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Results: 1 to 20 of 48

1.

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.

PMID:
25504731
[PubMed - in process]
2.

Comparative genomics reveals insights into avian genome evolution and adaptation.

Zhang G, Li C, Li Q, Li B, Larkin DM, Lee C, Storz JF, Antunes A, Greenwold MJ, Meredith RW, Ödeen A, Cui J, Zhou Q, Xu L, Pan H, Wang Z, Jin L, Zhang P, Hu H, Yang W, Hu J, Xiao J, Yang Z, Liu Y, Xie Q, Yu H, Lian J, Wen P, Zhang F, Li H, Zeng Y, Xiong Z, Liu S, Zhou L, Huang Z, An N, Wang J, Zheng Q, Xiong Y, Wang G, Wang B, Wang J, Fan Y, da Fonseca RR, Alfaro-Núñez A, Schubert M, Orlando L, Mourier T, Howard JT, Ganapathy G, Pfenning A, Whitney O, Rivas MV, Hara E, Smith J, Farré M, Narayan J, Slavov G, Romanov MN, Borges R, Machado JP, Khan I, Springer MS, Gatesy J, Hoffmann FG, Opazo JC, Håstad O, Sawyer RH, Kim H, Kim KW, Kim HJ, Cho S, Li N, Huang Y, Bruford MW, Zhan X, Dixon A, Bertelsen MF, Derryberry E, Warren W, Wilson RK, Li S, Ray DA, Green RE, O'Brien SJ, Griffin D, Johnson WE, Haussler D, Ryder OA, Willerslev E, Graves GR, Alström P, Fjeldså J, Mindell DP, Edwards SV, Braun EL, Rahbek C, Burt DW, Houde P, Zhang Y, Yang H, Wang J; Avian Genome Consortium, Jarvis ED, Gilbert MT, Wang J.

Science. 2014 Dec 12;346(6215):1311-20. doi: 10.1126/science.1251385. Epub 2014 Dec 11.

PMID:
25504712
[PubMed - in process]
3.

Multiple lineages of ancient CR1 retroposons shaped the early genome evolution of amniotes.

Suh A, Churakov G, Ramakodi MP, Platt RN 2nd, Jurka J, Kojima KK, Caballero J, Smit AF, Vliet KA, Hoffmann FG, Brosius J, Green RE, Braun EL, Ray DA, Schmitz J.

Genome Biol Evol. 2014 Dec 11. pii: evu256. [Epub ahead of print]

PMID:
25503085
[PubMed - as supplied by publisher]
Free Article
4.

Gene turnover in the avian globin gene families and evolutionary changes in hemoglobin isoform expression.

Opazo JC, Hoffmann FG, Natarajan C, Witt CC, Berenbrink M, Storz JF.

Mol Biol Evol. 2014 Dec 9. pii: msu341. [Epub ahead of print]

PMID:
25502940
[PubMed - as supplied by publisher]
Free Article
5.

Epistasis Constrains Mutational Pathways of Hemoglobin Adaptation in High-Altitude Pikas.

Tufts DM, Natarajan C, Revsbech IG, Projecto-Garcia J, Hoffmann FG, Weber RE, Fago A, Moriyama H, Storz JF.

Mol Biol Evol. 2014 Nov 18. pii: msu311. [Epub ahead of print]

PMID:
25415962
[PubMed - as supplied by publisher]
Free Article
6.

The globin gene repertoire of lampreys: convergent evolution of hemoglobin and myoglobin in jawed and jawless vertebrates.

Schwarze K, Campbell KL, Hankeln T, Storz JF, Hoffmann FG, Burmester T.

Mol Biol Evol. 2014 Oct;31(10):2708-21. doi: 10.1093/molbev/msu216. Epub 2014 Jul 23.

PMID:
25061084
[PubMed - in process]
7.

Repeated evolution of chimeric fusion genes in the β-globin gene family of laurasiatherian mammals.

Gaudry MJ, Storz JF, Butts GT, Campbell KL, Hoffmann FG.

Genome Biol Evol. 2014 May 9;6(5):1219-34. doi: 10.1093/gbe/evu097.

PMID:
24814285
[PubMed - in process]
Free PMC Article
8.

Large numbers of novel miRNAs originate from DNA transposons and are coincident with a large species radiation in bats.

