Plant

Arabidopsis

Genomic Prediction Informed by Biological Processes Expands Our Understanding of the Genetic Architecture Underlying Free Amino Acid Traits in Dry Arabidopsis Seeds
Sarah D. Turner-Hissong, Kevin A. Bird, Alexander E. Lipka, Elizabeth G. King, Timothy M. Beissinger, Ruthie Angelovici

G3: Genes, Genomes, Genetics November 2020 10: 4227-4239; https://doi.org/10.1534/g3.120.401240
Prediction of Plant Height in Arabidopsis thaliana Using DNA Methylation Data
Open Access

Yaodong Hu, Gota Morota, Guilherme J. M. Rosa, Daniel Gianola

Genetics October 2015 201: 779-793; https://doi.org/10.1534/genetics.115.177204
A Novel Generalized Ridge Regression Method for Quantitative Genetics

Xia Shen, Moudud Alam, Freddy Fikse, Lars Rönnegård

Genetics April 2013 193: 1255-1268; https://doi.org/10.1534/genetics.112.146720

Barley

Origin Specific Genomic Selection: A Simple Process To Optimize the Favorable Contribution of Parents to Progeny
Chin Jian Yang, Rajiv Sharma, Gregor Gorjanc, Sarah Hearne, Wayne Powell, Ian Mackay

G3: Genes, Genomes, Genetics July 2020 10: 2445-2455; https://doi.org/10.1534/g3.120.401132
Multi-trait Genomic Prediction Model Increased the Predictive Ability for Agronomic and Malting Quality Traits in Barley (Hordeum vulgare L.)
Madhav Bhatta, Lucia Gutierrez, Lorena Cammarota, Fernanda Cardozo, Silvia Germán, Blanca Gómez-Guerrero, María Fernanda Pardo, Valeria Lanaro, Mercedes Sayas, Ariel J. Castro

G3: Genes, Genomes, Genetics March 2020 10: 1113-1124; https://doi.org/10.1534/g3.119.400968
Multi-trait Improvement by Predicting Genetic Correlations in Breeding Crosses
Jeffrey L. Neyhart, Aaron J. Lorenz, Kevin P. Smith

G3: Genes, Genomes, Genetics October 2019 9: 3153-3165; https://doi.org/10.1534/g3.119.400406
Genomic Selection in Multi-environment Crop Trials
Helena Oakey, Brian Cullis, Robin Thompson, Jordi Comadran, Claire Halpin, Robbie Waugh

G3: Genes, Genomes, Genetics May 2016 6: 1313-1326; https://doi.org/10.1534/g3.116.027524
Factors Affecting Accuracy From Genomic Selection in Populations Derived From Multiple Inbred Lines: A Barley Case Study

Shengqiang Zhong, Jack C. M. Dekkers, Rohan L. Fernando, Jean-Luc Jannink

Genetics May 2009 182: 355-364; https://doi.org/10.1534/genetics.108.098277

CaSsava

Improving Genomic Prediction in Cassava Field Experiments by Accounting for Interplot Competition
Ani A. Elias, Ismail Rabbi, Peter Kulakow, Jean-Luc Jannink

G3: Genes, Genomes, Genetics March 2018 8: 933-944; https://doi.org/10.1534/g3.117.300354
Improving Genomic Prediction in Cassava Field Experiments Using Spatial Analysis
Ani A. Elias, Ismail Rabbi, Peter Kulakow, Jean-Luc Jannink

G3: Genes, Genomes, Genetics January 2018 8: 53-62; https://doi.org/10.1534/g3.117.300323

Cauliflower

Genomic Prediction and Association Mapping of Curd-Related Traits in Gene Bank Accessions of Cauliflower
Patrick Thorwarth, Eltohamy A. A. Yousef, Karl J. Schmid

G3: Genes, Genomes, Genetics February 2018 8: 707-718; https://doi.org/10.1534/g3.117.300199

