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Items: 1 to 20 of 31

1.

Limitations of climatic data for inferring species boundaries: insights from speckled rattlesnakes.

Meik JM, Streicher JW, Lawing AM, Flores-Villela O, Fujita MK.

PLoS One. 2015 Jun 24;10(6):e0131435. doi: 10.1371/journal.pone.0131435. eCollection 2015.

2.

Genetic divergence and diversity in the Mona and Virgin Islands Boas, Chilabothrus monensis (Epicrates monensis) (Serpentes: Boidae), West Indian snakes of special conservation concern.

Rodríguez-Robles JA, Jezkova T, Fujita MK, Tolson PJ, García MA.

Mol Phylogenet Evol. 2015 Jul;88:144-53. doi: 10.1016/j.ympev.2015.03.019. Epub 2015 Mar 30.

PMID:
25837733
3.

Two Antarctic penguin genomes reveal insights into their evolutionary history and molecular changes related to the Antarctic environment.

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, Zhang Y, Lang Y, Xia J, He W, Shi Q, Subramanian S, Millar CD, Meader S, Rands CM, Fujita MK, Greenwold MJ, Castoe TA, Pollock DD, Gu W, Nam K, Ellegren H, Ho SY, Burt DW, Ponting CP, Jarvis ED, Gilbert MT, Yang H, Wang J, Lambert DM, Wang J, Zhang G.

Gigascience. 2014 Dec 12;3(1):27. doi: 10.1186/2047-217X-3-27. eCollection 2014.

4.

Three crocodilian genomes reveal ancestral patterns of evolution among archosaurs.

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, Caballero J, Hubley RM, Smit AF, Platt RN, Lavoie CA, Ramakodi MP, Finger JW Jr, Suh A, Isberg SR, Miles L, Chong AY, Jaratlerdsiri W, Gongora J, Moran C, Iriarte A, McCormack J, Burgess SC, Edwards SV, Lyons E, Williams C, Breen M, Howard JT, Gresham CR, Peterson DG, Schmitz J, Pollock DD, Haussler D, Triplett EW, Zhang G, Irie N, Jarvis ED, Brochu CA, Schmidt CJ, McCarthy FM, Faircloth BC, Hoffmann FG, Glenn TC, Gabaldón T, Paten B, Ray DA.

Science. 2014 Dec 12;346(6215):1254449. doi: 10.1126/science.1254449. Epub 2014 Dec 11.

5.

Two low coverage bird genomes and a comparison of reference-guided versus de novo genome assemblies.

Card DC, Schield DR, Reyes-Velasco J, Fujita MK, Andrew AL, Oyler-McCance SJ, Fike JA, Tomback DF, Ruggiero RP, Castoe TA.

PLoS One. 2014 Sep 5;9(9):e106649. doi: 10.1371/journal.pone.0106649. eCollection 2014.

6.

Diversification and asymmetrical gene flow across time and space: lineage sorting and hybridization in polytypic barking frogs.

Streicher JW, Devitt TJ, Goldberg CS, Malone JH, Blackmon H, Fujita MK.

Mol Ecol. 2014 Jul;23(13):3273-91. doi: 10.1111/mec.12814. Epub 2014 Jun 19.

PMID:
24891255
7.

Species delimitation using genome-wide SNP data.

Leaché AD, Fujita MK, Minin VN, Bouckaert RR.

Syst Biol. 2014 Jul;63(4):534-42. doi: 10.1093/sysbio/syu018. Epub 2014 Mar 12.

8.

Introgression and phenotypic assimilation in Zimmerius flycatchers (Tyrannidae): population genetic and phylogenetic inferences from genome-wide SNPs.

Rheindt FE, Fujita MK, Wilton PR, Edwards SV.

Syst Biol. 2014 Mar;63(2):134-52. doi: 10.1093/sysbio/syt070. Epub 2013 Dec 4.

PMID:
24304652
9.

The Burmese python genome reveals the molecular basis for extreme adaptation in snakes.

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, Polanco D, Dobry J, Vandewege MW, Li Q, Schott RK, Kapusta A, Minx P, Feschotte C, Uetz P, Ray DA, Hoffmann FG, Bogden R, Smith EN, Chang BS, Vonk FJ, Casewell NR, Henkel CV, Richardson MK, Mackessy SP, Bronikowski AM, Yandell M, Warren WC, Secor SM, Pollock DD.

Proc Natl Acad Sci U S A. 2013 Dec 17;110(51):20645-50. doi: 10.1073/pnas.1314475110. Epub 2013 Dec 2. Erratum in: Proc Natl Acad Sci U S A. 2014 Feb 25;111(8):3194. Proc Natl Acad Sci U S A. 2013 Dec 17;110(51). doi:10.1073/pnas.1324133111. Bronikowsi, Anne M [corrected to Bronikowski, Anne M].

10.

Speciation on the rocks: integrated systematics of the Heteronotia spelea species complex (Gekkota; Reptilia) from Western and Central Australia.

