Works by Gaut, Brandon S.

Results: 95

Quantifying the Evolution of SNPs That Affect RNA Secondary Structure in Arabidopsis thaliana Genes Open Access.

Published in:

Molecular Biology & Evolution, 2025, v. 42, n. 6, p. 1, doi. 10.1093/molbev/msaf126

By:

Martin, Galen T;
Fiscus, Christopher J;
Gaut, Brandon S

Publication type:

Article

Multilocus Analysis of Nucleotide Variation of Oryza sativa and Its Wild Relatives: Severe Bottleneck during Domestication of Rice.

Published in:

Molecular Biology & Evolution, 2007, v. 24, n. 3, p. 875, doi. 10.1093/molbev/msm005

By:

Qihui Zhu;
Xiaoming Zheng;
Jingchu Luo;
Gaut, Brandon S.;
Ge, Song

Publication type:

Article

Gene Conversion and the Evolution of Three Leucine-Rich Repeat Gene Families in Arabidopsis thaliana.

Published in:

Molecular Biology & Evolution, 2005, v. 22, n. 12, p. 2444, doi. 10.1093/molbev/msi241

By:

Mondragon-Palomino, Mariana;
Gaut, Brandon S.

Publication type:

Article

Molecular Population Genetics and the Search for Adaptive Evolution in Plants.

Published in:

Molecular Biology & Evolution, 2005, v. 22, n. 3, p. 506, doi. 10.1093/molbev/msi035

By:

Wright, Stephen I.;
Gaut, Brandon S.

Publication type:

Article

Selection Versus Demography: A Multilocus Investigation of the Domestication Process in Maize.

Published in:

Molecular Biology & Evolution, 2004, v. 21, n. 7, p. 1214, doi. 10.1093/molbev/msh102

By:

Tenaillon, Maud I.;
U'Ren, Jana;
Tenaillon, Olivier;
Gaut, Brandon S.

Publication type:

Article

Patterns of Nucleotide Substitution Among Simultaneously Duplicated Gene Pairs in Arabidopsis thaliana.

Published in:

Molecular Biology & Evolution, 2002, v. 19, n. 9, p. 1464, doi. 10.1093/oxfordjournals.molbev.a004209

By:

Zhang, Liqing;
Vision, Todd J.;
Gaut, Brandon S.

Publication type:

Article

Molecular Evolution of the Wound-Induced Serine Protease Inhibitor wip1 in Zea and Related Genera.

Published in:

Molecular Biology & Evolution, 2001, v. 18, n. 11, p. 2092, doi. 10.1093/oxfordjournals.molbev.a003750

By:

Tiffin, Peter;
Gaut, Brandon S.

Publication type:

Article

Impacts of reproductive systems on grapevine genome and breeding.

Published in:

Nature Communications, 2025, v. 16, n. 1, p. 1, doi. 10.1038/s41467-025-56817-7

By:

Xiao, Hua;
Wang, Yue;
Liu, Wenwen;
Shi, Xiaoya;
Huang, Siyang;
Cao, Shuo;
Long, Qiming;
Wang, Xu;
Liu, Zhongjie;
Xu, Xiaodong;
Peng, Yanling;
Wang, Pengfei;
Jiang, Zhonghao;
Riaz, Summaira;
Walker, Andrew M.;
Gaut, Brandon S.;
Huang, Sanwen;
Zhou, Yongfeng

Publication type:

Article

Inferring plant evolutionary history from molecular data.

Published in:

New Zealand Journal of Botany, 1993, v. 31, n. 3, p. 307, doi. 10.1080/0028825X.1993.10419508

By:

Clegg, Michael T.;
Gaut, Brandon S.;
Duvall, Melvin R.;
Davis, Joel

Publication type:

Article

The Contribution of Transposable Elements to Expressed Coding Sequence in Arabidopsis thaliana.

