Current advances in chickpea genomics: applications and future perspectives

Uday Jha

doi:10.1007/s00299-018-2305-6

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Publisher: Springer Journals
Copyright: Copyright © 2018 by Springer-Verlag GmbH Germany, part of Springer Nature
Subject: Life Sciences; Plant Sciences; Cell Biology; Biotechnology; Plant Biochemistry
ISSN: 0721-7714
eISSN: 1432-203X
DOI: 10.1007/s00299-018-2305-6
pmid: 29860584
Publisher site: See Article on Publisher Site

Abstract

Chickpea genomics promises to illuminate our understanding of genome organization, structural variations, evolutionary and domestication-related insights and fundamental biology of legume crops. Unprecedented advancements of next generation sequencing (NGS) technologies have enabled in decoding of multiple chickpea genome sequences and generating huge genomic resources in chickpea both at functional and structural level. This review is aimed to update the current progress of chickpea genomics ranging from high density linkage map development, genome-wide association studies (GWAS), functional genomics resources for various traits, emerging role of abiotic stress responsive coding and non-coding RNAs after the completion of draft chickpea genome sequences. Additionally, the current efforts of whole genome re-sequencing (WGRS) approach of global chickpea germplasm to capture the global genetic diversity existing in the historically released varieties across the world and increasing the resolution of the previously identified candidate gene(s) of breeding importance have been discussed. Thus, the outcomes of these genomics resources will assist in genomics-assisted selection and facilitate breeding of climate-resilient chickpea cultivars for sustainable agriculture.

Journal

Plant Cell Reports – Springer Journals

Published: Jun 2, 2018

References

Evolution of cultivated chickpea: four bottlenecks limit diversity and constrain adaptation

Abbo, S; Jens Berger, J; Turner, NC
The chickpea, summer cropping, and a new model for pulse domestication in the ancient near east

Abbo, S; Shtienberg, D; Lichtenzveig, J; Lev-Yadun, S; Gopher, A
Comparative analysis of kabuli chickpea transcriptome with desi and wild chickpea provides a rich resource for development of functional markers

Agarwal, G; Jhanwar, S; Priya, P; Singh, VK; Saxena, MS; Parida, SK; Garg, R; Tyagi, AK; Jain, M
Mutagenic induction of double-podding trait in different genotypes of chickpea and their characterization by STMS marker

Ali, H; Sha, TM; Iqbal, N; Atta, BM; Haq, MA
Fine mapping for double podding gene in chickpea

Ali, L; Deokar, A; Caballo, C; Taran, B; Gil, J; Chen, W; Millan, T; Rubio, J
Genome-wide conserved non-coding microsatellite (CNMS) marker-based integrative genetical genomics for quantitative dissection of seed weight in chickpea

Bajaj, D; Saxena, MS; Kujur, A; Das, S; Badoni, S; Tripathi, S
Identification of candidate genes for dissecting complex branch number trait in chickpea

Bajaj, D; Upadhyaya, HD; Das, S; Kumar, V; Gowda, CL; Sharma, S; Tyagi, AK; Parida, SK
EcoTILLING-based association mapping efficiently delineates functionally relevant natural allelic variants of candidate genes governing agronomic traits in chickpea

Bajaj, D; Srivastava, R; Nath, M; Tripathi, S; Bharadwaj, C; Upadhyaya, HD; Tyagi, AK; Parida, SK
Genetic complexity of cellulose synthase a gene function in Arabidopsis embryogenesis

Beeckman, T; Przemeck, GK; Stamatiou, G; Lau, R; Terryn, N; Rycke, R; Inzé, D; Berleth, T
Genomic innovation for crop improvement

Bevan, MW; Uauy, C; Wulff, BB; Zhou, J; Krasileva, K; Clark, MD
Genome-wide analysis of homeobox gene family in legumes: identification, gene duplication and expression profiling

Bhattacharjee, A; Ghangal, R; Garg, R; Jain, M
OMICS applications in crop science

Bohra, A; Jha, UC; Singh, B; Soren, KR; Singh, IP; Chaturvedi, SK; Nadarajan, N; Barh, D
The CRISPR/Cas9 system for plant genome editing and beyond

Bortesi, L; Fischer, RB
Genome-wide association studies in plants: the missing heritability is in the field

Brachi, B; Morris, GP; Borevitz, JO
Pathotype-specific factors inchickpea (Cicer arietinum L.) for quantitative resistance to ascochyta blight

Cho, S; Chen, W; Muehlbauer, FJ
Genomic selection in plant breeding: methods, models, and perspectives

Crossa, J; Pérez-Rodríguez, P; Cuevas, J; Montesinos-López, O; Jarquín, D; Los Campos, G; Burgueño, J; González-Camacho, JM; Pérez-Elizalde, S; Beyene, Y; Dreisigacker, S; Singh, R; Zhang, X; Gowda, M; Roorkiwal, M; Rutkoski, J; Varshney, RK
QTL mapping of early flowering and resistance to ascochyta blight in chickpea

