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Gaut, Brandon Stuart

Title(s)Professor and Associate Dean for Research and Innovation, Ecology & Evolutionary Biology
Phone(949) 824-2564
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    LIKELIHOOD ANALYSES OF DNA SEQUENCE DATA
    NIH/NIGMS F32GM015528Jan 31, 1993
    Role: Principal Investigator

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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help.
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    1. Drinnenberg IA, Berger F, Elsässer SJ, Andersen PR, Ausió J, Bickmore WA, Blackwell AR, Erwin DH, Gahan JM, Gaut BS, Harvey ZH, Henikoff S, Kao JY, Kurdistani SK, Lemos B, Levine MT, Luger K, Malik HS, Martín-Durán JM, Peichel CL, Renfree MB, Rutowicz K, Sarkies P, Schmitz RJ, Technau U, Thornton JW, Warnecke T, Wolfe KH. EvoChromo: towards a synthesis of chromatin biology and evolution. Development. 2019 Sep 26; 146(19). PMID: 31558570.
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    2. Zhou Y, Minio A, Massonnet M, Solares E, Lv Y, Beridze T, Cantu D, Gaut BS. The population genetics of structural variants in grapevine domestication. Nat Plants. 2019 Sep; 5(9):965-979. PMID: 31506640.
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    3. Roessler K, Muyle A, Diez CM, Gaut GRJ, Bousios A, Stitzer MC, Seymour DK, Doebley JF, Liu Q, Gaut BS. The genome-wide dynamics of purging during selfing in maize. Nat Plants. 2019 Sep; 5(9):980-990. PMID: 31477888.
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    4. Seymour DK, Gaut BS. Phylogenetic shifts in gene body methylation correlate with gene expression and reflect trait conservation. Mol Biol Evol. 2019 Aug 27. PMID: 31504743.
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    5. Gaut BS, Miller AJ, Seymour DK. Living with Two Genomes: Grafting and Its Implications for Plant Genome-to-Genome Interactions, Phenotypic Variation, and Evolution. Annu Rev Genet. 2019 Aug 19. PMID: 31424971.
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    6. Winkler DE, Chapin KJ, François O, Garmon JD, Gaut BS, Huxman TE. Multiple introductions and population structure during the rapid expansion of the invasive Sahara mustard (Brassica tournefortii). Ecol Evol. 2019 Jul; 9(14):7928-7941. PMID: 31380061.
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    7. Aguirre-Liguori JA, Gaut BS, Jaramillo-Correa JP, Tenaillon MI, Montes-Hernández S, García-Oliva F, Hearne SJ, Eguiarte LE. Divergence with gene flow is driven by local adaptation to temperature and soil phosphorus concentration in teosinte subspecies (Zea mays parviglumis and Zea mays mexicana). Mol Ecol. 2019 Jun; 28(11):2814-2830. PMID: 30980686.
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    8. Muyle A, Gaut BS. Loss of Gene Body Methylation in Eutrema salsugineum Is Associated with Reduced Gene Expression. Mol Biol Evol. 2019 01 01; 36(1):155-158. PMID: 30398664.
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    9. Gaut BS, Seymour DK, Liu Q, Zhou Y. Demography and its effects on genomic variation in crop domestication. Nat Plants. 2018 08; 4(8):512-520. PMID: 30061748.
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    10. Roessler K, Bousios A, Meca E, Gaut BS. Modeling Interactions between Transposable Elements and the Plant Epigenetic Response: A Surprising Reliance on Element Retention. Genome Biol Evol. 2018 03 01; 10(3):803-815. PMID: 29608716.
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    11. Gaut BS. A convergent outcome: small genomes in mangroves. New Phytol. 2018 01; 217(1):5-7. PMID: 29193222.
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    12. Rebollar EA, Sandoval-Castellanos E, Roessler K, Gaut BS, Alcaraz LD, Benítez M, Escalante AE. Seasonal Changes in a Maize-Based Polyculture of Central Mexico Reshape the Co-occurrence Networks of Soil Bacterial Communities. Front Microbiol. 2017; 8:2478. PMID: 29326663.
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    13. González-González A, Hug SM, Rodríguez-Verdugo A, Patel JS, Gaut BS. Adaptive Mutations in RNA Polymerase and the Transcriptional Terminator Rho Have Similar Effects on Escherichia coli Gene Expression. Mol Biol Evol. 2017 Nov 01; 34(11):2839-2855. PMID: 28961910.
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    14. Zhou Y, Massonnet M, Sanjak JS, Cantu D, Gaut BS. Evolutionary genomics of grape (Vitis vinifera ssp. vinifera) domestication. Proc Natl Acad Sci U S A. 2017 10 31; 114(44):11715-11720. PMID: 29042518.
