From markers to genome-based breeding in wheat

Genomic selection for grain yield and quality traits in durum wheat

(2018) Jemanesh K. Haile et al.   MOLECULAR BREEDING

The future of CRISPR technologies in agriculture

(2018) Caixia Gao   NATURE REVIEWS MOLECULAR CELL BIOLOGY

A three-component system incorporating Ppd-D1 , copy number variation at Ppd-B1 , and numerous small-effect quantitative trait loci facilitates adaptation of heading time in winter wheat cultivars of worldwide origin

(2018) Tobias Würschum et al.   PLANT CELL AND ENVIRONMENT

High throughput SNP discovery and genotyping in hexaploid wheat

(2018) Hélène Rimbert et al.   PLoS One

Simultaneous improvement of grain yield and protein content in durum wheat by different phenotypic indices and genomic selection

(2018) M. Rapp et al.   THEORETICAL AND APPLIED GENETICS

Exploiting the Rht portfolio for hybrid wheat breeding

(2018) Tobias Würschum et al.   THEORETICAL AND APPLIED GENETICS

SNP-based pool genotyping and haplotype analysis accelerate fine-mapping of the wheat genomic region containing stripe rust resistance gene Yr26

(2018) Jianhui Wu et al.   THEORETICAL AND APPLIED GENETICS

Fast-Forwarding Genetic Gain

(2018) Huihui Li et al.   TRENDS IN PLANT SCIENCE

Genomic Selection in Preliminary Yield Trials in a Winter Wheat Breeding Program

(2018) Vikas Belamkar et al.   G3-Genes Genomes Genetics

Genome-Wide Association Studies and Comparison of Models and Cross-Validation Strategies for Genomic Prediction of Quality Traits in Advanced Winter Wheat Breeding Lines

(2018) Peter S. Kristensen et al.   Frontiers in Plant Science

Evaluation of the Potential for Genomic Selection to Improve Spring Wheat Resistance to Fusarium Head Blight in the Pacific Northwest

(2018) Haixiao Dong et al.   Frontiers in Plant Science

Genome sequence of the progenitor of wheat A subgenome Triticum urartu

(2018) Hong-Qing Ling et al.   NATURE

Allelic effects and variations for key bread-making quality genes in bread wheat using high-throughput molecular markers

(2018) Awais Rasheed et al.   JOURNAL OF CEREAL SCIENCE

Hybrid assembly of the large and highly repetitive genome ofAegilops tauschii, a progenitor of bread wheat, with the MaSuRCA mega-reads algorithm

(2017) Aleksey V. Zimin et al.   GENOME RESEARCH

An improved assembly and annotation of the allohexaploid wheat genome identifies complete families of agronomic genes and provides genomic evidence for chromosomal translocations

(2017) Bernardo J. Clavijo et al.   GENOME RESEARCH

Breeding for increased grain protein and micronutrient content in wheat: Ten years of the GPC-B1 gene

(2017) Facundo Tabbita et al.   JOURNAL OF CEREAL SCIENCE

Development of robust molecular markers for marker-assisted selection of leaf rust resistance gene Lr23 in common and durum wheat breeding programs

(2017) Mumta Chhetri et al.   MOLECULAR BREEDING

Practical application of genomic selection in a doubled-haploid winter wheat breeding program

(2017) Jiayin Song et al.   MOLECULAR BREEDING

Crop Breeding Chips and Genotyping Platforms: Progress, Challenges, and Perspectives

(2017) Awais Rasheed et al.   Molecular Plant

Genomic innovation for crop improvement

(2017) Michael W. Bevan et al.   NATURE

Genome sequence of the progenitor of the wheat D genome Aegilops tauschii

(2017) Ming-Cheng Luo et al.   NATURE

Rapid cloning of genes in hexaploid wheat using cultivar-specific long-range chromosome assembly

(2017) Anupriya Kaur Thind et al.   NATURE BIOTECHNOLOGY

A quantitative genetic framework highlights the role of epistatic effects for grain-yield heterosis in bread wheat

(2017) Yong Jiang et al.   NATURE GENETICS

A study of allelic diversity underlying flowering-time adaptation in maize landraces

(2017) J Alberto Romero Navarro et al.   NATURE GENETICS

Genomic prediction unifies animal and plant breeding programs to form platforms for biological discovery

(2017) John M Hickey et al.   NATURE GENETICS

Construction of Agropyron Gaertn. genetic linkage maps using a wheat 660K SNP array reveals a homoeologous relationship with the wheat genome