Daba, K; Deokar, A; Banniza, S; Warkentin, TD; Tar’; an, B
Deploying QTL-seq for rapid delineation of a potential candidate gene underlying major trait-associated QTL in chickpea

Das, S; Upadhyaya, HD; Bajaj, D; Kujur, A; Badoni, S; Kumar, V; Tripathi, S; Gowda, CL; Sharma, S; Singh, S; Tyagi, AK; Parida, SK
mQTL-seq delineates functionally relevant candidate gene harbouring a major QTL regulating pod number in chickpea

Das, S; Singh, M; Srivastava, R; Bajaj, D; Saxena, MS; Rana, JC; Bansal, KC; Tyagi, AK; Parida, SK
Genome wide SNP identification in chickpea for use in development of a high density genetic map and improvement of chickpea reference genome assembly

Deokar, AA; Ramsay, L; Sharpe, AG; Diapari, M; Sindhu, A; Bett, K; Warkentin, TD; Tar’an, B
Genotyping-by-sequencing in plants

Deschamps, S; Llaca, V; May, GD
Genomic selection: genome-wide prediction in plant improvement

Desta, ZA; Ortiz, R
Genetic diversity and association mapping of iron and zinc concentrations in chickpea (Cicer arietinum L.)

Diapari, M; Sindhu, A; Bett, K; Deokar, A; Wartkentin, TD; Taran, B
Identification of upregulated genes under cold stress in cold-tolerant chickpea using the cDNA-AFLP approach

Dinari, A; Niazi, A; Afsharifar, AR; Ramezani, A
CicArMiSatDB: the chickpea microsatellite database

Doddamani, D; Mohan, AVSK; Katta, MAVSK; Khan, AW; Agarwal, G; Shah, TM; Varshney, RK
CicArVarDB: SNP and InDel database for advancing genetics research and breeding applications in chickpea

Doddamani, D; Khan, AW; Katta, MAVSK; Agarwal, G; Thudi, M; Ruperao, P; Edwards, D; Varshney, RK
A repeat length variation in myo-inositol monophosphatase gene contributes to seed size trait in chickpea

Dwivedi, V; Parida, SK; Chattopadhyay, D
QTL analysis for ascochyta blight resistance in an intraspecific population of chickpea (Cicer arietinum L.)

Flandez-Galvez, H; Ades, PK; Ford, R; Pang, ECK; Taylor, PWJ
The F-box subunit of the SCF E3 complex is encoded by a diverse superfamily of genes in Arabidopsis

Gagne, JM; Downes, BP; Shiu, SH; Durski, AM; Vierstra, RD
De novo assembly of chickpea transcriptome using short reads for gene discovery and marker identification

Garg, R; Patel, RK; Tyagi, AK; Jain, M
Gene discovery and tissue-specific transcriptome analysis in chickpea with massively parallel pyrosequencing and web resource development

Garg, R; Patel, RK; Jhanwar, S; Priya, P; Bhattacharjee, A; Yadav, G; Bhatia, S; Chattopadhyay, D; Tyagi, AK; Jain, M
Genomic survey, gene expression analysis and structural modeling suggest diverse roles of DNA methyltransferases in legumes

Garg, R; Kumari, R; Tiwari, S; Goyal, S
Genome-scale transcriptomic insights into molecular aspects of abiotic stress responses in chickpea

Garg, R; Bhattacharjee, A; Jain, M
Global transcriptome and coexpression network analyses reveal cultivar-specific molecular signatures associated with seed development and seed size/weight determination in chickpea

Garg, R; Singh, VK; Rajkumar, MS; Kumar, V; Jain, M
Identification of QTLs for resistance to Fusarium wilt and Ascochyta blight in a recombinant inbred population of chickpea (Cicer arietinum L.)

Garg, T; Mallikarjuna, BP; Thudi, M; Samineni, S; Singh, S; Singh, S; Sandhu, JS; Kaur, L; Singh, I; Sirari, A; Basandrai, AK; Basandrai, D; Varshney, RK; Gaur, PM
A gene producing one to nine flowers per flowering node in chickpea

Gaur, PM; Gour, VK
Impact of genomic technologies on chickpea breeding strategies

Gaur, PM; Jukanti, AK; Varshney, RK
High density linkage mapping of genomic and transcriptomic SNPs for synteny analysis and anchoring the genome sequence of chickpea

Gaur, R; Jeena, G; Shah, N; Gupta, S; Pradhan, S; Tyagi, AK; Jain, M; Chattopadhyay, D; Bhatia, S
Allelic relationships of flowering time genes in chickpea

Gaur, PM; Samineni, S; Tripathi, S; Varshney, RK; Gowda, CLL
CicerTransDB 1.0: a resource for expression and functional study of chickpea transcription factors

Gayali, S; Acharya, S; Lande, NV; Pandey, A; Chakraborty, S; Chakraborty, N
Legumes: importance and constraints to greater use

