Genotyping-by-sequencing of three mapping populations for identification of candidate genomic regions for resistance to sterility mosaic disease in pigeonpea

Scientific Reports
Rachit K SaxenaRajeev K Varshney

Abstract

Sterility mosaic disease (SMD) is one of the serious production constraints that may lead to complete yield loss in pigeonpea. Three mapping populations including two recombinant inbred lines and one F2, were used for phenotyping for SMD resistance at two locations in three different years. Genotyping-by-sequencing approach was used for simultaneous identification and genotyping of SNPs on above mentioned populations. In total, 212,464, 89,699 and 64,798 SNPs were identified in ICPL 20096 × ICPL 332 (PRIL_B), ICPL 20097 × ICP 8863 (PRIL_C) and ICP 8863 × ICPL 87119 (F2) respectively. By using high-quality SNPs, genetic maps were developed for PRIL_B (1,101 SNPs; 921.21 cM), PRIL_C (484 SNPs; 798.25 cM) and F2 (996 SNPs; 1,597.30 cM) populations. The average inter marker distance on these maps varied from 0.84 cM to 1.65 cM, which was lowest in all genetic mapping studies in pigeonpea. Composite interval mapping based QTL analysis identified a total of 10 QTLs including three major QTLs across the three populations. The phenotypic variance of the identified QTLs ranged from 3.6 to 34.3%. One candidate genomic region identified on CcLG11 seems to be promising QTL for molecular breeding in developing superior lines with enhanced r...Continue Reading

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Citations

Apr 1, 2018·Plant, Cell & Environment·Mahsa Mousavi-DerazmahallehDavid Edwards
May 1, 2018·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Rachit K SaxenaRajeev K Varshney
Feb 11, 2020·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Deepa JaganathanRajeev K Varshney
Feb 6, 2020·Plant Biotechnology Journal·Junliang ZhaoRajeev K Varshney
Jun 8, 2018·Breeding Science·Kul Bhushan SaxenaRajeev K Varshney
Dec 18, 2019·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Rachit K SaxenaRajeev K Varshney
Dec 19, 2018·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Rajeev K VarshneyRachit K Saxena
Feb 18, 2020·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Abhishek BohraRachit K Saxena
Oct 21, 2020·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Rachit K SaxenaRajeev K Varshney
Dec 23, 2020·International Journal of Molecular Sciences·Sandeep Kaur DhaliwalPrashant Kaushik

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Methods Mentioned

BETA
genotyping

Software Mentioned

TASSEL
Bowtie
Joinmap
Mapchart
QTL Cartographer
GBS

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