(2017) Shenghui Zhou et al.   PLANT BIOTECHNOLOGY JOURNAL

Genome-wide association study for 13 agronomic traits reveals distribution of superior alleles in bread wheat from the Yellow and Huai Valley of China

(2017) Congwei Sun et al.   PLANT BIOTECHNOLOGY JOURNAL

Genotyping-by-sequencing approaches to characterize crop genomes: choosing the right tool for the right application

(2017) Armin Scheben et al.   PLANT BIOTECHNOLOGY JOURNAL

The pangenome of hexaploid bread wheat

(2017) Juan D. Montenegro et al.   PLANT JOURNAL

A Whole Genome DArTseq and SNP Analysis for Genetic Diversity Assessment in Durum Wheat from Central Fertile Crescent

(2017) Faheem Shehzad Baloch et al.   PLoS One

Poaceae-specificMS1encodes a phospholipid-binding protein for male fertility in bread wheat

(2017) Zheng Wang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Uncovering hidden variation in polyploid wheat

(2017) Ksenia V. Krasileva et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Wild emmer genome architecture and diversity elucidate wheat evolution and domestication

(2017) Raz Avni et al.   SCIENCE

Increased genomic prediction accuracy in wheat breeding using a large Australian panel

(2017) Adam Norman et al.   THEORETICAL AND APPLIED GENETICS

Improving the baking quality of bread wheat by genomic selection in early generations

(2017) Sebastian Michel et al.   THEORETICAL AND APPLIED GENETICS

Exome sequence genotype imputation in globally diverse hexaploid wheat accessions

(2017) Fan Shi et al.   THEORETICAL AND APPLIED GENETICS

Accelerating wheat breeding for end-use quality with multi-trait genomic predictions incorporating near infrared and nuclear magnetic resonance-derived phenotypes

(2017) B. J. Hayes et al.   THEORETICAL AND APPLIED GENETICS

Detection and validation of genomic regions associated with resistance to rust diseases in a worldwide hexaploid wheat landrace collection using BayesR and mixed linear model approaches

(2017) Raj K. Pasam et al.   THEORETICAL AND APPLIED GENETICS

Genomic and pedigree-based prediction for leaf, stem, and stripe rust resistance in wheat

(2017) Philomin Juliana et al.   THEORETICAL AND APPLIED GENETICS

Improvements in Genomic Technologies: Application to Crop Genomics

(2017) Yuxuan Yuan et al.   TRENDS IN BIOTECHNOLOGY

Genomic Selection in Plant Breeding: Methods, Models, and Perspectives

(2017) José Crossa et al.   TRENDS IN PLANT SCIENCE

A TRIM insertion in the promoter of Ms2 causes male sterility in wheat

(2017) Chuan Xia et al.   Nature Communications

Wheat Ms2 encodes for an orphan protein that confers male sterility in grass species

(2017) Fei Ni et al.   Nature Communications

Molecular identification of the wheat male fertility gene Ms1 and its prospects for hybrid breeding

(2017) Elise J. Tucker et al.   Nature Communications

A High-Density Consensus Map of Common Wheat Integrating Four Mapping Populations Scanned by the 90K SNP Array

(2017) Weie Wen et al.   Frontiers in Plant Science

Exploring and Harnessing Haplotype Diversity to Improve Yield Stability in Crops

(2017) Lunwen Qian et al.   Frontiers in Plant Science

Genetic Nature of Elemental Contents in Wheat Grains and Its Genomic Prediction: Toward the Effective Use of Wheat Landraces from Afghanistan

(2017) Alagu Manickavelu et al.   PLoS One

Utilization of a Wheat660K SNP array-derived high-density genetic map for high-resolution mapping of a major QTL for kernel number

(2017) Fa Cui et al.   Scientific Reports

Genomic Selection Accuracy using Multifamily Prediction Models in a Wheat Breeding Program

(2017) Elliot L. Heffner et al.   Plant Genome

Into the vault of the Vavilov wheats: old diversity for new alleles

(2016) Adnan Riaz et al.   GENETIC RESOURCES AND CROP EVOLUTION

Comparing genomic selection and marker-assisted selection for Fusarium head blight resistance in wheat (Triticum aestivum L.)

