Improving grain yield, stress resilience and quality of bread wheat using large-scale genomics
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Philomin Juliana | Suchismita Mondal | José Crossa | Jesse Poland | Sridhar Bhavani | Paulino Pérez-Rodríguez | Susanne Dreisigacker | Carlos Guzman | Sandesh Shrestha | Osval A Montesinos-López | Daljit Singh | J. Poland | P. Pérez-Rodríguez | S. Dreisigacker | O. Montesinos-López | J. Crossa | P. Juliana | C. Guzmán | Yue Jin | R. Singh | F. Marza | M. Rouse | S. Bhavani | S. Mondal | D. Singh | P. Singh | Xinyao He | U. Kumar | Velu Govindan | L. Crespo-Herrera | F. Toledo | Matthew N Rouse | Yue Jin | Julio Huerta-Espino | Leonardo Crespo-Herrera | Fernando Henrique Toledo | Velu Govindan | Uttam Kumar | Pawan K Singh | Mandeep S Randhawa | Xinyao He | Mohammad Mokhlesur Rahman | Felix Marza | Ravi Prakash Singh | M. Randhawa | J. Huerta-Espino | Sandesh Shrestha | M. Mokhlesur Rahman | Philomin Juliana | Leonardo Crespo-Herrera
[1] B. Keller,et al. A Putative ABC Transporter Confers Durable Resistance to Multiple Fungal Pathogens in Wheat , 2009, Science.
[2] A. Gilmour. ASREML for testing fixed effects and estimating multiple trait variance components. , 1997 .
[3] H. Bariana,et al. Cytogenetic studies in wheat. XV. Location of rust resistance genes in VPM1 and their genetic linkage with other disease resistance genes in chromosome 2A. , 1993, Genome.
[4] C. Morris. Puroindolines: the molecular genetic basis of wheat grain hardness , 2002, Plant Molecular Biology.
[5] J. M. Prescott,et al. A scale for appraising the foliar intensity of wheat diseases , 1975 .
[6] Wenjun Zhang,et al. Fine mapping and characterization of Sr21, a temperature-sensitive diploid wheat resistance gene effective against the Puccinia graminis f. sp. tritici Ug99 race group , 2015, Theoretical and Applied Genetics.
[7] S. Mansfield,et al. Factors affecting the accuracy of genomic selection for growth and wood quality traits in an advanced-breeding population of black spruce (Picea mariana) , 2017, BMC Genomics.
[8] H. Martens,et al. Relationships between storage protein composition, protein content, growing season and flour quality of bread wheat , 2004 .
[9] J. Poland,et al. Prospects and Challenges of Applied Genomic Selection—A New Paradigm in Breeding for Grain Yield in Bread Wheat , 2018, The plant genome.
[10] M. Goddard,et al. Prediction of total genetic value using genome-wide dense marker maps. , 2001, Genetics.
[11] M. Cooper,et al. Accelerating crop genetic gains with genomic selection , 2018, Theoretical and Applied Genetics.
[12] Stefano Lonardi,et al. Efficient and Accurate Construction of Genetic Linkage Maps from the Minimum Spanning Tree of a Graph , 2008, PLoS genetics.
[13] E. Buckler,et al. Genetic association mapping and genome organization of maize. , 2006, Current opinion in biotechnology.
[14] Jesse B. Tack,et al. Effect of warming temperatures on US wheat yields , 2015, Proceedings of the National Academy of Sciences.
[15] Zhiwu Zhang,et al. Mixed linear model approach adapted for genome-wide association studies , 2010, Nature Genetics.
[16] Sridhar Bhavani,et al. Emergence and Spread of New Races of Wheat Stem Rust Fungus: Continued Threat to Food Security and Prospects of Genetic Control. , 2015, Phytopathology.
[17] W. Spielmeyer,et al. Major Gene for Field Stem Rust Resistance Co-Locates with Resistance Gene Sr12 in ‘Thatcher’ Wheat , 2016, PloS one.
[18] Xiaohui Li,et al. Deletion of the low-molecular-weight glutenin subunit allele Glu-A3a of wheat (Triticum aestivumL.) significantly reduces dough strength and breadmaking quality , 2014, BMC Plant Biology.
[19] Zhonghu He,et al. Low molecular weight glutenin subunit gene Glu-B3h confers superior dough strength and breadmaking quality in wheat (Triticum aestivum L.) , 2016, Scientific Reports.
[20] L. Talbert,et al. Complementary epistasis involving Sr12 explains adult plant resistance to stem rust in Thatcher wheat (Triticum aestivum L.) , 2014, Theoretical and Applied Genetics.
[21] Jean-Luc Jannink,et al. Evaluation of Genomic Prediction Methods for Fusarium Head Blight Resistance in Wheat , 2012 .
