Phylogenies and community ecology

CO Webb, DD Ackerly, MA McPeek… - Annual review of …, 2002 - annualreviews.org
▪ Abstract As better phylogenetic hypotheses become available for many groups of
organisms, studies in community ecology can be informed by knowledge of the evolutionary …

Species-level paraphyly and polyphyly: frequency, causes, and consequences, with insights from animal mitochondrial DNA

DJ Funk, KE Omland - Annual Review of Ecology, Evolution …, 2003 - annualreviews.org
▪ Abstract Many uses of gene trees implicitly assume that nominal species are monophyletic
in their alleles at the study locus. However, in well-sampled gene trees, certain alleles in one …

Species diversity, updated classification and divergence times of the phylum Mucoromycota

H Zhao, Y Nie, TK Zong, K Wang, ML Lv, YJ Cui… - Fungal Diversity, 2023 - Springer
Zygomycetes are phylogenetically early diverging, ecologically diverse, industrially
valuable, agriculturally beneficial, and clinically pathogenic fungi. Although new phyla and …

A general species delimitation method with applications to phylogenetic placements

J Zhang, P Kapli, P Pavlidis, A Stamatakis - Bioinformatics, 2013 - academic.oup.com
Motivation: Sequence-based methods to delimit species are central to DNA taxonomy,
microbial community surveys and DNA metabarcoding studies. Current approaches either …

Delimiting species using single-locus data and the Generalized Mixed Yule Coalescent approach: a revised method and evaluation on simulated data sets

T Fujisawa, TG Barraclough - Systematic biology, 2013 - academic.oup.com
DNA barcoding-type studies assemble single-locus data from large samples of individuals
and species, and have provided new kinds of data for evolutionary surveys of diversity. An …

Phylogenetic patterns are not proxies of community assembly mechanisms (they are far better)

P Gerhold, JF Cahill Jr, M Winter, IV Bartish… - Functional …, 2015 - Wiley Online Library
The subdiscipline of 'community phylogenetics' is rapidly growing and influencing thinking
regarding community assembly. In particular, phylogenetic dispersion of co‐occurring …

Sequence-based species delimitation for the DNA taxonomy of undescribed insects

J Pons, TG Barraclough, J Gomez-Zurita… - Systematic …, 2006 - academic.oup.com
Cataloging the very large number of undescribed species of insects could be greatly
accelerated by automated DNA based approaches, but procedures for large-scale species …

Speciation dynamics during the global radiation of extant bats

JJ Shi, DL Rabosky - Evolution, 2015 - academic.oup.com
Species richness varies widely across extant clades, but the causes of this variation remain
poorly understood. We investigate the role of diversification rate heterogeneity in sha** …

Ecology and the origin of species

D Schluter - Trends in ecology & evolution, 2001 - cell.com
The ecological hypothesis of speciation is that reproductive isolation evolves ultimately as a
consequence of divergent natural selection on traits between environments. Ecological …

Predictions and tests of climate‐based hypotheses of broad‐scale variation in taxonomic richness

DJ Currie, GG Mittelbach, HV Cornell, R Field… - Ecology …, 2004 - Wiley Online Library
Broad‐scale variation in taxonomic richness is strongly correlated with climate. Many
mechanisms have been hypothesized to explain these patterns; however, testable …