Matthew K. Fujita, Ph.D. - Publications

Affiliations: 
University of Texas at Arlington, Arlington, TX, United States 

47 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2020 O'Connell KA, Oaks JR, Hamidy A, Shaney KJ, Kurniawan N, Smith EN, Fujita MK. Impacts of the Toba eruption and montane forest expansion on diversification in Sumatran parachuting frogs (Rhacophorus). Molecular Ecology. PMID 32633832 DOI: 10.1111/mec.15541  0.44
2020 Firneno TJ, O'Neill JR, Portik DM, Emery AH, Townsend JH, Fujita MK. Finding complexity in complexes: assessing the causes of mitonuclear discordance in a problematic species complex of Mesoamerican toads. Molecular Ecology. PMID 32500624 DOI: 10.1111/mec.15496  0.32
2020 Shaney KJ, Maldonado J, Smart U, Thammachoti P, Fujita M, Hamidy A, Kurniawan N, Harvey MB, Smith EN. Phylogeography of montane dragons could shed light on the history of forests and diversification processes on Sumatra. Molecular Phylogenetics and Evolution. 106840. PMID 32305510 DOI: 10.1016/j.ympev.2020.106840  0.36
2020 Leaché AD, Oaks JR, Ofori-Boateng C, Fujita MK. Comparative phylogeography of West African amphibians and reptiles. Evolution; International Journal of Organic Evolution. PMID 32067219 DOI: 10.1111/evo.13941  1
2018 O'Connell KA, Hamidy A, Kurniawan N, Smith EN, Fujita MK. Synchronous diversification of parachuting frogs (Genus Rhacophorus) on Sumatra and Java. Molecular Phylogenetics and Evolution. PMID 29496542 DOI: 10.1016/j.ympev.2018.02.003  0.36
2017 O'Connell KA, Streicher JW, Smith EN, Fujita MK. Geographical features are the predominant driver of molecular diversification in widely distributed North American Whipsnakes. Molecular Ecology. PMID 28802078 DOI: 10.1111/mec.14295  0.36
2017 Portik DM, Leaché AD, Rivera D, Barej MF, Burger M, Hirschfeld M, Rödel MO, Blackburn DC, Fujita MK. Evaluating mechanisms of diversification in a Guineo-Congolian tropical forest frog using demographic model selection. Molecular Ecology. PMID 28748565 DOI: 10.1111/mec.14266  1
2017 Schield DR, Adams RH, Card DC, Perry BW, Pasquesi GM, Jezkova T, Portik DM, Andrew AL, Spencer CL, Sanchez EE, Fujita MK, Mackessy SP, Castoe TA. Insight into the roles of selection in speciation from genomic patterns of divergence and introgression in secondary contact in venomous rattlesnakes. Ecology and Evolution. 7: 3951-3966. PMID 28616190 DOI: 10.1002/ece3.2996  0.32
2015 Moritz C, Fujita MK, Rosauer D, Agudo R, Bourke G, Doughty P, Palmer R, Pepper M, Potter S, Pratt R, Scott M, Tonione M, Donnellan S. Multilocus phylogeography reveals nested endemism in a gecko across the monsoonal tropics of Australia. Molecular Ecology. PMID 26671627 DOI: 10.1111/mec.13511  1
2015 Georges A, Li Q, Lian J, O'Meally D, Deakin J, Wang Z, Zhang P, Fujita M, Patel HR, Holleley CE, Zhou Y, Zhang X, Matsubara K, Waters P, Graves JA, et al. High-coverage sequencing and annotated assembly of the genome of the Australian dragon lizard Pogona vitticeps. Gigascience. 4: 45. PMID 26421146 DOI: 10.1186/s13742-015-0085-2  1
2015 Meik JM, Streicher JW, Lawing AM, Flores-Villela O, Fujita MK. Limitations of Climatic Data for Inferring Species Boundaries: Insights from Speckled Rattlesnakes. Plos One. 10: e0131435. PMID 26107178 DOI: 10.1371/journal.pone.0131435  1
