Publications

My Google Scholar Profile

Richards, E. J., J.M. Brown, A.J. Barley, R. Chong, R.C. Thomson. accepted pending revisions. Unexpected variation across mitochondrial gene trees and evidence for systematic error: How much gene tree variation is biological? bioRxiv preprint doi: http://doi.org/10.1101/171413.

Barley, A.J., J.M. Brown, R.C. Thomson. in press. Impact of model violations on the inference of species boundaries under the multispecies coalescent. Systematic Biology. doi: http://doi.org/10.1093/sysbio/syx073.

Nieto-Montes de Oca, A., A.J. Barley, R.N. Meza-Lázaro, U.O. García-Vázquez, J.G. Zamora-Abrego, R.C. Thomson, A.D. Leaché. 2017. Phylogenomics and species delimitation in the knob-scaled lizards of the genus Xenosaurus (Squamata: Xenosauridae) using ddRADseq data reveal a substantial underestimation of diversity. Molecular Phylogenetics and Evolution 106:241–253. Available

Barley, A.J., R.C. Thomson. 2016. Assessing the performance of DNA barcoding using posterior predictive simulations. Molecular Ecology 25:1944–1957. (Highlighted in ‘Perspective’: Coalescing molecular evolution and DNA barcoding, Pp. 1908–1910). Manuscript Perspective

Datta-Roy, A., V. Deepak, C. Sidharthan, A.J. Barley, K.P. Karanth. 2015. An addition to the endemic Indian radiation of Eutropis: Phylogenetic position of Eutropis dissimilis Hallowell (Squamata:Scincidae). Zootaxa 4027:145–150.

Barley, A.J., P.J. Monnahan, R.C. Thomson, L.L. Grismer, R.M. Brown. 2015. Sun skink landscape genomics: assessing the roles of microevolutionary processes in shaping genetic and phenotypic diversity across a heterogeneous and fragmented landscape. Molecular Ecology 24:1696–1712. Cover Article

Barley, A.J., A. Datta-Roy, K.P. Karanth, R.M. Brown. 2014. Sun skink diversification across the Indian-Southeast Asian biogeographical interface. Journal of Biogeography 42:292–304. Available

Brown, R.M., J.A. Weghorst, K.V. Olson, M.R.M. Duya, A.J. Barley, M.V. Duya, M. Shekelle, I. Neri-Arboleda, J.A. Esselstyn, N.J. Dominy, P.S. Ong, G.L. Moritz, A. Luczon, M.L.L. Diesmos, A.C. Diesmos, C.D. Siler. 2014. Conservation genetics of the Philippine tarsier: cryptic genetic variation restructures conservation priorities for an island archipelago primate. PLOS ONE 9, e104340. Available

Duellman, W.E., A.J. Barley, P.J. Venegas. 2014. Cryptic species diversity in marsupial frogs (Anura: Hemiphractidae: Gastrotheca) in the Andes of northern Peru. Zootaxa 3768:159–177.

Gonzalez, P., Y. Su, C.D. Siler, A.J. Barley, M.B. Sanguila, A.C. Diesmos, R.M. Brown. 2014. Archipelago colonization by ecologically dissimilar amphibians: evaluating the expectation of common evolutionary history of geographical diffusion in co-distributed rainforest tree frogs in islands of Southeast Asia. Molecular Phylogenetics and Evolution 72:35–41. Available

Barley, A.J., J. White, A.C. Diesmos, R.M. Brown. 2013. The challenge of species delimitation at the extremes: diversification without morphological change in Philippine sun skinks. Evolution 67:3556–3572. Available

Brown, R.M., C.D. Siler, C.H. Oliveros, J.A. Esselstyn, A.C. Diesmos, P.A. Hosner, C.W. Linkem, A.J. Barley, J.R. Oaks, M.B. Sanguila, L.J. Welton, D.S. Blackburn, R.G. Moyle, A.T. Peterson, A.C. Alcala. 2013. Evolutionary processes of diversification in a model island archipelago. Annual Review of Ecology, Evolution and Systematics 44:411–435. Available

McLeod, D.S., J.K. Kelly, A.J. Barley. 2012. “Same-same but different”: another new species of the Limnonectes kuhlii complex from Thailand (Anura: Dicroglossidae). Russian Journal of Herpetology 19:261–274.

McLeod, D.S., S.J. Horner, C. Husted, A.J. Barley, D. Iskandar. 2011. “Same-same, but different”: an unusual new species of the Limnonectes kuhlii complex from West Sumatra (Anura: Dicroglossidae). Zootaxa 2883:52–64.

Fuiten, A.M., L.J. Welton, A.C. Diesmos, A.J. Barley, B. Oberheide, M.V. Duya, E.L.B. Rico, R.M. Brown. 2011. A New Species of Stream Frog (Sanguirana) from the Mountains of Luzon Island, Philippines. Herpetologica 67:89–103. Available

Barley, A.J., P.Q. Spinks, R.C. Thomson, H.B Shaffer. 2010. Fourteen nuclear genes provide phylogenetic resolution for difficult nodes in the turtle tree of life. Molecular Phylogenetics and Evolution 55:1189­–1194. Available

Spinks, P.Q., R.C. Thomson, A.J. Barley, C.E. Newman, H.B. Shaffer. 2010. Testing avian, squamate, and mammalian nuclear markers for cross amplification in turtles. Conservation Genetics Resources 2:127–129. Available

Barley, A.J., R.M. Coleman. 2010. Habitat structure directly affects aggression in convict cichlids Archocentrus nigrofasciatus. Current Zoology 56:52–56. PDF