Graham, PH; Vance, CP
Primary metabolism of chickpea is the initial target of wound inducing early sensed Fusarium oxysporum f. sp ciceri race 1

Gupta, S; Chakraborti, D; Sengupta, A; Basu, D; Das, S
Development of gene-based markers for use in construction of the chickpea (Cicer arietinum L.) genetic linkage map and identification of QTLs associated with seed weight and plant height

Gupta, S; Kumar, T; Verma, S; Bharadwaj, C; Bhatia, S
Genome-wide survey and expression analysis of F-box genes in chickpea

Gupta, S; Garg, V; Kant, C; Bhatia, S
Draft genome sequence of Cicer reticulatum L., the wild progenitor of chickpea provides a resource for agronomic trait improvement

Gupta, S; Nawaz, K; Parween, S; Roy, R; Sahu, K; Kumar Pole, A; Khandal, H; Srivastava, R; Kumar Parida, S; Chattopadhyay, D
Genome-wide identification and expression analysis of the CaNAC family members in chickpea during development, dehydration and ABA treatments

Ha, CV; Nasr Esfahani, M; Watanabe, Y; Tran, UT; Sulieman, S; Mochida, K; Nguyen, DV; Tran, LS
Genomic selection for crop improvement

Heffner, EL; Sorrells, ME; Jannink, JL
Plant breeding with genomic selection: gain per unit time and cost

Heffner, EL; Lorenz, AJ; Jannink, JL; Sorrells, ME
Genomic selection accuracy using multifamily prediction models in a wheat breeding program

Heffner, EL; Jannink, JL; Sorrells, ME
Genetics of flowering time in chickpea in a semi-arid environment

Hegde, VS
Large-scale transcriptome analysis in chickpea (Cicer arietinum L.), an orphan legume crop of the semi-arid tropics of Asia and Africa

Hiremath, PJ; Farmer, A; Cannon, SB; Woodward, J; Kudapa, H; Tuteja, R; Kumar, A; Bhanuprakash, A; Mulaosmanovic, B; Gujaria, N; Krishnamurthy, L; Gaur, PM; Kavikishor, PB; Shah, T; Srinivasan, R; Lohse, M; Xiao, Y; Town, CD; Cook, DR; May, GD; Varshney, RK
Identification of conserved microRNAs and their targets in chickpea (Cicer arietinum L.)

Hu, J; Sun, L; Ding, Y
Natural variations and genome-wide association studies in crop plants

Huang, X; Han, B
Detection of two quantitative trait loci for resistance to ascochyta blight in an intra-specific cross of chickpea (Cicer arietinum L.): development of SCAR markers associated with resistance

Iruela, M; Rubio, J; Barro, F; Cubero, JI; Millan, T; Gill, J
Marker-trait association study for protein content in chickpea (Cicer arietinum L.)

Jadhav, AA; Rayate, SJ; Mhase, LB; Thudi, M; Chitikineni, A; Harer, PN; Jadhav, AS; Varshney, RK; Kulwal, PL
Genotyping-by-sequencing based intra-specific genetic map refines a ‘‘QTL-hotspot” region for drought tolerance in chickpea

Jaganathan, D; Thudi, M; Kale, S; Azam, S; Roorkiwal, M; Gaur, PM; Kishor, PB; Nguyen, H; Sutton, T; Varshney, RK
A draft genome sequence of the pulse crop chickpea (Cicer arietinum L.)

Jain, M; Misra, G; Patel, RK; Priya, P; Jhanwar, S; Khan, AW; Shah, N; Singh, VK; Garg, R; Jeena, G; Yadav, M; Kant, C; Sharma, P; Yadav, G; Bhatia, S; Tyagi, AK; Chattopadhyay, D
Genome-wide discovery and differential regulation of conserved and novel microRNAs in chickpea via deep sequencing

Jain, M; Chevala, VV; Garg, R
Discovery of molecular markers for Fusarium wilt via transcriptome sequencing of chickpea cultivars

Jain, M; Pole, AK; Singh, VK; Ravikumar, RL; Garg, R
Genomic selection in plant breeding: from theory to practice

Jannink, JL; Lorenz, AJ; Iwata, H
A legume genomics resource: the chickpea root expressed sequence tag database

Jayashree, B; Buhariwalla, HK; Shinde, S; Crouch, JH
Abiotic stresses, constraints and improvement strategies in chickpea

Jha, UC; Chaturvedi, SK; Bohra, A; Basu, PS; Khan, MS; Debmalya, B
Heat stress in crop plants: its nature, impacts and integrated breeding strategies to improve heat tolerance

Jha, UC; Bohra, A; Singh, NP
Applied molecular biotechnology

Jha, UC; Barh, D; Parida, S; Jha, R; Singh, NP
Integrated ‘omics’ approaches to sustain major global grain legume productivity under heat stress

Jha, UC; Bohra, A; Jha, R; Parida, S
Population structure and association analysis of heat stress relevant traits in chickpea (Cicer arietinum L.)