Cotton

Historical Datasets Support Genomic Selection Models for the Prediction of Cotton Fiber Quality Phenotypes Across Multiple Environments
Washington Gapare, Shiming Liu, Warren Conaty, Qian-Hao Zhu, Vanessa Gillespie, Danny Llewellyn, Warwick Stiller, Iain Wilson

G3: Genes, Genomes, Genetics May 2018 8: 1721-1732; https://doi.org/10.1534/g3.118.200140

Maize

Assessment of the Potential for Genomic Selection To Improve Husk Traits in Maize
Zhenhai Cui, Haixiao Dong, Ao Zhang, Yanye Ruan, Yan He, Zhiwu Zhang

G3: Genes, Genomes, Genetics October 2020 10: 3741-3749; https://doi.org/10.1534/g3.120.401600
Multi-trait Genomic Selection Methods for Crop Improvement

Saba Moeinizade, Aaron Kusmec, Guiping Hu, Lizhi Wang, Patrick S. Schnable

Genetics August 2020 215: 931-945; https://doi.org/10.1534/genetics.120.303305
Genomic Prediction with Genotype by Environment Interaction Analysis for Kernel Zinc Concentration in Tropical Maize Germplasm
Edna K. Mageto, Jose Crossa, Paulino Pérez-Rodríguez, Thanda Dhliwayo, Natalia Palacios-Rojas, Michael Lee, Rui Guo, Félix San Vicente, Xuecai Zhang, Vemuri Hindu

G3: Genes, Genomes, Genetics August 2020 10: 2629-2639; https://doi.org/10.1534/g3.120.401172
Genomic Prediction Enhanced Sparse Testing for Multi-environment Trials
Diego Jarquin, Reka Howard, Jose Crossa, Yoseph Beyene, Manje Gowda, Johannes W. R. Martini, Giovanny Covarrubias Pazaran, Juan Burgueño, Angela Pacheco, Martin Grondona, Valentin Wimmer, Boddupalli M. Prasanna

G3: Genes, Genomes, Genetics August 2020 10: 2725-2739; https://doi.org/10.1534/g3.120.401349
Origin Specific Genomic Selection: A Simple Process To Optimize the Favorable Contribution of Parents to Progeny
Chin Jian Yang, Rajiv Sharma, Gregor Gorjanc, Sarah Hearne, Wayne Powell, Ian Mackay

G3: Genes, Genomes, Genetics July 2020 10: 2445-2455; https://doi.org/10.1534/g3.120.401132
Combined Multistage Linear Genomic Selection Indices To Predict the Net Genetic Merit in Plant Breeding
J. Jesus Cerón-Rojas, Jose Crossa

G3: Genes, Genomes, Genetics June 2020 10: 2087-2101; https://doi.org/10.1534/g3.120.401171
Dominance Effects and Functional Enrichments Improve Prediction of Agronomic Traits in Hybrid Maize
Open Access

Guillaume P. Ramstein, Sara J. Larsson, Jason P. Cook, Jode W. Edwards, Elhan S. Ersoz, Sherry Flint-Garcia, Candice A. Gardner, James B. Holland, Aaron J. Lorenz, Michael D. McMullen, Mark J. Millard, Torbert R. Rocheford, Mitchell R. Tuinstra, Peter J. Bradbury, Edward S. Buckler, M. Cinta Romay

Genetics May 2020 215: 215-230; https://doi.org/10.1534/genetics.120.303025
Optimizing Selection and Mating in Genomic Selection with a Look-Ahead Approach: An Operations Research Framework
Saba Moeinizade, Guiping Hu, Lizhi Wang, Patrick S. Schnable

G3: Genes, Genomes, Genetics July 2019 9: 2123-2133; https://doi.org/10.1534/g3.118.200842
Usefulness Criterion and Post-selection Parental Contributions in Multi-parental Crosses: Application to Polygenic Trait Introgression
Antoine Allier, Laurence Moreau, Alain Charcosset, Simon Teyssèdre, Christina Lehermeier

G3: Genes, Genomes, Genetics May 2019 9: 1469-1479; https://doi.org/10.1534/g3.119.400129
Genomic Prediction Within and Among Doubled-Haploid Libraries from Maize Landraces

