Brandon S. Gaut, PhD - Publications

Affiliations: 
Ecology and Evolutionary Biology University of California, Irvine, Irvine, CA 
Area:
comparative genomics, bioinformatics, population genetics and molecular evolution
Website:
http://gautlab.bio.uci.edu/index.html

145 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
2019 Lv Y, Hu F, Zhou Y, Wu F, Gaut BS. Maize transposable elements contribute to long non-coding RNAs that are regulatory hubs for abiotic stress response. Bmc Genomics. 20: 864. PMID 31729949 DOI: 10.1186/s12864-019-6245-5  0.64
2019 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. Nature Plants. 5: 965-979. PMID 31506640 DOI: 10.1038/s41477-019-0507-8  0.64
2019 Seymour DK, Gaut BS. Phylogenetic shifts in gene body methylation correlate with gene expression and reflect trait conservation. Molecular Biology and Evolution. PMID 31504743 DOI: 10.1093/molbev/msz195  0.68
2019 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. Nature Plants. PMID 31477888 DOI: 10.1038/s41477-019-0508-7  0.68
2019 Gaut BS, Miller AJ, Seymour DK. Living with Two Genomes: Grafting and Its Implications for Plant Genome-to-Genome Interactions, Phenotypic Variation, and Evolution. Annual Review of Genetics. PMID 31424971 DOI: 10.1146/annurev-genet-112618-043545  0.68
2019 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). Molecular Ecology. PMID 30980686 DOI: 10.1111/mec.15098  0.72
2018 Muyle A, Gaut BS. Loss of gene body methylation in Eutrema salsugineum is associated with reduced gene expression. Molecular Biology and Evolution. PMID 30398664 DOI: 10.1093/molbev/msy204  0.52
2018 Gaut BS, Seymour DK, Liu Q, Zhou Y. Demography and its effects on genomic variation in crop domestication. Nature Plants. PMID 30061748 DOI: 10.1038/s41477-018-0210-1  0.68
2018 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 Biology and Evolution. 10: 803-815. PMID 29608716 DOI: 10.1093/gbe/evy043  0.48
2017 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. Frontiers in Microbiology. 8: 2478. PMID 29326663 DOI: 10.3389/fmicb.2017.02478  0.48
2017 Zhou Y, Massonnet M, Sanjak JS, Cantu D, Gaut BS. Evolutionary genomics of grape (Vitis vinifera ssp. vinifera) domestication. Proceedings of the National Academy of Sciences of the United States of America. PMID 29042518 DOI: 10.1073/pnas.1709257114  0.64
2017 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. Frontiers in Plant Science. 8: 826. PMID 28567052 DOI: 10.3389/fpls.2017.00826  0.44
2017 Takuno S, Seymour DK, Gaut BS. The evolutionary dynamics of orthologs that shift in gene body methylation between Arabidopsis species. Molecular Biology and Evolution. PMID 28333248 DOI: 10.1093/molbev/msx099  1
2017 Bousios A, Gaut BS, Darzentas N. Considerations and complications of mapping small RNA high-throughput data to transposable elements. Mobile Dna. 8: 3. PMID 28228849 DOI: 10.1186/s13100-017-0086-z  0.48
2017 Liu Q, Zhou Y, Morrell PL, Gaut BS. Deleterious variants in Asian rice and the potential cost of domestication. Molecular Biology and Evolution. PMID 28087781 DOI: 10.1093/molbev/msw296  0.72
2016 Takuno S, Ran JH, Gaut BS. Evolutionary patterns of genic DNA methylation vary across land plants. Nature Plants. 2: 15222. PMID 27249194 DOI: 10.1038/nplants.2015.222  1
2016 Roessler K, Takuno S, Gaut BS. CG Methylation Covaries with Differential Gene Expression between Leaf and Floral Bud Tissues of Brachypodium distachyon. Plos One. 11: e0150002. PMID 26950546 DOI: 10.1371/journal.pone.0150002  1
