Format

Send to

Choose Destination
Nat Genet. 2019 May;51(5):857-864. doi: 10.1038/s41588-019-0401-3. Epub 2019 Apr 29.

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

Author information

1
International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad, India. r.k.varshney@cgiar.org.
2
International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad, India.
3
BGI-Shenzhen, Shenzhen, China.
4
Institut de Recherche pour le Développement (IRD), University of Montpellier, Montpellier, France.
5
The University of Western Australia (UWA), Crawley, Western Australia, Australia.
6
Osmania University, Hyderabad, India.
7
Indian Council of Agricultural Research (ICAR), Indian Institute of Pulses Research (IIPR), Kanpur, India.
8
Rani Lakshmi Bai Central Agricultural University, Jhansi, India.
9
International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Nairobi, Kenya.
10
Ethiopian Institute of Agricultural Research (EIAR), Debre Ziet, Ethiopia.
11
International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Addis Ababa, Ethiopia.
12
Egerton University, Njoro, Kenya.
13
University of Agricultural Sciences-Bangalore, Bangalore, India.
14
ICAR-Indian Agricultural Research Institute (IARI), New Delhi, India.
15
iCarbonX, Shenzhen, China.
16
Seoul National University, Seoul, South Korea.
17
University of California-Davis, Davis, CA, USA.
18
International Maize and Wheat Improvement Center (CIMMYT), Mexico, Mexico.
19
University of Missouri, National Center for Soybean Biotechnology, Columbia, SC, USA.
20
South Australian Research and Development Institute, Adelaide, South Australia, Australia.
21
University of Adelaide, Glen Osmond, South Australia, Australia.
22
University of Vermont, Burlington, VT, USA.
23
BGI-Shenzhen, Shenzhen, China. xuxun@genomics.cn.
24
China National Gene Bank (CNGB), Shenzhen, China. xuxun@genomics.cn.
25
BGI-Shenzhen, Shenzhen, China. liuxin@genomics.cn.
26
State Key Laboratory of Agricultural Genomics, Shenzhen, China. liuxin@genomics.cn.

Abstract

We report a map of 4.97 million single-nucleotide polymorphisms of the chickpea from whole-genome resequencing of 429 lines sampled from 45 countries. We identified 122 candidate regions with 204 genes under selection during chickpea breeding. Our data suggest the Eastern Mediterranean as the primary center of origin and migration route of chickpea from the Mediterranean/Fertile Crescent to Central Asia, and probably in parallel from Central Asia to East Africa (Ethiopia) and South Asia (India). Genome-wide association studies identified 262 markers and several candidate genes for 13 traits. Our study establishes a foundation for large-scale characterization of germplasm and population genomics, and a resource for trait dissection, accelerating genetic gains in future chickpea breeding.

PMID:
31036963
DOI:
10.1038/s41588-019-0401-3
[Indexed for MEDLINE]

Supplemental Content

Full text links

Icon for Nature Publishing Group
Loading ...
Support Center