Whole genome sequences in pulse crops: a global community resource to expedite translational genomics and knowledge-based crop improvement

Genomics-assisted breeding for boosting crop improvement in pigeonpea (Cajanus cajan)

(2015) Lekha Pazhamala et al.   Frontiers in Plant Science

Genomics and molecular breeding in lesser explored pulse crops: Current trends and future opportunities

(2014) Abhishek Bohra et al.   BIOTECHNOLOGY ADVANCES

Advances in plant chromosome genomics

(2014) Jaroslav Doležel et al.   BIOTECHNOLOGY ADVANCES

CicArMiSatDB: the chickpea microsatellite database

(2014) Dadakhalandar Doddamani et al.   BMC BIOINFORMATICS

Genotyping by sequencing for genomic prediction in a soybean breeding population

(2014) Diego Jarquín et al.   BMC GENOMICS

Genome wide SNP identification in chickpea for use in development of a high density genetic map and improvement of chickpea reference genome assembly

(2014) Amit A Deokar et al.   BMC GENOMICS

Structural variations in plant genomes

(2014) R. K. Saxena et al.   Briefings in Functional Genomics

Translational Genomics in Agriculture: Some Examples in Grain Legumes

(2014) Rajeev K. Varshney et al.   CRITICAL REVIEWS IN PLANT SCIENCES

Genotyping-by-sequencing based intra-specific genetic map refines a ‘‘QTL-hotspot” region for drought tolerance in chickpea

(2014) Deepa Jaganathan et al.   MOLECULAR GENETICS AND GENOMICS

Utility of Informative SSR Markers in the Molecular Characterization of Cytoplasmic Genetic Male Sterility-Based Hybrid and its Parents in Pigeonpea

(2014) Abhishek Bohra et al.   NATIONAL ACADEMY SCIENCE LETTERS-INDIA

A reference genome for common bean and genome-wide analysis of dual domestications

(2014) Jeremy Schmutz et al.   NATURE GENETICS

Using next-generation sequencing to isolate mutant genes from forward genetic screens

(2014) Korbinian Schneeberger   NATURE REVIEWS GENETICS

Sequencing depth and coverage: key considerations in genomic analyses

(2014) David Sims et al.   NATURE REVIEWS GENETICS

A chromosomal genomics approach to assess and validate thedesiandkabulidraft chickpea genome assemblies

(2014) Pradeep Ruperao et al.   PLANT BIOTECHNOLOGY JOURNAL

Insights into the Maize Pan-Genome and Pan-Transcriptome

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

Genomics-assisted breeding in four major pulse crops of developing countries: present status and prospects

(2014) Abhishek Bohra et al.   THEORETICAL AND APPLIED GENETICS

Genomic selection: genome-wide prediction in plant improvement

(2014) Zeratsion Abera Desta et al.   TRENDS IN PLANT SCIENCE

Mapping-by-sequencing accelerates forward genetics in barley

(2014) Martin Mascher et al.   GENOME BIOLOGY

Natural Variations and Genome-Wide Association Studies in Crop Plants

(2013) Xuehui Huang et al.   Annual Review of Plant Biology

Principles of transcriptome analysis and gene expression quantification: an RNA-seq tutorial

(2013) Jochen B. W. Wolf   Molecular Ecology Resources

RNA-Guided Genome Editing in Plants Using a CRISPR–Cas System

(2013) Kabin Xie et al.   Molecular Plant

Draft genome sequence of chickpea (Cicer arietinum) provides a resource for trait improvement

(2013) Rajeev K Varshney et al.   NATURE BIOTECHNOLOGY

MutMap-Gap: whole-genome resequencing of mutant F2 progeny bulk combined withde novoassembly of gap regions identifies the rice blast resistance genePii

(2013) Hiroki Takagi et al.   NEW PHYTOLOGIST

Advances in biotechnological applications in three important food legumes

(2013) Alok Das et al.   Plant Biotechnology Reports

Barley whole exome capture: a tool for genomic research in the genusHordeumand beyond

(2013) Martin Mascher et al.   PLANT JOURNAL

A draft genome sequence of the pulse crop chickpea (Cicer arietinum L.)

(2013) Mukesh Jain et al.   PLANT JOURNAL

QTL-seq: rapid mapping of quantitative trait loci in rice by whole genome resequencing of DNA from two bulked populations

(2013) Hiroki Takagi et al.   PLANT JOURNAL

Development and Evaluation of SoySNP50K, a High-Density Genotyping Array for Soybean

(2013) Qijian Song et al.   PLoS One

Draft Genome Sequence, and a Sequence-Defined Genetic Linkage Map of the Legume Crop Species Lupinus angustifolius L

(2013) Huaan Yang et al.   PLoS One

MutMap+: Genetic Mapping and Mutant Identification without Crossing in Rice

(2013) Rym Fekih et al.   PLoS One

PIPEMicroDB: microsatellite database and primer generation tool for pigeonpea genome

(2013) Sarika et al.   Database-The Journal of Biological Databases and Curation

The First 50 Plant Genomes

(2013) Todd P. Michael et al.   Plant Genome

Where Have All the Crop Phenotypes Gone?