2016 Bousios A, Gaut BS. Mechanistic and evolutionary questions about epigenetic conflicts between transposable elements and their plant hosts. Current Opinion in Plant Biology. 30: 123-133. PMID 26950253 DOI: 10.1016/j.pbi.2016.02.009  1
2015 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 Research. PMID 26631490 DOI: 10.1101/gr.193763.115  1
2015 Gaut BS, Díez CM, Morrell PL. Genomics and the Contrasting Dynamics of Annual and Perennial Domestication. Trends in Genetics : Tig. PMID 26603610 DOI: 10.1016/j.tig.2015.10.002  1
2015 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. The New Phytologist. PMID 26599353 DOI: 10.1111/nph.13780  1
2015 Rodríguez-Verdugo A, Tenaillon O, Gaut BS. First-step mutations during adaptation restore the expression of hundreds of genes. Molecular Biology and Evolution. PMID 26500250 DOI: 10.1093/molbev/msv228  1
2015 Hug SM, Gaut BS. The phenotypic signature of adaptation to thermal stress in Escherichia coli. Bmc Evolutionary Biology. 15: 177. PMID 26329930 DOI: 10.1186/s12862-015-0457-3  1
2015 Gaut BS. Evolution Is an Experiment: Assessing Parallelism in Crop Domestication and Experimental Evolution: (Nei Lecture, SMBE 2014, Puerto Rico). Molecular Biology and Evolution. 32: 1661-71. PMID 26012904 DOI: 10.1093/molbev/msv105  1
2015 Diez CM, Trujillo I, Martinez-Urdiroz N, Barranco D, Rallo L, Marfil P, Gaut BS. Olive domestication and diversification in the Mediterranean Basin. The New Phytologist. 206: 436-47. PMID 25420413 DOI: 10.1111/nph.13181  1
2014 Rodríguez-Verdugo A, Carrillo-Cisneros D, González-González A, Gaut BS, Bennett AF. Different tradeoffs result from alternate genetic adaptations to a common environment. Proceedings of the National Academy of Sciences of the United States of America. 111: 12121-6. PMID 25092325 DOI: 10.1073/pnas.1406886111  1
2014 Gaut BS. The complex domestication history of the common bean. Nature Genetics. 46: 663-4. PMID 24965727 DOI: 10.1038/ng.3017  1
2014 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 Genetics. 10: e1004298. PMID 24743518 DOI: 10.1371/journal.pgen.1004298  1
2014 Diez CM, Roessler K, Gaut BS. Epigenetics and plant genome evolution. Current Opinion in Plant Biology. 18: 1-8. PMID 24424204 DOI: 10.1016/j.pbi.2013.11.017  1
2014 Achaz G, Rodriguez-Verdugo A, Gaut BS, Tenaillon O. The reproducibility of adaptation in the light of experimental evolution with whole genome sequencing. Advances in Experimental Medicine and Biology. 781: 211-31. PMID 24277302 DOI: 10.1007/978-94-007-7347-9_11  1
2013 Slotte T, Hazzouri KM, Ã…gren 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, ... ... Gaut BS, et al. The Capsella rubella genome and the genomic consequences of rapid mating system evolution. Nature Genetics. 45: 831-5. PMID 23749190 DOI: 10.1038/ng.2669  1
2013 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. The New Phytologist. 199: 264-76. PMID 23550586 DOI: 10.1111/nph.12247  1
2013 Rodríguez-Verdugo A, Gaut BS, Tenaillon O. Evolution of Escherichia coli rifampicin resistance in an antibiotic-free environment during thermal stress. Bmc Evolutionary Biology. 13: 50. PMID 23433244 DOI: 10.1186/1471-2148-13-50  1
2013 Takuno S, Gaut BS. Gene body methylation is conserved between plant orthologs and is of evolutionary consequence. Proceedings of the National Academy of Sciences of the United States of America. 110: 1797-802. PMID 23319627 DOI: 10.1073/pnas.1215380110  1