(2016) M. P. Arruda et al.   MOLECULAR BREEDING

Rapid cloning of disease-resistance genes in plants using mutagenesis and sequence capture

(2016) Burkhard Steuernagel et al.   NATURE BIOTECHNOLOGY

Subgenome parallel selection is associated with morphotype diversification and convergent crop domestication in Brassica rapa and Brassica oleracea

(2016) Feng Cheng et al.   NATURE GENETICS

A step change in the transfer of interspecific variation into wheat fromAmblyopyrum muticum

(2016) Julie King et al.   PLANT BIOTECHNOLOGY JOURNAL

A highly recombined, high-density, eight-founder wheat MAGIC map reveals extensive segregation distortion and genomic locations of introgression segments

(2016) Keith A. Gardner et al.   PLANT BIOTECHNOLOGY JOURNAL

Characterization of a Wheat Breeders’ Array suitable for high-throughput SNP genotyping of global accessions of hexaploid bread wheat (Triticum aestivum)

(2016) Alexandra M. Allen et al.   PLANT BIOTECHNOLOGY JOURNAL

expVIP: a Customizable RNA-seq Data Analysis and Visualization Platform

(2016) Philippa Borrill et al.   PLANT PHYSIOLOGY

Evaluation of Linkage Disequilibrium Pattern and Association Study on Seed Oil Content in Brassica napus Using ddRAD Sequencing

(2016) Zhikun Wu et al.   PLoS One

Genomic assisted selection for enhancing line breeding: merging genomic and phenotypic selection in winter wheat breeding programs with preliminary yield trials

(2016) Sebastian Michel et al.   THEORETICAL AND APPLIED GENETICS

Validating the prediction accuracies of marker-assisted and genomic selection of Fusarium head blight resistance in wheat using an independent sample

(2016) Yong Jiang et al.   THEORETICAL AND APPLIED GENETICS

An innovative SNP genotyping method adapting to multiple platforms and throughputs

(2016) Y. M. Long et al.   THEORETICAL AND APPLIED GENETICS

Genetic architecture of male floral traits required for hybrid wheat breeding

(2016) Philipp H. G. Boeven et al.   THEORETICAL AND APPLIED GENETICS

Genomic prediction for grain zinc and iron concentrations in spring wheat

(2016) Govindan Velu et al.   THEORETICAL AND APPLIED GENETICS

Genomic selection for wheat traits and trait stability

(2016) Mao Huang et al.   THEORETICAL AND APPLIED GENETICS

Development and validation of KASP assays for genes underpinning key economic traits in bread wheat

(2016) Awais Rasheed et al.   THEORETICAL AND APPLIED GENETICS

Bandwagons I, too, have known

(2016) Rex Bernardo   THEORETICAL AND APPLIED GENETICS

Unlocking the genetic diversity of Creole wheats

(2016) Prashant Vikram et al.   Scientific Reports

The Triticeae Toolbox: Combining Phenotype and Genotype Data to Advance Small-Grains Breeding

(2016) Victoria C. Blake et al.   Plant Genome

Genomic Selection for Processing and End-Use Quality Traits in the CIMMYT Spring Bread Wheat Breeding Program

(2016) Sarah D. Battenfield et al.   Plant Genome

Breeding Value of Primary Synthetic Wheat Genotypes for Grain Yield

(2016) Jafar Jafarzadeh et al.   PLoS One

PolyMarker: A fast polyploid primer design pipeline: Fig. 1.

(2015) Ricardo H. Ramirez-Gonzalez et al.   BIOINFORMATICS

Multiply to conquer: Copy number variations at Ppd-B1 and Vrn-A1 facilitate global adaptation in wheat

(2015) Tobias Würschum et al.   BMC GENETICS

A high density GBS map of bread wheat and its application for dissecting complex disease resistance traits

(2015) Huihui Li et al.   BMC GENOMICS

WheatExp: an RNA-seq expression database for polyploid wheat

(2015) Stephen Pearce et al.   BMC PLANT BIOLOGY

Functional molecular markers for crop improvement

(2015) Udaykumar Kage et al.   CRITICAL REVIEWS IN BIOTECHNOLOGY

Delimitation of theEarliness per se D1(Eps-D1) flowering gene to a subtelomeric chromosomal deletion in bread wheat (Triticum aestivum)

(2015) Meluleki Zikhali et al.   JOURNAL OF EXPERIMENTAL BOTANY

TaTGW6-A1, an ortholog of rice TGW6, is associated with grain weight and yield in bread wheat

(2015) Mamoona Hanif et al.   MOLECULAR BREEDING

A recently evolved hexose transporter variant confers resistance to multiple pathogens in wheat