[22] L. Yan,et al. The wheat and barley vernalization gene VRN3 is an orthologue of FT , 2006, Proceedings of the National Academy of Sciences.
[23] Melinda Smale,et al. Crops that feed the world 10. Past successes and future challenges to the role played by wheat in global food security , 2013, Food Security.
[24] Mingming Xin,et al. Overexpression of wheat ferritin gene TaFER-5B enhances tolerance to heat stress and other abiotic stresses associated with the ROS scavenging , 2017, BMC Plant Biology.
[25] G. Bai,et al. Molecular Mapping of Wheat Leaf Rust Resistance Gene Lr42 , 2010 .
[26] Nigel G Halford,et al. Food security: the challenge of increasing wheat yield and the importance of not compromising food safety , 2014, The Annals of applied biology.
[27] Reimund P. Rötter,et al. Adverse weather conditions for European wheat production will become more frequent with climate change , 2014 .
[28] Edward S. Buckler,et al. TASSEL: software for association mapping of complex traits in diverse samples , 2007, Bioinform..
[29] J. Dubcovsky,et al. Effects of the Chromosome Region Including the Gpc‐B1 Locus on Wheat Grain and Protein Yield , 2010 .
[30] Guillaume Bouchard,et al. Fast and Efficient Estimation of Individual Ancestry Coefficients , 2014, Genetics.
[31] Wenjun Zhang,et al. Fine mapping and characterization of Sr 21 , a temperature ‐ sensitive diploid wheat resistance gene effective against the Puccinia graminis f . sp . tritici Ug 99 race group , 2015 .
[32] Steven L Salzberg,et al. Fast gapped-read alignment with Bowtie 2 , 2012, Nature Methods.
[33] R. F. Peterson,et al. A DIAGRAMMATIC SCALE FOR ESTIMATING RUST INTENSITY ON LEAVES AND STEMS OF CEREALS , 1948 .
[34] G. Moser,et al. Accuracy of direct genomic values in Holstein bulls and cows using subsets of SNP markers , 2010, Genetics Selection Evolution.
[35] T. Zhao,et al. OsMPH1 regulates plant height and improves grain yield in rice , 2017, PloS one.
[36] A. Mujeeb-Kazi,et al. Variation in quality characteristics associated with some spring 1B/1R translocation wheats , 1990 .
[37] C. Sansaloni,et al. Resistance to Spot Blotch in Two Mapping Populations of Common Wheat Is Controlled by Multiple QTL of Minor Effects , 2018, International journal of molecular sciences.
[38] C. Wellings,et al. Cytogenetical studies in wheat XIX. Location and linkage studies on gene Yr27 for resistance to stripe (yellow) rust , 2004, Euphytica.
[39] M. McMullen,et al. A unified mixed-model method for association mapping that accounts for multiple levels of relatedness , 2006, Nature Genetics.
[40] N. Ramankutty,et al. Recent patterns of crop yield growth and stagnation , 2012, Nature Communications.
[41] C. Hao,et al. Global Selection on Sucrose Synthase Haplotypes during a Century of Wheat Breeding1[C][W] , 2014, Plant Physiology.
[42] Chenggui Han,et al. Fine genetic mapping of spot blotch resistance gene Sb3 in wheat (Triticum aestivum) , 2016, Theoretical and Applied Genetics.
[43] J. Poland,et al. Genomic and pedigree-based prediction for leaf, stem, and stripe rust resistance in wheat , 2017, Theoretical and Applied Genetics.
[44] Rohan L. Fernando,et al. Extension of the bayesian alphabet for genomic selection , 2011, BMC Bioinformatics.
[45] L. Yan,et al. Positional cloning of the wheat vernalization gene VRN1 , 2003, Proceedings of the National Academy of Sciences of the United States of America.
[46] G. Rosewarne,et al. QTL analysis of the spring wheat “Chapio” identifies stable stripe rust resistance despite inter-continental genotype × environment interactions , 2013, Theoretical and Applied Genetics.
[47] C. Pozniak,et al. Highly predictive SNP markers for efficient selection of the wheat leaf rust resistance gene Lr16 , 2017, BMC Plant Biology.
[48] E. Himi,et al. Red grain colour gene (R) of wheat is a Myb-type transcription factor , 2005, Euphytica.
[49] Paul M. VanRaden,et al. Changes in genetic selection differentials and generation intervals in US Holstein dairy cattle as a result of genomic selection , 2016, Proceedings of the National Academy of Sciences.
[50] H. Daetwyler,et al. Designing dairy cattle breeding schemes under genomic selection: a review of international research , 2012 .
[51] S. Torriani,et al. Zymoseptoria tritici: A major threat to wheat production, integrated approaches to control. , 2015, Fungal genetics and biology : FG & B.