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    15. Aguirre-Liguori JA, Tenaillon MI, Vázquez-Lobo A, Gaut BS, Jaramillo-Correa JP, Montes-Hernandez S, Souza V, Eguiarte LE. Connecting genomic patterns of local adaptation and niche suitability in teosintes. Mol Ecol. 2017 Aug; 26(16):4226-4240. PMID: 28612956.
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    16. Takuno S, Seymour DK, Gaut BS. The Evolutionary Dynamics of Orthologs That Shift in Gene Body Methylation between Arabidopsis Species. Mol Biol Evol. 2017 06 01; 34(6):1479-1491. PMID: 28333248.
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    17. Minio A, Lin J, Gaut BS, Cantu D. How Single Molecule Real-Time Sequencing and Haplotype Phasing Have Enabled Reference-Grade Diploid Genome Assembly of Wine Grapes. Front Plant Sci. 2017; 8:826. PMID: 28567052.
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    18. Liu Q, Zhou Y, Morrell PL, Gaut BS. Deleterious Variants in Asian Rice and the Potential Cost of Domestication. Mol Biol Evol. 2017 04 01; 34(4):908-924. PMID: 28087781.
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    19. Bousios A, Gaut BS, Darzentas N. Considerations and complications of mapping small RNA high-throughput data to transposable elements. Mob DNA. 2017; 8:3. PMID: 28228849.
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    20. Roessler K, Takuno S, Gaut BS. CG Methylation Covaries with Differential Gene Expression between Leaf and Floral Bud Tissues of Brachypodium distachyon. PLoS One. 2016; 11(3):e0150002. PMID: 26950546.
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    21. Bousios A, Gaut BS. Mechanistic and evolutionary questions about epigenetic conflicts between transposable elements and their plant hosts. Curr Opin Plant Biol. 2016 04; 30:123-33. PMID: 26950253.
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    22. Takuno S, Ran JH, Gaut BS. Evolutionary patterns of genic DNA methylation vary across land plants. Nat Plants. 2016 01 25; 2:15222. PMID: 27249194.
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    23. Bousios A, Diez CM, Takuno S, Bystry V, Darzentas N, Gaut BS. A role for palindromic structures in the cis-region of maize Sirevirus LTRs in transposable element evolution and host epigenetic response. Genome Res. 2016 Feb; 26(2):226-37. PMID: 26631490.
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    24. Díez CM, Gaut BS. The jury may be out, but it is important that it deliberates: a response to Besnard and Rubio de Casas about olive domestication. New Phytol. 2016 Jan; 209(2):471-3. PMID: 26599353.
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    25. Gaut BS, Díez CM, Morrell PL. Genomics and the Contrasting Dynamics of Annual and Perennial Domestication. Trends Genet. 2015 Dec; 31(12):709-719. PMID: 26603610.
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    26. Rodríguez-Verdugo A, Tenaillon O, Gaut BS. First-Step Mutations during Adaptation Restore the Expression of Hundreds of Genes. Mol Biol Evol. 2016 Jan; 33(1):25-39. PMID: 26500250.
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    27. Hug SM, Gaut BS. The phenotypic signature of adaptation to thermal stress in Escherichia coli. BMC Evol Biol. 2015 Sep 02; 15:177. PMID: 26329930.
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    28. Gaut BS. Evolution Is an Experiment: Assessing Parallelism in Crop Domestication and Experimental Evolution: (Nei Lecture, SMBE 2014, Puerto Rico). Mol Biol Evol. 2015 Jul; 32(7):1661-71. PMID: 26012904.
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    29. Diez CM, Trujillo I, Martinez-Urdiroz N, Barranco D, Rallo L, Marfil P, Gaut BS. Olive domestication and diversification in the Mediterranean Basin. New Phytol. 2015 Apr; 206(1):436-47. PMID: 25420413.
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    30. Rodríguez-Verdugo A, Carrillo-Cisneros D, González-González A, Gaut BS, Bennett AF. Different tradeoffs result from alternate genetic adaptations to a common environment. Proc Natl Acad Sci U S A. 2014 Aug 19; 111(33):12121-6. PMID: 25092325.
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    31. Gaut BS. The complex domestication history of the common bean. Nat Genet. 2014 Jul; 46(7):663-4. PMID: 24965727.
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    32. Diez CM, Meca E, Tenaillon MI, Gaut BS. Three groups of transposable elements with contrasting copy number dynamics and host responses in the maize (Zea mays ssp. mays) genome. PLoS Genet. 2014 Apr; 10(4):e1004298. PMID: 24743518.
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    33. Achaz G, Rodriguez-Verdugo A, Gaut BS, Tenaillon O. The reproducibility of adaptation in the light of experimental evolution with whole genome sequencing. Adv Exp Med Biol. 2014; 781:211-31. PMID: 24277302.
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    34. Diez CM, Roessler K, Gaut BS. Epigenetics and plant genome evolution. Curr Opin Plant Biol. 2014 Apr; 18:1-8. PMID: 24424204.
