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

被引：158

作者：

Jaganathan, Deepa ^{[1
,2
]}

Thudi, Mahendar ^{[1
]}

Kale, Sandip ^{[1
]}

Azam, Sarwar ^{[1
]}

Roorkiwal, Manish ^{[1
]}

Gaur, Pooran M. ^{[1
]}

Kishor, P. B. Kavi ^{[2
]}

Nguyen, Henry ^{[3
,4
]}

Sutton, Tim ^{[5
]}

Varshney, Rajeev K. ^{[1
,6
,7
]}

机构：

[1] Int Crops Res Inst Semi Arid Trop, Hyderabad, Andhra Pradesh, India

[2] Osmania Univ, Hyderabad 500007, Andhra Pradesh, India

[3] Univ Missouri, Natl Ctr Soybean Biotechnol, Columbia, MO USA

[4] Univ Missouri, Div Plant Sci, Columbia, MO USA

[5] Univ Adelaide, Australian Ctr Plant Funct Genom, Sch Agr Food & Wine, Glen Osmond, SA 5064, Australia

[6] Univ Western Australia, Sch Plant Biol, Crawley, WA, Australia

[7] Univ Western Australia, Inst Agr, Crawley, WA, Australia

来源：

MOLECULAR GENETICS AND GENOMICS | 2015年 / 290卷 / 02期

关键词：

Chickpea; Drought tolerance; Genotyping-by-sequencing; QTL-hotspot; Fine mapping; Candidate genes; CAPS/dCAPS; Marker-assisted breeding; CICER-ARIETINUM L; DIVERSITY ASSESSMENT; ABIOTIC STRESS; TIME; ACCUMULATION; INTEGRATION; RESOURCE; TRAITS; WEIGHT; YIELD;

D O I：

10.1007/s00438-014-0932-3

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

To enhance the marker density in the "QTL-hotspot" region, harboring several QTLs for drought tolerance-related traits identified on linkage group 04 (CaLG04) in chickpea recombinant inbred line (RIL) mapping population ICC 4958 x ICC 1882, a genotyping-by-sequencing approach was adopted. In total, 6.24 Gb data from ICC 4958, 5.65 Gb data from ICC 1882 and 59.03 Gb data from RILs were generated, which identified 828 novel single-nucleotide polymorphisms (SNPs) for genetic mapping. Together with these new markers, a high-density intra-specific genetic map was developed that comprised 1,007 marker loci spanning a distance of 727.29 cM. QTL analysis using the extended genetic map along with precise phenotyping data for 20 traits collected over one to seven seasons identified 49 SNP markers in the "QTL-hotspot" region. These efforts have refined the "QTL-hotspot" region to 14 cM. In total, 164 main-effect QTLs including 24 novel QTLs were identified. In addition, 49 SNPs integrated in the "QTL-hotspot" region were converted into cleaved amplified polymorphic sequence (CAPS) and derived CAPS (dCAPS) markers which can be used in marker-assisted breeding.

引用

页码：559 / 571

页数：13

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