Published in:

Journal of Molecular Evolution, 2009, v. 68, n. 1, p. 80, doi. 10.1007/s00239-008-9190-5

By:

Lockton, Steven;
Gaut, Brandon S.

Publication type:

Article

The Interaction of Protein Structure, Selection, and Recombination on the Evolution of the Type-1 Fimbrial Major Subunit (fimA) from Escherichia coli.

Published in:

Journal of Molecular Evolution, 2001, v. 52, n. 2, p. 193, doi. 10.1007/s002390010148

By:

Peek, Andrew S.;
Souza, Valeria;
Eguiarte, Luis E.;
Gaut, Brandon S.

Publication type:

Article

A Survey of the Molecular Evolutionary Dynamics of Twenty-Five Multigene Families from Four Grass Taxa.

Published in:

Journal of Molecular Evolution, 2001, v. 52, n. 2, p. 144, doi. 10.1007/s002390010143

By:

Zhang, Liqing;
Pond, Sergei Kosakovsky;
Gaut, Brandon S.

Publication type:

Article

Neutral and Nonneutral Mitochondrial Genetic Variation in Deep-Sea Clams from the Family Vesicomyidae.

Published in:

Journal of Molecular Evolution, 2000, v. 50, n. 2, p. 141, doi. 10.1007/s002399910016

By:

Peek, Andrew S.;
Gaut, Brandon S.;
Feldman, Robert A.;
Barry, James P.;
Kochevar, Randall E.;
Lutz, Richard A.;
Vrijenhoek, Robert C.

Publication type:

Article

Mutational load and adaptive variation are shaped by climate and species range dynamics in Vitis arizonica.

Published in:

New Phytologist, 2025, v. 247, n. 2, p. 998, doi. 10.1111/nph.70238

By:

Fiscus, Christopher J.;
Aguirre‐Liguori, Jonás A.;
Gaut, Garren R. J.;
Gaut, Brandon S.

Publication type:

Article

A convergent outcome: small genomes in mangroves.

Published in:

New Phytologist, 2018, v. 217, n. 1, p. 5, doi. 10.1111/nph.14906

By:

Gaut, Brandon S.

Publication type:

Article

The 3D architecture of the pepper genome and its relationship to function and evolution.

Published in:

Nature Communications, 2022, v. 13, n. 1, p. 1, doi. 10.1038/s41467-022-31112-x

By:

Liao, Yi;
Wang, Juntao;
Zhu, Zhangsheng;
Liu, Yuanlong;
Chen, Jinfeng;
Zhou, Yongfeng;
Liu, Feng;
Lei, Jianjun;
Gaut, Brandon S.;
Cao, Bihao;
Emerson, J. J.;
Chen, Changming

Publication type:

Article

Considerations and complications of mapping small RNA high-throughput data to transposable elements.

Published in:

Mobile DNA, 2017, v. 8, p. 1, doi. 10.1186/s13100-017-0086-z

By:

Bousios, Alexandros;
Gaut, Brandon S.;
Darzentas, Nikos

Publication type:

Article

A unified mixed-model method for association mapping that accounts for multiple levels of relatedness.

Published in:

Nature Genetics, 2006, v. 38, n. 2, p. 203, doi. 10.1038/ng1702

By:

Jianming Yu;
Pressoir, Gael;
Briggs, William H.;
Irie Vroh Bi;
Yamasaki, Masanori;
Doebley, John F.;
McMullen, Michael D.;
Gaut, Brandon S.;
Nielsen, Dahlia M.;
Holland, James B.;
Kresovich, Stephen;
Buckler, Edward S.

Publication type:

Article

The paleontology of intergene retrotransposons of maize.

Published in:

Nature Genetics, 1998, v. 20, n. 1, p. 43, doi. 10.1038/1695

By:

SanMiguel, Phillip;
Gaut, Brandon S.;
Tikhonov, Alexander;
Nakajima, Yuko;
Bennetzen, Jeffrey L.