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    35. Slotte T, Hazzouri KM, Ågren JA, Koenig D, Maumus F, Guo YL, Steige K, Platts AE, Escobar JS, Newman LK, Wang W, Mandáková T, Vello E, Smith LM, Henz SR, Steffen J, Takuno S, Brandvain Y, Coop G, Andolfatto P, Hu TT, Blanchette M, Clark RM, Quesneville H, Nordborg M, Gaut BS, Lysak MA, Jenkins J, Grimwood J, Chapman J, Prochnik S, Shu S, Rokhsar D, Schmutz J, Weigel D, Wright SI. The Capsella rubella genome and the genomic consequences of rapid mating system evolution. Nat Genet. 2013 Jul; 45(7):831-5. PMID: 23749190.
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    36. Díez CM, Gaut BS, Meca E, Scheinvar E, Montes-Hernandez S, Eguiarte LE, Tenaillon MI. Genome size variation in wild and cultivated maize along altitudinal gradients. New Phytol. 2013 Jul; 199(1):264-76. PMID: 23550586.
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    37. Rodríguez-Verdugo A, Gaut BS, Tenaillon O. Evolution of Escherichia coli rifampicin resistance in an antibiotic-free environment during thermal stress. BMC Evol Biol. 2013 Feb 22; 13:50. PMID: 23433244.
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    38. Takuno S, Gaut BS. Gene body methylation is conserved between plant orthologs and is of evolutionary consequence. Proc Natl Acad Sci U S A. 2013 Jan 29; 110(5):1797-802. PMID: 23319627.
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    39. Hufford MB, Martínez-Meyer E, Gaut BS, Eguiarte LE, Tenaillon MI. Inferences from the historical distribution of wild and domesticated maize provide ecological and evolutionary insight. PLoS One. 2012; 7(11):e47659. PMID: 23155371.
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    40. Chia JM, Song C, Bradbury PJ, Costich D, de Leon N, Doebley J, Elshire RJ, Gaut B, Geller L, Glaubitz JC, Gore M, Guill KE, Holland J, Hufford MB, Lai J, Li M, Liu X, Lu Y, McCombie R, Nelson R, Poland J, Prasanna BM, Pyhäjärvi T, Rong T, Sekhon RS, Sun Q, Tenaillon MI, Tian F, Wang J, Xu X, Zhang Z, Kaeppler SM, Ross-Ibarra J, McMullen MD, Buckler ES, Zhang G, Xu Y, Ware D. Maize HapMap2 identifies extant variation from a genome in flux. Nat Genet. 2012 Jun 03; 44(7):803-7. PMID: 22660545.
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    41. Vonholdt BM, Takuno S, Gaut BS. Recent retrotransposon insertions are methylated and phylogenetically clustered in japonica rice (Oryza sativa spp. japonica). Mol Biol Evol. 2012 Oct; 29(10):3193-203. PMID: 22593226.
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    42. Gaut B. Arabidopsis thaliana as a model for the genetics of local adaptation. Nat Genet. 2012 Jan 27; 44(2):115-6. PMID: 22281764.
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    43. Tenaillon O, Rodríguez-Verdugo A, Gaut RL, McDonald P, Bennett AF, Long AD, Gaut BS. The molecular diversity of adaptive convergence. Science. 2012 Jan 27; 335(6067):457-61. PMID: 22282810.
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    44. Sakai H, Mizuno H, Kawahara Y, Wakimoto H, Ikawa H, Kawahigashi H, Kanamori H, Matsumoto T, Itoh T, Gaut BS. Retrogenes in rice (Oryza sativa L. ssp. japonica) exhibit correlated expression with their source genes. Genome Biol Evol. 2011; 3:1357-68. PMID: 22042334.
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    45. DeRose-Wilson L, Gaut BS. Mapping salinity tolerance during Arabidopsis thaliana germination and seedling growth. PLoS One. 2011; 6(8):e22832. PMID: 21857956.
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    46. Takuno S, Gaut BS. Body-methylated genes in Arabidopsis thaliana are functionally important and evolve slowly. Mol Biol Evol. 2012 Jan; 29(1):219-27. PMID: 21813466.
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    47. Hu TT, Pattyn P, Bakker EG, Cao J, Cheng JF, Clark RM, Fahlgren N, Fawcett JA, Grimwood J, Gundlach H, Haberer G, Hollister JD, Ossowski S, Ottilar RP, Salamov AA, Schneeberger K, Spannagl M, Wang X, Yang L, Nasrallah ME, Bergelson J, Carrington JC, Gaut BS, Schmutz J, Mayer KF, Van de Peer Y, Grigoriev IV, Nordborg M, Weigel D, Guo YL. The Arabidopsis lyrata genome sequence and the basis of rapid genome size change. Nat Genet. 2011 May; 43(5):476-81. PMID: 21478890.
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    48. Yang L, Gaut BS. Factors that contribute to variation in evolutionary rate among Arabidopsis genes. Mol Biol Evol. 2011 Aug; 28(8):2359-69. PMID: 21389272.