Jha, UC; Jha, R; Bohra, A; Parida, SK; Kole, PC; Thakro, V; Singh, D; Singh, NP
Transcriptome sequencing of wild chickpea as a rich resource for marker development

Jhanwar, S; Priya, P; Garg, R; Parida, S; Tyagi, AK; Jain, M
Genome-wide genetic changes during modern breeding of maize

Jiao, Y; Zhao, H; Ren, L; Song, W; Zeng, B; Guo, J; Wang, B; Liu, Z; Chen, J; Li, W; Zhang, M; Xie, S; Lai, J
Development of molecular map and identification of QTLs linked to Fusarium wilt resistance in chickpea

Jingade, P; Ravikumar, RL
Repeat length variation in the 5′UTR of myo-inositol monophosphatase gene is related to phytic acid content and contributes to drought tolerance in chickpea (Cicer arietinum L.)

Joshi-Saha, A; Reddy, KS
Nutritional quality and health benefits of chickpea (Cicer arietinum L.): a review

Jukanti, AK; Gaur, PM; Gowda, CL; Chibbar, RN
Prioritization of candidate genes in “QTL-hotspot” region for drought tolerance in chickpea (Cicer arietinum L.)

Kale, SM; Jaganathan, D; Ruperao, P; Chen, C; Punna, R; Kudapa, H; Thudi, M; Roorkiwal, M; Katta, MA; Doddamani, D; Garg, V; Kishor, PB; Gaur, PM; Nguyen, HT; Batley, J; Edwards, D; Sutton, T; Varshney, RK
Dissecting the root nodule transcriptome of chickpea (Cicer arietinum L.)

Kant, C; Pradhan, S; Bhatia, S
Development and integration of genome-wide polymorphic microsatellite markers onto a reference linkage map for constructing a high-density genetic map of chickpea

Khajuria, YP; Saxena, MS; Gaur, R; Chattopadhyay, D; Jain, M; Parida, SK; Bhatia, S
Genome-wide analysis of long intergenic non-coding RNAs in chickpea and their potential role in flower development

Khemka, N; Singh, VK; Garg, R; Jain, M
Identification and characterization of wilt and salt stress-responsive microRNAs in chickpea through high-throughput sequencing

Kohli, D; Joshi, G; Deokar, AA; Bhardwaj, AR; Agarwal, M; Katiyar-Agarwal, S; Srinivasan, R; Jain, PK
Comprehensive transcriptome assembly of chickpea (Cicer arietinum L.) using sanger and next generation sequencing platforms: development and applications

Kudapa, H; Azam, S; Sharpe, AG; Taran, B; Li, R; Deonovic, B; Cameron, C; Farmer, AD; Cannon, SB; Varshney, RK
Functionally relevant microsatellite markers from chickpea transcription factor genes for efficient genotyping applications and trait association mapping

Kujur, A; Bajaj, D; Saxena, MS; Tripathi, S; Upadhyaya, HD; Gowda, CL; Singh, S; Jain, M; Tyagi, AK; Parida, SK
Employing genome-wide SNP discovery and genotyping strategy to extrapolate the natural allelic diversity and domestication patterns in chickpea

Kujur, A; Bajaj, D; Upadhyaya, HD; Das, S; Ranjan, R; Shree, T; Saxena, MS; Badoni, S; Kumar, V; Tripathi, S; Gowda, CL; Sharma, S; Singh, S; Tyagi, AK; Parida, SK
A genome-wide SNP scan accelerates trait-regulatory genomic loci identification in chickpea

Kujur, A; Bajaj, D; Upadhyaya, HD; Das, S; Ranjan, R; Shree, T; Saxena, MS; Badoni, S; Kumar, V; Tripathi, S; Gowda, CL; Sharma, S; Singh, S; Tyagi, AK; Parida, SK
Ultra-high density intra-specific genetic linkage maps accelerate identification of functionally relevant molecular tags governing important agronomic traits in chickpea

Kujur, A; Upadhyaya, HD; Shree, T; Bajaj, D; Das, S; Saxena, MS; Badoni, S; Kumar, V; Tripathi, S; Gowda, CL; Sharma, S; Singh, S; Tyagi, AK; Parida, SK
Identification of candidate genes and natural allelic variants for QTLs governing plant height in chickpea

Kujur, A; Upadhyaya, HD; Bajaj, D; Gowda, CL; Sharma, S; Tyagi, AK; Parida, SK
A major gene for time of flowering in chickpea

Kumar, J; Rheenen, HA
WRKY domain-encoding genes of a crop legume chickpea (Cicer arietinum): comparative analysis with Medicago truncatula WRKY family and characterization of group-III gene(s)

Kumar, K; Srivastava, V; Purayannur, S; Kaladhar, VC; Cheruvu, PJ; Verma, PK
F-box proteins everywhere

Lechner, E; Achard, P; Vansiri, A; Potuschak, T; Genschik, P
Defence gene expression profiling to Ascochyta rabiei aggressiveness in chickpea