[52] Robert J. Elshire,et al. TASSEL-GBS: A High Capacity Genotyping by Sequencing Analysis Pipeline , 2014, PloS one.
[53] M. Pumphrey,et al. A Genome-Wide Association Study of Field and Seedling Response to Individual Stem Rust Pathogen Races Reveals Combinations of Race-Specific Genes in North American Spring Wheat , 2018, Front. Plant Sci..
[54] J. Poland,et al. Comparison of Models and Whole‐Genome Profiling Approaches for Genomic‐Enabled Prediction of Septoria Tritici Blotch, Stagonospora Nodorum Blotch, and Tan Spot Resistance in Wheat , 2017, The plant genome.
[55] J. von Braun,et al. Climate Change Impacts on Global Food Security , 2013, Science.
[56] J. Anderson,et al. Development and verification of wheat germplasm containing both Sr2 and Fhb1 , 2016, Molecular Breeding.
[57] D. Laurie,et al. Copy Number Variation Affecting the Photoperiod-B1 and Vernalization-A1 Genes Is Associated with Altered Flowering Time in Wheat (Triticum aestivum) , 2012, PloS one.
[58] C. Calestani,et al. A high-density genetic map of hexaploid wheat (Triticum aestivum L.) from the cross Chinese Spring × SQ1 and its use to compare QTLs for grain yield across a range of environments , 2005, Theoretical and Applied Genetics.
[59] G. de los Campos,et al. Genome-Wide Regression and Prediction with the BGLR Statistical Package , 2014, Genetics.
[60] J. Dubcovsky,et al. Functional characterization of GPC-1 genes in hexaploid wheat , 2014, Planta.
[61] H. Piepho,et al. The area under the disease progress stairs: calculation, advantage, and application. , 2012, Phytopathology.
[62] Michael E. Goddard,et al. Genomic selection: A paradigm shift in animal breeding , 2016 .
[63] Kuldeep Kumar,et al. Robust Statistics, 2nd edn , 2011 .
[64] J. Dubcovsky,et al. PCR assays for the Lr37-Yr17-Sr38 cluster of rust resistance genes and their use to develop isogenic hard red spring wheat lines , 2003 .
[65] R. Peña,et al. Influence of high molecular weight Glutenins on Viscoelastic properties of intact wheat Kernel and relation to functional properties of wheat dough , 2009 .
[66] G. Bai,et al. End‐Use Quality and Agronomic Characteristics Associated with the Glu‐B1al High‐Molecular‐Weight Glutenin Allele in U.S. Hard Winter Wheat , 2016 .
[67] D. Hodson,et al. Disease Impact on Wheat Yield Potential and Prospects of Genetic Control. , 2016, Annual review of phytopathology.
[68] R. Ward,et al. Characterization of Seedling Infection Types and Adult Plant Infection Responses of Monogenic Sr Gene Lines to Race TTKS of Puccinia graminis f. sp. tritici. , 2007, Plant disease.
[69] E. Lagudah,et al. Lr68: a new gene conferring slow rusting resistance to leaf rust in wheat , 2012, Theoretical and Applied Genetics.
[70] G. de los Campos,et al. Genomic Selection in Plant Breeding: Methods, Models, and Perspectives. , 2017, Trends in plant science.
[71] B. Valent,et al. Wheat blast disease: danger on the move , 2017, Tropical Plant Pathology.
[72] Edward S. Buckler,et al. Dwarf8 polymorphisms associate with variation in flowering time , 2001, Nature Genetics.
[73] José Crossa,et al. Genomic Selection in Wheat Breeding using Genotyping‐by‐Sequencing , 2012 .
[74] Xinhong Chen,et al. TaGS5-3A, a grain size gene selected during wheat improvement for larger kernel and yield. , 2016, Plant biotechnology journal.
[75] M. Sorrells,et al. Genomic Selection for Crop Improvement , 2009 .
[76] J. Anderson,et al. Stem rust resistance in ‘Jagger’ winter wheat , 2016 .
[77] Dongyun Ma,et al. Characterization of a cell wall invertase gene TaCwi-A1 on common wheat chromosome 2A and development of functional markers , 2010, Molecular Breeding.
[78] Andrej Ceglar,et al. Wheat yield loss attributable to heat waves, drought and water excess at the global, national and subnational scales , 2017 .
[79] J. Foley,et al. Yield Trends Are Insufficient to Double Global Crop Production by 2050 , 2013, PloS one.
[80] P. VanRaden,et al. Efficient methods to compute genomic predictions. , 2008, Journal of dairy science.
[81] J. Dubcovsky,et al. A NAC Gene Regulating Senescence Improves Grain Protein, Zinc, and Iron Content in Wheat , 2006, Science.
[82] J. Snape,et al. Dissecting gene × environmental effects on wheat yields via QTL and physiological analysis , 2007, Euphytica.