2012 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. 7: e47659. PMID 23155371 DOI: 10.1371/journal.pone.0047659  1
2012 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, et al. Maize HapMap2 identifies extant variation from a genome in flux. Nature Genetics. 44: 803-7. PMID 22660545 DOI: 10.1038/ng.2313  1
2012 Vonholdt BM, Takuno S, Gaut BS. Recent retrotransposon insertions are methylated and phylogenetically clustered in japonica rice (Oryza sativa spp. japonica). Molecular Biology and Evolution. 29: 3193-203. PMID 22593226 DOI: 10.1093/molbev/mss129  1
2012 Tenaillon O, Rodríguez-Verdugo A, Gaut RL, McDonald P, Bennett AF, Long AD, Gaut BS. The molecular diversity of adaptive convergence. Science (New York, N.Y.). 335: 457-61. PMID 22282810 DOI: 10.1126/science.1212986  1
2012 Gaut B. Arabidopsis thaliana as a model for the genetics of local adaptation Nature Genetics. 44: 115-116. PMID 22281764 DOI: 10.1038/ng.1079  1
2012 Takuno S, Gaut BS. Body-methylated genes in Arabidopsis thaliana are functionally important and evolve slowly. Molecular Biology and Evolution. 29: 219-27. PMID 21813466 DOI: 10.1093/molbev/msr188  1
2012 Muñoz-Diez C, Vitte C, Ross-Ibarra J, Gaut BS, Tenaillon MI. Using nextgen sequencing to investigate genome size variation and transposable element content Topics in Current Genetics. 24: 41-58. DOI: 10.1007/978-3-642-31842-9-3  1
2011 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 Biology and Evolution. 3: 1357-68. PMID 22042334 DOI: 10.1093/gbe/evr111  1
2011 DeRose-Wilson L, Gaut BS. Mapping salinity tolerance during Arabidopsis thaliana germination and seedling growth. Plos One. 6: e22832. PMID 21857956 DOI: 10.1371/journal.pone.0022832  1
2011 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, ... ... Gaut BS, et al. The Arabidopsis lyrata genome sequence and the basis of rapid genome size change. Nature Genetics. 43: 476-81. PMID 21478890 DOI: 10.1038/ng.807  1
2011 Yang L, Gaut BS. Factors that contribute to variation in evolutionary rate among Arabidopsis genes. Molecular Biology and Evolution. 28: 2359-69. PMID 21389272 DOI: 10.1093/molbev/msr058  1
2011 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 Biology and Evolution. 3: 219-29. PMID 21296765 DOI: 10.1093/gbe/evr008  1
2011 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. Proceedings of the National Academy of Sciences of the United States of America. 108: 2322-7. PMID 21252301 DOI: 10.1073/pnas.1018222108  1
2011 Yang L, Takuno S, Waters ER, Gaut BS. Lowly expressed genes in Arabidopsis thaliana bear the signature of possible pseudogenization by promoter degradation. Molecular Biology and Evolution. 28: 1193-203. PMID 21059790 DOI: 10.1093/molbev/msq298  1
2011 Gaut BS. Variation in the rates of molecular evolution in plants Annual Review of Ecology, Evolution, and Systematics. 42. DOI: 10.1146/annurev-ecolsys-102710-145119  1
2010 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. The New Phytologist. 188: 242-53. PMID 20618914 DOI: 10.1111/j.1469-8137.2010.03344.x  1
2010 Tenaillon MI, Hollister JD, Gaut BS. A triptych of the evolution of plant transposable elements. Trends in Plant Science. 15: 471-8. PMID 20541961 DOI: 10.1016/j.tplants.2010.05.003  1
2010 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). Molecular Ecology. 19: 1162-73. PMID 20163543 DOI: 10.1111/j.1365-294X.2010.04559.x  1
