Works by Ross-Ibarra, Jeffrey

Results: 70

Widespread Gene Conversion in Centromere Cores.

Published in:

PLoS Biology, 2010, v. 8, n. 3, p. 1, doi. 10.1371/journal.pbio.1000327

By:

Jinghua Shi;
Wolf, Sarah E.;
Burke, John M.;
Presting, Gernot G.;
Ross-Ibarra, Jeffrey;
Dawe, R. Kelly

Publication type:

Article

Construction of the third-generation Zea mays haplotype map.

Published in:

GigaScience, 2018, v. 7, n. 4, p. 1, doi. 10.1093/gigascience/gix134

By:

Bukowski, Robert;
Xiaosen Guo;
Yanli Lu;
Cheng Zou;
Bing He;
Zhengqin Rong;
Bo Wang;
Dawen Xu;
Bicheng Yang;
Chuanxiao Xie;
Longjiang Fan;
Shibin Gao;
Xun Xu;
Gengyun Zhang;
Yingrui Li;
Yinping Jiao;
Doebley, John F.;
Ross-Ibarra, Jeffrey;
Lorant, Anne;
Buffalo, Vince

Publication type:

Article

Transposable elements contribute to dynamic genome content in maize.

Published in:

Plant Journal, 2019, v. 100, n. 5, p. 1052, doi. 10.1111/tpj.14489

By:

Anderson, Sarah N.;
Stitzer, Michelle C.;
Brohammer, Alex B.;
Zhou, Peng;
Noshay, Jaclyn M.;
O'Connor, Christine H.;
Hirsch, Cory D.;
Ross‐Ibarra, Jeffrey;
Hirsch, Candice N.;
Springer, Nathan M.

Publication type:

Article

IMPLICATIONS OF MATING PATTERNS FOR CONSERVATION OF THE ENDANGERED PLANT ERIOGONUM OVALIFOLIUM VAR. VINEUM (POLYGONACEAE).

Published in:

American Journal of Botany, 2001, v. 88, n. 7, p. 1214, doi. 10.2307/3558332

By:

Neel, Maile C.;
Ross-Ibarra, Jeffrey;
Ellstrand, Norman C.

Publication type:

Article

Genetic architecture and selective sweeps after polygenic adaptation to distant trait optima.

Published in:

PLoS Genetics, 2018, v. 14, n. 11, p. 1, doi. 10.1371/journal.pgen.1007794

By:

Stetter, Markus G.;
Thornton, Kevin;
Ross-Ibarra, Jeffrey

Publication type:

Article

Maize domestication and gene interaction.

Published in:

New Phytologist, 2018, v. 220, n. 2, p. 395, doi. 10.1111/nph.15350

By:

Stitzer, Michelle C.;
Ross‐Ibarra, Jeffrey

Publication type:

Article

The interplay of demography and selection during maize domestication and expansion.

Published in:

Genome Biology, 2017, v. 18, p. 1, doi. 10.1186/s13059-017-1346-4

By:

Li Wang;
Beissinger, Timothy M.;
Lorant, Anne;
Ross-Ibarra, Claudia;
Ross-Ibarra, Jeffrey;
Hufford, Matthew B.

Publication type:

Article

Identification of a functional transposon insertion in the maize domestication gene tb1.

Published in:

Nature Genetics, 2011, v. 43, n. 11, p. 1160, doi. 10.1038/ng.942

By:

Studer, Anthony;
Zhao, Qiong;
Ross-Ibarra, Jeffrey;
Doebley, John

Publication type:

Article

Transposable Elements Contribute to Activation of Maize Genes in Response to Abiotic Stress.

Published in:

PLoS Genetics, 2015, v. 11, n. 1, p. 1, doi. 10.1371/journal.pgen.1004915

By:

Makarevitch, Irina;
Waters, Amanda J.;
West, Patrick T.;
Stitzer, Michelle;
Hirsch, Candice N.;
Ross-Ibarra, Jeffrey;
Springer, Nathan M.

