SNP

 

            For identification of SNPs, transcriptomes of 12 parental genotypes have been sequenced by ICRISAT in collaboration with NCGR using Solexa sequencing technology. These Solexa tags have been aligned with pigeonpea transcript assembly and with help of Alpheus programme of NCGR, large number of SNPs have been identified.

Genotype Solexa reads (in millions) No. of SNPs in each cross Targeted SNPs
ICP 28 1.8 1,190 316
ICPW 94 1.8
ICPL 87119 1.8 5,965 773
ICPL 87091 1.6
TTB 7 1.7 955 -
ICP 7035 1.7
BSMR 736 1.6 573 -
TAT 10 1.4
ICPL 20096 1.5 1,580 -
ICPL 332 1.8
ICPB 2049 1.5 1,878 484
ICPL 99050 1.7

            While the GoldenGate assay for 1536 SNPs is being developed by ICRISAT and NCGR, a first pilot assay for 768 SNPs has been developed at UC-Davis in collaboration with NCGR and ICRISAT.