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Cicer super-pangenome provides insights into species evolution and agronomic trait loci for crop improvement in chickpea

Cicer super-pangenome constructed using genome assemblies of eight Cicer annual wild species and two cultivated chickpea species provides insights into the genetic diversity and agronomic trait loci for chickpea improvement.

Aamir W. Khan
Vanika Garg
Rajeev K. Varshney
Research23 May 2024
Nature Genetics

Volume: 56, P: 1225-1234
Author Correction: Cicer super-pangenome provides insights into species evolution and agronomic trait loci for crop improvement in chickpea

Aamir W. Khan
Vanika Garg
Rajeev K. Varshney
Amendments and Corrections29 May 2024
Nature Genetics

Volume: 56, P: 1320
Hordeum I genome unlocks adaptive evolution and genetic potential for crop improvement

The authors present a reference genome for Hordeum I-genome species. This work unravels genomic features that drive adaptation to salt and alkali environments and could aid in improving crop resilience.

Hao Feng
Qingwei Du
Ruifen Li
ResearchOpen Access14 Mar 2025
Nature Plants

Volume: 11, P: 438-452
Erratum: Pearl millet genome sequence provides a resource to improve agronomic traits in arid environments

Rajeev K Varshney
Chengcheng Shi
Xun Xu
Amendments and Corrections05 Apr 2018
Nature Biotechnology

Volume: 36, P: 368
Unlocking plant genetics with telomere-to-telomere genome assemblies

This Review explores the challenges and strategies for developing gapless telomere-to-telomere genome assemblies to enhance our understanding of genome organization and improve crops through genome-assisted breeding or gene editing.

Vanika Garg
Abhishek Bohra
Rajeev K. Varshney
Reviews24 Jul 2024
Nature Genetics

Volume: 56, P: 1788-1799
Pan-genome bridges wheat structural variations with habitat and breeding

The pan-genome of 17 wheat cultivars grown in China is explored, providing insights into the breeding history of wheat in East Asia.

Chengzhi Jiao
Xiaoming Xie
Xueyong Zhang
Research27 Nov 2024
Nature

Volume: 637, P: 384-393
Haplotype-based pangenomes reveal genetic variations and climate adaptations in moso bamboo populations

Moso bamboo is a critical species for carbon sequestration and mitigating climate change. This study presents a haplotype-based pangenome that uncovers substantial genetic diversity associated with climate adaptation and enables predictions of genetic vulnerability under future emission scenarios.

Yinguang Hou
Junwei Gan
Hansheng Zhao
ResearchOpen Access15 Sept 2024
Nature Communications

Volume: 15, P: 1-15
A genomic variation map provides insights into peanut diversity in China and associations with 28 agronomic traits

Resequencing of 390 peanut accessions provides insights into peanut migration and diversity in China. Genome-wide association analysis identifies loci associated with 28 agronomic traits.

Qing Lu
Lu Huang
Xiaoping Chen
Research20 Feb 2024
Nature Genetics

Volume: 56, P: 530-540
Author Correction: A chickpea genetic variation map based on the sequencing of 3,366 genomes

Rajeev K. Varshney
Manish Roorkiwal
Xin Liu
Amendments and CorrectionsOpen Access25 Mar 2022
Nature

Volume: 604, P: E12
The genome of cultivated peanut provides insight into legume karyotypes, polyploid evolution and crop domestication

High-quality genome sequence of cultivated peanut comprising 2.54 Gb with 20 pseudomolecules and 83,709 protein-coding gene models provides insights into genome evolution and the genetic mechanisms underlying seed size and leaf resistance in peanut.

Weijian Zhuang
Hua Chen
Rajeev K. Varshney
ResearchOpen Access01 May 2019
Nature Genetics

Volume: 51, P: 865-876
A chickpea genetic variation map based on the sequencing of 3,366 genomes

Whole-genome sequencing of 3,171 cultivated and 195 wild chickpea accessions is used to construct a chickpea pan-genome, providing insight into chickpea evolution and enabling breeding strategies that could improve crop productivity.

Rajeev K. Varshney
Manish Roorkiwal
Xin Liu
ResearchOpen Access10 Nov 2021
Nature

Volume: 599, P: 622-627
Resequencing of 429 chickpea accessions from 45 countries provides insights into genome diversity, domestication and agronomic traits

The authors performed whole-genome resequencing of 429 chickpea lines sampled from 45 countries. They identified 122 candidate regions (204 genes) under selection during chickpea breeding.