Platt RN 2nd, Vandewege MW, Kern C, Schmidt CJ, Hoffmann FG, Ray DA.

Mol Biol Evol. 2014 Jun;31(6):1536-45. doi: 10.1093/molbev/msu112. Epub 2014 Apr 1.

PMID:
24692655
[PubMed - in process]
9.

Evolution of the relaxin/insulin-like gene family in anthropoid primates.

Arroyo JI, Hoffmann FG, Opazo JC.

Genome Biol Evol. 2014 Mar;6(3):491-9. doi: 10.1093/gbe/evu023.

PMID:
24493383
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

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].

PMID:
24297902
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Hemoglobin isoform differentiation and allosteric regulation of oxygen binding in the turtle, Trachemys scripta.

Damsgaard C, Storz JF, Hoffmann FG, Fago A.

Am J Physiol Regul Integr Comp Physiol. 2013 Oct 15;305(8):R961-7. doi: 10.1152/ajpregu.00284.2013. Epub 2013 Aug 28.

PMID:
23986362
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Evolution of the ABPA subunit of androgen-binding protein expressed in the submaxillary glands in New and Old World rodent taxa.

Vandewege MW, Phillips CJ, Wickliffe JK, Hoffmann FG.

J Mol Evol. 2013 May;76(5):324-31. doi: 10.1007/s00239-013-9561-4. Epub 2013 May 1.

PMID:
23636475
[PubMed - indexed for MEDLINE]
13.

INSL4 pseudogenes help define the relaxin family repertoire in the common ancestor of placental mammals.

Arroyo JI, Hoffmann FG, Good S, Opazo JC.

J Mol Evol. 2012 Aug;75(1-2):73-8. doi: 10.1007/s00239-012-9517-0. Epub 2012 Sep 9.

PMID:
22961112
[PubMed - indexed for MEDLINE]
14.

Whole-genome duplication and the functional diversification of teleost fish hemoglobins.

Opazo JC, Butts GT, Nery MF, Storz JF, Hoffmann FG.

Mol Biol Evol. 2013 Jan;30(1):140-53. doi: 10.1093/molbev/mss212. Epub 2012 Sep 4.

PMID:
22949522
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Gene duplication, genome duplication, and the functional diversification of vertebrate globins.

Storz JF, Opazo JC, Hoffmann FG.

Mol Phylogenet Evol. 2013 Feb;66(2):469-78. doi: 10.1016/j.ympev.2012.07.013. Epub 2012 Jul 27. Review.

PMID:
22846683
[PubMed - indexed for MEDLINE]
16.

Resolution of the laurasiatherian phylogeny: evidence from genomic data.

Nery MF, González DJ, Hoffmann FG, Opazo JC.

Mol Phylogenet Evol. 2012 Sep;64(3):685-9. doi: 10.1016/j.ympev.2012.04.012. Epub 2012 Apr 24.

PMID:
22560954
[PubMed - indexed for MEDLINE]
17.

Gene turnover and differential retention in the relaxin/insulin-like gene family in primates.

Arroyo JI, Hoffmann FG, Opazo JC.

Mol Phylogenet Evol. 2012 Jun;63(3):768-76. doi: 10.1016/j.ympev.2012.02.011. Epub 2012 Mar 1.

PMID:
22405815
[PubMed - indexed for MEDLINE]
18.

Gene duplication and positive selection explains unusual physiological roles of the relaxin gene in the European rabbit.

Arroyo JI, Hoffmann FG, Opazo JC.

J Mol Evol. 2012 Feb;74(1-2):52-60. doi: 10.1007/s00239-012-9487-2. Epub 2012 Feb 22.

PMID:
22354201
[PubMed - indexed for MEDLINE]
19.

Evolution of the globin gene family in deuterostomes: lineage-specific patterns of diversification and attrition.

Hoffmann FG, Opazo JC, Hoogewijs D, Hankeln T, Ebner B, Vinogradov SN, Bailly X, Storz JF.

Mol Biol Evol. 2012 Jul;29(7):1735-45. doi: 10.1093/molbev/mss018. Epub 2012 Jan 24.

PMID:
22319164
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

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.

PMID:
22293439
[PubMed - indexed for MEDLINE]
Free PMC Article
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