SSR-based association mapping of salt tolerance in cotton (Gossypium hirsutum L.).
The identification of simple sequence repeat (SSR) markers associated with salt tolerance in cotton contributes to molecular assisted selection (MAS), which can improve the efficiency of traditional breeding. In this study, 134 samples of upland cotton cultivars were selected. The seedling emergence rates were tested under 0.3% NaCl stress. A total of 74 SSR markers were used to scan the genomes of these samples. To identify SSR markers associated with salt tolerance, an association analysis was performed between salt tolerance and SSR markers using TASSEL 2.1, based on the analysis of genetic structure using Structure 2.3.4. The results showed that the seedling emergence rates of 134 cultivars were significantly different, and 27 salt-sensitive and 10 salt-tolerant cultivars were identified. A total of 148 loci were found in 74 SSR markers involving 246 allelic variations, which ranged from 2 to 7 with an average of 3.32 per SSR marker. The gene diversity ranged from 0.0295 to 0.4959, with the average being 0.2897. The polymorphic information content ranged from0.0290 to 0.3729, with the average being 0.2381. This natural population was classified into two subgroups by Structure 2.3.4, containing 89 and 45 samples, respectively. Finally, eight SSR sites associated with salt tolerance ware found through an association analysis, with the rate of explanation ranging from 2.91 to 7.82% and an average of 4.32%. These results provide reference data for the use MAS for salt tolerance in cotton.
State Key Laboratory of Cotton Biology, Institute of Cotton Research of CAAS, Anyang, Henan, China.
Y L
YL
Zhao
State Key Laboratory of Cotton Biology, Institute of Cotton Research of CAAS, Anyang, Henan, China.
H M
HM
Wang
State Key Laboratory of Cotton Biology, Institute of Cotton Research of CAAS, Anyang, Henan, China.
B X
BX
Shao
State Key Laboratory of Cotton Biology, Institute of Cotton Research of CAAS, Anyang, Henan, China.
W
W
Chen
State Key Laboratory of Cotton Biology, Institute of Cotton Research of CAAS, Anyang, Henan, China.
Z J
ZJ
Guo
State Key Laboratory of Cotton Biology, Institute of Cotton Research of CAAS, Anyang, Henan, China.
H Y
HY
Gong
State Key Laboratory of Cotton Biology, Institute of Cotton Research of CAAS, Anyang, Henan, China.
X H
XH
Sang
State Key Laboratory of Cotton Biology, Institute of Cotton Research of CAAS, Anyang, Henan, China.
J J
JJ
Wang
State Key Laboratory of Cotton Biology, Institute of Cotton Research of CAAS, Anyang, Henan, China.
W W
WW
Ye
D000483:Alleles; D001947:Breeding; D002874:Chromosome Mapping; D056726:Genetic Association Studies; D014644:Genetic Variation; D003368:Gossypium / Q000235:genetics* / Q000254:growth & development; D018895:Microsatellite Repeats / Q000235:genetics*; D010641:Phenotype; D040641:Quantitative Trait Loci / Q000235:genetics; D055049:Salt Tolerance / Q000235:genetics*