Publication type:

Article

From Many, One: Genetic Control of Prolificacy during Maize Domestication.

Published in:

PLoS Genetics, 2013, v. 9, n. 6, p. 1, doi. 10.1371/journal.pgen.1003604

By:

Wills, David M.;
Whipple, Clinton J.;
Takuno, Shohei;
Kursel, Lisa E.;
Shannon, Laura M.;
Ross-Ibarra, Jeffrey;
Doebley, John F.

Publication type:

Article

The Genomic Signature of Crop-Wild Introgression in Maize

Published in:

PLoS Genetics, 2013, v. 9, n. 5, p. 1, doi. 10.1371/journal.pgen.1003477

By:

Hufford, Matthew B.;
Lubinksy, Pesach;
Pyhäjärvi, Tanja;
Devengenzo, Michael T.;
Ellstrand, Norman C.;
Ross-Ibarra, Jeffrey

Publication type:

Article

A unified VCF dataset from nearly 1,500 diverse maize accessions and resources to explore the genomic landscape of maize.

Published in:

G3: Genes | Genomes | Genetics, 2025, v. 15, n. 2, p. 1, doi. 10.1093/g3journal/jkae281

By:

Andorf, Carson M;
Ross-Ibarra, Jeffrey;
Seetharam, Arun S;
Hufford, Matthew B;
Woodhouse, Margaret R

Publication type:

Article

A happy accident: a novel turfgrass reference genome.

Published in:

G3: Genes | Genomes | Genetics, 2023, v. 13, n. 6, p. 1, doi. 10.1093/g3journal/jkad073

By:

Phillips, Alyssa R.;
Seetharam, Arun S.;
Albert, Patrice S.;
AuBuchon-Elder, Taylor;
Birchler, James A.;
Buckler, Edward S.;
Gillespie, Lynn J.;
Hufford, Matthew B.;
Llaca, Victor;
Romay, Maria Cinta;
Soreng, Robert J.;
Kellogg, Elizabeth A.;
Ross-Ibarra, Jeffrey

Publication type:

Article

Analysis of genotype-by-environment interactions in a maize mapping population.

Published in:

G3: Genes | Genomes | Genetics, 2022, v. 12, n. 3, p. 1, doi. 10.1093/g3journal/jkac013

By:

Hudson, Asher I.;
Odell, Sarah G.;
Dubreuil, Pierre;
Tixier, Marie-Helene;
Praud, Sebastien;
Runcie, Daniel E.;
Ross-Ibarra, Jeffrey

Publication type:

Article

Modeling allelic diversity of multiparent mapping populations affects detection of quantitative trait loci.

Published in:

G3: Genes | Genomes | Genetics, 2022, v. 12, n. 3, p. 1, doi. 10.1093/g3journal/jkac011

By:

Odell, Sarah G.;
Hudson, Asher I.;
Praud, Sébastien;
Dubreuil, Pierre;
Tixier, Marie-Hélène;
Ross-Ibarra, Jeffrey;
Runcie, Daniel E.

Publication type:

Article

A B73x Palomero Toluqueño mapping population reveals local adaptation in Mexican highland maize.

Published in:

G3: Genes | Genomes | Genetics, 2022, v. 12, n. 3, p. 1, doi. 10.1093/g3journal/jkab447

By:

Perez-Limon, Sergio;
Meng Li;
Cintora-Martinez, G. Carolina;
Aguilar-Rangel, M. Rocio;
Salazar-Vidal, M. Nancy;
Gonzalez-Segovia, Eric;
Blöcher-Juárez, Karla;
Guerrero-Zavala, Alejandro;
Barrales-Gamez, Benjamin;
Carcaño-Macias, Jessica;
Costich, Denise E.;
Nieto-Sotelo, Jorge;
de la Vega, Octavio Martinez;
Simpson, June;
Hufford, Matthew B.;
Ross-Ibarra, Jeffrey;
Flint-Garcia, Sherry;
Diaz-Garcia, Luis;
Rellán-Álvarez, Rubén;
Sawers, Ruairidh J. H.