Publication type:

Article

Maize transposable elements contribute to long non-coding RNAs that are regulatory hubs for abiotic stress response.

Published in:

BMC Genomics, 2019, v. 20, n. 1, p. 1, doi. 10.1186/s12864-019-6245-5

By:

Lv, Yuanda;
Hu, Fengqin;
Zhou, Yongfeng;
Wu, Feilong;
Gaut, Brandon S.

Publication type:

Article

Three Groups of Transposable Elements with Contrasting Copy Number Dynamics and Host Responses in the Maize (Zea mays ssp. mays) Genome.

Published in:

PLoS Genetics, 2014, v. 10, n. 4, p. 1, doi. 10.1371/journal.pgen.1004298

By:

Diez, Concepcion M.;
Meca, Esteban;
Tenaillon, Maud I.;
Gaut, Brandon S.

Publication type:

Article

Evolution in the Genus Zea: Lessons from Studies of Nucleotide Polymorphism.

Published in:

Plant Species Biology, 1996, v. 11, n. 1, p. 1, doi. 10.1111/j.1442-1984.1996.tb00103.x

By:

Gaut, Brandon S.

Publication type:

Article

Evaluating the persistence and utility of five wild Vitis species in the context of climate change.

Published in:

Molecular Ecology, 2022, v. 31, n. 24, p. 6457, doi. 10.1111/mec.16715

By:

Aguirre‐Liguori, Jonas A.;
Morales‐Cruz, Abraham;
Gaut, Brandon S.

Publication type:

Article

Insights into the domestication of avocado and potential genetic contributors to heterodichogamy.

Published in:

G3: Genes | Genomes | Genetics, 2023, v. 13, n. 2, p. 1, doi. 10.1093/g3journal/jkac323

By:

Solares, Edwin;
Morales-Cruz, Abraham;
Balderas, Rosa Figueroa;
Focht, Eric;
Ashworth, Vanessa E. T. M.;
Wyant, Skylar;
Minio, Andrea;
Cantu, Dario;
Lu Arpaia, Mary;
Gaut, Brandon S.

Publication type:

Article

Gene Body Methylation in Plants: Mechanisms, Functions, and Important Implications for Understanding Evolutionary Processes.

Published in:

Genome Biology & Evolution, 2022, v. 14, n. 4, p. 1, doi. 10.1093/gbe/evac038

By:

Muyle, Aline M;
Seymour, Danelle K;
Lv, Yuanda;
Huettel, Bruno;
Gaut, Brandon S

Publication type:

Article

CHH Methylation Islands: A Nonconserved Feature of Grass Genomes That Is Positively Associated with Transposable Elements but Negatively Associated with Gene-Body Methylation.

Published in:

Genome Biology & Evolution, 2021, v. 13, n. 8, p. 1, doi. 10.1093/gbe/evab144

By:

Martin, Galen T;
Seymour, Danelle K;
Gaut, Brandon S

Publication type:

Article

Genetic Mutations That Drive Evolutionary Rescue to Lethal Temperature in Escherichia coli.

Published in:

Genome Biology & Evolution, 2020, v. 12, n. 11, p. 2029, doi. 10.1093/gbe/evaa174

By:

Batarseh, Tiffany N;
Hug, Shaun M;
Batarseh, Sarah N;
Gaut, Brandon S

Publication type:

Article

Modeling Interactions between Transposable Elements and the Plant Epigenetic Response: A Surprising Reliance on Element Retention.

Published in:

Genome Biology & Evolution, 2018, v. 10, n. 3, p. 803, doi. 10.1093/gbe/evy043

By:

Roessler, Kyria;
Bousios, Alexandros;
Meca, Esteban;
Gaut, Brandon S.

Publication type:

Article

CG Methylation Covaries with Differential Gene Expression between Leaf and Floral Bud Tissues of Brachypodium distachyon.

Published in:

PLoS ONE, 2016, v. 11, n. 3, p. 1, doi. 10.1371/journal.pone.0150002

By:

Roessler, Kyria;
Takuno, Shohei;
Gaut, Brandon S.

