[HTML][HTML] Implementing and testing the multispecies coalescent model: a valuable paradigm for phylogenomics
In recent articles published in Molecular Phylogenetics and Evolution, Mark Springer and
John Gatesy (S&G) present numerous criticisms of recent implementations and testing of the …
John Gatesy (S&G) present numerous criticisms of recent implementations and testing of the …
High-throughput genomic data in systematics and phylogenetics
High-throughput genomic sequencing is rapidly changing the field of phylogenetics by
decreasing the cost and increasing the quantity and rate of data collection by several orders …
decreasing the cost and increasing the quantity and rate of data collection by several orders …
TreeShrink: fast and accurate detection of outlier long branches in collections of phylogenetic trees
Background Sequence data used in reconstructing phylogenetic trees may include various
sources of error. Typically errors are detected at the sequence level, but when missed, the …
sources of error. Typically errors are detected at the sequence level, but when missed, the …
Unguided species delimitation using DNA sequence data from multiple loci
A method was developed for simultaneous Bayesian inference of species delimitation and
species phylogeny using the multispecies coalescent model. The method eliminates the …
species phylogeny using the multispecies coalescent model. The method eliminates the …
Anchored hybrid enrichment for massively high-throughput phylogenomics
The field of phylogenetics is on the cusp of a major revolution, enabled by new methods of
data collection that leverage both genomic resources and recent advances in DNA …
data collection that leverage both genomic resources and recent advances in DNA …
Species delimitation using genome-wide SNP data
The multispecies coalescent has provided important progress for evolutionary inferences,
including increasing the statistical rigor and objectivity of comparisons among competing …
including increasing the statistical rigor and objectivity of comparisons among competing …
Spider phylogenomics: untangling the Spider Tree of Life
ABSTRACT Spiders (Order Araneae) are massively abundant generalist arthropod
predators that are found in nearly every ecosystem on the planet and have persisted for over …
predators that are found in nearly every ecosystem on the planet and have persisted for over …
Genome‐wide RAD sequence data provide unprecedented resolution of species boundaries and relationships in the L ake V ictoria cichlid adaptive radiation
Although population genomic studies using next generation sequencing (NGS) data are
becoming increasingly common, studies focusing on phylogenetic inference using these …
becoming increasingly common, studies focusing on phylogenetic inference using these …
Mammal madness: is the mammal tree of life not yet resolved?
NM Foley, MS Springer… - … Transactions of the …, 2016 - royalsocietypublishing.org
Most molecular phylogenetic studies place all placental mammals into four superordinal
groups, Laurasiatheria (eg dogs, bats, whales), Euarchontoglires (eg humans, rodents …
groups, Laurasiatheria (eg dogs, bats, whales), Euarchontoglires (eg humans, rodents …
The gene tree delusion
MS Springer, J Gatesy - Molecular phylogenetics and evolution, 2016 - Elsevier
Higher-level relationships among placental mammals are mostly resolved, but several
polytomies remain contentious. Song et al.(2012) claimed to have resolved three of these …
polytomies remain contentious. Song et al.(2012) claimed to have resolved three of these …