Pedro C. Brauner, Dominik Müller, Pascal Schopp, Juliane Böhm, Eva Bauer, Chris-Carolin Schön, Albrecht E. Melchinger

Genetics December 2018 210: 1185-1196; https://doi.org/10.1534/genetics.118.301286
Beyond Genomic Prediction: Combining Different Types of omics Data Can Improve Prediction of Hybrid Performance in Maize

Tobias A. Schrag, Matthias Westhues, Wolfgang Schipprack, Felix Seifert, Alexander Thiemann, Stefan Scholten, Albrecht E. Melchinger

Genetics April 2018 208: 1373-1385; https://doi.org/10.1534/genetics.117.300374
Genomic Prediction Within and Across Biparental Families: Means and Variances of Prediction Accuracy and Usefulness of Deterministic Equations
Pascal Schopp, Dominik Müller, Yvonne C. J. Wientjes, Albrecht E. Melchinger

G3: Genes, Genomes, Genetics November 2017 7: 3571-3586; https://doi.org/10.1534/g3.117.300076
Genomic-Enabled Prediction in Maize Using Kernel Models with Genotype × Environment Interaction
Massaine Bandeira e Sousa, Jaime Cuevas, Evellyn Giselly de Oliveira Couto, Paulino Pérez-Rodríguez, Diego Jarquín, Roberto Fritsche-Neto, Juan Burgueño, Jose Crossa

G3: Genes, Genomes, Genetics June 2017 7: 1995-2014; https://doi.org/10.1534/g3.117.042341
Accuracy of Genomic Prediction in Synthetic Populations Depending on the Number of Parents, Relatedness, and Ancestral Linkage Disequilibrium

Pascal Schopp, Dominik Müller, Frank Technow, Albrecht E. Melchinger

Genetics January 2017 205: 441-454; https://doi.org/10.1534/genetics.116.193243
Genomic Prediction of Single Crosses in the Early Stages of a Maize Hybrid Breeding Pipeline
Dnyaneshwar C. Kadam, Sarah M. Potts, Martin O. Bohn, Alexander E. Lipka, Aaron J. Lorenz

G3: Genes, Genomes, Genetics November 2016 6: 3443-3453; https://doi.org/10.1534/g3.116.031286
Improvement of Predictive Ability by Uniform Coverage of the Target Genetic Space
Daniela Bustos-Korts, Marcos Malosetti, Scott Chapman, Ben Biddulph, Fred van Eeuwijk

G3: Genes, Genomes, Genetics November 2016 6: 3733-3747; https://doi.org/10.1534/g3.116.035410
Threshold Models for Genome-Enabled Prediction of Ordinal Categorical Traits in Plant Breeding
Osval A. Montesinos-López, Abelardo Montesinos-López, Paulino Pérez-Rodríguez, Gustavo de los Campos, Kent Eskridge, José Crossa

G3: Genes, Genomes, Genetics February 2015 5: 291-300; https://doi.org/10.1534/g3.114.016188
A Foundation for Provitamin A Biofortification of Maize: Genome-Wide Association and Genomic Prediction Models of Carotenoid Levels
Open Access

Brenda F. Owens, Alexander E. Lipka, Maria Magallanes-Lundback, Tyler Tiede, Christine H. Diepenbrock, Catherine B. Kandianis, Eunha Kim, Jason Cepela, Maria Mateos-Hernandez, C. Robin Buell, Edward S. Buckler, Dean DellaPenna, Michael A. Gore, Torbert Rocheford

Genetics December 2014 198: 1699-1716; https://doi.org/10.1534/genetics.114.169979
A Foundation for Provitamin A Biofortification of Maize: Genome-Wide Association and Genomic Prediction Models of Carotenoid Levels
Open Access

Brenda F. Owens, Alexander E. Lipka, Maria Magallanes-Lundback, Tyler Tiede, Christine H. Diepenbrock, Catherine B. Kandianis, Eunha Kim, Jason Cepela, Maria Mateos-Hernandez, C. Robin Buell, Edward S. Buckler, Dean DellaPenna, Michael A. Gore, Torbert Rocheford