[83] J. Anderson,et al. Genetic Characterization of Stem Rust Resistance in a Global Spring Wheat Germplasm Collection , 2017 .
[84] K. Jordan,et al. The 2NS Translocation from Aegilops ventricosa Confers Resistance to the Triticum Pathotype of Magnaporthe oryzae , 2016, Crop science.
[85] J. Woolliams,et al. The Accuracy of Genomic Selection in Norwegian Red Cattle Assessed by Cross-Validation , 2009, Genetics.
[86] M. Rouse,et al. Genetic Mapping of Stem Rust Resistance to Puccinia graminis f. sp. tritici Race TRTTF in the Canadian Wheat Cultivar Harvest. , 2017, Phytopathology.
[87] Q. Xue,et al. Mapping of quantitative trait loci for grain yield and its components in a US popular winter wheat TAM 111 using 90K SNPs , 2017, PloS one.
[88] J. Doležel,et al. An accurate DNA marker assay for stem rust resistance gene Sr2 in wheat , 2011, Theoretical and Applied Genetics.
[89] Yusheng Zhao,et al. Genomic prediction of sunflower hybrid performance , 2013 .
[90] P. Shewry,et al. The contribution of wheat to human diet and health , 2015, Food and energy security.
[91] Mingming Xin,et al. Characterization of wheat MYB genes responsive to high temperatures , 2017, BMC Plant Biology.
[92] Jindong Liu,et al. TaTGW6-A1, an ortholog of rice TGW6, is associated with grain weight and yield in bread wheat , 2015, Molecular Breeding.
[93] E. C. Stakman,et al. Identification of physiologic races of Puccinia graminis var. tritici. , 1944 .
[94] C. Guzmán,et al. A new standard water absorption criteria based on solvent retention capacity (SRC) to determine dough mixing properties, viscoelasticity, and bread-making quality , 2015 .
[95] Trevor W. Rife,et al. Genotyping‐by‐Sequencing for Plant Breeding and Genetics , 2012 .
[96] Robert J. Elshire,et al. A Robust, Simple Genotyping-by-Sequencing (GBS) Approach for High Diversity Species , 2011, PloS one.
[97] Hsiao-Pei Yang,et al. Genomic Selection in Plant Breeding: A Comparison of Models , 2012 .
[98] Y. Jin,et al. Stem Rust Resistance in A-Genome Diploid Relatives of Wheat. , 2011, Plant disease.
[99] B. Ripley,et al. Robust Statistics , 2018, Encyclopedia of Mathematical Geosciences.
[100] Jonathan D. G. Jones,et al. Shifting the limits in wheat research and breeding using a fully annotated reference genome , 2018, Science.
[101] D. Reich,et al. Principal components analysis corrects for stratification in genome-wide association studies , 2006, Nature Genetics.
[102] S. Myles,et al. LinkImpute: Fast and Accurate Genotype Imputation for Nonmodel Organisms , 2015, G3: Genes, Genomes, Genetics.
[103] D. Laurie,et al. Meta-QTL analysis of the genetic control of ear emergence in elite European winter wheat germplasm , 2009, Theoretical and Applied Genetics.
[104] P. S. Baenziger,et al. Genetic Dissection of Yield and Its Component Traits Using High-Density Composite Map of Wheat Chromosome 3A: Bridging Gaps between QTLs and Underlying Genes , 2013, PloS one.
[105] Chenyang Hao,et al. Identification and development of a functional marker of TaGW2 associated with grain weight in bread wheat (Triticum aestivum L.) , 2010, Theoretical and Applied Genetics.
[106] D. Hays,et al. Genetic loci linking improved heat tolerance in wheat (Triticum aestivum L.) to lower leaf and spike temperatures under controlled conditions , 2011, Euphytica.
[107] Chenyang Hao,et al. TaGW2, a Good Reflection of Wheat Polyploidization and Evolution , 2017, Frontiers in plant science.
[108] S. Dreisigacker,et al. Identification and Validation of a Common Stem Rust Resistance Locus in Two Bi-parental Populations , 2018, Front. Plant Sci..
[109] N. Blake,et al. Markers Linked to Wheat Stem Rust Resistance Gene Sr11 Effective to Puccinia graminis f. sp. tritici Race TKTTF. , 2016, Phytopathology.
[110] J. Poland,et al. Genome-wide association mapping for resistance to leaf rust, stripe rust and tan spot in wheat reveals potential candidate genes , 2018, Theoretical and Applied Genetics.
[111] J Crossa,et al. Genomic prediction in CIMMYT maize and wheat breeding programs , 2013, Heredity.
[112] M. Goddard,et al. Invited review: Genomic selection in dairy cattle: progress and challenges. , 2009, Journal of dairy science.