(2015) John W Moore et al.   NATURE GENETICS

High-density SNP genotyping array for hexaploid wheat and its secondary and tertiary gene pool

(2015) Mark O. Winfield et al.   PLANT BIOTECHNOLOGY JOURNAL

TaGS5-3A,a grain size gene selected during wheat improvement for larger kernel and yield

(2015) Lin Ma et al.   PLANT BIOTECHNOLOGY JOURNAL

A high-density genetic map for P genome of Agropyron Gaertn. based on specific-locus amplified fragment sequencing (SLAF-seq)

(2015) Yan Zhang et al.   PLANTA

Exploring and Mobilizing the Gene Bank Biodiversity for Wheat Improvement

(2015) Deepmala Sehgal et al.   PLoS One

Breeding signatures of rice improvement revealed by a genomic variation map from a large germplasm collection

(2015) Weibo Xie et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Potential and limits of whole genome prediction of resistance to Fusarium head blight and Septoria tritici blotch in a vast Central European elite winter wheat population

(2015) Vilson Mirdita et al.   THEORETICAL AND APPLIED GENETICS

A haplotype map of allohexaploid wheat reveals distinct patterns of selection on homoeologous genomes

(2015) Katherine W Jordan et al.   GENOME BIOLOGY

A whole-genome shotgun approach for assembling and anchoring the hexaploid bread wheat genome

(2015) Jarrod A Chapman et al.   GENOME BIOLOGY

Strategic pre-breeding for wheat improvement

(2015) Graham Moore   Nature Plants

Genome-environment associations in sorghum landraces predict adaptive traits

(2015) J. R. Lasky et al.   Science Advances

Detection of NAM-A1 Natural Variants in Bread Wheat Reveals Differences in Haplotype Distribution between a Worldwide Core Collection and European Elite Germplasm

(2015) Fabien Cormier et al.   Agronomy-Basel

Genomic Selection for Quantitative Adult Plant Stem Rust Resistance in Wheat

(2015) Jessica E. Rutkoski et al.   Plant Genome

Current applications of wheat and wheat–alien precise genetic stocks

(2014) Elena K. Khlestkina   MOLECULAR BREEDING

TaGS-D1, an ortholog of rice OsGS3, is associated with grain weight and grain length in common wheat

(2014) Yingjun Zhang et al.   MOLECULAR BREEDING

Genome-wide prediction of three important traits in bread wheat

(2014) Gilles Charmet et al.   MOLECULAR BREEDING

De novo assembly of soybean wild relatives for pan-genome analysis of diversity and agronomic traits

(2014) Ying-hui Li et al.   NATURE BIOTECHNOLOGY

Characterization of polyploid wheat genomic diversity using a high-density 90 000 single nucleotide polymorphism array

(2014) Shichen Wang et al.   PLANT BIOTECHNOLOGY JOURNAL

Insights into the Maize Pan-Genome and Pan-Transcriptome

(2014) C. N. Hirsch et al.   PLANT CELL

Global Selection on Sucrose Synthase Haplotypes during a Century of Wheat Breeding

(2014) J. Hou et al.   PLANT PHYSIOLOGY

Split-gene system for hybrid wheat seed production

(2014) K. Kempe et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A chromosome-based draft sequence of the hexaploid bread wheat (Triticum aestivum) genome

(2014) et al.   SCIENCE

Structural and functional partitioning of bread wheat chromosome 3B

(2014) F. Choulet et al.   SCIENCE

Genetic and molecular bases of yield-associated traits: a translational biology approach between rice and wheat

(2014) Ravi Valluru et al.   THEORETICAL AND APPLIED GENETICS

Genomic prediction for rust resistance in diverse wheat landraces

(2014) Hans D. Daetwyler et al.   THEORETICAL AND APPLIED GENETICS

Copy number and haplotype variation at the VRN-A1 and central FR-A2 loci are associated with frost tolerance in hexaploid wheat

(2014) Jie Zhu et al.   THEORETICAL AND APPLIED GENETICS

Escape from the laboratory: new horizons for plant genetics

(2014) Maurizio Rossetto et al.   TRENDS IN PLANT SCIENCE

Molecular characterization of vernalization and response genes in bread wheat from the Yellow and Huai Valley of China

(2013) Feng Chen et al.   BMC PLANT BIOLOGY

The use of unbalanced historical data for genomic selection in an international wheat breeding program

(2013) Julie C. Dawson et al.   FIELD CROPS RESEARCH

Cloning and Characterization of a Critical Regulator for Preharvest Sprouting in Wheat