2010 Lockton S, Gaut BS. The evolution of transposable elements in natural populations of self-fertilizing Arabidopsis thaliana and its outcrossing relative Arabidopsis lyrata. Bmc Evolutionary Biology. 10: 10. PMID 20067644 DOI: 10.1186/1471-2148-10-10  1
2010 Hollister JD, Ross-Ibarra J, Gaut BS. Indel-associated mutation rate varies with mating system in flowering plants. Molecular Biology and Evolution. 27: 409-16. PMID 19825943 DOI: 10.1093/molbev/msp249  1
2009 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 Research. 19: 2221-30. PMID 19789376 DOI: 10.1101/gr.083899.108  1
2009 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. The New Phytologist. 184: 708-20. PMID 19674325 DOI: 10.1111/j.1469-8137.2009.02984.x  1
2009 Hollister JD, Gaut BS. Epigenetic silencing of transposable elements: a trade-off between reduced transposition and deleterious effects on neighboring gene expression. Genome Research. 19: 1419-28. PMID 19478138 DOI: 10.1101/gr.091678.109  1
2009 Ross-Ibarra J, Tenaillon M, Gaut BS. Historical divergence and gene flow in the genus Zea. Genetics. 181: 1399-413. PMID 19153259 DOI: 10.1534/genetics.108.097238  1
2009 Lockton S, Gaut BS. The contribution of transposable elements to expressed coding sequence in Arabidopsis thaliana. Journal of Molecular Evolution. 68: 80-9. PMID 19125217 DOI: 10.1007/s00239-008-9190-5  1
2008 Ross-Ibarra J, Gaut BS. Multiple domestications do not appear monophyletic. Proceedings of the National Academy of Sciences of the United States of America. 105: E105; author reply E. PMID 19057016 DOI: 10.1073/pnas.0809042105  1
2008 Sweredoski M, DeRose-Wilson L, Gaut BS. A comparative computational analysis of nonautonomous helitron elements between maize and rice. Bmc Genomics. 9: 467. PMID 18842139 DOI: 10.1186/1471-2164-9-467  1
2008 Lockton S, Ross-Ibarra J, Gaut BS. Demography and weak selection drive patterns of transposable element diversity in natural populations of Arabidopsis lyrata. Proceedings of the National Academy of Sciences of the United States of America. 105: 13965-70. PMID 18772373 DOI: 10.1073/pnas.0804671105  1
2008 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. 3: e2411. PMID 18545707 DOI: 10.1371/journal.pone.0002411  1
2008 Gaut BS, Ross-Ibarra J. Selection on major components of angiosperm genomes. Science (New York, N.Y.). 320: 484-6. PMID 18436777 DOI: 10.1126/science.1153586  1
2008 Foxe JP, Dar VU, Zheng H, Nordborg M, Gaut BS, Wright SI. Selection on amino acid substitutions in Arabidopsis. Molecular Biology and Evolution. 25: 1375-83. PMID 18390851 DOI: 10.1093/molbev/msn079  1
2008 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 Journal of Heredity. 99: 45-55. PMID 17962226 DOI: 10.1093/jhered/esm082  1
2007 Briggs WH, McMullen MD, Gaut BS, Doebley J. Linkage mapping of domestication loci in a large maize teosinte backcross resource. Genetics. 177: 1915-28. PMID 17947434 DOI: 10.1534/genetics.107.076497  1
2007 Hollister JD, Gaut BS. Population and evolutionary dynamics of Helitron transposable elements in Arabidopsis thaliana. Molecular Biology and Evolution. 24: 2515-24. PMID 17890239 DOI: 10.1093/molbev/msm197  1
2007 Ellis AG, Weis AE, Gaut BS. Spatial scale of local adaptation and population genetic structure in a miniature succulent, Argyroderma pearsonii. The New Phytologist. 174: 904-14. PMID 17504471 DOI: 10.1111/j.1469-8137.2007.02043.x  1