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    49. Tenaillon MI, Hufford MB, Gaut BS, Ross-Ibarra J. Genome size and transposable element content as determined by high-throughput sequencing in maize and Zea luxurians. Genome Biol Evol. 2011; 3:219-29. PMID: 21296765.
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    50. Hollister JD, Smith LM, Guo YL, Ott F, Weigel D, Gaut BS. Transposable elements and small RNAs contribute to gene expression divergence between Arabidopsis thaliana and Arabidopsis lyrata. Proc Natl Acad Sci U S A. 2011 Feb 08; 108(6):2322-7. PMID: 21252301.
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    51. Yang L, Takuno S, Waters ER, Gaut BS. Lowly expressed genes in Arabidopsis thaliana bear the signature of possible pseudogenization by promoter degradation. Mol Biol Evol. 2011 Mar; 28(3):1193-203. PMID: 21059790.
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    52. Li YH, Li W, Zhang C, Yang L, Chang RZ, Gaut BS, Qiu LJ. Genetic diversity in domesticated soybean (Glycine max) and its wild progenitor (Glycine soja) for simple sequence repeat and single-nucleotide polymorphism loci. New Phytol. 2010 Oct; 188(1):242-53. PMID: 20618914.
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    53. Tenaillon MI, Hollister JD, Gaut BS. A triptych of the evolution of plant transposable elements. Trends Plant Sci. 2010 Aug; 15(8):471-8. PMID: 20541961.
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    54. Van Heerwaarden J, Ross-Ibarra J, Doebley J, Glaubitz JC, González Jde J, Gaut BS, Eguiarte LE. Fine scale genetic structure in the wild ancestor of maize (Zea mays ssp. parviglumis). Mol Ecol. 2010 Mar; 19(6):1162-73. PMID: 20163543.
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    55. Lockton S, Gaut BS. The evolution of transposable elements in natural populations of self-fertilizing Arabidopsis thaliana and its outcrossing relative Arabidopsis lyrata. BMC Evol Biol. 2010 Jan 12; 10:10. PMID: 20067644.
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    56. Hollister JD, Ross-Ibarra J, Gaut BS. Indel-associated mutation rate varies with mating system in flowering plants. Mol Biol Evol. 2010 Feb; 27(2):409-16. PMID: 19825943.
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    57. Tian Z, Rizzon C, Du J, Zhu L, Bennetzen JL, Jackson SA, Gaut BS, Ma J. Do genetic recombination and gene density shape the pattern of DNA elimination in rice long terminal repeat retrotransposons? Genome Res. 2009 Dec; 19(12):2221-30. PMID: 19789376.
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    58. Zhang LB, Zhu Q, Wu ZQ, Ross-Ibarra J, Gaut BS, Ge S, Sang T. Selection on grain shattering genes and rates of rice domestication. New Phytol. 2009 Nov; 184(3):708-20. PMID: 19674325.
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    59. Hollister JD, Gaut BS. Epigenetic silencing of transposable elements: a trade-off between reduced transposition and deleterious effects on neighboring gene expression. Genome Res. 2009 Aug; 19(8):1419-28. PMID: 19478138.
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    60. Ross-Ibarra J, Tenaillon M, Gaut BS. Historical divergence and gene flow in the genus Zea. Genetics. 2009 Apr; 181(4):1399-413. PMID: 19153259.
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    61. Lockton S, Gaut BS. The contribution of transposable elements to expressed coding sequence in Arabidopsis thaliana. J Mol Evol. 2009 Jan; 68(1):80-9. PMID: 19125217.
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    62. Ross-Ibarra J, Gaut BS. Multiple domestications do not appear monophyletic. Proc Natl Acad Sci U S A. 2008 Dec 09; 105(49):E105; author reply E106. PMID: 19057016.
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    63. Sweredoski M, DeRose-Wilson L, Gaut BS. A comparative computational analysis of nonautonomous helitron elements between maize and rice. BMC Genomics. 2008 Oct 08; 9:467. PMID: 18842139.
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    64. Lockton S, Ross-Ibarra J, Gaut BS. Demography and weak selection drive patterns of transposable element diversity in natural populations of Arabidopsis lyrata. Proc Natl Acad Sci U S A. 2008 Sep 16; 105(37):13965-70. PMID: 18772373.
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    65. Ross-Ibarra J, Wright SI, Foxe JP, Kawabe A, DeRose-Wilson L, Gos G, Charlesworth D, Gaut BS. Patterns of polymorphism and demographic history in natural populations of Arabidopsis lyrata. PLoS One. 2008 Jun 11; 3(6):e2411. PMID: 18545707.
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    66. Gaut BS, Ross-Ibarra J. Selection on major components of angiosperm genomes. Science. 2008 Apr 25; 320(5875):484-6. PMID: 18436777.