(2013) S. Liu et al.   GENETICS

Single nucleotide polymorphism genotyping using Kompetitive Allele Specific PCR (KASP): overview of the technology and its application in crop improvement

(2013) Kassa Semagn et al.   MOLECULAR BREEDING

Draft genome of the wheat A-genome progenitor Triticum urartu

(2013) Hong-Qing Ling et al.   NATURE

Aegilops tauschii draft genome sequence reveals a gene repertoire for wheat adaptation

(2013) Jizeng Jia et al.   NATURE

The Development of 7E Chromosome-Specific Molecular Markers for Thinopyrum elongatum Based on SLAF-seq Technology

(2013) Shiqiang Chen et al.   PLoS One

A 4-gigabase physical map unlocks the structure and evolution of the complex genome of Aegilops tauschii, the wheat D-genome progenitor

(2013) M.-C. Luo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome-wide comparative diversity uncovers multiple targets of selection for improvement in hexaploid wheat landraces and cultivars

(2013) C. R. Cavanagh et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Hybrid wheat: quantitative genetic parameters and consequences for the design of breeding programs

(2013) Carl Friedrich Horst Longin et al.   THEORETICAL AND APPLIED GENETICS

Analysis of the bread wheat genome using whole-genome shotgun sequencing

(2012) Rachel Brenchley et al.   NATURE

Development of High-Density Genetic Maps for Barley and Wheat Using a Novel Two-Enzyme Genotyping-by-Sequencing Approach

(2012) Jesse A. Poland et al.   PLoS One

Functional markers in wheat: current status and future prospects

(2012) Yanan Liu et al.   THEORETICAL AND APPLIED GENETICS

Anther extrusion and plant height are associated with Type I resistance to Fusarium head blight in bread wheat line ‘Shanghai-3/Catbird’

(2012) Qiongxian Lu et al.   THEORETICAL AND APPLIED GENETICS

Genomic Prediction of Genetic Values for Resistance to Wheat Rusts

(2012) Leonardo Ornella et al.   Plant Genome

Genomic Selection in Wheat Breeding using Genotyping-by-Sequencing

(2012) Jesse Poland et al.   Plant Genome

Large and linked in scientific publishing

(2012) Laurie Goodman et al.   GigaScience

Population- and genome-specific patterns of linkage disequilibrium and SNP variation in spring and winter wheat (Triticum aestivum L.)

(2011) Shiaoman Chao et al.   BMC GENOMICS

Allelic Variants at the TaZds-D1 Locus on Wheat Chromosome 2DL and their Association with Yellow Pigment Content

(2011) Caiying Zhang et al.   CROP SCIENCE

Genomic Selection Accuracy for Grain Quality Traits in Biparental Wheat Populations

(2011) Elliot L. Heffner et al.   CROP SCIENCE

Reconstruction of the Synthetic W7984 × Opata M85 wheat reference population

(2011) Mark E. Sorrells et al.   GENOME

A Robust, Simple Genotyping-by-Sequencing (GBS) Approach for High Diversity Species

(2011) Robert J. Elshire et al.   PLoS One

Targeted analysis of nucleotide and copy number variation by exon capture in allotetraploid wheat genome

(2011) Cyrille Saintenac et al.   GENOME BIOLOGY

Development of Chromosome-Specific BAC Resources for Genomics of Bread Wheat

(2010) J. Šafář et al.   CYTOGENETIC AND GENOME RESEARCH

Genomic selection for durable stem rust resistance in wheat

(2010) Jessica E. Rutkoski et al.   EUPHYTICA

Characterization of a cell wall invertase gene TaCwi-A1 on common wheat chromosome 2A and development of functional markers

(2010) Dongyun Ma et al.   MOLECULAR BREEDING

Performance of Single Nucleotide Polymorphisms versus Haplotypes for Genome-Wide Association Analysis in Barley

(2010) Aaron J. Lorenz et al.   PLoS One

Allelic variants of phytoene synthase 1 (Psy1) genes in Chinese and CIMMYT wheat cultivars and development of functional markers for flour colour

(2009) X. Y. He et al.   MOLECULAR BREEDING

Molecular Plant Breeding as the Foundation for 21st Century Crop Improvement

(2008) S. P. Moose et al.   PLANT PHYSIOLOGY

A Physical Map of the 1-Gigabase Bread Wheat Chromosome 3B

(2008) E. Paux et al.   SCIENCE