Publication type:

Article

Selective Loss of Diversity in Doubled-Haploid Lines from European Maize Landraces.

Published in:

G3: Genes | Genomes | Genetics, 2020, v. 10, n. 7, p. 2497, doi. 10.1534/g3.120.401196

By:

Zeitler, Leo;
Ross-Ibarra, Jeffrey;
Stetter, Markus G.

Publication type:

Article

Dynamic Patterns of Transcript Abundance of Transposable Element Families in Maize.

Published in:

G3: Genes | Genomes | Genetics, 2019, v. 9, n. 11, p. 3673, doi. 10.1534/g3.119.400431

By:

Anderson, Sarah N.;
Stitzer, Michelle C.;
Peng Zhou;
Ross-Ibarra, Jeffrey;
Hirsch, Cory D.;
Springer, Nathan M.

Publication type:

Article

Evolutionary Genomics of Peach and Almond Domestication.

Published in:

G3: Genes | Genomes | Genetics, 2016, v. 6, n. 12, p. 3985, doi. 10.1534/g3.116.032672

By:

Velasco, Dianne;
Hough, Josh;
Aradhya, Mallikarjuna;
Ross-Ibarra, Jeffrey

Publication type:

Article

Controlling for Variable Transposition Rate with an Age-Adjusted Site Frequency Spectrum.

Published in:

Genome Biology & Evolution, 2022, v. 14, n. 2, p. 1, doi. 10.1093/gbe/evac016

By:

Horvath, Robert;
Menon, Mitra;
Stitzer, Michelle;
Ross-Ibarra, Jeffrey

Publication type:

Article

Complex Patterns of Local Adaptation in Teosinte.

Published in:

Genome Biology & Evolution, 2013, v. 5, n. 9, p. 1594

By:

Pyhäjärvi, Tanja;
Hufford, Matthew B.;
Mezmouk, Sofiane;
Ross-Ibarra, Jeffrey

Publication type:

Article

Crop genomics: advances and applications.

Published in:

2012

By:

Morrell, Peter L.;
Buckler, Edward S.;
Ross-Ibarra, Jeffrey

Publication type:

journal article

Adaptation in plant genomes: Bigger is different.

Published in:

American Journal of Botany, 2018, v. 105, n. 1, p. 16, doi. 10.1002/ajb2.1002

By:

Mei, Wenbin;
Stetter, Markus G.;
Gates, Daniel J.;
Stitzer, Michelle C.;
Ross‐Ibarra, Jeffrey

Publication type:

Article

The potential role of genetic assimilation during maize domestication.

Published in:

PLoS ONE, 2017, v. 12, n. 9, p. 1, doi. 10.1371/journal.pone.0184202

By:

Lorant, Anne;
Pedersen, Sarah;
Holst, Irene;
Hufford, Matthew B.;
Winter, Klaus;
Piperno, Dolores;
Ross-Ibarra, Jeffrey

Publication type:

Article

Genomic abundance is not predictive of tandem repeat localization in grass genomes.

Published in:

PLoS ONE, 2017, v. 12, n. 6, p. 1, doi. 10.1371/journal.pone.0177896

By:

Bilinski, Paul;
Han, Yonghua;
Hufford, Matthew B.;
Lorant, Anne;
Zhang, Pingdong;
Estep, Matt C.;
Jiang, Jiming;
Ross-Ibarra, Jeffrey

Publication type:

Article

Correction: Transposable Elements Contribute to Activation of Maize Genes in Response to Abiotic Stress.

Published in:

2015

By:

Makarevitch, Irina;
Waters, Amanda J.;
West, Patrick T.;
Stitzer, Michelle;
Hirsch, Candice N.;
Ross-Ibarra, Jeffrey;
Springer, Nathan M.

Publication type:

Correction Notice

Unraveling Prevalence and Effects of Deleterious Mutations in Maize Elite Lines across Decades of Modern Breeding.

