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Items: 1 to 50 of 71

1.

Molecular Adaptations for Sensing and Securing Prey and Insight into Amniote Genome Diversity from the Garter Snake Genome.

Perry BW, Card DC, McGlothlin JW, Pasquesi GIM, Adams RH, Schield DR, Hales NR, Corbin AB, Demuth JP, Hoffmann FG, Vandewege MW, Schott RK, Bhattacharyya N, Chang BSW, Casewell NR, Whiteley G, Reyes-Velasco J, Mackessy SP, Gamble T, Storey KB, Biggar KK, Passow CN, Kuo CH, McGaugh SE, Bronikowski AM, de Koning APJ, Edwards SV, Pfrender ME, Minx P, Brodie ED 3rd, Brodie ED Jr, Warren WC, Castoe TA.

Genome Biol Evol. 2018 Aug 1;10(8):2110-2129. doi: 10.1093/gbe/evy157.

2.

Corrigendum to "Nucleotide sequence and results of test of adaptive evolution in the α-globin gene of octodontoid rodents" [Data Brief 15 (2017) 517-521].

Tomasco IH, Boullosa N, Hoffmann FG, Lessa EP.

Data Brief. 2017 Dec 16;16:1102. doi: 10.1016/j.dib.2017.12.027. eCollection 2018 Feb.

3.

Corrigendum to "Molecular adaptive convergence in the α-globin gene in subterranean octodontid rodents" [Gene, 628 (2017) 275-280].

Tomasco IH, Boullosa N, Tandonnet S, Hoffmann FG, Lessa EP.

Gene. 2018 Apr 30;652:87. doi: 10.1016/j.gene.2018.02.028. Epub 2018 Feb 19. No abstract available.

PMID:
29457999
4.

Divergent and parallel routes of biochemical adaptation in high-altitude passerine birds from the Qinghai-Tibet Plateau.

Zhu X, Guan Y, Signore AV, Natarajan C, DuBay SG, Cheng Y, Han N, Song G, Qu Y, Moriyama H, Hoffmann FG, Fago A, Lei F, Storz JF.

Proc Natl Acad Sci U S A. 2018 Feb 20;115(8):1865-1870. doi: 10.1073/pnas.1720487115. Epub 2018 Feb 5.

5.

Gene Turnover and Diversification of the α- and β-Globin Gene Families in Sauropsid Vertebrates.

Hoffmann FG, Vandewege MW, Storz JF, Opazo JC.

Genome Biol Evol. 2018 Jan 1;10(1):344-358. doi: 10.1093/gbe/evy001.

6.

Nucleotide sequence and results of test of adaptive evolution in the α-globin gene of octodontoid rodents.

Tomasco IH, Boullosa N, Hoffmann FG, Lessa EP.

Data Brief. 2017 Sep 18;15:517-521. doi: 10.1016/j.dib.2017.09.017. eCollection 2017 Dec. Erratum in: Data Brief. 2017 Dec 16;16:1102.

7.

Molecular adaptive convergence in the α-globin gene in subterranean octodontid rodents.

Tomasco IH, Boullosa N, Hoffmann FG, Lessa EP.

Gene. 2017 Sep 10;628:275-280. doi: 10.1016/j.gene.2017.07.057. Epub 2017 Jul 21. Erratum in: Gene. 2018 Feb 16;:.

PMID:
28735726
8.

Progressive erosion of the Relaxin1 gene in bovids.

Malone L, Opazo JC, Ryan PL, Hoffmann FG.

Gen Comp Endocrinol. 2017 Oct 1;252:12-17. doi: 10.1016/j.ygcen.2017.07.011. Epub 2017 Jul 19.

PMID:
28733228
9.

Predictable convergence in hemoglobin function has unpredictable molecular underpinnings.

Natarajan C, Hoffmann FG, Weber RE, Fago A, Witt CC, Storz JF.

Science. 2016 Oct 21;354(6310):336-339.

10.

Evolution of the β-adrenoreceptors in vertebrates.

Zavala K, Vandewege MW, Hoffmann FG, Opazo JC.

Gen Comp Endocrinol. 2017 Jan 1;240:129-137. doi: 10.1016/j.ygcen.2016.10.005. Epub 2016 Oct 18.

PMID:
27769631
11.

Curvularia malina sp. nov. incites a new disease of warm-season turfgrasses in the southeastern United States.

Tomaso-Peterson M, Jo YK, Vines PL, Hoffmann FG.

Mycologia. 2016 Sep;108(5):915-924. Epub 2016 Aug 22.

PMID:
27549619
12.

Evolutionary history of the reprimo tumor suppressor gene family in vertebrates with a description of a new reprimo gene lineage.

Wichmann IA, Zavala K, Hoffmann FG, Vandewege MW, Corvalán AH, Amigo JD, Owen GI, Opazo JC.

Gene. 2016 Oct 10;591(1):245-254. doi: 10.1016/j.gene.2016.07.036. Epub 2016 Jul 16.

PMID:
27432065
13.

Transposable Element Targeting by piRNAs in Laurasiatherians with Distinct Transposable Element Histories.

Vandewege MW, Platt RN 2nd, Ray DA, Hoffmann FG.

Genome Biol Evol. 2016 May 9;8(5):1327-37. doi: 10.1093/gbe/evw078.

14.

Molecular Evolution and Functional Divergence of Trace Amine-Associated Receptors.

Eyun SI, Moriyama H, Hoffmann FG, Moriyama EN.

PLoS One. 2016 Mar 10;11(3):e0151023. doi: 10.1371/journal.pone.0151023. eCollection 2016.

15.

Transposable elements and small RNAs: Genomic fuel for species diversity.

Hoffmann FG, McGuire LP, Counterman BA, Ray DA.