Leo, AE; Linde, CC; Ford, R
Genome analysis identified novel candidate genes for ascochyta blight resistance in chickpea using whole genome re-sequencing data

Li, Y; Ruperao, P; Batley, J; Edwards, D; Davidson, J; Hobson, K; Sutton, T
Investigating drought tolerance in chickpea using genome-wide association mapping and genomic selection based on whole-genome resequencing data

Li, Y; Ruperao, P; Batley, J; Edwards, D; Khan, T; Colmer, TD; Pang, J; Siddique, KH; Sutton, T
Fast-forwarding genetic gain

Li, H; Rasheed, A; Hickey, LT; He, Z
Whole-genome sequencing reveals untapped genetic potential in Africa’s indigenous cereal crop sorghum

Mace, ES; Tai, S; Gilding, EK; Li, Y; Prentis, PJ; Bian, L; Campbell, BC; Hu, W; Innes, DJ; Han, X; Cruickshank, A; Dai, C; Frère, C; Zhang, H; Hunt, CH; Wang, X; Shatte, T; Wang, M; Su, Z; Li, J; Lin, X; Godwin, ID; Jordan, DR; Wang, J
Characterization and genetic analysis of an EIN-4 like sequence (CaETR-1) located in QTLAR1 implicated in ascochyta blight resistance in chickpea

Madrid, E; Rajesh, PN; Rubio, J; Gil, J; Millán, T; Chen, W
Genetic and physical mapping of the QTLAR3 controlling blight resistance in chickpea (Cicer arietinum L)

Madrid, E; Seoane, P; Claros, MG; Barro, F; Rubio, J; Gil, J; Millan, T
Molecular mapping of flowering time major genes and QTLs in chickpea (Cicer arietinum L.)

Mallikarjuna, BP; Samineni, S; Thudi, M; Sajja, SB; Khan, AW
Multipoint identity-by-descent prediction using dense markers to map quantitative trait loci and estimate effective population size

Meuwissen, THE; Goddard, ME
Prediction of total genetic value using genome-wide dense marker maps

Meuwissen, THE; Hayes, BJ; Goddard, ME
Identification of markers linked to disease-resistance genes by bulked segregant analysis—a rapid method to detect markers in specific genomic regions by using segregating populations

Michelmore, RW; Paran, I; Kesseli, RV
DNA methylation changes in fusarium wilt resistant and sensitive chickpea genotypes (Cicer arietinum L.)

Mohammadi, P; Bahramnejad, B; Badakhshan, H; Kanouni, H
SuperSAGE: the drought stress-responsive transcriptome of chickpea roots

Molina, C; Rotter, B; Horres, R; Udupa, SM; Besser, B; Bellarmino, L; Baum, M; Matsumura, H; Terauchi, R; Kahl, G; Winter, P
The salt-responsive transcriptome of chickpea roots and nodules via deepSuperSAGE

Molina, C; Zaman-Allah, M; Khan, F; Fatnassi, N; Horres, R; Rotter, B; Steinhauer, D; Amenc, L; Drevon, JJ; Winter, P; Kahl, G
Will genomic selection be a practical method for plant breeding?

Nakaya, A; Isobe, SN
A major gene for flowering time in chickpea

Or, E; Hovav, R; Abbo, S
Chromatin-based epigenetic regulation of plant abiotic stress response

Pandey, G; Sharma, N; Sahu, PP; Prasad, M
Transcriptional regulation of chickpea ferritin CaFer1 influences its role in iron homeostasis and stress response

Parveen, S; Pandey, A; Jameel, N; Chakraborty, S; Chakraborty, N
An advanced draft genome assembly of a desi type chickpea (Cicer arietinum L.)

Parween, S; Nawaz, K; Roy, R; Pole, AK; Venkata Suresh, B; Misra, G; Jain, M; Yadav, G; Parida, SK; Tyagi, AK; Bhatia, S; Chattopadhyay, D
Genetic evidence for three unique components in primary cell-wall cellulose synthase complexes in Arabidopsis

Persson, S; Paredez, A; Carroll, A; Palsdottir, H; Doblin, M; Poindexter, P; Khitrov, N; Auer, M; Somerville, CR
Global transcriptome analysis of developing chickpea (Cicerarietinum L.) seeds

Pradhan, S; Bandhiwal, N; Shah, N; Kant, C; Gaur, R; Bhatia, S
Phylogenomic analysis of MKKs and MAPKs from 16 legumes and detection of interacting pairs in chickpea divulge MAPK signalling modules

Purayannur, S; Kumar, K; Kaladhar, VC; Verma, PK
Two key genomic regions harbour QTLs for salinity tolerance in ICCV 2 × JG 11 derived chickpea (Cicer arietinum L.) recombinant inbred lines

Pushpavalli, R; Krishnamurthy, L; Thudi, M; Gaur, PM; Rao, MV; Siddique, KH; Colmer, TD; Turner, NC; Varshney, RK; Vadez, V
DNA methylation and physio-biochemical analysis of chickpea in response to cold stress