2007 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 Physiology. 144: 1642-53. PMID 17496114 DOI: 10.1104/pp.107.098988  1
2007 Ross-Ibarra J, Morrell PL, Gaut BS. Plant domestication, a unique opportunity to identify the genetic basis of adaptation. Proceedings of the National Academy of Sciences of the United States of America. 104: 8641-8. PMID 17494757 DOI: 10.1073/pnas.0700643104  1
2007 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 Evolutionary Biology. 7: 66. PMID 17451608 DOI: 10.1186/1471-2148-7-66  1
2007 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. Molecular Biology and Evolution. 24: 875-88. PMID 17218640 DOI: 10.1093/molbev/msm005  1
2007 Wang N, Baldi PF, Gaut BS. Phylogenetic analysis, genome evolution and the rate of gene gain in the Herpesviridae. Molecular Phylogenetics and Evolution. 43: 1066-75. PMID 17196839 DOI: 10.1016/j.ympev.2006.11.019  1
2007 Gaut BS, Wright SI, Rizzon C, Dvorak J, Anderson LK. Recombination: an underappreciated factor in the evolution of plant genomes. Nature Reviews. Genetics. 8: 77-84. PMID 17173059 DOI: 10.1038/nrg1970  1
2006 Doebley JF, Gaut BS, Smith BD. The molecular genetics of crop domestication. Cell. 127: 1309-21. PMID 17190597 DOI: 10.1016/j.cell.2006.12.006  1
2006 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. 174: 1421-30. PMID 16951057 DOI: 10.1534/genetics.106.062588  1
2006 Rizzon C, Ponger L, Gaut BS. Striking similarities in the genomic distribution of tandemly arrayed genes in Arabidopsis and rice. Plos Computational Biology. 2: e115. PMID 16948529 DOI: 10.1371/journal.pcbi.0020115  1
2006 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. 378: 11-18. PMID 16828987 DOI: 10.1016/j.gene.2006.03.015  1
2006 Good-Avila SV, Souza V, Gaut BS, Eguiarte LE. Timing and rate of speciation in Agave (Agavaceae). Proceedings of the National Academy of Sciences of the United States of America. 103: 9124-9. PMID 16757559 DOI: 10.1073/pnas.0603312103  1
2006 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; International Journal of Organic Evolution. 60: 39-55. PMID 16568630 DOI: 10.1554/05-194.1  1
2006 Buckler ES, Gaut BS, McMullen MD. Molecular and functional diversity of maize. Current Opinion in Plant Biology. 9: 172-6. PMID 16459128 DOI: 10.1016/j.pbi.2006.01.013  1
2006 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 Research. 34: D752-7. PMID 16381974 DOI: 10.1093/nar/gkj011  1
2006 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. Nature Genetics. 38: 203-8. PMID 16380716 DOI: 10.1038/ng1702  1
2006 Anderson LK, Lai A, Stack SM, Rizzon C, Gaut BS. Uneven distribution of expressed sequence tag loci on maize pachytene chromosomes. Genome Research. 16: 115-22. PMID 16339046 DOI: 10.1101/gr.4249906  1
2006 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. 172: 569-77. PMID 16219784 DOI: 10.1534/genetics.105.049916  1
2005 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. The Plant Cell. 17: 2859-72. PMID 16227451 DOI: 10.1105/tpc.105.037242  1
2005 Mondragon-Palomino M, Gaut BS. Gene conversion and the evolution of three leucine-rich repeat gene families in Arabidopsis thaliana. Molecular Biology and Evolution. 22: 2444-56. PMID 16120808 DOI: 10.1093/molbev/msi241  1
2005 Wright SI, Bi IV, Schroeder SG, Yamasaki M, Doebley JF, McMullen MD, Gaut BS. The effects of artificial selection on the maize genome. Science (New York, N.Y.). 308: 1310-4. PMID 15919994 DOI: 10.1126/science.1107891  1