Mob Genet Elements. 2015 Jul 24;5(5):63-66. eCollection 2015 Sep-Oct.

16.

Contrasting Patterns of Evolutionary Diversification in the Olfactory Repertoires of Reptile and Bird Genomes.

Vandewege MW, Mangum SF, Gabaldón T, Castoe TA, Ray DA, Hoffmann FG.

Genome Biol Evol. 2016 Feb 9;8(3):470-80. doi: 10.1093/gbe/evw013.

17.

Early Evolution of Vertebrate Mybs: An Integrative Perspective Combining Synteny, Phylogenetic, and Gene Expression Analyses.

Campanini EB, Vandewege MW, Pillai NE, Tay BH, Jones JL, Venkatesh B, Hoffmann FG.

Genome Biol Evol. 2015 Oct 15;7(11):3009-21. doi: 10.1093/gbe/evv197.

18.
19.

Oxygenation properties and isoform diversity of snake hemoglobins.

Storz JF, Natarajan C, Moriyama H, Hoffmann FG, Wang T, Fago A, Malte H, Overgaard J, Weber RE.

Am J Physiol Regul Integr Comp Physiol. 2015 Nov 1;309(9):R1178-91. doi: 10.1152/ajpregu.00327.2015. Epub 2015 Sep 9.

20.

Genetically based low oxygen affinities of felid hemoglobins: lack of biochemical adaptation to high-altitude hypoxia in the snow leopard.

Janecka JE, Nielsen SS, Andersen SD, Hoffmann FG, Weber RE, Anderson T, Storz JF, Fago A.

J Exp Biol. 2015 Aug;218(Pt 15):2402-9. doi: 10.1242/jeb.125369.

21.

Bovine herpesvirus 1 productive infection and immediate early transcription unit 1 promoter are stimulated by the synthetic corticosteroid dexamethasone.

Kook I, Henley C, Meyer F, Hoffmann FG, Jones C.

Virology. 2015 Oct;484:377-85. doi: 10.1016/j.virol.2015.06.010. Epub 2015 Jul 28.

22.

Ancient Duplications and Expression Divergence in the Globin Gene Superfamily of Vertebrates: Insights from the Elephant Shark Genome and Transcriptome.

Opazo JC, Lee AP, Hoffmann FG, Toloza-Villalobos J, Burmester T, Venkatesh B, Storz JF.

Mol Biol Evol. 2015 Jul;32(7):1684-94. doi: 10.1093/molbev/msv054. Epub 2015 Mar 4.

23.

Intraspecific polymorphism, interspecific divergence, and the origins of function-altering mutations in deer mouse hemoglobin.

Natarajan C, Hoffmann FG, Lanier HC, Wolf CJ, Cheviron ZA, Spangler ML, Weber RE, Fago A, Storz JF.

Mol Biol Evol. 2015 Apr;32(4):978-97. doi: 10.1093/molbev/msu403. Epub 2015 Jan 2.

24.

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.

25.

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.

26.

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;7(1):205-17. doi: 10.1093/gbe/evu256.

27.

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. 2015 Apr;32(4):871-87. doi: 10.1093/molbev/msu341. Epub 2014 Dec 9.

28.

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. 2015 Feb;32(2):287-98. doi: 10.1093/molbev/msu311. Epub 2014 Nov 18.

29.

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.

30.

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.

31.

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
32.

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.

33.

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

34.

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.

35.

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
36.

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
37.

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.

38.

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.

39.

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
40.

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
41.

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
42.

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.

43.

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.

44.

Androglobin: a chimeric globin in metazoans that is preferentially expressed in Mammalian testes.

Hoogewijs D, Ebner B, Germani F, Hoffmann FG, Fabrizius A, Moens L, Burmester T, Dewilde S, Storz JF, Vinogradov SN, Hankeln T.

Mol Biol Evol. 2012 Apr;29(4):1105-14. doi: 10.1093/molbev/msr246. Epub 2011 Nov 24.

45.

Altitudinal variation at duplicated β-globin genes in deer mice: effects of selection, recombination, and gene conversion.

Storz JF, Natarajan C, Cheviron ZA, Hoffmann FG, Kelly JK.

Genetics. 2012 Jan;190(1):203-16. doi: 10.1534/genetics.111.134494. Epub 2011 Oct 31.

46.

Whole-genome duplications spurred the functional diversification of the globin gene superfamily in vertebrates.

Hoffmann FG, Opazo JC, Storz JF.

Mol Biol Evol. 2012 Jan;29(1):303-12. doi: 10.1093/molbev/msr207. Epub 2011 Sep 30.

47.

Differential loss and retention of cytoglobin, myoglobin, and globin-E during the radiation of vertebrates.

Hoffmann FG, Opazo JC, Storz JF.

Genome Biol Evol. 2011;3:588-600. doi: 10.1093/gbe/evr055. Epub 2011 Jun 21.

48.

Phylogenetic diversification of the globin gene superfamily in chordates.

Storz JF, Opazo JC, Hoffmann FG.

IUBMB Life. 2011 May;63(5):313-22. doi: 10.1002/iub.482. Epub 2011 May 9. Review.

49.

Developmental regulation of hemoglobin synthesis in the green anole lizard Anolis carolinensis.

Storz JF, Hoffmann FG, Opazo JC, Sanger TJ, Moriyama H.

J Exp Biol. 2011 Feb 15;214(Pt 4):575-81. doi: 10.1242/jeb.050443.

50.

Comparative genomics of proteins involved in RNA nucleocytoplasmic export.

Serpeloni M, Vidal NM, Goldenberg S, Avila AR, Hoffmann FG.

BMC Evol Biol. 2011 Jan 11;11:7. doi: 10.1186/1471-2148-11-7.

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