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Holder MT, Erdmann MV, Wilcox TP, Caldwell RL, Hillis DM.  1999.  Two living species of coelacanths? Proceedings of the National Academy of Sciences. 96:12616-12620.
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Edgcomb V, Orsi W, Bunge J, Jeon SO, Christen R, Leslin C, Holder M, Taylor GT, Suarez P, Varela R et al..  2011.  Protistan Microbial Observatory in the Cariaco Basin, Caribbean. I. Species richness and endemicity. ISME Journal. 5(8):1344-1356.
Evans NM, Holder MT, Barbeitos MS, Okamura B, Cartwright P.  2010.  The Phylogenetic Position of Myxozoa: Exploring Conflicting Signals in Phylogenomic and Ribosomal Data Sets. Molecular Biology and Evolution. 27:2733–2746.
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Vos RA, Balhoff JP, Caravas J, Holder MT, Lapp H, Maddison WP, Midford P, Priyam A, Sukumaran J, Xia X et al..  2012.  NeXML: rich, extensible, and verifiable representation of comparative data and metadata. Systematic Biology. 61(4):675-689.
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Liberles DA, Teichmann SA, Bahar I, Bastolla U, Bloom J, Bornberg-Bauer E, Colwell LJ, de Koning JAP, Dokholyan NV, Echave J et al..  2012.  The interface of protein structure, protein biophysics, and molecular evolution. Protein Science. 21:769-785.
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Ayres DL, Darling A, Zwickl DJ, Beerli P, Holder MT, Lewis PO, Huelsenbeck JP, Ronquist F, Swofford DL, Cummings MP et al..  2012.  BEAGLE: an Application Programming Interface and High-Performance Computing Library for Statistical Phylogenetics. Systematic Biology. 61(1):170-173.
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Grismer LL, Neang T, Chav T, Perry L. Wood J, Oaks JR, Holden J, Grismer JL, Szutz TR, Youmans TM.  2008.  Additional amphibians and reptiles from the Phnom Samkos Wildlife Sanctuary in Northwestern Cardamom Mountains, Cambodia, with comments on their taxonomy and the discovery of four new species. Raffles Bulletin of Zoology. 56:161-175.