2005 Lockton S, Gaut BS. Plant conserved non-coding sequences and paralogue evolution. Trends in Genetics : Tig. 21: 60-5. PMID 15680516 DOI: 10.1016/j.tig.2004.11.013  1
2005 Hampson SE, Gaut BS, Baldi P. Statistical detection of chromosomal homology using shared-gene density alone. Bioinformatics (Oxford, England). 21: 1339-48. PMID 15585535 DOI: 10.1093/bioinformatics/bti168  1
2005 Wright SI, Gaut BS. Molecular population genetics and the search for adaptive evolution in plants. Molecular Biology and Evolution. 22: 506-19. PMID 15525701 DOI: 10.1093/molbev/msi035  1
2004 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. 168: 425-34. PMID 15454554 DOI: 10.1534/genetics.103.023028  1
2004 Tenaillon MI, U'Ren J, Tenaillon O, Gaut BS. Selection versus demography: a multilocus investigation of the domestication process in maize. Molecular Biology and Evolution. 21: 1214-25. PMID 15014173 DOI: 10.1093/molbev/msh102  1
2003 McLysaght A, Baldi PF, Gaut BS. Extensive gene gain associated with adaptive evolution of poxviruses. Proceedings of the National Academy of Sciences of the United States of America. 100: 15655-60. PMID 14660798 DOI: 10.1073/pnas.2136653100  1
2003 Zhang L, Gaut BS. Does recombination shape the distribution and evolution of tandemly arrayed genes (TAGs) in the Arabidopsis thaliana genome? Genome Research. 13: 2533-40. PMID 14656961 DOI: 10.1101/gr.1318503  1
2003 Gaut BS, Long AD. The lowdown on linkage disequilibrium. The Plant Cell. 15: 1502-6. PMID 12837942 DOI: 10.1105/tpc.150730  1
2003 Hampson S, McLysaght A, Gaut B, Baldi P. LineUp: statistical detection of chromosomal homology with application to plant comparative genomics. Genome Research. 13: 999-1010. PMID 12695327 DOI: 10.1101/gr.814403  1
2002 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. 162: 1401-13. PMID 12454083  1
2002 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. 162: 851-60. PMID 12399395  1
2002 Whitt SR, Wilson LM, Tenaillon MI, Gaut BS, Buckler ES. Genetic diversity and selection in the maize starch pathway. Proceedings of the National Academy of Sciences of the United States of America. 99: 12959-62. PMID 12244216 DOI: 10.1073/pnas.202476999  1
2002 Mondragón-Palomino M, Meyers BC, Michelmore RW, Gaut BS. Patterns of positive selection in the complete NBS-LRR gene family of Arabidopsis thaliana. Genome Research. 12: 1305-15. PMID 12213767 DOI: 10.1101/gr.159402  1
2002 Zhang L, Vision TJ, Gaut BS. Patterns of nucleotide substitution among simultaneously duplicated gene pairs in Arabidopsis thaliana. Molecular Biology and Evolution. 19: 1464-73. PMID 12200474  1
2002 Gaut BS. Evolutionary dynamics of grass genomes New Phytologist. 154: 15-28. DOI: 10.1046/j.1469-8137.2002.00352.x  1
2001 Tiffin P, Gaut BS. Molecular evolution of the wound-induced serine protease inhibitor wip1 in Zea and related genera. Molecular Biology and Evolution. 18: 2092-101. PMID 11606705  1
2001 Zhang L, Gaut BS, Vision TJ. Gene duplication and evolution. Science (New York, N.Y.). 293: 1551. PMID 11550701  1
2001 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.). Proceedings of the National Academy of Sciences of the United States of America. 98: 9161-6. PMID 11470895 DOI: 10.1073/pnas.151244298  1
2001 Tiffin P, Gaut BS. Sequence diversity in the tetraploid Zea perennis and the closely related diploid Z. diploperennis: insights from four nuclear loci. Genetics. 158: 401-12. PMID 11333248  1
