2015 Prum et al.
NATURE; doi:10.1038/nature15697 Show Details
The first Anchored Phylogenomics project in birds resolves one of the greatest challenges in dinosaur systematics: resolving the deep branches of the avian phylogeny. The combination of high taxon sampling and high levels of phylogenetic information in anchored loci facilitated identification of several novel clades and successfully placed enigmatic species.
|Authors:||Prum R., Berv J., Dornburg A., Field D., Townsend J., Lemmon E., and Lemmon A.|
2015 Ruane et al.
In Press Show Details
Anchored Phylogenomic data provide support for a monophyletic radiation of Pseudoxyrhophiine snakes in Madagascar. Feeding specialization associated with tooth venom delivery is thought to have played a major role in the early diversification of this radiation.
|Authors:||Ruane S., Raxworthy C., Lemmon A., Lemmon E., and Burbrink F.|
2015 Brandley, M.C. et al .
BMC EvolBio; DOI 10.1186/s12862-015-0318-0 Show Details
Anchored Phylogenomics provided resolution at both phylogeographic and phylogenetic levels in skinks. In a comparison to transcriptome data, Anchored Phylogenomic data sets were found to perform as well or better and to be more cost effective, thus allowing greater taxon sampling. This study collected data using the original Vertebrate v1 capture probe design. We have since developed a much improved amniote-specific design.
|Authors:||Brandley M., Bragg J.,Singhal S., Chapple D., Jennings C., Lemmon A., Lemmon E., Thompson M., and Moritz C.|
2015 Eytan, R.I. et al.
BMC EvolBio; DOI 10.1186/s12862-015-0415-0 Show Details
Improved modeling and Anchored Phylogenomic data facilitate resolution of deep relationships in the fish clade Ovalentaria. This study collected data using the original Vertebrate v1 capture probe design. We have since developed a much improved fish-specific design that have been used in several projects currently underway.
|Authors:||Eytan R., Evans B., Dornburg A., Lemmon A., Lemmon E., Wainwright P., and Near T.|
2015 Peloso, P. et al.
Cladistics 10.1111/cla.12118 Show Details
Narrow mouth frog (Microhylidae) relationships are studied using the original Vertebrate 1 design.
|Authors:||Peloso P., Frost D., Richards S., Rodrigues M., Donnallan S., Matsui M., Raxworthy C., Biju S., Lemmon E., Lemmon A., and Wheeler W.|
2014 Pyron, R.A. et al.
MPE Show Details
Anchored hybrid enrichment (v1 Vertebrate design) is used to sequence 333 nuclear loci for estimating the phylogeny of Caenodhidian snakes.
|Authors:||Pyron A., Hendry C., Chou V., Lemmon E., Lemmon A., and Burbrink F.|
Science Show Details
Science reviews emerging hybrid enrichment approaches, including Anchored Hybrid Enrichment.
2013 Lemmon, E.M. and Lemmon, A.R.
Annu. Rev. Ecol. Evol. Syst. 2013. 44:99–12; doi: 10.1146/annurev-ecolsys-110512-135822 Show Details
We review current methods for phylogenomic data collection and analysis, highlighting hybrid enrichment as an efficient method for collecting high quality data.
2012 Lemmon, A. R. and E. C. Lemmon
SYSTEMATIC BIOLOGY. 61:745-761. Show Details
We present the Anchored Phylogenomics approach. Using a small number of reference genomes in vertebrates, we develop an enrichment kit that can be used to obtain hundreds of loci for any vertebrate species. This new approach removes the primary bottleneck in phylogenetics - locus development, and reduces the cost of data collection by several orders of magnitude.
2012 Lemmon, A. R., S. Emme and E. C. Lemmon
SYSTEMATIC BIOLOGY. 61: 721-744. Show Details
We present a restriction-enzyme-based method for developing nuclear loci for shallow scale phylogenetics.
2012 B. Carstens, A. R. Lemmon, and E. Moriarty Lemmon
SYSTEMATIC BIOLOGY. 61:713-715. Show Details
The promises and pitfalls of next-generation sequencing data in phylogeography