(2013) Dani Zamir   PLOS BIOLOGY

Next-generation sequencing for understanding and accelerating crop domestication

(2012) R. J. Henry   Briefings in Functional Genomics

Next-generation education in crop genetics

(2012) Eyal Fridman et al.   CURRENT OPINION IN PLANT BIOLOGY

Lessons from eQTL mapping studies: non-coding regions and their role behind natural phenotypic variation in plants

(2012) Francisco A Cubillos et al.   CURRENT OPINION IN PLANT BIOLOGY

SNP-Ratio Mapping (SRM): Identifying Lethal Alleles and Mutations in Complex Genetic Backgrounds by Next-Generation Sequencing

(2012) H. Lindner et al.   GENETICS

Can genomics boost productivity of orphan crops?

(2012) Rajeev K Varshney et al.   NATURE BIOTECHNOLOGY

Genome sequencing reveals agronomically important loci in rice using MutMap

(2012) Akira Abe et al.   NATURE BIOTECHNOLOGY

Highly variable ‘Arhar’ simple sequence repeat markers for molecular diversity and phylogenetic studies in pigeonpea [Cajanus cajan(L.) Millisp.]

(2012) Sutapa Dutta et al.   PLANT BREEDING

Gene Mapping via Bulked Segregant RNA-Seq (BSR-Seq)

(2012) Sanzhen Liu et al.   PLoS One

Rapid development of molecular markers by next-generation sequencing linked to a gene conferring phomopsis stem blight disease resistance for marker-assisted selection in lupin (Lupinus angustifolius L.) breeding

(2012) Huaan Yang et al.   THEORETICAL AND APPLIED GENETICS

Genotyping-by-Sequencing for Plant Breeding and Genetics

(2012) Jesse A. Poland et al.   Plant Genome

The Quest for Rare Variants: Pooled Multiplexed Next Generation Sequencing in Plants

(2012) Fabio Marroni et al.   Frontiers in Plant Science

Genetic adaptation to high altitude in the Ethiopian highlands

(2012) Laura B Scheinfeldt et al.   GENOME BIOLOGY

Sequence-based marker development in wheat: Advances and applications to breeding

(2011) Etienne Paux et al.   BIOTECHNOLOGY ADVANCES

The first draft of the pigeonpea genome sequence

(2011) Nagendra K. Singh et al.   JOURNAL OF PLANT BIOCHEMISTRY AND BIOTECHNOLOGY

Draft genome sequence of pigeonpea (Cajanus cajan), an orphan legume crop of resource-poor farmers

(2011) Rajeev K Varshney et al.   NATURE BIOTECHNOLOGY

Genome-wide genetic marker discovery and genotyping using next-generation sequencing

(2011) John W. Davey et al.   NATURE REVIEWS GENETICS

Sequencing crop genomes: approaches and applications

(2011) Scott A. Jackson et al.   NEW PHYTOLOGIST

Discovery of Rare Mutations in Populations: TILLING by Sequencing

(2011) H. Tsai et al.   PLANT PHYSIOLOGY

Population genetics of genomics-based crop improvement methods

(2011) Martha T. Hamblin et al.   TRENDS IN GENETICS

Fast-forward genetics enabled by new sequencing technologies

(2011) Korbinian Schneeberger et al.   TRENDS IN PLANT SCIENCE

The Statistics of Bulk Segregant Analysis Using Next Generation Sequencing

(2011) Paul M. Magwene et al.   PLoS Computational Biology

Genome-wide association studies in plants: the missing heritability is in the field

(2011) Benjamin Brachi et al.   GENOME BIOLOGY

Genome sequence of the palaeopolyploid soybean

(2010) Jeremy Schmutz et al.   NATURE

Resequencing of 31 wild and cultivated soybean genomes identifies patterns of genetic diversity and selection

(2010) Hon-Ming Lam et al.   NATURE GENETICS

Phenomics: the next challenge

(2010) David Houle et al.   NATURE REVIEWS GENETICS

Missing heritability and strategies for finding the underlying causes of complex disease

(2010) Evan E. Eichler et al.   NATURE REVIEWS GENETICS

Towards a comprehensive structural variation map of an individual human genome

(2010) Andy W Pang et al.   GENOME BIOLOGY

High-throughput genotyping by whole-genome resequencing

(2009) X. Huang et al.   GENOME RESEARCH

SHOREmap: simultaneous mapping and mutation identification by deep sequencing

(2009) Korbinian Schneeberger et al.   NATURE METHODS

Reconsidering Domestication Of Legumes Versus Cereals In The Ancient Near East

(2009) Shahal Abbo et al.   QUARTERLY REVIEW OF BIOLOGY

Next-generation sequencing technologies and their implications for crop genetics and breeding

(2009) Rajeev K. Varshney et al.   TRENDS IN BIOTECHNOLOGY

Maize Inbreds Exhibit High Levels of Copy Number Variation (CNV) and Presence/Absence Variation (PAV) in Genome Content

(2009) Nathan M. Springer et al.   PLoS Genetics

Genetic Design and Statistical Power of Nested Association Mapping in Maize

(2008) Jianming Yu et al.   GENETICS

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

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