Genome-wide association mapping of black point reaction in common wheat (Triticum aestivum L.)

Liu, Jindong; He, Zhonghu; Rasheed, Awais; Wen, Weie; Yan, Jun; Zhang, Pingzhi; Wan, Yingxiu; Zhang, Yong; Xie, Chaojie; Xia, Xianchun

doi:10.1186/s12870-017-1167-3

BMC Plant Biology

Table 2 Loci for black point resistance in 166 wheat accessions identified by both the Tassel v5.0 and FarmCPU

From: Genome-wide association mapping of black point reaction in common wheat (Triticum aestivum L.)

Marker^a	Chr^b	Physical interval^c (bp)	Environment ^d	SNP^e	P-value^f	R ^2g (%)	QTL/gene^h
IWB22408	2A	709,831,643-709,831,743	E1, E2, E3, E4, E6	T/C	1.2–9.8 E⁻⁰⁴	7.9–14.7	QBp.caas-2AL [23]; QPPO.caas-2AL [55]
PPO-A1	2A	712,188,721–712,187,200	E1, E2, E3, E4, E6	–	2.4–5.5 E⁻⁰⁴	9.9–11.6	PPO-A1 [56]
AX_108,951,749	2B	714,389,068–714,388,998	E2, E3, E4, E6	T/C	2.0–7.3 E⁻⁰⁴	8.8–11.5	QBp.caas-2BL [23]
AX_111,053,669	3A	9,605,904–9,605,974	E2, E3, E4, E6	A/G	2.4–8.6 E⁻⁰⁴	8.3–10.4
AX_108826477	3B	58,767,930–58,768,000	E1, E3	A/C	1.5–9.7 E⁻⁰⁴	7.9–11.0
AX_108,797,097	3B	695,967,481–695,967,411	E1, E2, E3, E6	A/G	1.2–9.6 E⁻⁰⁴	8.0–11.9	QBp.caas-3BL [23]
AX_110941533	3D	4,066,092–4,066,162	E2, E3, E4, E6	A/C	4.1–9.4 E⁻⁰⁴	8.2–9.7
AX_108983386	4B	6,961,084–6,961,154	E5	C/G	1.7–9.4 E⁻⁰⁵	8.0–10.5
AX_111488843	4B	504,944,902–504,944,832	E1, E2, E3, E6	A/T	7.0 E⁻⁰⁶-2.6 E⁻⁰⁴	9.9–15.5
IWB8709	5A	32,887,598–32,887,698	E3	A/G	1.9–5.3 E⁻⁰⁴	8–8.9	QBp.caas-5AS [23]; QPod.caas-5AS [57]
AX_109316564	5A	535,780,381–535,780,311	E1, E3, E6	T/G	4.8–9.9 E⁻⁰⁴	8.1–11.4
IWA2223	5A	592,276,555–592,276,708	E1, E2, E3, E4, E6	A/G	3.4 E⁻⁰⁶-9.4 E⁻⁰⁴	8.0–18.0
IWA5214	5B	302,177,272–302,177,428	E2	A/C	8.60 E⁻⁰⁴	8.1
AX_110617778	5B	531,539,253–531,539,323	E2, E3	A/T	1.4–9.5 E⁻⁰⁴	8.0–11.5
AX_110056162	5B	556,183,885–556,183,955	E5	T/C	4.2–7.3 E⁻⁰⁴	8.3–11.0
AX_108,821,301	6A	94,2114,60–94,211,390	E4	C/G	1.4–8.0 E⁻⁰⁴	9.1–11.2	QBp.caas-6A [23]
AX_110578177	6B	676,210,414–676,210,344	E1	A/T	4.2–5.1 E⁻⁰⁴	8.6–8.9
AX_109359792	6D	217,194,463–217,194,533	E4	A/G	6.30 E⁻⁰⁴	8.5
AX_111086566	7A	88,862,791–88,862,721	E1, E6	T/C	2.2–8.8 E⁻⁰⁴	8.6–11.6
AX_108743156	7A	136,398,412–136,398,482	E4, E5, E6	A/G	5.0–9.8 E⁻⁰⁴	7.9–9.2
AX_109,311,326	7A	609,508,901–609,508,971	E2	T/C	8.50 E⁻⁰⁴	8.2	QBp.caas-7AL.2 [23]
AX_111042346	7A	670,876,731–670,876,661	E5, E6	C/G	2.6–4.9 E⁻⁰⁴	9.0–12.8
AX_109491960	7A	70,8211,110–708,211,040	E4	A/C	1.7–9.1 E⁻⁰⁴	8.4–11.2
AX_108870509	7B	729,224,017–729,224,087	E1, E2, E3, E6	A/G	3.0 E⁻⁰⁵-8.6 E⁻⁰⁴	8.0–13.0
AX_109370330	7D	129,917,622–129,917,692	E1, E3	A/C	5.2–9.5 E⁻⁰⁴	8.7–9.6
AX_109033824	7D	615,826,844–615,826,914	E5	A/C	8.30 E⁻⁰⁴	8.2

^aRepresentative markers at the resistance loci
^bChr: Chromosome
^cThe physical positions of SNP markers based on wheat genome sequences from the International Wheat Genome Sequencing Consortium (IWGSC, http://www.wheatgenome.org/)
^dE1: Anyang 2013; E2: Anyang 2014; E3: Anyang 2015; E4: Suixi 2013; E5: Suixi 2014; E6: Best linear unbiased prediction (BLUP) calculated from all five environments. The data from the results of Tassel v5.0
^eFavorable allele (SNP) is underlined
^fThe P-values were calculated by the Tassel v5.0
^gPercentage of phenotypic variance explained by the MTA from the results of Tassel v5.0
^hThe previously reported QTL or genes within the same chromosomal regions

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