Rakei, A; Maali-Amiri, R; Zeinali, H; Ranjbar, M
Identification and expression analysis of candidate genes involved in carotenoid biosynthesis in chickpea seeds

Rezaei, MK; Deokar, A; Tar’an, B
Marker-assisted selection to improve drought adaptation in maize: the backcross approach, perspectives, limitations, and alternatives

Ribaut, JM; Ragot, M
The chickpea early flowering 1 (Efl1) locus is an ortholog of arabidopsis ELF3

Ridge, S; Deokar, A; Lee, R; Daba, K; Macknight, RC; Weller, JL; Tar’an, B
Genome-enabled prediction models for yield related traits in chickpea

Roorkiwal, M; Rathore, A; Das, RR; Singh, MK; Jain, A; Srinivasan, S; Gaur, PM; Chellapilla, B; Tripathi, S; Li, Y; Hickey, JM; Lorenz, A; Sutton, T; Crossa, J; Jannink, JL; Varshney, RK
Study on chickpea drought tolerance lines under dryland condition of Iran

Sabaghpour, SH; Mahmodi, AA; Kamel, SM; Malhotra, RS
Molecular mapping of QTLs for resistance to Fusarium wilt (race 1) and Ascochyta blight in chickpea (Cicer arietinum L.)

Sabbavarapu, MM; Sharma, M; Chamarthi, SK; Swapna, N; Rathore, A; Thudi, M; Gaur, PM; Suresh Pande, S; Singh, S; Kaur, L; Varshney, RK
Genetic analysis of NBS-LRR gene family in chickpea and their expression profiles in response to ascochyta blight infection

Sagi, MS; Deokar, AA; Tar’an, B
Differentially expressed myo-inositol monophosphatase gene (CaIMP) in chickpea (Cicer arietinum L.) encodes a lithium-sensitive phosphatase enzyme with broad substrate specificity and improves seed germination and seedling growth under abiotic stresses

Saxena, SC; Salvi, P; Kaur, H; Verma, P; Petla, BP; Rao, V; Kamble, N; Majee, M
An integrated genomic approach for rapid delineation of candidate genes regulating agro-morphological traits in chickpea

Saxena, MS; Bajaj, D; Das, S; Kujur, A; Kumar, V; Singh, M; Bansal, KC; Tyagi, AK; Parida, SK
Targeted genome modification of crop plants using a CRISPR-Cas system

Shan, Q; Wang, Y; Li, J; Zhang, Y; Chen, K; Liang, Z; Zhang, K; Liu, J; Xi, JJ; Qiu, JL; Gao, C
Cold stress alters transcription in meiotic anthers of cold tolerant chickpea (Cicer arietinum L.)

Sharma, KD; Nayyar, H
Genome-wide identification and tissue-specific expression analysis of UDP-glycosyltransferases genes confirm their abundance in Cicer arietinum (Chickpea) genome

Sharma, R; Rawat, V; Suresh, CG
Genome-wide identification and tissue-specific expression analysis of nucleotide binding site-leucine rich repeat gene family in Cicer arietinum (kabuli chickpea)

Sharma, R; Rawat, V; Suresh, CG
Genome-wide survey and comprehensive expression profiling of Aux/IAA gene family in chickpea and soybean

Singh, VK; Jain, M
A global view of transcriptome dynamics during flower development in chickpea by deep sequencing

Singh, VK; Garg, R; Jain, M
QTL-seq for rapid identification of candidate genes for 100-seed weight and root/total plant dry weight ratio under rainfed conditions in chickpea

Singh, VK; Khan, AW; Jaganathan, D; Thudi, M; Roorkiwal, M; Takagi, H; Garg, V; Kumar, V; Chitikineni, A; Gaur, PM; Sutton, T; Terauchi, R; Varshney, RK
PLncPRO for prediction of long non-coding RNAs (lncRNAs) in plants and its application for discovery of abiotic stress-responsive lncRNAs in rice and chickpea

Singh, U; Khemka, N; Rajkumar, MS; Garg, R; Jain, M
Genome-wide identification of the MAPK gene family in chickpea and expression analysis during development and stress response

Singh, A; Nath, O; Singh, S; Kumar, S; Singh, IK
Plant vigour QTLs co-map with an earlier reported QTL hotspot for drought tolerance while water saving QTLs map in other regions of the chickpea genome

Sivasakthi, K; Thudi, M; Tharanya, M; Kale, SM; Kholová, J; Halime, MH; Jaganathan, D; Baddam, R; Thirunalasundari, T; Gaur, PM; Varshney, RK; Vadez, V
Genetics and characterization of an open flower mutant in chickpea

Srinivasan, S; Gaur, PM
High throughput sequencing of small RNA component of leaves and inflorescence revealed conserved and novel miRNAs as well asphasiRNA loci in chickpea