Published in:

Molecular Biology & Evolution, 2023, v. 40, n. 8, p. 1, doi. 10.1093/molbev/msad170

By:

Sun, Shichao;
Wang, Baobao;
Li, Changyu;
Xu, Gen;
Yang, Jinliang;
Hufford, Matthew B;
Ross-Ibarra, Jeffrey;
Wang, Haiyang;
Wang, Li

Publication type:

Article

Allele-specific Expression Reveals Multiple Paths to Highland Adaptation in Maize.

Published in:

Molecular Biology & Evolution, 2022, v. 39, n. 11, p. 1, doi. 10.1093/molbev/msac239

By:

Hu, Haixiao;
Crow, Taylor;
Nojoomi, Saghi;
Schulz, Aimee J;
Estévez-Palmas, Juan M;
Hufford, Matthew B;
Flint-Garcia, Sherry;
Sawers, Ruairidh;
Rellán-Álvarez, Rubén;
Ross-Ibarra, Jeffrey;
Runcie, Daniel E

Publication type:

Article

Molecular Parallelism Underlies Convergent Highland Adaptation of Maize Landraces.

Published in:

Molecular Biology & Evolution, 2021, v. 38, n. 9, p. 3567, doi. 10.1093/molbev/msab119

By:

Li Wang;
Josephs, Emily B.;
Lee, Kristin M.;
Roberts, Lucas M.;
Rellán-Álvarez, Rubén;
Ross-Ibarra, Jeffrey;
Hufford, Matthew B.

Publication type:

Article

Gene Fractionation and Function in the Ancient Subgenomes of Maize.

Published in:

Molecular Biology & Evolution, 2017, v. 34, n. 8, p. 1825, doi. 10.1093/molbev/msx121

By:

Renny-Byfield, Simon;
Rodgers-Melnick, Eli;
Ross-Ibarra, Jeffrey

Publication type:

Article

Indel-Associated Mutation Rate Varies with Mating System in Flowering Plants.

Published in:

Molecular Biology & Evolution, 2010, v. 27, n. 2, p. 409, doi. 10.1093/molbev/msp249

By:

Hollister, Jesse D.;
Ross-Ibarra, Jeffrey;
Gaut, Brandon S.

Publication type:

Article

The population genetics of convergent adaptation in maize and teosinte is not locally restricted.

Published in:

eLife, 2025, p. 1, doi. 10.7554/eLife.92405

By:

Tittes, Silas;
Lorant, Anne;
McGinty, Sean P.;
Holland, James B.;
de Jesus Sánchez-González, Jose;
Seetharam, Arun;
Tenaillon, Maud;
Ross-Ibarra, Jeffrey

Publication type:

Article

Selection on grain shattering genes and rates of rice domestication.

Published in:

New Phytologist, 2009, v. 184, n. 3, p. 708, doi. 10.1111/j.1469-8137.2009.02984.x

By:

Lin-Bin Zhang;
Qihui Zhu;
Zhi-Qiang Wu;
Ross-Ibarra, Jeffrey;
Gaut, Brandon S.;
Song Ge;
Tao Sang

Publication type:

Article

Environmental data provide marginal benefit for predicting climate adaptation.

Published in:

PLoS Genetics, 2025, v. 21, n. 6, p. 1, doi. 10.1371/journal.pgen.1011714

By:

Li, Forrest;
Gates, Daniel J.;
Buckler, Edward S.;
Hufford, Matthew B.;
Janzen, Garrett M.;
Rellán-Álvarez, Rubén;
Rodríguez-Zapata, Fausto;
Romero Navarro, J. Alberto;
Sawers, Ruairidh J. H.;
Snodgrass, Samantha J.;
Sonder, Kai;
Willcox, Martha C.;
Hearne, Sarah J.;
Ross-Ibarra, Jeffrey;
Runcie, Daniel E.

Publication type:

Article

angsd-wrapper: utilities for analysing next-generation sequencing data.