Genetics December 2014 198: 1699-1716; https://doi.org/10.1534/genetics.114.169979
Usefulness of Multiparental Populations of Maize (Zea mays L.) for Genome-Based Prediction

Christina Lehermeier, Nicole Krämer, Eva Bauer, Cyril Bauland, Christian Camisan, Laura Campo, Pascal Flament, Albrecht E. Melchinger, Monica Menz, Nina Meyer, Laurence Moreau, Jesús Moreno-González, Milena Ouzunova, Hubert Pausch, Nicolas Ranc, Wolfgang Schipprack, Manfred Schönleben, Hildrun Walter, Alain Charcosset, Chris-Carolin Schön

Genetics September 2014 198: 3-16; https://doi.org/10.1534/genetics.114.161943
Genome Properties and Prospects of Genomic Prediction of Hybrid Performance in a Breeding Program of Maize

Frank Technow, Tobias A. Schrag, Wolfgang Schipprack, Eva Bauer, Henner Simianer, Albrecht E. Melchinger

Genetics August 2014 197: 1343-1355; https://doi.org/10.1534/genetics.114.165860
The Genetic Architecture Of Maize Height
Open Access

Jason A. Peiffer, Maria C. Romay, Michael A. Gore, Sherry A. Flint-Garcia, Zhiwu Zhang, Mark J. Millard, Candice A. C. Gardner, Michael D. McMullen, James B. Holland, Peter J. Bradbury, Edward S. Buckler

Genetics April 2014 196: 1337-1356; https://doi.org/10.1534/genetics.113.159152
Genomic Predictability of Interconnected Biparental Maize Populations

Christian Riedelsheimer, Jeffrey B. Endelman, Michael Stange, Mark E. Sorrells, Jean-Luc Jannink, Albrecht E. Melchinger

Genetics June 2013 194: 493-503; https://doi.org/10.1534/genetics.113.150227
Accuracy of Across-Environment Genome-Wide Prediction in Maize Nested Association Mapping Populations
Zhigang Guo, Dominic M. Tucker, Daolong Wang, Christopher J. Basten, Elhan Ersoz, William H. Briggs, Jianwei Lu, Min Li, Gilles Gay

G3: Genes, Genomes, Genetics February 2013 3: 263-272; https://doi.org/10.1534/g3.112.005066
Genomic Prediction of Northern Corn Leaf Blight Resistance in Maize with Combined or Separated Training Sets for Heterotic Groups
Frank Technow, Anna Bürger, Albrecht E. Melchinger

G3: Genes, Genomes, Genetics February 2013 3: 197-203; https://doi.org/10.1534/g3.112.004630
Effectiveness of Genomic Prediction of Maize Hybrid Performance in Different Breeding Populations and Environments
Vanessa S. Windhausen, Gary N. Atlin, John M. Hickey, Jose Crossa, Jean-Luc Jannink, Mark E. Sorrells, Babu Raman, Jill E. Cairns, Amsal Tarekegne, Kassa Semagn, Yoseph Beyene, Pichet Grudloyma, Frank Technow, Christian Riedelsheimer, Albrecht E. Melchinger

G3: Genes, Genomes, Genetics November 2012 2: 1427-1436; https://doi.org/10.1534/g3.112.003699
Maximizing the Reliability of Genomic Selection by Optimizing the Calibration Set of Reference Individuals: Comparison of Methods in Two Diverse Groups of Maize Inbreds (Zea mays L.)

R. Rincent, D. Laloë, S. Nicolas, T. Altmann, D. Brunel, P. Revilla, V.M. Rodríguez, J. Moreno-Gonzalez, A. Melchinger, E. Bauer, C-C. Schoen, N. Meyer, C. Giauffret, C. Bauland, P. Jamin, J. Laborde, H. Monod, P. Flament, A. Charcosset, L. Moreau

Genetics October 2012 192: 715-728; https://doi.org/10.1534/genetics.112.141473
Maximizing the Reliability of Genomic Selection by Optimizing the Calibration Set of Reference Individuals: Comparison of Methods in Two Diverse Groups of Maize Inbreds (Zea mays L.)