Publication type:

Article

The complex domestication history of the common bean.

Published in:

Nature Genetics, 2014, v. 46, n. 7, p. 663, doi. 10.1038/ng.3017

By:

Gaut, Brandon S

Publication type:

Article

Evolution of Escherichia coli rifampicin resistance in an antibiotic-free environment during thermal stress.

Published in:

BMC Evolutionary Biology, 2013, v. 13, n. 1, p. 1, doi. 10.1186/1471-2148-13-50

By:

Rodríguez-Verdugo, Alejandra;
Gaut, Brandon S.;
Tenaillon, Olivier

Publication type:

Article

Comparative genomics of the Liberibacter genus reveals widespread diversity in genomic content and positive selection history.

Published in:

Frontiers in Microbiology, 2023, p. 1, doi. 10.3389/fmicb.2023.1206094

By:

Batarseh, Tiffany N.;
Batarseh, Sarah N.;
Morales-Cruz, Abraham;
Gaut, Brandon S.

Publication type:

Article

Seasonal Changes in a Maize-Based Polyculture of Central Mexico Reshape the Co-occurrence Networks of Soil Bacterial Communities.

Published in:

Frontiers in Microbiology, 2017, p. 1, doi. 10.3389/fmicb.2017.02478

By:

Rebollar, Eria A.;
Sandoval-Castellanos, Edson;
Roessler, Kyria;
Gaut, Brandon S.;
Alcaraz, Luis D.;
Benítez, Mariana;
Escalante, Ana E.

Publication type:

Article

The evolution of transposable elements in naturalpopulations of self-fertilizing Arabidopsis thalianaand its outcrossing relative Arabidopsis lyrata.

Published in:

BMC Evolutionary Biology, 2010, v. 10, p. 10, doi. 10.1186/1471-2148-10-10

By:

Lockton, Steven;
Gaut, Brandon S.

Publication type:

Article

Striking Similarities in the Genomic Distribution of Tandemly Arrayed Genes in Arabidopsis and Rice.

Published in:

PLoS Computational Biology, 2006, v. 2, n. 9, p. e115, doi. 10.1371/journal.pcbi.0020115

By:

Rizzon, Carene;
Ponger, Loic;
Gaut, Brandon S.

Publication type:

Article

A Message From the Editors-in-Chief.

Published in:

Molecular Biology & Evolution, 2025, v. 42, n. 2, p. 1, doi. 10.1093/molbev/msaf022

By:

Gaut, Brandon S;
Russo, Claudia A M

Publication type:

Article

Patterns of Fitness and Gene Expression Epistasis Generated by Beneficial Mutations in the rho and rpoB Genes of Escherichia coli during High-Temperature Adaptation.

Published in:

Molecular Biology & Evolution, 2024, v. 41, n. 9, p. 1, doi. 10.1093/molbev/msae187

By:

González-González, Andrea;
Batarseh, Tiffany N;
Rodríguez-Verdugo, Alejandra;
Gaut, Brandon S

Publication type:

Article

Forty Years of Inferential Methods in the Journals of the Society for Molecular Biology and Evolution.

Published in:

Molecular Biology & Evolution, 2024, v. 41, n. 1, p. 1, doi. 10.1093/molbev/msad264

By:

Russo, Claudia A M;
Eyre-Walker, Adam;
Katz, Laura A;
Gaut, Brandon S

Publication type:

Article

Phenotypic and Genotypic Adaptation of Escherichia coli to Thermal Stress is Contingent on Genetic Background.

Published in:

Molecular Biology & Evolution, 2023, v. 40, n. 5, p. 1, doi. 10.1093/molbev/msad108

By:

Batarseh, Tiffany N;
Batarseh, Sarah N;
Rodríguez-Verdugo, Alejandra;
Gaut, Brandon S

Publication type:

Article

Inaugural Editorial, January 2023.

