TY - JOUR
T1 - GBS-SNP and SSR based genetic mapping and QTL analysis for drought tolerance in upland cotton
AU - Shukla, Ravi Prakash
AU - Tiwari, Gopal Ji
AU - Joshi, Babita
AU - Song-Beng, Kah
AU - Tamta, Sushma
AU - Boopathi, N. Manikanda
AU - Jena, Satya Narayan
N1 - Funding Information:
We would like to thank Dr. Soon Joo Yap, Codon Genomics S/B, JalanDutamas 7, 43200 Seri Kembangan, Selangor, Malaysia for his kind help in data analysis and valuable suggestions. We acknowledge further Dr. A.B. Das, Utkal University and Dr. P.K. Singh to help us in improving this MS.
Publisher Copyright:
© 2021, Prof. H.S. Srivastava Foundation for Science and Society.
PY - 2021/8
Y1 - 2021/8
N2 - A recombinant inbred line mapping population of intra-species upland cotton was generated from a cross between the drought-tolerant female parent (AS2) and the susceptible male parent (MCU13). A linkage map was constructed deploying 1,116 GBS-based SNPs and public domain-based 782 SSRs spanning a total genetic distance of 28,083.03 cM with an average chromosomal span length of 1,080.12 cM with inter-marker distance of 10.19 cM.A total of 19 quantitative trait loci (QTLs) were identified in nine chromosomes for field drought tolerance traits. Chromosomes 3 and 8 harbored important drought tolerant QTLs for chlorophyll stability index trait while for relative water content trait, three QTLs on chromosome 8 and one QTL each on chromosome 4, 12 were identified. One QTL on each chromosome 8, 5, and 7, and two QTLs on chromosome 15 linking to proline content were identified. For the nitrate reductase activity trait, two QTLs were identified on chromosome 3 and one on each chromosome 8, 13, and 26. To complement our QTL study, a meta-analysis was conducted along with the public domain database and resulted in a consensus map for chromosome 8. Under field drought stress, chromosome 8 harbored a drought tolerance QTL hotspot with two in-house QTLs for chlorophyll stability index (qCSI01, qCSI02) and three public domain QTLs (qLP.FDT_1, qLP.FDT_2, qCC.ST_3). Identified QTL hotspot on chromosome 8 could play a crucial role in exploring abiotic stress-associated genes/alleles for drought trait improvement.
AB - A recombinant inbred line mapping population of intra-species upland cotton was generated from a cross between the drought-tolerant female parent (AS2) and the susceptible male parent (MCU13). A linkage map was constructed deploying 1,116 GBS-based SNPs and public domain-based 782 SSRs spanning a total genetic distance of 28,083.03 cM with an average chromosomal span length of 1,080.12 cM with inter-marker distance of 10.19 cM.A total of 19 quantitative trait loci (QTLs) were identified in nine chromosomes for field drought tolerance traits. Chromosomes 3 and 8 harbored important drought tolerant QTLs for chlorophyll stability index trait while for relative water content trait, three QTLs on chromosome 8 and one QTL each on chromosome 4, 12 were identified. One QTL on each chromosome 8, 5, and 7, and two QTLs on chromosome 15 linking to proline content were identified. For the nitrate reductase activity trait, two QTLs were identified on chromosome 3 and one on each chromosome 8, 13, and 26. To complement our QTL study, a meta-analysis was conducted along with the public domain database and resulted in a consensus map for chromosome 8. Under field drought stress, chromosome 8 harbored a drought tolerance QTL hotspot with two in-house QTLs for chlorophyll stability index (qCSI01, qCSI02) and three public domain QTLs (qLP.FDT_1, qLP.FDT_2, qCC.ST_3). Identified QTL hotspot on chromosome 8 could play a crucial role in exploring abiotic stress-associated genes/alleles for drought trait improvement.
KW - Drought
KW - Genetic mapping
KW - Gossypium hirsutum
KW - QTL cluster
KW - SNP
KW - SSR
UR - http://www.scopus.com/inward/record.url?scp=85113181264&partnerID=8YFLogxK
U2 - 10.1007/s12298-021-01041-y
DO - 10.1007/s12298-021-01041-y
M3 - Article
C2 - 34539113
AN - SCOPUS:85113181264
SN - 0971-5894
VL - 27
SP - 1731
EP - 1745
JO - Physiology and Molecular Biology of Plants
JF - Physiology and Molecular Biology of Plants
IS - 8
ER -