Functional mutation allele mining of plant architecture and yield-related agronomic traits and characterization of their effects in wheat

Guo, Huijun; Xiong, Hongchun; Xie, Yongdun; Zhao, Linshu; Gu, Jiayu; Zhao, Shirong; Ding, Yuping; Liu, Luxiang

doi:10.1186/s12863-019-0804-2

Table 2 Candidate SNPs that were significantly associated with a trait in more than 50% of environments based on t-tests

From: Functional mutation allele mining of plant architecture and yield-related agronomic traits and characterization of their effects in wheat

Trait	Marker	Chr	Pos	P	PVE	p value of t-test
Trait	Marker	Chr	Pos	P	PVE	2015C	2015H	2016C	2016H	2017H	Ac-Env
PH	AX-109900989	2B	679,577,716	6.80E-05	0.08639	4E-06	2E-06	4E-06	1E-05	4E-05	1E-06
PH	AX-111563435	3B	374,142,031	7.47E-04	0.07895	0.45	0.026	0.002	0.003	4E-04	0.005
PH	AX-110409382	3D	603,468,706	6.77E-04	0.07683	0.127	1E-03	3E-05	7E-04	3E-06	2E-04
PH	AX-109968486	5D	414,844,244	2.66E-04	0.09143	0.002	3E-04	6E-07	1E-04	2E-07	7E-06
PH	AX-108930866	5D	417,084,071	6.87E-04	0.08045	0.002	3E-04	1E-06	2E-04	3E-07	1E-05
PH	AX-109500865	5D	418,685,224	2.66E-04	0.09143	0.002	3E-04	6E-07	1E-04	2E-07	7E-06
PH	AX-111118954	5D	419,371,841	6.98E-04	0.08027	0.002	4E-04	1E-06	2E-04	3E-07	1E-05
PH	AX-108907798	5D	419,809,508	2.14E-04	0.09397	6E-04	4E-05	7E-08	2E-05	5E-08	1E-06
MT	AX-109655447	3B	165,293,369	3.69E-04	0.09462	0.935	0.323	0.035	0.021	8E-04	0.018
MT	AX-110536382	3B	746,271,373	5.54E-04	0.0839	0.146	0.031	0.002	0.002	6E-04	0.002
MT	AX-110283220	3D	604,711,079	7.01E-04	0.08781	0.808	0.419	0.018	0.002	5E-05	0.006
MT	AX-109041501	4A	601,871,802	8.21E-04	0.06193	0.501	0.053	0.023	0.022	9E-05	0.005
MT	AX-109446470	6B	476,960,396	1.13E-04	0.10228	0.835	0.261	0.023	0.002	0.036	0.067
MT	AX-89425861	7D	63,824,313	4.87E-04	0.09204	5E-05	1E-05	0.002	2E-04	9E-05	3E-05
ET	AX-111196215	3B	271,864,887	4.56E-06	0.11394	0.099	0.089	0.049	0.006	0.012	0.004
ET	AX-110921480	3B	323,802,217	4.99E-04	0.08531	0.052	0.049	0.017	0.091	0.004	0.002
ET	AX-111029728	3B	602,229,430	8.00E-04	0.08208	0.034	0.063	0.012	0.064	0.002	0.001
ET	AX-110467026	5A	692,057,838	5.37E-04	0.08326	0.016	0.196	0.018	0.22	0.035	0.007
ET	AX-111556361	7B	34,297,311	4.41E-04	0.08314	0.014	0.097	0.014	0.028	0.082	0.003
ET	AX-89425861	7D	63,824,313	2.41E-04	0.09777	4E-05	9E-07	3E-04	0.002	1E-04	7E-06
FLA	AX-109900989	2B	679,577,716	7.82E-04	0.06175	0.009	0.007	4E-07	1E-06		1E-06
TGW	AX-109326075	3B	67,251,955	3.22E-05	0.11594	0.018	7E-04	3E-04	0.013	0.125	7E-04
TGW	AX-109947280	5D	409,567,559	5.46E-04	0.08225	0.002	0.021	0.001	0.013	0.045	1E-03
GNS	AX-109585477	2A	695,514,686	1.15E-04	0.10446			2E-05	0.045		4E-04
GNS	AX-109438215	3B	817,259,816	3.57E-06	0.14869			0.002	0.031		0.003
NSL	AX-109585477	2A	695,514,686	8.74E-04	0.07398	0.723	0.063	0.009	0.004		0.006
SD	AX-110371706	2A	734,684,363	5.07E-04	0.07958	9E-07	1E-05	5E-07	2E-06		5E-09
SD	AX-110960588	3B	255,902,481	5.50E-04	0.07765	0.665	0.154	0.007	0.021		0.03
SD	AX-111172356	3B	282,202,013	5.40E-04	0.07766	0.585	0.098	0.005	0.014		0.02
SD	AX-111689108	3B	301,074,069	5.37E-04	0.07774	0.572	0.099	0.01	0.024		0.03
SD	AX-108917691	6A	73,473,707	5.90E-04	0.07935	0.811	0.014	0.005	0.192		0.061
SD	AX-110485937	7A	671,726,465	5.30E-04	0.07788	0.613	0.019	0.017	0.099		0.039

PVE (%): phenotypic variation explained by the SNP
PH plant height, MT maximum tiller numbers, ET effective tiller numbers, FLA flag leaf angle, TGW thousand grain weight, GNS grain numbers per spike, NSL spikelet number per spike, SD spikelet density

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ISSN: 2730-6844

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