R. Rincent, D. Laloë, S. Nicolas, T. Altmann, D. Brunel, P. Revilla, V.M. Rodríguez, J. Moreno-Gonzalez, A. Melchinger, E. Bauer, C-C. Schoen, N. Meyer, C. Giauffret, C. Bauland, P. Jamin, J. Laborde, H. Monod, P. Flament, A. Charcosset, L. Moreau

Genetics October 2012 192: 715-728; https://doi.org/10.1534/genetics.112.141473

Maximum a posteriori Threshold Genomic Prediction Model for Ordinal Traits
Abelardo Montesinos-López, Humberto Gutierrez-Pulido, Osval Antonio Montesinos-López, José Crossa

G3: Genes, Genomes, Genetics November 2020 10: 4083-4102; https://doi.org/10.1534/g3.120.401733
Effects of Different Strategies for Exploiting Genomic Selection in Perennial Ryegrass Breeding Programs
Hadi Esfandyari, Dario Fè, Biructawit Bekele Tessema, Lucas L. Janss, Just Jensen

G3: Genes, Genomes, Genetics October 2020 10: 3783-3795; https://doi.org/10.1534/g3.120.401382
Genome-Wide Association Study of Yield Component Traits in Intermediate Wheatgrass and Implications in Genomic Selection and Breeding
Prabin Bajgain, Xiaofei Zhang, James A. Anderson

G3: Genes, Genomes, Genetics August 2019 9: 2429-2439; https://doi.org/10.1534/g3.119.400073
Genomic Selection with Allele Dosage in Panicum maximum Jacq.
Letícia A. de C. Lara, Mateus F. Santos, Liana Jank, Lucimara Chiari, Mariane de M. Vilela, Rodrigo R. Amadeu, Jhonathan P. R. dos Santos, Guilherme da S. Pereira, Zhao-Bang Zeng, Antonio Augusto F. Garcia

G3: Genes, Genomes, Genetics August 2019 9: 2463-2475; https://doi.org/10.1534/g3.118.200986
Use of F2 Bulks in Training Sets for Genomic Prediction of Combining Ability and Hybrid Performance
Frank Technow

G3: Genes, Genomes, Genetics May 2019 9: 1557-1569; https://doi.org/10.1534/g3.118.200994
Genomic Prediction of Autotetraploids; Influence of Relationship Matrices, Allele Dosage, and Continuous Genotyping Calls in Phenotype Prediction
Ivone de Bem Oliveira, Marcio F. R. Resende, Luis Felipe V. Ferrão, Rodrigo R. Amadeu, Jeffrey B. Endelman, Matias Kirst, Alexandre S. G. Coelho, Patricio R. Munoz

G3: Genes, Genomes, Genetics April 2019 9: 1189-1198; https://doi.org/10.1534/g3.119.400059
Prediction of Multiple-Trait and Multiple-Environment Genomic Data Using Recommender Systems
Osval A. Montesinos-López, Abelardo Montesinos-López, José Crossa, José C. Montesinos-López, David Mota-Sanchez, Fermín Estrada-González, Jussi Gillberg, Ravi Singh, Suchismita Mondal, Philomin Juliana

G3: Genes, Genomes, Genetics January 2018 8: 131-147; https://doi.org/10.1534/g3.117.300309
Genetic Gain Increases by Applying the Usefulness Criterion with Improved Variance Prediction in Selection of Crosses

Christina Lehermeier, Simon Teyssèdre, Chris-Carolin Schön

Genetics December 2017 207: 1651-1661; https://doi.org/10.1534/genetics.117.300403
Genome-Wide Prediction of Traits with Different Genetic Architecture Through Efficient Variable Selection

Valentin Wimmer, Christina Lehermeier, Theresa Albrecht, Hans-Jürgen Auinger, Yu Wang, Chris-Carolin Schön