2001 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. Journal of Molecular Evolution. 52: 193-204. PMID 11244580 DOI: 10.1007/s002390010148  1
2001 Zhang L, Pond SK, Gaut BS. A survey of the molecular evolutionary dynamics of twenty-five multigene families from four grass taxa. Journal of Molecular Evolution. 52: 144-56. PMID 11231894 DOI: 10.1007/s002390010143  1
2001 Gaut BS. Patterns of chromosomal duplication in maize and their implications for comparative maps of the grasses. Genome Research. 11: 55-66. PMID 11156615 DOI: 10.1101/gr.160601  1
2001 Kubik C, Sawkins M, Meyer WA, Gaut BS. Genetic diversity in seven perennial ryegrass (Lolium perenne L.) cultivars based on SSR markers Crop Science. 41: 1565-1572.  1
2000 Gaut BS, Le Thierry d'Ennequin M, Peek AS, Sawkins MC. Maize as a model for the evolution of plant nuclear genomes. Proceedings of the National Academy of Sciences of the United States of America. 97: 7008-15. PMID 10860964 DOI: 10.1073/pnas.97.13.7008  1
2000 Doyle JJ, Gaut BS. Evolution of genes and taxa: a primer. Plant Molecular Biology. 42: 1-23. PMID 10688128 DOI: 10.1023/A:1006349518932  1
2000 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. Journal of Molecular Evolution. 50: 141-53. PMID 10684348 DOI: 10.1007/s002399910016  1
2000 Gaut BS, Tredway LP, Kubik C, Gaut RL, Meyer W. Phylogenetic relationships and genetic diversity among members of the Festuca-Lolium complex (Poaceae) based on ITS sequence data Plant Systematics and Evolution. 224: 33-53.  1
2000 Doyle JJ, Gaut BS. Plant Molecular Evolution: Preface Plant Molecular Biology. 42: vii-ix.  1
1999 Gaut BS, Peek AS, Morton BR, Clegg MT. Patterns of genetic diversification within the Adh gene family in the grasses (Poaceae). Molecular Biology and Evolution. 16: 1086-97. PMID 10474904  1
1999 Tredway LP, White JF, Gaut BS, Reddy PV, Richardson MD, Clarke BB. Phylogenetic relationships within and between Epichloe and Neotyphodium endophytes as estimated by AFLP markers and rDNA sequences Mycological Research. 103: 1593-1603. DOI: 10.1017/S0953756299008874  1
1999 Kubik C, Meyer WA, Gaut BS. Assessing the abundance and polymorphism of simple sequence repeats in perennial rye grass Crop Science. 39: 1136-1141.  1
1998 Peek AS, Vrijenhoek RC, Gaut BS. Accelerated evolutionary rate in sulfur-oxidizing endosymbiotic bacteria associated with the mode of symbiont transmission. Molecular Biology and Evolution. 15: 1514-23. PMID 12572615  1
1998 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. The Plant Cell. 10: 1833-46. PMID 9811792 DOI: 10.1105/tpc.10.11.1833  1
1998 Hilton H, Gaut BS. Speciation and domestication in maize and its wild relatives: evidence from the globulin-1 gene. Genetics. 150: 863-72. PMID 9755214  1
1998 SanMiguel P, Gaut BS, Tikhonov A, Nakajima Y, Bennetzen JL. The paleontology of intergene retrotransposons of maize. Nature Genetics. 20: 43-5. PMID 9731528 DOI: 10.1038/1695  1
1998 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. The Plant Cell. 10: 765-79. PMID 9596635 DOI: 10.1105/tpc.10.5.765  1
1998 Eyre-Walker A, Gaut RL, Hilton H, Feldman DL, Gaut BS. Investigation of the bottleneck leading to the domestication of maize. Proceedings of the National Academy of Sciences of the United States of America. 95: 4441-6. PMID 9539756 DOI: 10.1073/pnas.95.8.4441  1
1997 Gaut BS, Doebley JF. DNA sequence evidence for the segmental allotetraploid origin of maize. Proceedings of the National Academy of Sciences of the United States of America. 94: 6809-14. PMID 11038553 DOI: 10.1073/pnas.94.13.6809  1
