Record Details

Integrated physical, genetic and genome map of chickpea (Cicer arietinum L.)

NIPGR Digital Knowledge Repository (NDKR)

View Archive Info
 
 
Field Value
 
Title Integrated physical, genetic and genome map of chickpea (Cicer arietinum L.)
 
Creator Varshney, Rajeev K.
Mir, Reyazul Rouf
Bhatia, Sabhyata
Thudi, Mahendar
Hu, Yuqin
Azam, Sarwar
Zhang, Yong
Jaganathan, Deepa
You, Frank M.
Gao, Jinliang
Riera-Lizarazu, Oscar
Luo, Ming-Cheng
 
Subject Chickpea
Physical map
Genetic maps
Reference genome sequence
 
Description Accepted date: 31 January 2014
Physical map of chickpea was developed for the reference chickpea genotype (ICC 4958) using bacterial artificial chromosome (BAC) libraries targeting 71,094 clones (~12× coverage). High information content fingerprinting (HICF) of these clones gave high-quality fingerprinting data for 67,483 clones, and 1,174 contigs comprising 46,112 clones and 3,256 singletons were defined. In brief, 574 Mb genome size was assembled in 1,174 contigs with an average of 0.49 Mb per contig and 3,256 singletons represent 407 Mb genome. The physical map was linked with two genetic maps with the help of 245 BAC-end sequence (BES)-derived simple sequence repeat (SSR) markers. This allowed locating some of the BACs in the vicinity of some important quantitative trait loci (QTLs) for drought tolerance and reistance to Fusarium wilt and Ascochyta blight. In addition, fingerprinted contig (FPC) assembly was also integrated with the draft genome sequence of chickpea. As a result, ~965 BACs including 163 minimum tilling path (MTP) clones could be mapped on eight pseudo-molecules of chickpea forming 491 hypothetical contigs representing 54,013,992 bp (~54 Mb) of the draft genome. Comprehensive analysis of markers in abiotic and biotic stress tolerance QTL regions led to identification of 654, 306 and 23 genes in drought tolerance "QTL-hotspot" region, Ascochyta blight resistance QTL region and Fusarium wilt resistance QTL region, respectively. Integrated physical, genetic and genome map should provide a foundation for cloning and isolation of QTLs/genes for molecular dissection of traits as well as markers for molecular breeding for chickpea improvement.
The authors are thankful to Douglas R. Cook,
University of California, Davis, USA, and Aamir W. Khan for their help
during analysis and interpretation of data. This study was supported as a
part of the Tropical Legumes I (TLI- Objective 4: Chickpea) project
funded by Bill & Melinda Gates Foundation (BMGF) through CGIAR
Generation Challenge Programme (RKV) and National Institute of Plant
Genome Research (NIPGR), Department of Biotechnology, Government
of India (SB). This work has been undertaken as part of the CGIAR
Research Program on Grain Legumes. ICRISAT is a member of CGIAR
Consortium.
 
Date 2015-12-29T11:07:25Z
2015-12-29T11:07:25Z
2014
 
Type Article
 
Identifier Funct. Integr. Genomics, 14(1): 59-73
1438-7948
http://172.16.0.77:8080/jspui/handle/123456789/471
http://link.springer.com/article/10.1007%2Fs10142-014-0363-6
10.1007/s10142-014-0363-6
 
Language en_US
 
Publisher Springer