Genetics October 2013 195: 573-587; https://doi.org/10.1534/genetics.113.150078

Potato

Genomic Selection for Late Blight and Common Scab Resistance in Tetraploid Potato (Solanum tuberosum)
Felix Enciso-Rodriguez, David Douches, Marco Lopez-Cruz, Joseph Coombs, Gustavo de los Campos

G3: Genes, Genomes, Genetics July 2018 8: 2471-2481; https://doi.org/10.1534/g3.118.200273
Genetic Variance Partitioning and Genome-Wide Prediction with Allele Dosage Information in Autotetraploid Potato

Jeffrey B. Endelman, Cari A. Schmitz Carley, Paul C. Bethke, Joseph J. Coombs, Mark E. Clough, Washington L. da Silva, Walter S. De Jong, David S. Douches, Curtis M. Frederick, Kathleen G. Haynes, David G. Holm, J. Creighton Miller, Patricio R. Muñoz, Felix M. Navarro, Richard G. Novy, Jiwan P. Palta, Gregory A. Porter, Kyle T. Rak, Vidyasagar R. Sathuvalli, Asunta L. Thompson, G. Craig Yencho

Genetics May 2018 209: 77-87; https://doi.org/10.1534/genetics.118.300685

Rice

Predicting Longitudinal Traits Derived from High-Throughput Phenomics in Contrasting Environments Using Genomic Legendre Polynomials and B-Splines
Mehdi Momen, Malachy T. Campbell, Harkamal Walia, Gota Morota

G3: Genes, Genomes, Genetics October 2019 9: 3369-3380; https://doi.org/10.1534/g3.119.400346
Genomic Prediction Accounting for Genotype by Environment Interaction Offers an Effective Framework for Breeding Simultaneously for Adaptation to an Abiotic Stress and Performance Under Normal Cropping Conditions in Rice
Manel Ben Hassen, Jérôme Bartholomé, Giampiero Valè, Tuong-Vi Cao, Nourollah Ahmadi

G3: Genes, Genomes, Genetics July 2018 8: 2319-2332; https://doi.org/10.1534/g3.118.200098
Genetic Mapping and Genomic Selection Using Recombination Breakpoint Data

Shizhong Xu

Genetics November 2013 195: 1103-1115; https://doi.org/10.1534/genetics.113.155309

Sorghum

Dissecting the Genetic Architecture of Biofuel-Related Traits in a Sorghum Breeding Population
Motoyuki Ishimori, Hideki Takanashi, Kosuke Hamazaki, Yamato Atagi, Hiromi Kajiya-Kanegae, Masaru Fujimoto, Junichi Yoneda, Tsuyoshi Tokunaga, Nobuhiro Tsutsumi, Hiroyoshi Iwata

G3: Genes, Genomes, Genetics December 2020 10: 4565-4577; https://doi.org/10.1534/g3.120.401582
Novel Bayesian Networks for Genomic Prediction of Developmental Traits in Biomass Sorghum
Jhonathan P. R. dos Santos, Samuel B. Fernandes, Scott McCoy, Roberto Lozano, Patrick J. Brown, Andrew D.B. Leakey, Edward S. Buckler, Antonio A. F. Garcia, Michael A. Gore

G3: Genes, Genomes, Genetics February 2020 10: 769-781; https://doi.org/10.1534/g3.119.400759
The Drosophila melanogaster Muc68E Mucin Gene Influences Adult Size, Starvation Tolerance, and Cold Recovery
Micael Reis, Ana C. Silva, Cristina P. Vieira, Jorge Vieira

G3: Genes, Genomes, Genetics July 2016 6: 1841-1851; https://doi.org/10.1534/g3.116.029934

Soybean

Genomic Selection for Yield and Seed Composition Traits Within an Applied Soybean Breeding Program
Benjamin B. Stewart-Brown, Qijian Song, Justin N. Vaughn, Zenglu Li