Published in:

Molecular Ecology Resources, 2016, v. 16, n. 6, p. 1449, doi. 10.1111/1755-0998.12578

By:

Durvasula, Arun;
Hoffman, Paul J.;
Kent, Tyler V.;
Liu, Chaochih;
Kono, Thomas J. Y.;
Morrell, Peter L.;
Ross ‐ Ibarra, Jeffrey

Publication type:

Article

Genetic Architecture of Maize Kernel Composition in the Nested Association Mapping and Inbred Association Panels.

Published in:

Plant Physiology, 2012, v. 158, n. 2, p. 824, doi. 10.1104/pp.111.185033

By:

Cook, Jason P.;
McMullen, Michael D.;
Holland, James B.;
Tian, Feng;
Bradbury, Peter;
Ross-Ibarra, Jeffrey;
Buckler, Edward S.;
Flint-Garcia, Sherry A.

Publication type:

Article

Domestication reshaped the genetic basis of inbreeding depression in a maize landrace compared to its wild relative, teosinte.

Published in:

PLoS Genetics, 2021, v. 17, n. 12, p. 1, doi. 10.1371/journal.pgen.1009797

By:

Samayoa, Luis Fernando;
Olukolu, Bode A.;
Yang, Chin Jian;
Chen, Qiuyue;
Stetter, Markus G.;
York, Alessandra M.;
Sanchez-Gonzalez, Jose de Jesus;
Glaubitz, Jeffrey C.;
Bradbury, Peter J.;
Romay, Maria Cinta;
Sun, Qi;
Yang, Jinliang;
Ross-Ibarra, Jeffrey;
Buckler, Edward S.;
Doebley, John F.;
Holland, James B.

Publication type:

Article

The genomic ecosystem of transposable elements in maize.

Published in:

PLoS Genetics, 2021, v. 17, n. 10, p. 1, doi. 10.1371/journal.pgen.1009768

By:

Stitzer, Michelle C.;
Anderson, Sarah N.;
Springer, Nathan M.;
Ross-Ibarra, Jeffrey

Publication type:

Article

Selective sorting of ancestral introgression in maize and teosinte along an elevational cline.

Published in:

PLoS Genetics, 2021, v. 17, n. 10, p. 1, doi. 10.1371/journal.pgen.1009810

By:

Calfee, Erin;
Gates, Daniel;
Lorant, Anne;
Perkins, M. Taylor;
Coop, Graham;
Ross-Ibarra, Jeffrey

Publication type:

Article

Correction: Incomplete dominance of deleterious alleles contributes substantially to trait variation and heterosis in maize.

Published in:

2021

By:

Yang, Jinliang;
Mezmouk, Sofiane;
Baumgarten, Andy;
Buckler, Edward S.;
Guill, Katherine E.;
McMullen, Michael D.;
Mumm, Rita H.;
Ross-Ibarra, Jeffrey

Publication type:

Correction Notice

The genomic signature of wild‐to‐crop introgression during the domestication of scarlet runner bean (Phaseolus coccineus L.).

Published in:

Evolution Letters, 2022, v. 6, n. 4, p. 295, doi. 10.1002/evl3.285

By:

Guerra‐García, Azalea;
Rojas‐Barrera, Idalia C.;
Ross‐Ibarra, Jeffrey;
Papa, Roberto;
Piñero, Daniel

Publication type:

Article

Characterization of introgression from the teosinte Zea mays ssp. mexicana to Mexican highland maize.

Published in:

PeerJ, 2019, p. 1, doi. 10.7717/peerj.6815

By:

Gonzalez-Segovia, Eric;
Pérez-Limon, Sergio;
Cíntora-Martínez, G. Carolina;
Guerrero-Zavala, Alejandro;
Janzen, Garrett M.;
Hufford, Matthew B.;
Ross-Ibarra, Jeffrey;
Sawers, Ruairidh J. H.

Publication type:

Article

Influence of cryptic population structure on observed mating patterns in the wild progenitor of maize ( Zea mays ssp. parviglumis).

