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Table 1 Significantly associated loci for sheath blight resistance in rice based on a genome-wide association study

From: Genome-Wide Association Analysis of the Genetic Basis for Sheath Blight Resistance in Rice

SAL IDChr.LD block interval (bp)LD block size (kb)No. of suggestive SNPs in LD blockPanelLead SNP position (bp)Lead SNP P valueMSU ID of genes harboring lead SNPQTL/Marker/Gene previously reported
L1123,999,888–23,999,9750.11Whole23,999,9751.3E-08LOC_Os01g42294-LOC_Os01g42310 
L2125,337,514–25,449,724112.21Whole25,350,4686.8E-08LOC_Os01g44200-LOC_Os01g44210 
L3217,849,943–17,960,809110.91Whole17,889,5174.8E-14LOC_Os02g30114 
L4235,718,082–35,816,63498.617Aus35,752,2988.9E-07LOC_Os02g58470QDs2b and QRh2b (Li et al. 2009)
L5316,203,266–16,251,43948.21Xian16,214,2329.5E-07LOC_Os03g28170 
L6321,967,065–22,099,455132.41Whole22,062,2144.2E-09LOC_Os03g39660-LOC_Os03g39670 
L7333,180,575–33,294,172113.61Geng33,211,4029.3E-07LOC_Os03g58290-LOC_Os03g58300qSBR-3 (Kunihiro et al. 2002); qSBPL-3-2 (Wen et al. 2015); qHNLH3 (Zeng et al. 2015); OsWRKY4 (Wang et al. 2015)
L849,578,771–9,768,308189.51Geng9,676,3994.5E-06LOC_Os04g17660-LOC_Os04g17669 
L9417,248,318–17,355,392107.1 Whole17,255,5415.8E-07LOC_Os04g29080-LOC_Os04g29090 
L10528,879,416–28,948,60169.21Aus28,939,6534.4E-06LOC_Os05g50480RM5784 and RM3286 (Taguchi-Shiobara et al. 2013)
L1161,826,635–1,964,451137.81Geng1,913,8251.3E-06LOC_Os06g04460 
L12622,541,170–22,604,22563.11Whole22,546,2262.0E-06LOC_Os06g38100-LOC_Os06g38110 
L13628,352,324–28,363,62611.31Whole28,362,6522.1E-06LOC_Os06g46680-LOC_Os06g46690QRlh6 (Xie et al. 2008); qshb6.1 (Yadav et al. 2015); OsCHI11 (Karmakar et al. 2017)
L1478,485,551–8,669,352183.81Aus8,569,3724.2E-06LOC_Os07g14940-LOC_Os07g14950 
L15715,236,665–15,247,69811.01Whole15,244,3004.4E-10LOC_Os07g26490-LOC_Os07g26500qSBR7–1 (Channamallikarjuna et al. 2010)
L1696,313,772–6,328,96215.21Whole6,317,3622.3E-07LOC_Os09g11360-LOC_Os09g11370qHZaDR9 (Zeng et al. 2015)
L17910,897,450–10,929,68332.21Whole10,915,3598.2E-07LOC_Os09g17830-LOC_Os09g17840 
L18918,082,609–18,092,89110.31Geng18,092,6043.9E-06LOC_Os09g29760-LOC_Os09g29780qSB-9 (Han et al. 2002); qSBR9–1 (Channamallikarjuna et al. 2010); qshb9.1 (Yadav et al. 2015); RM6251 and RM3533 (Taguchi-Shiobara et al. 2013); bc15/OsCTL1 (Wu et al. 2012)
L19103,996,721–4,021,58024.91Whole4,011,1302.5E-09LOC_Os10g07520-LOC_Os10g07530QRlh10b (Xie et al. 2008)
L20109,226,748–9,327,350100.61Geng9,326,4358.1E-07LOC_Os10g18360 
L211011,281,341–11,387,999106.71Whole11,381,1731.2E-08LOC_Os10g22030 
L221011,610,905–11,623,07112.21Whole11,620,2132.1E-08LOC_Os10g22440-LOC_Os10g22450 
L231014,423,809–14,585,826162.01Geng14,523,5175.3E-12LOC_Os10g28009-LOC_Os10g28020qDs10 (Li et al. 2009)
L241016,612,339–16,716,107103.81Whole16,616,1526.1E-08LOC_Os10g31680-LOC_Os10g31700 
L25115,702,715–5,767,07764.41Geng5,708,5121.8E-07LOC_Os11g10460-LOC_Os11g10470qSB-11LE (Zuo et al. 2013); qSBPL-11-2 (Wen et al. 2015)
L261125,530,571–25,595,33164.833Aus25,580,5106.9E-07LOC_Os11g42450-LOC_Os11g42470QDs11b and QRh11 (Li et al. 2009); qSBR11–1 (Channamallikarjuna et al. 2010)
L271221,483,436–21,483,9320.51Whole21,483,9048.4E-08LOC_Os12g35340-LOC_Os12g35350qSBPL-12 (Wen et al. 2015)