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    67. Foxe JP, Dar VU, Zheng H, Nordborg M, Gaut BS, Wright SI. Selection on amino acid substitutions in Arabidopsis. Mol Biol Evol. 2008 Jul; 25(7):1375-83. PMID: 18390851.
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    68. Thuillet AC, Tenaillon MI, Anderson LK, Mitchell SE, Kresovich S, Stack SM, Gaut B, Doebley J. A weak effect of background selection on trinucleotide microsatellites in maize. J Hered. 2008 Jan-Feb; 99(1):45-55. PMID: 17962226.
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    69. Briggs WH, McMullen MD, Gaut BS, Doebley J. Linkage mapping of domestication loci in a large maize teosinte backcross resource. Genetics. 2007 Nov; 177(3):1915-28. PMID: 17947434.
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    70. Hollister JD, Gaut BS. Population and evolutionary dynamics of Helitron transposable elements in Arabidopsis thaliana. Mol Biol Evol. 2007 Nov; 24(11):2515-24. PMID: 17890239.
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    71. Hufford KM, Canaran P, Ware DH, McMullen MD, Gaut BS. Patterns of selection and tissue-specific expression among maize domestication and crop improvement loci. Plant Physiol. 2007 Jul; 144(3):1642-53. PMID: 17496114.
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    72. Ross-Ibarra J, Morrell PL, Gaut BS. Plant domestication, a unique opportunity to identify the genetic basis of adaptation. Proc Natl Acad Sci U S A. 2007 May 15; 104 Suppl 1:8641-8. PMID: 17494757.
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    73. DeRose-Wilson LJ, Gaut BS. Transcription-related mutations and GC content drive variation in nucleotide substitution rates across the genomes of Arabidopsis thaliana and Arabidopsis lyrata. BMC Evol Biol. 2007 Apr 23; 7:66. PMID: 17451608.
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    74. Zhu Q, Zheng X, Luo J, Gaut BS, Ge S. Multilocus analysis of nucleotide variation of Oryza sativa and its wild relatives: severe bottleneck during domestication of rice. Mol Biol Evol. 2007 Mar; 24(3):875-88. PMID: 17218640.
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    75. Ellis AG, Weis AE, Gaut BS. Spatial scale of local adaptation and population genetic structure in a miniature succulent, Argyroderma pearsonii. New Phytol. 2007; 174(4):904-14. PMID: 17504471.
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    76. Gaut BS, Wright SI, Rizzon C, Dvorak J, Anderson LK. Recombination: an underappreciated factor in the evolution of plant genomes. Nat Rev Genet. 2007 Jan; 8(1):77-84. PMID: 17173059.
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    77. Doebley JF, Gaut BS, Smith BD. The molecular genetics of crop domestication. Cell. 2006 Dec 29; 127(7):1309-21. PMID: 17190597.
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    78. Wang N, Baldi PF, Gaut BS. Phylogenetic analysis, genome evolution and the rate of gene gain in the Herpesviridae. Mol Phylogenet Evol. 2007 Jun; 43(3):1066-75. PMID: 17196839.
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    79. Wright SI, Foxe JP, DeRose-Wilson L, Kawabe A, Looseley M, Gaut BS, Charlesworth D. Testing for effects of recombination rate on nucleotide diversity in natural populations of Arabidopsis lyrata. Genetics. 2006 Nov; 174(3):1421-30. PMID: 16951057.
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    80. Rizzon C, Ponger L, Gaut BS. Striking similarities in the genomic distribution of tandemly arrayed genes in Arabidopsis and rice. PLoS Comput Biol. 2006 Sep 01; 2(9):e115. PMID: 16948529.
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    81. Mishmar D, Ruiz-Pesini E, Mondragon-Palomino M, Procaccio V, Gaut B, Wallace DC. Adaptive selection of mitochondrial complex I subunits during primate radiation. Gene. 2006 Aug 15; 378:11-8. PMID: 16828987.
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    82. Good-Avila SV, Souza V, Gaut BS, Eguiarte LE. Timing and rate of speciation in Agave (Agavaceae). Proc Natl Acad Sci U S A. 2006 Jun 13; 103(24):9124-9. PMID: 16757559.
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    83. Buckler ES, Gaut BS, McMullen MD. Molecular and functional diversity of maize. Curr Opin Plant Biol. 2006 Apr; 9(2):172-6. PMID: 16459128.
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    84. Ellis AG, Weis AE, Gaut BS. Evolutionary radiation of "stone plants" in the genus Argyroderma (Aizoaceae): unraveling the effects of landscape, habitat, and flowering time. Evolution. 2006 Jan; 60(1):39-55. PMID: 16568630.
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    85. Zhao W, Canaran P, Jurkuta R, Fulton T, Glaubitz J, Buckler E, Doebley J, Gaut B, Goodman M, Holland J, Kresovich S, McMullen M, Stein L, Ware D. Panzea: a database and resource for molecular and functional diversity in the maize genome. Nucleic Acids Res. 2006 Jan 01; 34(Database issue):D752-7. PMID: 16381974.
