Uncovering the Novel QTLs and Candidate Genes of Salt Tolerance in Rice with Linkage Mapping, RTM-GWAS, and RNA-seq

Rice

Table 1 Details of QTLs and QTBs from RTM-GWAS

QTL	Chr	Size of QTL	Pos of QTL	QTB	Pos of QTB	− logP	PEV (%)
qST-3.1	Chr3	0.31	16,994,792–17,308,890	Block107986	17,144,792–17,158,890	2.95	4.8706984
qST-4.1	Chr4	0.32	28,073,408–28,389,701	Block134443	28,223,408–28,239,701	2.74	4.12779992
qST-4.2	Chr4	0.31	34,076,941–34,389,322	Block138596	34,226,941–34,239,322	2.56	5.27897414
qST-5.1	Chr5	0.20	8,337,466–8,540,272	Block142677	8,487,466–8,513,778	2.29	4.16431194
qST-6.1	Chr6	0.04	158,939–203,553	Block151076	308,939–342,522	4.62	12.6821866
qST-6.2	Chr6	0.34	21,811,442–22,148,865	Block159231	21,961,442–21,998,865	3.28	8.1133099
qST-8.1	Chr8	0.31	26,804,808–27,118,145	Block190194	26,954,808–26,968,145	2.50	4.44373423

The QTL confidence interval was from the 0.15 Mb upstream and downstream of QTB. qST-5.1 and qST-6.1 were redefined using the intersection result of RTM-GWAS and R/qtl’s QTL position. Chr, Pos, QTB, and PEV were the abbreviations of chromosome, position, quantitative trait blocks, and position effect variegation, respectively