G3: Genes, Genomes, Genetics July 2019 9: 2253-2265; https://doi.org/10.1534/g3.118.200917
Prospects of Genomic Prediction in the USDA Soybean Germplasm Collection: Historical Data Creates Robust Models for Enhancing Selection of Accessions
Diego Jarquin, James Specht, Aaron Lorenz

G3: Genes, Genomes, Genetics August 2016 6: 2329-2341; https://doi.org/10.1534/g3.116.031443
Assessing Predictive Properties of Genome-Wide Selection in Soybeans
Alencar Xavier, William M. Muir, Katy Martin Rainey

G3: Genes, Genomes, Genetics August 2016 6: 2611-2616; https://doi.org/10.1534/g3.116.032268

Switchgrass

Genomic Prediction for Winter Survival of Lowland Switchgrass in the Northern USA
Hari P. Poudel, Millicent D. Sanciangco, Shawn M. Kaeppler, C. Robin Buell, Michael D. Casler

G3: Genes, Genomes, Genetics June 2019 9: 1921-1931; https://doi.org/10.1534/g3.119.400094
Extensions of BLUP Models for Genomic Prediction in Heterogeneous Populations: Application in a Diverse Switchgrass Sample
Guillaume P. Ramstein, Michael D. Casler

G3: Genes, Genomes, Genetics March 2019 9: 789-805; https://doi.org/10.1534/g3.118.200969
Accuracy of Genomic Prediction in Switchgrass (Panicum virgatum L.) Improved by Accounting for Linkage Disequilibrium
Guillaume P. Ramstein, Joseph Evans, Shawn M. Kaeppler, Robert B. Mitchell, Kenneth P. Vogel, C. Robin Buell, Michael D. Casler

G3: Genes, Genomes, Genetics April 2016 6: 1049-1062; https://doi.org/10.1534/g3.115.024950

Tree

Adoption and Optimization of Genomic Selection To Sustain Breeding for Apricot Fruit Quality
Mariem Nsibi, Barbara Gouble, Sylvie Bureau, Timothée Flutre, Christopher Sauvage, Jean-Marc Audergon, Jean-Luc Regnard

G3: Genes, Genomes, Genetics December 2020 10: 4513-4529; https://doi.org/10.1534/g3.120.401452
Genomic Studies Reveal Substantial Dominant Effects and Improved Genomic Predictions in an Open-Pollinated Breeding Population of Eucalyptus pellita
Saravanan Thavamanikumar, Roger J. Arnold, Jianzhong Luo, Bala R. Thumma

G3: Genes, Genomes, Genetics October 2020 10: 3751-3763; https://doi.org/10.1534/g3.120.401601
Genomic Prediction of Additive and Non-additive Effects Using Genetic Markers and Pedigrees
Janeo Eustáquio de Almeida Filho, João Filipi Rodrigues Guimarães, Fabyano Fonsceca e Silva, Marcos Deon Vilela de Resende, Patricio Muñoz, Matias Kirst, Marcio Fernando Ribeiro de Resende Júnior

G3: Genes, Genomes, Genetics August 2019 9: 2739-2748; https://doi.org/10.1534/g3.119.201004
Phenomic Selection Is a Low-Cost and High-Throughput Method Based on Indirect Predictions: Proof of Concept on Wheat and Poplar
Renaud Rincent, Jean-Paul Charpentier, Patricia Faivre-Rampant, Etienne Paux, Jacques Le Gouis, Catherine Bastien, Vincent Segura

G3: Genes, Genomes, Genetics December 2018 8: 3961-3972; https://doi.org/10.1534/g3.118.200760
Accuracy of Genomic Prediction for Foliar Terpene Traits in Eucalyptus polybractea
David Kainer, Eric A. Stone, Amanda Padovan, William J. Foley, Carsten Külheim

G3: Genes, Genomes, Genetics August 2018 8: 2573-2583; https://doi.org/10.1534/g3.118.200443
Single-Step BLUP with Varying Genotyping Effort in Open-Pollinated Picea glauca
Blaise Ratcliffe, Omnia Gamal El-Dien, Eduardo P. Cappa, Ilga Porth, Jaroslav Klápště, Charles Chen, Yousry A. El-Kassaby

