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Field guide to next‐generation DNA sequencers
- T. Glenn
- BiologyMolecular ecology resources
- 1 September 2011
T careful thought about the desired characteristics of these systems is warranted before purchasing or using any of them, and the major characteristics of each commercially available platform are summarized.
Ultraconserved elements anchor thousands of genetic markers spanning multiple evolutionary timescales.
- B. Faircloth, J. McCormack, Nicholas G. Crawford, Michael G. Harvey, R. T. Brumfield, T. Glenn
- BiologySystematic biology
- 1 October 2012
A new class of molecular marker, anchored by ultraconserved genomic elements (UCEs), that universally enable target enrichment and sequencing of thousands of orthologous loci across species separated by hundreds of millions of years of evolution is introduced.
Whole-genome analyses resolve early branches in the tree of life of modern birds
A genome-scale phylogenetic analysis of 48 species representing all orders of Neoaves recovered a highly resolved tree that confirms previously controversial sister or close relationships and identifies the first divergence in Neoaves, two groups the authors named Passerea and Columbea.
Isolating microsatellite DNA loci.
The genome of the green anole lizard and a comparative analysis with birds and mammals
Comparative gene analysis shows that amniote egg proteins have evolved significantly more rapidly than other proteins, and an anole phylogeny resolves basal branches to illuminate the history of their repeated adaptive radiations.
The drivers of tropical speciation
It is shown that spatial and temporal patterns of genetic differentiation in Neotropical birds are highly discordant across lineages and are not reconcilable with a model linking speciation solely to landscape change, and the strongest predictors of speciation are the amount of time a lineage has persisted in the landscape and the ability of birds to move through the landscape matrix.
Ultraconserved elements are novel phylogenomic markers that resolve placental mammal phylogeny when combined with species-tree analysis.
- J. McCormack, B. Faircloth, Nicholas G. Crawford, P. Gowaty, R. T. Brumfield, T. Glenn
- BiologyGenome research
- 1 April 2012
This study outlines a phylogenomic approach using a novel class of phylogenetic markers derived from ultraconserved elements and flanking DNA, and shows that this class of marker is useful for recovering deep-level phylogeny in placental mammals.
More than 1000 ultraconserved elements provide evidence that turtles are the sister group of archosaurs
- Nicholas G. Crawford, B. Faircloth, J. McCormack, R. T. Brumfield, K. Winker, T. Glenn
- Biology, Environmental ScienceBiology Letters
- 23 October 2012
The resulting phylogeny provides overwhelming support for the hypothesis that turtles evolved from a common ancestor of birds and crocodilians, rejecting the hypothesized relationship between turtles and lepidosaurs.
The Expression of Beta (β) Keratins in the Epidermal Appendages of Reptiles and Birds1
Immunological techniques show that the β keratin genes of avian epidermal appendages have homologues in the American alligator, suggesting the genes for reptilian β keratins may be homologous with those of birds.
Not All Sequence Tags Are Created Equal: Designing and Validating Sequence Identification Tags Robust to Indels
An open-source software package is developed to validate sequence tags for conformance to two distance metrics and design sequence tags robust to indel and substitution errors and it is found that PCR primers and sequencing adapters incorporating edit metric sequence tags designed by the software package perform as well as their commercial counterparts.