2015 Rodríguez-Robles JA, Jezkova T, Fujita MK, Tolson PJ, García MA. Genetic divergence and diversity in the Mona and Virgin Islands Boas, Chilabothrus monensis (Epicrates monensis) (Serpentes: Boidae), West Indian snakes of special conservation concern. Molecular Phylogenetics and Evolution. 88: 144-53. PMID 25837733 DOI: 10.1016/j.ympev.2015.03.019  1
2014 Li C, Zhang Y, Li J, Kong L, Hu H, Pan H, Xu L, Deng Y, Li Q, Jin L, Yu H, Chen Y, Liu B, Yang L, Liu S, ... ... Fujita MK, et al. Two Antarctic penguin genomes reveal insights into their evolutionary history and molecular changes related to the Antarctic environment. Gigascience. 3: 27. PMID 25671092 DOI: 10.1186/2047-217X-3-27  1
2014 Green RE, Braun EL, Armstrong J, Earl D, Nguyen N, Hickey G, Vandewege MW, St John JA, Capella-Gutiérrez S, Castoe TA, Kern C, Fujita MK, Opazo JC, Jurka J, Kojima KK, et al. Three crocodilian genomes reveal ancestral patterns of evolution among archosaurs. Science (New York, N.Y.). 346: 1254449. PMID 25504731 DOI: 10.1126/science.1254449  1
2014 Card DC, Schield DR, Reyes-Velasco J, Fujita MK, Andrew AL, Oyler-McCance SJ, Fike JA, Tomback DF, Ruggiero RP, Castoe TA. Two low coverage bird genomes and a comparison of reference-guided versus de novo genome assemblies. Plos One. 9: e106649. PMID 25192061 DOI: 10.1371/journal.pone.0106649  1
2014 Streicher JW, Devitt TJ, Goldberg CS, Malone JH, Blackmon H, Fujita MK. Diversification and asymmetrical gene flow across time and space: lineage sorting and hybridization in polytypic barking frogs. Molecular Ecology. 23: 3273-91. PMID 24891255 DOI: 10.1111/mec.12814  1
2014 Leaché AD, Fujita MK, Minin VN, Bouckaert RR. Species delimitation using genome-wide SNP data. Systematic Biology. 63: 534-42. PMID 24627183 DOI: 10.1093/sysbio/syu018  1
2014 Rheindt FE, Fujita MK, Wilton PR, Edwards SV. Introgression and phenotypic assimilation in Zimmerius flycatchers (Tyrannidae): population genetic and phylogenetic inferences from genome-wide SNPs. Systematic Biology. 63: 134-52. PMID 24304652 DOI: 10.1093/sysbio/syt070  1
2014 Castoe TA, De Koning APJ, Hall KT, Card DC, Schield DR, Fujita MK, Ruggiero RP, Degner JF, Daza JM, Gu W, Reyes-Velasco J, Shaney KJ, Castoe JM, Fox SE, Poole AW, et al. The Burmese python genome reveals the molecular basis for extreme adaptation in snakes (Proceedings of the National Academy of Sciences of the United States of America (2013) 110, 51, (20645-20650) DOI: 10.1073/pnas. 1314475110) Proceedings of the National Academy of Sciences of the United States of America. 111: 3194. DOI: 10.1073/pnas.1324133111  1
2014 Streicher JW, Fujita MK. Observations on the captive maintenance and reproduction bof the balcones barking frog, craugastor augusti latrans Herpetological Review. 45: 49-51.  1
2014 Wagner P, Leaché AD, Fujita MK. Description of four new West African forest geckos of the Hemidactylus fasciatus Gray, 1842 complex, revealed by coalescent species delimitation Bonn Zoological Bulletin. 63: 1-14.  1
2013 Castoe TA, de Koning AP, Hall KT, Card DC, Schield DR, Fujita MK, Ruggiero RP, Degner JF, Daza JM, Gu W, Reyes-Velasco J, Shaney KJ, Castoe JM, Fox SE, Poole AW, et al. The Burmese python genome reveals the molecular basis for extreme adaptation in snakes. Proceedings of the National Academy of Sciences of the United States of America. 110: 20645-50. PMID 24297902 DOI: 10.1073/pnas.1314475110  1