1997 Gaut BS, Clark LG, Wendel JF, Muse SV. Comparisons of the molecular evolutionary process at rbcL and ndhF in the grass family (Poaceae). Molecular Biology and Evolution. 14: 769-77. PMID 9214750  1
1997 Muse SV, Gaut BS. Comparing patterns of nucleotide substitution rates among chloroplast loci using the relative ratio test. Genetics. 146: 393-9. PMID 9136027  1
1997 Eyre-Walker A, Gaut BS. Correlated rates of synonymous site evolution across plant genomes. Molecular Biology and Evolution. 14: 455-60. PMID 9100375  1
1996 Morton BR, Gaut BS, Clegg MT. Evolution of alcohol dehydrogenase genes in the palm and grass families. Proceedings of the National Academy of Sciences of the United States of America. 93: 11735-9. PMID 8876206 DOI: 10.1073/pnas.93.21.11735  1
1996 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. Proceedings of the National Academy of Sciences of the United States of America. 93: 10274-9. PMID 8816790 DOI: 10.1073/pnas.93.19.10274  1
1996 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. 143: 1395-407. PMID 8807310  1
1996 Gaut BS. Evolution in the genus Zea: Lessons from studies of nucleotide polymorphism Plant Species Biology. 11: 1-11.  1
1995 Gaut BS, Lewis PO. Success of maximum likelihood phylogeny inference in the four-taxon case. Molecular Biology and Evolution. 12: 152-62. PMID 7877489  1
1994 Gaut BS, Weir BS. Detecting substitution-rate heterogeneity among regions of a nucleotide sequence. Molecular Biology and Evolution. 11: 620-9. PMID 8078401  1
1994 Clegg MT, Gaut BS, Learn GH, Morton BR. Rates and patterns of chloroplast DNA evolution. Proceedings of the National Academy of Sciences of the United States of America. 91: 6795-801. PMID 8041699 DOI: 10.1073/pnas.91.15.6795  1
1994 Muse SV, Gaut BS. A likelihood approach for comparing synonymous and nonsynonymous nucleotide substitution rates, with application to the chloroplast genome. Molecular Biology and Evolution. 11: 715-24. PMID 7968485  1
1993 Gaut BS, Clegg MT. Molecular evolution of the Adh1 locus in the genus Zea. Proceedings of the National Academy of Sciences of the United States of America. 90: 5095-9. PMID 8506356  1
1993 Gaut BS, Muse SV, Clegg MT. Relative rates of nucleotide substitution in the chloroplast genome. Molecular Phylogenetics and Evolution. 2: 89-96. PMID 8043149 DOI: 10.1006/mpev.1993.1009  1
1993 Gaut BS, Clegg MT. Nucleotide polymorphism in the Adh1 locus of pearl millet (Pennisetum glaucum) (Poaceae). Genetics. 135: 1091-7. PMID 7905843  1
1993 Weir BS, Gaut BS. Variances for distances between plant sequences New Zealand Journal of Botany. 31: 317-322. DOI: 10.1080/0028825X.1993.10419509  1
1993 Clegg MT, Gaut BS, Duvall MR, Davis J. Inferring plant evolutionary history from molecular data New Zealand Journal of Botany. 31: 307-316. DOI: 10.1080/0028825X.1993.10419508  1
1992 Gaut BS, Muse SV, Clark WD, Clegg MT. Relative rates of nucleotide substitution at the rbcL locus of monocotyledonous plants. Journal of Molecular Evolution. 35: 292-303. PMID 1404415 DOI: 10.1007/BF00161167  1
1991 Gaut BS, Clegg MT. Molecular evolution of alcohol dehydrogenase 1 in members of the grass family. Proceedings of the National Academy of Sciences of the United States of America. 88: 2060-4. PMID 2006143  1
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