Published in:

Molecular Ecology, 2011, v. 20, n. 1, p. 46, doi. 10.1111/j.1365-294X.2010.04924.x

By:

Hufford, Matthew B.;
Gepts, Paul;
Ross-Ibarra, Jeffrey

Publication type:

Article

Fine scale genetic structure in the wild ancestor of maize ( Zea mays ssp. parviglumis).

Published in:

Molecular Ecology, 2010, v. 19, n. 6, p. 1162, doi. 10.1111/j.1365-294X.2010.04559.x

By:

VAN HEERWAARDEN, JOOST;
ROSS-IBARRA, JEFFREY;
DOEBLEY, JOHN;
GLAUBITZ, JEFFREY C.;
DE JESÚS SÁNCHEZ GONZÁLEZ, JOSE;
GAUT, BRANDON S.;
EGUIARTE, LUIS E.

Publication type:

Article

Comparative analysis of tandem repeats from hundreds of species reveals unique insights into centromere evolution.

Published in:

Genome Biology, 2013, v. 14, n. 1, p. 1, doi. 10.1186/gb-2013-14-1-r10

By:

Melters, Daniël P.;
Bradnam, Keith R.;
Young, Hugh A.;
Telis, Natalie;
May, Michael R.;
Ruby, J. Graham;
Sebra, Robert;
Peluso, Paul;
Eid, John;
Rank, David;
Garcia, José Fernando;
DeRisi, Joseph L.;
Smith, Timothy;
Tobias, Christian;
Ross-Ibarra, Jeffrey;
Korf, Ian;
Chan, Simon W. L.

Publication type:

Article

The genetic architecture of the maize progenitor, teosinte, and how it was altered during maize domestication.

Published in:

PLoS Genetics, 2020, v. 16, n. 5, p. 1, doi. 10.1371/journal.pgen.1008791

By:

Chen, Qiuyue;
Samayoa, Luis Fernando;
Yang, Chin Jian;
Bradbury, Peter J.;
Olukolu, Bode A.;
Neumeyer, Michael A.;
Romay, Maria Cinta;
Sun, Qi;
Lorant, Anne;
Buckler, Edward S.;
Ross-Ibarra, Jeffrey;
Holland, James B.;
Doebley, John F.

Publication type:

Article

Diamonds in the not-so-rough: Wild relative diversity hidden in crop genomes.

Published in:

PLoS Biology, 2023, v. 21, n. 7, p. 1, doi. 10.1371/journal.pbio.3002235

By:

Flint-Garcia, Sherry;
Feldmann, Mitchell J.;
Dempewolf, Hannes;
Morrell, Peter L.;
Ross-Ibarra, Jeffrey

Publication type:

Article

Conflict over fertilization underlies the transient evolution of reinforcement.

Published in:

PLoS Biology, 2022, v. 20, n. 10, p. 1, doi. 10.1371/journal.pbio.3001814

By:

Rushworth, Catherine A.;
Wardlaw, Alison M.;
Ross-Ibarra, Jeffrey;
Brandvain, Yaniv

Publication type:

Article

Evolutionary and functional genomics of DNA methylation in maize domestication and improvement.

Published in:

Nature Communications, 2020, v. 11, n. 1, p. N.PAG, doi. 10.1038/s41467-020-19333-4

By:

Xu, Gen;
Lyu, Jing;
Li, Qing;
Liu, Han;
Wang, Dafang;
Zhang, Mei;
Springer, Nathan M.;
Ross-Ibarra, Jeffrey;
Yang, Jinliang

Publication type:

Article

A Pleistocene Clone of Palmer's Oak Persisting in Southern California.

Published in:

PLoS ONE, 2009, v. 4, n. 12, p. 1, doi. 10.1371/journal.pone.0008346

By:

May, Michael R.;
Provance, Mitchell C.;
Sanders, Andrew C.;
Ellstrand, Norman C.;
Jeffrey Ross-Ibarra

Publication type:

Article