2013 Pepper M, Doughty P, Fujita MK, Moritz C, Keogh JS. Speciation on the rocks: integrated systematics of the Heteronotia spelea species complex (Gekkota; Reptilia) from Western and Central Australia. Plos One. 8: e78110. PMID 24244289 DOI: 10.1371/journal.pone.0078110  1
2013 Shaffer HB, Minx P, Warren DE, Shedlock AM, Thomson RC, Valenzuela N, Abramyan J, Amemiya CT, Badenhorst D, Biggar KK, Borchert GM, Botka CW, Bowden RM, Braun EL, Bronikowski AM, ... ... Fujita MK, et al. The western painted turtle genome, a model for the evolution of extreme physiological adaptations in a slowly evolving lineage. Genome Biology. 14: R28. PMID 23537068 DOI: 10.1186/gb-2013-14-3-r28  1
2013 Rands CM, Darling A, Fujita M, Kong L, Webster MT, Clabaut C, Emes RD, Heger A, Meader S, Hawkins MB, Eisen MB, Teiling C, Affourtit J, Boese B, Grant PR, et al. Insights into the evolution of Darwin's finches from comparative analysis of the Geospiza magnirostris genome sequence. Bmc Genomics. 14: 95. PMID 23402223 DOI: 10.1186/1471-2164-14-95  1
2012 Castoe TA, Braun EL, Bronikowski AM, Cox CL, Rabosky AR, Jason de Koning AP, Dobry J, Fujita MK, Giorgianni MW, Hargreaves A, Henkel CV, Mackessy SP, O'Meally D, Rokyta DR, Secor SM, et al. Report from the first snake genomics and integrative biology meeting. Standards in Genomic Sciences. 7: 150-2. PMID 23451292 DOI: 10.4056/sigs.3106480  1
2012 Fong JJ, Brown JM, Fujita MK, Boussau B. A phylogenomic approach to vertebrate phylogeny supports a turtle-archosaur affinity and a possible paraphyletic lissamphibia. Plos One. 7: e48990. PMID 23145043 DOI: 10.1371/journal.pone.0048990  1
2012 Fujita MK, Leaché AD, Burbrink FT, McGuire JA, Moritz C. Coalescent-based species delimitation in an integrative taxonomy. Trends in Ecology & Evolution. 27: 480-8. PMID 22633974 DOI: 10.1016/j.tree.2012.04.012  1
2012 St John JA, Braun EL, Isberg SR, Miles LG, Chong AY, Gongora J, Dalzell P, Moran C, Bed'hom B, Abzhanov A, Burgess SC, Cooksey AM, Castoe TA, Crawford NG, Densmore LD, ... ... Fujita MK, et al. Sequencing three crocodilian genomes to illuminate the evolution of archosaurs and amniotes. Genome Biology. 13: 415. PMID 22293439 DOI: 10.1186/gb-2012-13-1-415  1
2012 Roberts JA, Vo HD, Fujita MK, Moritz C, Kearney M. Physiological implications of genomic state in parthenogenetic lizards of reciprocal hybrid origin. Journal of Evolutionary Biology. 25: 252-63. PMID 22192477 DOI: 10.1111/j.1420-9101.2011.02438.x  1
2012 Rödel MO, Barej MF, Hillers A, Leaché AD, Kouamé NG, Ofori-Boateng C, Assemian NE, Tohé B, Penner J, Hirschfeld M, Doumbia J, Gonwouo LN, Nopper J, Brede C, Diaz R, ... Fujita MK, et al. The genus Astylosternus in the Upper Guinea rainforests, west africa, with the description of a new species (amphibia: Anura: Arthroleptidae) Zootaxa. 1-29.  1
2011 Boussau B, Brown JM, Fujita MK. Nonadaptive evolution of mitochondrial genome size. Evolution; International Journal of Organic Evolution. 65: 2706-11. PMID 21884067 DOI: 10.1111/j.1558-5646.2011.01322.x  1
2011 Alföldi J, Di Palma F, Grabherr M, Williams C, Kong L, Mauceli E, Russell P, Lowe CB, Glor RE, Jaffe JD, Ray DA, Boissinot S, Shedlock AM, Botka C, Castoe TA, ... ... Fujita MK, et al. The genome of the green anole lizard and a comparative analysis with birds and mammals. Nature. 477: 587-91. PMID 21881562 DOI: 10.1038/nature10390  1