Published in:

2023

By:

Gaut, Brandon S;
Russo, Claudia A M

Publication type:

Editorial

Evolutionary Genomics of Structural Variation in Asian Rice (Oryza sativa) Domestication.

Published in:

Molecular Biology & Evolution, 2020, v. 37, n. 12, p. 3507, doi. 10.1093/molbev/msaa185

By:

Kou, Yixuan;
Liao, Yi;
Toivainen, Tuomas;
Lv, Yuanda;
Tian, Xinmin;
Emerson, J J;
Gaut, Brandon S;
Zhou, Yongfeng

Publication type:

Article

Phylogenetic Shifts in Gene Body Methylation Correlate with Gene Expression and Reflect Trait Conservation.

Published in:

Molecular Biology & Evolution, 2020, v. 37, n. 1, p. 31, doi. 10.1093/molbev/msz195

By:

Seymour, Danelle K;
Gaut, Brandon S

Publication type:

Article

Loss of Gene Body Methylation in Eutrema salsugineum Is Associated with Reduced Gene Expression.

Published in:

Molecular Biology & Evolution, 2019, v. 36, n. 1, p. 155, doi. 10.1093/molbev/msy204

By:

Muyle, Aline;
Gaut, Brandon S

Publication type:

Article

Adaptive Mutations in RNA Polymerase and the Transcriptional Terminator Rho Have Similar Effects on Escherichia coli Gene Expression.

Published in:

Molecular Biology & Evolution, 2017, v. 34, n. 11, p. 2839, doi. 10.1093/molbev/msx216

By:

González-González, Andrea;
Hug, Shaun M.;
Rodríguez-Verdugo, Alejandra;
Patel, Jagdish Suresh;
Gaut, Brandon S.

Publication type:

Article

The Evolutionary Dynamics of Orthologs That Shift in Gene Body Methylation between Arabidopsis Species.

Published in:

Molecular Biology & Evolution, 2017, v. 34, n. 6, p. 1479, doi. 10.1093/molbev/msx099

By:

Shohei Takuno;
Seymour, Danelle K.;
Gaut, Brandon S.

Publication type:

Article

Deleterious Variants in Asian Rice and the Potential Cost of Domestication.

Published in:

Molecular Biology & Evolution, 2017, v. 34, n. 4, p. 908, doi. 10.1093/molbev/msw296

By:

Qingpo Liu;
Yongfeng Zhou;
Morrell, Peter L.;
Gaut, Brandon S.

Publication type:

Article

First-Step Mutations during Adaptation Restore the Expression of Hundreds of Genes.

Published in:

Molecular Biology & Evolution, 2016, v. 33, n. 1, p. 25, doi. 10.1093/molbev/msv228

By:

Rodríguez-Verdugo, Alejandra;
Tenaillon, Olivier;
Gaut, Brandon S.

Publication type:

Article

Evolution Is an Experiment: Assessing Parallelism in Crop Domestication and Experimental Evolution.

Published in:

Molecular Biology & Evolution, 2015, v. 32, n. 7, p. 1661, doi. 10.1093/molbev/msv105

By:

Gaut, Brandon S.

Publication type:

Article

Recent Retrotransposon Insertions Are Methylated and Phylogenetically Clustered in Japonica Rice (Oryza sativa spp. japonica).

Published in:

Molecular Biology & Evolution, 2012, v. 29, n. 10, p. 3193, doi. 10.1093/molbev/mss129

By:

vonHoldt, Bridgett M.;
Takuno, Shohei;
Gaut, Brandon S.

Publication type:

Article

Body-Methylated Genes in Arabidopsis thaliana Are Functionally Important and Evolve Slowly.

Published in:

Molecular Biology & Evolution, 2012, v. 29, n. 1, p. 219, doi. 10.1093/molbev/msr188

By:

Takuno, Shohei;
Gaut, Brandon S.

Publication type:

Article