Pepper M, Doughty P, Fujita MK, Moritz C, Keogh JS.

PLoS One. 2013 Nov 11;8(11):e78110. doi: 10.1371/journal.pone.0078110. eCollection 2013.

11.

The western painted turtle genome, a model for the evolution of extreme physiological adaptations in a slowly evolving lineage.

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, Bruneau BG, Buck LT, Capel B, Castoe TA, Czerwinski M, Delehaunty KD, Edwards SV, Fronick CC, Fujita MK, Fulton L, Graves TA, Green RE, Haerty W, Hariharan R, Hernandez O, Hillier LW, Holloway AK, Janes D, Janzen FJ, Kandoth C, Kong L, de Koning AP, Li Y, Literman R, McGaugh SE, Mork L, O'Laughlin M, Paitz RT, Pollock DD, Ponting CP, Radhakrishnan S, Raney BJ, Richman JM, St John J, Schwartz T, Sethuraman A, Spinks PQ, Storey KB, Thane N, Vinar T, Zimmerman LM, Warren WC, Mardis ER, Wilson RK.

Genome Biol. 2013 Mar 28;14(3):R28. doi: 10.1186/gb-2013-14-3-r28.

12.

Report from the first snake genomics and integrative biology meeting.

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, Streicher JW, Wray KP, Yokoyama KD, Pollock DD.

Stand Genomic Sci. 2012 Oct 10;7(1):150-2. doi: 10.4056/sigs.3106480. Epub 2012 Sep 24.

13.

A phylogenomic approach to vertebrate phylogeny supports a turtle-archosaur affinity and a possible paraphyletic lissamphibia.

Fong JJ, Brown JM, Fujita MK, Boussau B.

PLoS One. 2012;7(11):e48990. doi: 10.1371/journal.pone.0048990. Epub 2012 Nov 7.

14.

Coalescent-based species delimitation in an integrative taxonomy.

Fujita MK, Leaché AD, Burbrink FT, McGuire JA, Moritz C.

Trends Ecol Evol. 2012 Sep;27(9):480-8. doi: 10.1016/j.tree.2012.04.012. Epub 2012 May 25.

PMID:
22633974
15.

Sequencing three crocodilian genomes to illuminate the evolution of archosaurs and amniotes.

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, Drew JC, Edwards SV, Faircloth BC, Fujita MK, Greenwold MJ, Hoffmann FG, Howard JM, Iguchi T, Janes DE, Khan SY, Kohno S, de Koning AJ, Lance SL, McCarthy FM, McCormack JE, Merchant ME, Peterson DG, Pollock DD, Pourmand N, Raney BJ, Roessler KA, Sanford JR, Sawyer RH, Schmidt CJ, Triplett EW, Tuberville TD, Venegas-Anaya M, Howard JT, Jarvis ED, Guillette LJ Jr, Glenn TC, Green RE, Ray DA.

Genome Biol. 2012 Jan 31;13(1):415. doi: 10.1186/gb-2012-13-1-415.

16.

Physiological implications of genomic state in parthenogenetic lizards of reciprocal hybrid origin.

Roberts JA, Vo HD, Fujita MK, Moritz C, Kearney M.

J Evol Biol. 2012 Feb;25(2):252-63. doi: 10.1111/j.1420-9101.2011.02438.x. Epub 2011 Dec 22.

PMID:
22192477
17.

Nonadaptive evolution of mitochondrial genome size.

Boussau B, Brown JM, Fujita MK.

Evolution. 2011 Sep;65(9):2706-11. doi: 10.1111/j.1558-5646.2011.01322.x. Epub 2011 May 10.

PMID:
21884067
18.

The genome of the green anole lizard and a comparative analysis with birds and mammals.

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, Colbourne JK, Fujita MK, Moreno RG, ten Hallers BF, Haussler D, Heger A, Heiman D, Janes DE, Johnson J, de Jong PJ, Koriabine MY, Lara M, Novick PA, Organ CL, Peach SE, Poe S, Pollock DD, de Queiroz K, Sanger T, Searle S, Smith JD, Smith Z, Swofford R, Turner-Maier J, Wade J, Young S, Zadissa A, Edwards SV, Glenn TC, Schneider CJ, Losos JB, Lander ES, Breen M, Ponting CP, Lindblad-Toh K.

Nature. 2011 Aug 31;477(7366):587-91. doi: 10.1038/nature10390.

19.

The genetic legacy of aridification: climate cycling fostered lizard diversification in Australian montane refugia and left low-lying deserts genetically depauperate.

Pepper M, Ho SY, Fujita MK, Scott Keogh J.

Mol Phylogenet Evol. 2011 Dec;61(3):750-9. doi: 10.1016/j.ympev.2011.08.009. Epub 2011 Aug 18.

PMID:
21871574
20.

The Anolis lizard genome: an amniote genome without isochores.

Fujita MK, Edwards SV, Ponting CP.

Genome Biol Evol. 2011;3:974-84. doi: 10.1093/gbe/evr072. Epub 2011 Jul 27.

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