Srivastava, S; Zheng, Y; Kudapa, H; Jagadeeswaran, G; Hivrale, V; Varshney, RK; Sunkar, R
A high-resolution InDel (insertion–deletion) markers-anchored consensus genetic map identifies major QTLs governing pod number and seed yield in chickpea

Srivastava, R; Singh, M; Bajaj, D; Parida, SK
Genome-wide development and deployment of informative intron-spanning and intron-length polymorphism markers for genomics-assisted breeding applications in chickpea

Srivastava, R; Bajaj, D; Sayal, YK; Meher, PK; Upadhyaya, HD; Kumar, R; Tripathi, S; Bharadwaj, C; Rao, AR; Parida, SK
Transcriptome landscape of perennial wild Cicer microphyllum uncovers functionally relevant molecular tags regulating agronomic traits in chickpea

Srivastava, R; Bajaj, D; Malik, A; Singh, M; Parida, SK
A Multiple QTL-seq strategy delineates potential genomic loci governing flowering time in chickpea

Srivastava, R; Upadhyaya, HD; Kumar, R; Daware, A; Basu, U; Shimray, PW; Tripathi, S; Bharadwaj, C; Tyagi, AK; Parida, SK
QTL-seq: rapid mapping of quantitative trait loci in rice by whole genome resequencing of DNA from two bulked populations

Takagi, H; Abe, A; Yoshida, K; Kosugi, S; Natsume, S; Mitsuoka, C; Uemura, A; Utsushi, H; Tamiru, M; Takuno, S; Innan, H; Cano, LM; Kamoun, S; Terauchi, R
Genetic mapping of ascochyta blight resistance in chickpea (Cicer arietinum L.) using a simple sequence repeat linkage map

Tar’an, B; Warkentin, TD; Tullu, A; Vandenberg, A
Genetic dissection of drought and heat tolerance in chickpea through genome-wide and candidate gene-based association mapping approaches

Thudi, M; Upadhyaya, HD; Rathore, A; Gaur, PM; Krishnamurthy, L; Roorkiwal, M; Nayak, SN; Chaturvedi, SK; Basu, PS; Gangarao, NV; Fikre, A; Kimurto, P; Sharma, PC; Sheshashayee, MS; Tobita, S; Kashiwagi, J; Ito, O; Killian, A; Varshney, RK
Genomics-assisted breeding for drought tolerance in chickpea

Thudi, M; Gaur, PM; Krishnamurthy, L; Mir, RR; Kudapa, H; Fikre, A; Kimurto, P; Tripathi, S; Soren, KR; Mulwa, R; Bharadwaj, C; Datta, S; Chaturvedi, SK; Varshney, RK
Whole genome re-sequencing reveals genome-wide variations among parental lines of 16 mapping populations in chickpea (Cicer arietinum). BMC

Thudi, M; Khan, AW; Kumar, V; Gaur, PM; Katta, K; Garg, V; Roorkiwal, M; Samineni, S; Varshney, RK
Recent breeding programs enhanced genetic diversity in both desi and kabuli varieties of chickpea (Cicer arietinum L.)

Thudi, M; Chitikineni, A; Liu, X; He, W; Roorkiwal, M; Yang, W; Jian, J; Doddamani, D; Gaur, PM; Rathore, A; Samineni, S; Saxena, RK; Xu, D; Singh, NP; Chaturvedi, SK; Zhang, G; Wang, J; Datta, SK; Xu, X; Varshney, RK
A genome-scale integrated approach aids in genetic dissection of complex flowering time trait in chickpea

Upadhyaya, HD; Bajaj, D; Das, S; Saxena, MS; Badoni, S; Kumar, V; Tripathi, S; Gowda, CL; Sharma, S; Tyagi, AK; Parida, SK
Genetic dissection of seed-iron and zinc concentrations in chickpea

Upadhyaya, HD; Bajaj, D; Das, S; Kumar, V; Gowda, CL; Sharma, S; Tyagi, AK; Parida, SK
Genome-wide scans for delineation of candidate genes regulating seed-protein content in chickpea

Upadhyaya, HD; Bajaj, D; Narnoliya, L; Das, S; Kumar, V; Gowda, CLL; Sharma, S; Tyagi, AK; Parida, SK
Genetic dissection of plant growth habit in chickpea

Upadhyaya, HD; Bajaj, D; Srivastava, R; Daware, A; Basu, U; Tripathi, S; Bharadwaj, C; Tyagi, AK; Parida, SK
Dynamics of colonization and expression of pathogenicity related genes in Fusarium oxysporum f.sp. ciceri during chickpea vascular wilt disease progression

Upasani, ML; Gurjar, GS; Kadoo, NY; Gupta, VS
Chickpea-Fusarium oxysporum interaction transcriptome reveals differential modulation of plant defense strategies

Upasani, ML; Limaye, BM; Gurjar, GS; Kasibhatla, SM; Joshi, RR; Kadoo, NY; Gupta, VS
Multiple post-domestication origins of kabuli chickpea through allelic variation in a diversification-associated transcription factor

Varma Penmetsa, R; Carrasquilla-Garcia, N; Bergmann, EM; Vance, L; Castro, B; Kassa, MT; Sarma, BK; Datta, S; Farmer, AD; Baek, JM; Coyne, CJ; Varshney, RK; Wettberg, EJ; Cook, DR
A comprehensive resource of drought- and salinity-responsive ESTs for gene discovery and marker development in chickpea (Cicer arietinum L.)