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    86. Yu J, Pressoir G, Briggs WH, Vroh Bi I, Yamasaki M, Doebley JF, McMullen MD, Gaut BS, Nielsen DM, Holland JB, Kresovich S, Buckler ES. A unified mixed-model method for association mapping that accounts for multiple levels of relatedness. Nat Genet. 2006 Feb; 38(2):203-8. PMID: 16380716.
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    87. Anderson LK, Lai A, Stack SM, Rizzon C, Gaut BS. Uneven distribution of expressed sequence tag loci on maize pachytene chromosomes. Genome Res. 2006 Jan; 16(1):115-22. PMID: 16339046.
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    88. Yamasaki M, Tenaillon MI, Bi IV, Schroeder SG, Sanchez-Villeda H, Doebley JF, Gaut BS, McMullen MD. A large-scale screen for artificial selection in maize identifies candidate agronomic loci for domestication and crop improvement. Plant Cell. 2005 Nov; 17(11):2859-72. PMID: 16227451.
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    89. Morton BR, Bi IV, McMullen MD, Gaut BS. Variation in mutation dynamics across the maize genome as a function of regional and flanking base composition. Genetics. 2006 Jan; 172(1):569-77. PMID: 16219784.
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    90. Mondragon-Palomino M, Gaut BS. Gene conversion and the evolution of three leucine-rich repeat gene families in Arabidopsis thaliana. Mol Biol Evol. 2005 Dec; 22(12):2444-56. PMID: 16120808.
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    91. Wright SI, Bi IV, Schroeder SG, Yamasaki M, Doebley JF, McMullen MD, Gaut BS. The effects of artificial selection on the maize genome. Science. 2005 May 27; 308(5726):1310-4. PMID: 15919994.
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    92. Lockton S, Gaut BS. Plant conserved non-coding sequences and paralogue evolution. Trends Genet. 2005 Jan; 21(1):60-5. PMID: 15680516.
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    93. Hampson SE, Gaut BS, Baldi P. Statistical detection of chromosomal homology using shared-gene density alone. Bioinformatics. 2005 Apr 15; 21(8):1339-48. PMID: 15585535.
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    94. Wright SI, Gaut BS. Molecular population genetics and the search for adaptive evolution in plants. Mol Biol Evol. 2005 Mar; 22(3):506-19. PMID: 15525701.
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    95. Tiffin P, Hacker R, Gaut BS. Population genetic evidence for rapid changes in intraspecific diversity and allelic cycling of a specialist defense gene in Zea. Genetics. 2004 Sep; 168(1):425-34. PMID: 15454554.
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    96. Tenaillon MI, U'Ren J, Tenaillon O, Gaut BS. Selection versus demography: a multilocus investigation of the domestication process in maize. Mol Biol Evol. 2004 Jul; 21(7):1214-25. PMID: 15014173.
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    97. McLysaght A, Baldi PF, Gaut BS. Extensive gene gain associated with adaptive evolution of poxviruses. Proc Natl Acad Sci U S A. 2003 Dec 23; 100(26):15655-60. PMID: 14660798.
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    98. Zhang L, Gaut BS. Does recombination shape the distribution and evolution of tandemly arrayed genes (TAGs) in the Arabidopsis thaliana genome? Genome Res. 2003 Dec; 13(12):2533-40. PMID: 14656961.
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    99. Gaut BS, Long AD. The lowdown on linkage disequilibrium. Plant Cell. 2003 Jul; 15(7):1502-6. PMID: 12837942.
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    100. Hampson S, McLysaght A, Gaut B, Baldi P. LineUp: statistical detection of chromosomal homology with application to plant comparative genomics. Genome Res. 2003 May; 13(5):999-1010. PMID: 12695327.
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    101. Tenaillon MI, Sawkins MC, Anderson LK, Stack SM, Doebley J, Gaut BS. Patterns of diversity and recombination along chromosome 1 of maize (Zea mays ssp. mays L.). Genetics. 2002 Nov; 162(3):1401-13. PMID: 12454083.
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    102. Zhang L, Peek AS, Dunams D, Gaut BS. Population genetics of duplicated disease-defense genes, hm1 and hm2, in maize (Zea mays ssp. mays L.) and its wild ancestor (Zea mays ssp. parviglumis). Genetics. 2002 Oct; 162(2):851-60. PMID: 12399395.
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    103. Whitt SR, Wilson LM, Tenaillon MI, Gaut BS, Buckler ES. Genetic diversity and selection in the maize starch pathway. Proc Natl Acad Sci U S A. 2002 Oct 01; 99(20):12959-62. PMID: 12244216.