G3: Genes, Genomes, Genetics March 2017 7: 935-942; https://doi.org/10.1534/g3.116.037895
Implementation of the Realized Genomic Relationship Matrix to Open-Pollinated White Spruce Family Testing for Disentangling Additive from Nonadditive Genetic Effects
Omnia Gamal El-Dien, Blaise Ratcliffe, Jaroslav Klápště, Ilga Porth, Charles Chen, Yousry A. El-Kassaby

G3: Genes, Genomes, Genetics March 2016 6: 743-753; https://doi.org/10.1534/g3.115.025957
Genome-Enabled Estimates of Additive and Nonadditive Genetic Variances and Prediction of Apple Phenotypes Across Environments
Satish Kumar, Claire Molloy, Patricio Muñoz, Hans Daetwyler, David Chagné, Richard Volz

G3: Genes, Genomes, Genetics December 2015 5: 2711-2718; https://doi.org/10.1534/g3.115.021105
Molecular Proxies for Climate Maladaptation in a Long-Lived Tree (Pinus pinaster Aiton, Pinaceae)

Juan-Pablo Jaramillo-Correa, Isabel Rodríguez-Quilón, Delphine Grivet, Camille Lepoittevin, Federico Sebastiani, Myriam Heuertz, Pauline H. Garnier-Géré, Ricardo Alía, Christophe Plomion, Giovanni G. Vendramin, Santiago C. González-Martínez

Genetics March 2015 199: 793-807; https://doi.org/10.1534/genetics.114.173252
Genomic Estimated Breeding Values Using Genomic Relationship Matrices in a Cloned Population of Loblolly Pine
Jaime Zapata-Valenzuela, Ross W. Whetten, David Neale, Steve McKeand, Fikret Isik

G3: Genes, Genomes, Genetics May 2013 3: 909-916; https://doi.org/10.1534/g3.113.005975
Predicting Adaptive Phenotypes From Multilocus Genotypes in Sitka Spruce (Picea sitchensis) Using Random Forest
Jason A. Holliday, Tongli Wang, Sally Aitken

G3: Genes, Genomes, Genetics September 2012 2: 1085-1093; https://doi.org/10.1534/g3.112.002733
Accuracy of Genomic Selection Methods in a Standard Data Set of Loblolly Pine (Pinus taeda L.)
Open Access

M. F. R. Resende, P. Muñoz, M. D. V. Resende, D. J. Garrick, R. L. Fernando, J. M. Davis, E. J. Jokela, T. A. Martin, G. F. Peter, M. Kirst

Genetics April 2012 190: 1503-1510; https://doi.org/10.1534/genetics.111.137026
Accuracy of Genomic Selection Methods in a Standard Data Set of Loblolly Pine (Pinus taeda L.)
Open Access

M. F. R. Resende, P. Muñoz, M. D. V. Resende, D. J. Garrick, R. L. Fernando, J. M. Davis, E. J. Jokela, T. A. Martin, G. F. Peter, M. Kirst

Genetics April 2012 190: 1503-1510; https://doi.org/10.1534/genetics.111.137026

Wheat

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Genomic Prediction with Pedigree and Genotype × Environment Interaction in Spring Wheat Grown in South and West Asia, North Africa, and Mexico
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G3: Genes, Genomes, Genetics February 2017 7: 481-495; https://doi.org/10.1534/g3.116.036251
Improvement of Predictive Ability by Uniform Coverage of the Target Genetic Space
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G3: Genes, Genomes, Genetics November 2016 6: 3733-3747; https://doi.org/10.1534/g3.116.035410
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G3: Genes, Genomes, Genetics October 2016 6: 3241-3256; https://doi.org/10.1534/g3.116.034256
Genomic Prediction of Gene Bank Wheat Landraces
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G3: Genes, Genomes, Genetics December 2012 2: 1595-1605; https://doi.org/10.1534/g3.112.003665

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