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Table 2 Significant SNP markers, QTLs, and candidate genes related to salt tolerance

From: Genome-wide association and differential expression analysis of salt tolerance in Gossypium hirsutum L at the germination stage

Marker Chr Position (bp) -lg(P) (BLUP) MarkerR2 (BLUP) Environments QTL Physical Chr Genomic position No. of genes
TM3300 1 92,501,634 3.41 0.084 BLUP, 14, 15, 16 qGhST-c1 A01 92,402,641..92562754 7
TM4974 2 56,676,599 3.05 0.079 BLUP, 15 qGhST-c2 A02 56,176,476..56990091 6
TM8361 3 98,536,836 3.81 0.108 BLUP, 15, 16 qGhST-c3 A03 98,507,289..98618065 13
TM18816 7 8,674,003 3.26 0.083 BLUP, 15, 16 qGhST-c7–1 A07 8,654,507..8730789 5
TM19026 7 11,292,696 3.22 0.090 BLUP, 15, 16 qGhST-c7–2 A07 11,270,123..11494991 12
TM19028 7 11,312,723 3.06 0.087 BLUP, 15, 16 A07  
TM19030 7 11,334,462 3.06 0.080 BLUP, 15, 16 A07  
TM19035 7 11,356,480 3.13 0.084 BLUP, 15, 16 A07  
TM41811 12 57,971,233 3.25 0.065 BLUP, 15, 16 qGhST-c12–1 A12 57,740,976..58054684 11
TM41814 12 58,100,057 3.33 0.069 BLUP, 14, 15, 16 qGhST-c12–2 A12 58,097,661..58230406 3
TM63245 16 2,688,021 3.00 0.060 BLUP, 16 qGhST-c16–1 D07 2,555,918..2766294 27
TM63387 16 5,545,380 3.73 0.099 BLUP, 14, 15, 16 qGhST-c16–2 D07 5,518,153..5573449 3
TM73567 20 6,921,040 3.43 0.068 BLUP, 14, 15, 16 qGhST-c20–1 D10 6,887,955..6965236 7
TM73573 20 6,959,800 3.02 0.077 BLUP, 15 D10  
TM73579 20 6,996,881 3.40 0.068 BLUP, 14,15, 16 qGhST-c20–2 D10 6,991,910..7032029 2
TM67763 24 16,771,670 3.74 0.099 BLUP, 14, 15, 16 qGhST-c24–1 D08 16,766,258..16776082 0
TM68258 24 19,887,759 3.68 0.096 BLUP, 14, 15, 16 qGhST-c24–2 D08 19,884,918..19901251 2
TM3510 1 96,629,867 3.24 0.092 14     
TM776 1 14,254,094 3.40 0.098 14     
TM4108 2 7,344,966 3.00 0.082 14     
TM8353 3 98,481,949 3.01 0.079 16     
TM18851 7 9,689,745 3.05 0.084 16     
TM18989 7 11,034,281 3.07 0.081 16     
TM19015 7 11,198,513 3.01 0.078 16     
TM19017 7 11,226,724 3.09 0.080 16     
TM19018 7 11,232,229 3.07 0.079 16     
TM19023 7 11,276,537 3.20 0.082 16     
TM53602 17 4,200,687 3.18 0.092 14     
TM71972 23 33,356,265 3.02 0.064 14     
TM71987 23 33,461,358 3.09 0.066 14     
TM67849 24 17,321,002 3.89 0.112 14     
TM68645 24 31,157,957 3.21 0.089 14     
TM68879 24 44,114,822 3.03 0.060 16