased diversification-rate-shifts inferred, suggesting multiple, but perhaps not independent, events have led remarkable diversity superfamily. Our provide phylogenetic framework is highly dependent upon signal gene.

Язык: Английский

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