Varshney, RK; Hiremath, PJ; Lekha, P; Kashiwagi, J; Balaji, J; Deokar, AA; Vadez, V; Xiao, Y; Srinivasan, R; Gaur, PM; Siddique, KH; Town, CD; Hoisington, DA
Draft genome sequence of chickpea (Cicer arietinum) provides a resource for trait improvement

Varshney, RK; Song, C; Saxena, RK; Azam, S; Yu, S; Sharpe, AG; Cannon, S; Baek, J; Rosen, BD; Tar’an, B; Millan, T; Zhang, X; Ramsay, LD; Iwata, A; Wang, Y; Nelson, W; Farmer, AD; Gaur, PM; Soderlund, C; Penmetsa, RV; Xu, C; Bharti, AK; He, W; Winter, P; Zhao, S; Hane, JK; Carrasquilla-Garcia, N; Condie, JA; Upadhyaya, HD; Luo, MC; Thudi, M; Gowda, CL; Singh, NP; Lichtenzveig, J; Gali, KK; Rubio, J; Nadarajan, N; Dolezel, J; Bansal, KC; Xu, X; Edwards, D; Zhang, G; Kahl, G; Gil, J; Singh, KB; Datta, SK; Jackson, SA; Wang, J; Cook, DR
Fast-track introgression of ‘QTL-hotspot’ for root traits and other drought tolerance traits in JG 11, an elite and leading variety of chickpea

Varshney, RK; Gaur, PM; Chamarthi, SK; Krishnamurthy, L; Tripathi, S; Kashiwagi, J; Samineni, S; Singh, VK; Thudi, M; Jaganathan, D
Integrated physical, genetic and genome map of chickpea (Cicer arietinum L.)

Varshney, RK; Mir, RR; Bhatia, S; Thudi, M; Hu, Y; Azam, S; Zhang, Y; Jaganathan, D; You, FM; Gao, J; Riera-Lizarazu, O; Luo, MC
Genetic dissection of drought tolerance in chickpea (Cicer arietinum L.)

Varshney, RK; Thudi, M; Nayak, SN; Gaur, PM; Kashiwagi, J; Krishnamurthy, L; Jaganathan, D; Koppolu, J; Bohra, A; Tripathi, S; Rathore, A; Jukanti, AK; Jayalakshmi, V; Vemula, A; Singh, SJ; Yasin, M; Sheshshayee, MS; Viswanatha, KP
Marker-assisted backcrossing to introgress resistance to Fusarium wilt race 1 and Ascochyta blight in C214, an elite cultivar of chickpea

Varshney, RK; Mohan, SM; Gaur, PM; Chamarthi, SK; Singh, VK; Srinivasan, S; Swapna, N; Sharma, M; Singh, S; Kaur, L; Pande, S
High-density linkage map construction and mapping of seed trait QTLs in chickpea (Cicer arietinum L.) using genotyping-by-sequencing (GBS)

Verma, S; Gupta, S; Bandhiwal, N; Kumar, T; Bharadwaj, C; Bhatia, S
CTDB: an integrated chickpea transcriptome database for functional and applied genomics

Verma, M; Kumar, V; Patel, RK; Garg, R; Jain, M
Whole-genome resequencing: changing the paradigms of SNP detection, molecular mapping and gene discovery

Xu, X; Bai, G
Progress in genome sequencing will accelerate molecular breeding in cotton (Gossypium spp.)

Yan, R; Liang, C; Meng, Z; Malik, W; Zhu, T; Zong, X; Guo, S; Zhang, R
Tracing the origin and evolutionary history of plant nucleotide-binding site-leucine-rich repeat (NBS-LRR) genes

Yue, JX; Meyers, BC; Chen, JQ; Tian, D; Yang, S
Resequencing 302 wild and cultivated accessions identifies genes related to domestication and improvement in soybean

Zhou, Z; Jiang, Y; Wang, Z; Gou, Z; Lyu, J; Li, W; Yu, Y; Shu, L; Zhao, Y; Ma, Y; Fang, C; Shen, Y; Liu, T; Li, C; Li, Q; Wu, M; Wang, M; Wu, Y; Dong, Y; Wan, W; Wang, X; Ding, Z; Gao, Y; Xiang, H; Zhu, B; Lee, SH; Wang, W; Tian, Z

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Current advances in chickpea genomics: applications and future perspectives

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Current advances in chickpea genomics: applications and future perspectives

Current advances in chickpea genomics: applications and future perspectives

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