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    104. Zhang L, Vision TJ, Gaut BS. Patterns of nucleotide substitution among simultaneously duplicated gene pairs in Arabidopsis thaliana. Mol Biol Evol. 2002 Sep; 19(9):1464-73. PMID: 12200474.
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    105. Mondragón-Palomino M, Meyers BC, Michelmore RW, Gaut BS. Patterns of positive selection in the complete NBS-LRR gene family of Arabidopsis thaliana. Genome Res. 2002 Sep; 12(9):1305-15. PMID: 12213767.
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    106. Tiffin P, Gaut BS. Molecular evolution of the wound-induced serine protease inhibitor wip1 in Zea and related genera. Mol Biol Evol. 2001 Nov; 18(11):2092-101. PMID: 11606705.
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    107. Zhang L, Gaut BS, Vision TJ. Gene duplication and evolution. Science. 2001 Aug 31; 293(5535):1551. PMID: 11550701.
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    108. Tenaillon MI, Sawkins MC, Long AD, Gaut RL, Doebley JF, Gaut BS. Patterns of DNA sequence polymorphism along chromosome 1 of maize (Zea mays ssp. mays L.). Proc Natl Acad Sci U S A. 2001 Jul 31; 98(16):9161-6. PMID: 11470895.
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    109. Tiffin P, Gaut BS. Sequence diversity in the tetraploid Zea perennis and the closely related diploid Z. diploperennis: insights from four nuclear loci. Genetics. 2001 May; 158(1):401-12. PMID: 11333248.
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    110. Zhang L, Pond SK, Gaut BS. A survey of the molecular evolutionary dynamics of twenty-five multigene families from four grass taxa. J Mol Evol. 2001 Feb; 52(2):144-56. PMID: 11231894.
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    111. Peek AS, Souza V, Eguiarte LE, Gaut BS. The interaction of protein structure, selection, and recombination on the evolution of the type-1 fimbrial major subunit (fimA) from Escherichia coli. J Mol Evol. 2001 Feb; 52(2):193-204. PMID: 11244580.
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    112. Gaut BS. Patterns of chromosomal duplication in maize and their implications for comparative maps of the grasses. Genome Res. 2001 Jan; 11(1):55-66. PMID: 11156615.
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    113. Gaut B. A golden age defined. Med J Aust. 2001 Jan 01; 174(1):8. PMID: 11219801.
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    114. Gaut BS, Le Thierry d'Ennequin M, Peek AS, Sawkins MC. Maize as a model for the evolution of plant nuclear genomes. Proc Natl Acad Sci U S A. 2000 Jun 20; 97(13):7008-15. PMID: 10860964.
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    115. Peek AS, Gaut BS, Feldman RA, Barry JP, Kochevar RE, Lutz RA, Vrijenhoek RC. Neutral and nonneutral mitochondrial genetic variation in deep-sea clams from the family vesicomyidae. J Mol Evol. 2000 Feb; 50(2):141-53. PMID: 10684348.
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    116. Doyle JJ, Gaut BS. Evolution of genes and taxa: a primer. Plant Mol Biol. 2000 Jan; 42(1):1-23. PMID: 10688128.
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    117. Gaut BS, Peek AS, Morton BR, Clegg MT. Patterns of genetic diversification within the Adh gene family in the grasses (Poaceae). Mol Biol Evol. 1999 Aug; 16(8):1086-97. PMID: 10474904.
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    118. Peek AS, Vrijenhoek RC, Gaut BS. Accelerated evolutionary rate in sulfur-oxidizing endosymbiotic bacteria associated with the mode of symbiont transmission. Mol Biol Evol. 1998 Nov; 15(11):1514-23. PMID: 12572615.
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    119. Meyers BC, Shen KA, Rohani P, Gaut BS, Michelmore RW. Receptor-like genes in the major resistance locus of lettuce are subject to divergent selection. Plant Cell. 1998 Nov; 10(11):1833-46. PMID: 9811792.
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    120. Hilton H, Gaut BS. Speciation and domestication in maize and its wild relatives: evidence from the globulin-1 gene. Genetics. 1998 Oct; 150(2):863-72. PMID: 9755214.
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    121. SanMiguel P, Gaut BS, Tikhonov A, Nakajima Y, Bennetzen JL. The paleontology of intergene retrotransposons of maize. Nat Genet. 1998 Sep; 20(1):43-5. PMID: 9731528.
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    122. Wang GL, Ruan DL, Song WY, Sideris S, Chen L, Pi LY, Zhang S, Zhang Z, Fauquet C, Gaut BS, Whalen MC, Ronald PC. Xa21D encodes a receptor-like molecule with a leucine-rich repeat domain that determines race-specific recognition and is subject to adaptive evolution. Plant Cell. 1998 May; 10(5):765-79. PMID: 9596635.
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    123. Eyre-Walker A, Gaut RL, Hilton H, Feldman DL, Gaut BS. Investigation of the bottleneck leading to the domestication of maize. Proc Natl Acad Sci U S A. 1998 Apr 14; 95(8):4441-6. PMID: 9539756.