2011 Pepper M, Ho SY, Fujita MK, Scott Keogh J. The genetic legacy of aridification: climate cycling fostered lizard diversification in Australian montane refugia and left low-lying deserts genetically depauperate. Molecular Phylogenetics and Evolution. 61: 750-9. PMID 21871574 DOI: 10.1016/j.ympev.2011.08.009  1
2011 Fujita MK, Edwards SV, Ponting CP. The Anolis lizard genome: an amniote genome without isochores. Genome Biology and Evolution. 3: 974-84. PMID 21795750 DOI: 10.1093/gbe/evr072  1
2011 Fong JJ, Fujita MK. Evaluating phylogenetic informativeness and data-type usage for new protein-coding genes across Vertebrata. Molecular Phylogenetics and Evolution. 61: 300-7. PMID 21742044 DOI: 10.1016/j.ympev.2011.06.016  1
2011 Pepper M, Fujita MK, Moritz C, Keogh JS. Palaeoclimate change drove diversification among isolated mountain refugia in the Australian arid zone. Molecular Ecology. 20: 1529-45. PMID 21371147 DOI: 10.1111/j.1365-294X.2011.05036.x  1
2011 Janes DE, Chapus C, Gondo Y, Clayton DF, Sinha S, Blatti CA, Organ CL, Fujita MK, Balakrishnan CN, Edwards SV. Reptiles and mammals have differentially retained long conserved noncoding sequences from the amniote ancestor. Genome Biology and Evolution. 3: 102-13. PMID 21183607 DOI: 10.1093/gbe/evq087  1
2011 Fujita MK, Papenfuss TJ. Molecular systematics of Stenodactylus (Gekkonidae), an Afro-Arabian gecko species complex. Molecular Phylogenetics and Evolution. 58: 71-5. PMID 21035555 DOI: 10.1016/j.ympev.2010.10.014  1
2011 Fujita MK, Leaché AD. A coalescent perspective on delimiting and naming species: A reply to Bauer et al. Proceedings of the Royal Society B: Biological Sciences. 278: 493-495. DOI: 10.1098/rspb.2010.1864  1
2010 Janes DE, Organ CL, Fujita MK, Shedlock AM, Edwards SV. Genome evolution in Reptilia, the sister group of mammals. Annual Review of Genomics and Human Genetics. 11: 239-64. PMID 20590429 DOI: 10.1146/annurev-genom-082509-141646  1
2010 Leaché AD, Fujita MK. Bayesian species delimitation in West African forest geckos (Hemidactylus fasciatus). Proceedings. Biological Sciences / the Royal Society. 277: 3071-7. PMID 20519219 DOI: 10.1098/rspb.2010.0662  1
2010 Fujita MK, McGuire JA, Donnellan SC, Moritz C. Diversification and persistence at the arid-monsoonal interface: australia-wide biogeography of the Bynoe's gecko (Heteronotia binoei; Gekkonidae). Evolution; International Journal of Organic Evolution. 64: 2293-314. PMID 20298463 DOI: 10.1111/j.1558-5646.2010.00993.x  1
2009 Fujita MK, Moritz C. Origin and evolution of parthenogenetic genomes in lizards: current state and future directions. Cytogenetic and Genome Research. 127: 261-72. PMID 20215731 DOI: 10.1159/000295177  1
2009 Kearney M, Fujita MK, Ridenour J. Lost sex in the reptiles: Constraints and correlations Lost Sex: the Evolutionary Biology of Parthenogenesis. 447-474. DOI: 10.1007/978-90-481-2770-2-21  1
2007 Fujita MK, Boore JL, Moritz C. Multiple origins and rapid evolution of duplicated mitochondrial genes in parthenogenetic geckos (Heteronotia binoei; Squamata, Gekkonidae). Molecular Biology and Evolution. 24: 2775-86. PMID 17921488 DOI: 10.1093/molbev/msm212  1
2004 Fujita MK, Engstrom TN, Starkey DE, Shaffer HB. Turtle phylogeny: insights from a novel nuclear intron. Molecular Phylogenetics and Evolution. 31: 1031-40. PMID 15120399 DOI: 10.1016/j.ympev.2003.09.016  1
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