Rajeev K. Varshney
Mahendar Thudi
Xin Liu
Research29 Apr 2019
Nature Genetics

Volume: 51, P: 857-864
Pearl millet genome sequence provides a resource to improve agronomic traits in arid environments

Draft genome, 994 re-sequenced lines and GWAS for yield-traits provide a resource of genetics and genomics tools for pearl millet researchers and breeders.

Rajeev K Varshney
Chengcheng Shi
Xun Xu
ResearchOpen Access18 Sept 2017
Nature Biotechnology

Volume: 35, P: 969-976
Genome-wide transcriptome and physiological analyses provide new insights into peanut drought response mechanisms

Sailaja Bhogireddy
Abishek Xavier
Rajeev K. Varshney
ResearchOpen Access05 Mar 2020
Scientific Reports

Volume: 10, P: 1-16
Seed protein content and its relationships with agronomic traits in pigeonpea is controlled by both main and epistatic effects QTLs

Jimmy Obala
Rachit K. Saxena
Rajeev K. Varshney
ResearchOpen Access14 Jan 2020
Scientific Reports

Volume: 10, P: 1-17
Genomic-enabled prediction models using multi-environment trials to estimate the effect of genotype × environment interaction on prediction accuracy in chickpea

Manish Roorkiwal
Diego Jarquin
Rajeev K. Varshney
ResearchOpen Access03 Aug 2018
Scientific Reports

Volume: 8, P: 1-11
Prioritization of candidate genes in “QTL-hotspot” region for drought tolerance in chickpea (Cicer arietinum L.)

Sandip M Kale
Deepa Jaganathan
Rajeev K Varshney
ResearchOpen Access19 Oct 2015
Scientific Reports

Volume: 5, P: 1-14
Construction of genotyping-by-sequencing based high-density genetic maps and QTL mapping for fusarium wilt resistance in pigeonpea

Rachit K. Saxena
Vikas K. Singh
Rajeev K. Varshney
ResearchOpen Access15 May 2017
Scientific Reports

Volume: 7, P: 1-11
Genotyping-by-sequencing of three mapping populations for identification of candidate genomic regions for resistance to sterility mosaic disease in pigeonpea

Rachit K. Saxena
Sandip M. Kale
Rajeev K. Varshney
ResearchOpen Access12 May 2017
Scientific Reports

Volume: 7, P: 1-10

Search

Cicer super-pangenome provides insights into species evolution and agronomic trait loci for crop improvement in chickpea

Author Correction: Cicer super-pangenome provides insights into species evolution and agronomic trait loci for crop improvement in chickpea

Hordeum I genome unlocks adaptive evolution and genetic potential for crop improvement

Erratum: Pearl millet genome sequence provides a resource to improve agronomic traits in arid environments

Unlocking plant genetics with telomere-to-telomere genome assemblies

Pan-genome bridges wheat structural variations with habitat and breeding

Haplotype-based pangenomes reveal genetic variations and climate adaptations in moso bamboo populations

A genomic variation map provides insights into peanut diversity in China and associations with 28 agronomic traits

Author Correction: A chickpea genetic variation map based on the sequencing of 3,366 genomes

The genome of cultivated peanut provides insight into legume karyotypes, polyploid evolution and crop domestication

A chickpea genetic variation map based on the sequencing of 3,366 genomes

Resequencing of 429 chickpea accessions from 45 countries provides insights into genome diversity, domestication and agronomic traits

Pearl millet genome sequence provides a resource to improve agronomic traits in arid environments

Genome-wide transcriptome and physiological analyses provide new insights into peanut drought response mechanisms

Seed protein content and its relationships with agronomic traits in pigeonpea is controlled by both main and epistatic effects QTLs

Genomic-enabled prediction models using multi-environment trials to estimate the effect of genotype × environment interaction on prediction accuracy in chickpea

Prioritization of candidate genes in “QTL-hotspot” region for drought tolerance in chickpea (Cicer arietinum L.)

Construction of genotyping-by-sequencing based high-density genetic maps and QTL mapping for fusarium wilt resistance in pigeonpea

Genotyping-by-sequencing of three mapping populations for identification of candidate genomic regions for resistance to sterility mosaic disease in pigeonpea

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