Chickpea (Cicer arietinum) is one of the most important legume crops for human nutrition all over the world. However, low genetic diversity limits the efforts for its improvement. To provide extensive information on genetic variations present between chickpea genotypes, we performed high-depth whole genome resequencing of 18 important chickpea genotypes including both desi and kabuli types. The sequencing was performed using Illumina platform to generate 100 bp paired-end reads. The summary of sequence data is given below.

Genotype Total reads High-quality reads Sequencing depth Genome coverage
Himchana 1 220640362 204631846 27.7 x 91 %
PUSA 362 218158460 202121350 27.3 x 90 %
ICC 10685 187347536 172609140 23.3 x 90 %
ICC 1356 186709672 172666840 23.3 x 89 %
ICC 15614 272892792 252578244 34.1 x 90 %
ICC 1882 170932670 155608270 21.0 x 88 %
ICC 283 166102528 153900990 20.8 x 89 %
ICC 4567 176610796 162098822 21.9 x 88 %
ICC 5912 182160752 167694110 22.7 x 89 %
ICC 8950 228547766 212756124 28.8 x 89 %
ICC V10 187812148 173212732 23.4 x 89 %
WR 315 172401514 160853676 21.7 x 89 %
ICC V2 186457590 172600100 23.3 x 89 %
JGK 3 218193212 189723748 25.6 x 90 %
PG 0515 217081180 213075762 28.8 x 90 %
LBeG7 185332432 170936158 23.1 x 90 %
ICC 4958 182663798 168132446 22.7 x 89 %
SBD 377 185486702 171858906 23.2 x 89 %

The sequence data was used to identify genome-wide single nucleotide polymorphisms (SNPs) and insertions/deletions (InDels) between kabuli chickpea (reference genome) and 18 resequenced chickpea genotypes, and between the resequenced genotypes with contrasting seed size/weight (small-seeded and large-seeded). All these data is public and available for download via the links given below. We anticipate that the data will provide a valuable resource for high-throughput genotyping and molecular breeding for seed size/weight and other important traits in chickpea.

 Data Download:

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Reseachers who find this information useful in their research, please cite our recent publication:
Rajkumar MS, Garg R, Jain M. (2021) Genome resequencing reveals DNA polymorphisms associated with seed size/weight determination in chickpea. Genomics, 113, 1458-1468. https://doi.org/10.1016/j.ygeno.2021.03.020

Jawaharlal Nehru University, New Delhi, India