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    124. Gaut BS, Clark LG, Wendel JF, Muse SV. Comparisons of the molecular evolutionary process at rbcL and ndhF in the grass family (Poaceae). Mol Biol Evol. 1997 Jul; 14(7):769-77. PMID: 9214750.
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    125. Gaut BS, Doebley JF. DNA sequence evidence for the segmental allotetraploid origin of maize. Proc Natl Acad Sci U S A. 1997 Jun 24; 94(13):6809-14. PMID: 11038553.
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    126. Muse SV, Gaut BS. Comparing patterns of nucleotide substitution rates among chloroplast loci using the relative ratio test. Genetics. 1997 May; 146(1):393-9. PMID: 9136027.
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    127. Eyre-Walker A, Gaut BS. Correlated rates of synonymous site evolution across plant genomes. Mol Biol Evol. 1997 Apr; 14(4):455-60. PMID: 9100375.
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    128. Morton BR, Gaut BS, Clegg MT. Evolution of alcohol dehydrogenase genes in the palm and grass families. Proc Natl Acad Sci U S A. 1996 Oct 15; 93(21):11735-9. PMID: 8876206.
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    129. Gaut BS, Morton BR, McCaig BC, Clegg MT. Substitution rate comparisons between grasses and palms: synonymous rate differences at the nuclear gene Adh parallel rate differences at the plastid gene rbcL. Proc Natl Acad Sci U S A. 1996 Sep 17; 93(19):10274-9. PMID: 8816790.
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    130. Hanson MA, Gaut BS, Stec AO, Fuerstenberg SI, Goodman MM, Coe EH, Doebley JF. Evolution of anthocyanin biosynthesis in maize kernels: the role of regulatory and enzymatic loci. Genetics. 1996 Jul; 143(3):1395-407. PMID: 8807310.
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    131. Gaut B. When all else fails, read the instructions. Med J Aust. 1995 Jan 02; 162(1):6-7. PMID: 7845309.
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    132. Gaut BS, Lewis PO. Success of maximum likelihood phylogeny inference in the four-taxon case. Mol Biol Evol. 1995 Jan; 12(1):152-62. PMID: 7877489.
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    133. Muse SV, Gaut BS. A likelihood approach for comparing synonymous and nonsynonymous nucleotide substitution rates, with application to the chloroplast genome. Mol Biol Evol. 1994 Sep; 11(5):715-24. PMID: 7968485.
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    134. Clegg MT, Gaut BS, Learn GH, Morton BR. Rates and patterns of chloroplast DNA evolution. Proc Natl Acad Sci U S A. 1994 Jul 19; 91(15):6795-801. PMID: 8041699.
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    135. Gaut BS, Weir BS. Detecting substitution-rate heterogeneity among regions of a nucleotide sequence. Mol Biol Evol. 1994 Jul; 11(4):620-9. PMID: 8078401.
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    136. Gaut B. World No-Tobacco Day. Med J Aust. 1994 May 16; 160(10):598-9. PMID: 8177100.
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    137. Gaut BS, Clegg MT. Nucleotide polymorphism in the Adh1 locus of pearl millet (Pennisetum glaucum) (Poaceae). Genetics. 1993 Dec; 135(4):1091-7. PMID: 7905843.
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    138. Gaut B. Ethics, distribution and Oregon. Med J Aust. 1993 Aug 16; 159(4):280-1. PMID: 8412900.
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    139. Gaut BS, Muse SV, Clegg MT. Relative rates of nucleotide substitution in the chloroplast genome. Mol Phylogenet Evol. 1993 Jun; 2(2):89-96. PMID: 8043149.
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    140. Gaut BS, Clegg MT. Molecular evolution of the Adh1 locus in the genus Zea. Proc Natl Acad Sci U S A. 1993 Jun 01; 90(11):5095-9. PMID: 8506356.
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    141. Gaut BS, Muse SV, Clark WD, Clegg MT. Relative rates of nucleotide substitution at the rbcL locus of monocotyledonous plants. J Mol Evol. 1992 Oct; 35(4):292-303. PMID: 1404415.
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    142. Gaut BS, Clegg MT. Molecular evolution of alcohol dehydrogenase 1 in members of the grass family. Proc Natl Acad Sci U S A. 1991 Mar 15; 88(6):2060-4. PMID: 2006143.
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    143. Wilson MA, Gaut B, Clegg MT. Chloroplast DNA evolves slowly in the palm family (Arecaceae). Mol Biol Evol. 1990 Jul; 7(4):303-14. PMID: 1974691.
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    144. Watts S, Davis AC, Gaut B, Wheeler C, Hill L, Goodenow RS. Organization and structure of the Qa genes of the major histocompatibility complex of the C3H mouse: implications for Qa function and class I evolution. EMBO J. 1989 Jun; 8(6):1749-59. PMID: 2767053.
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