Table 2.

Details of 27 loci of silique number detected from GWAS in the different environments

Loci	Traits	Peak SNP	Chromosome	Position	−Log10(P)	R 2 (%)	Environment	Reports in previous research
1	SNb, SNw	Bn‐A01‐S16094037	A01	14,045,897	4.35	6.67	W14	New
2	SNm	Bn‐A02‐S7482915	A02	4,511,692	4.47	6.40	BLUP, W14	Ding et al. (2012)
3	SNm	Bn‐A02‐S8767145	A02	5,739,739	4.92	6.75	BLUP,W14	New
4	SNm	Bn‐A02‐S10323998	A02	7,170,926	5.38	7.31	W14	New
5	SNm	Bn‐A03‐S20398340	A03	19,267,907	6.14	8.31	BLUP, N14, W14	Shi et al. (2013)
6	SNm	Bn‐A03‐S26437883	A03	24,829,819	5.24	7.14	W14	New
7	SNb,SNw	Bn‐A03‐S29118954	A03	26,262,031	4.64	6.54	W16	New
8	SNm,SNb	Bn‐A05‐S474257	A05	585,628	4.68	7.10	W16,W14	New
9	SNb,SNw	Bn‐A02‐S588093	A07	13,217,992	4.50	6.34	W16	Shi et al. (2009)
10	SNm,SNb	Bn‐A09‐S3097420	A09	3,031,274	4.41	6.07	W14	Ding et al. (2012)
11	SNb,SNw	Bn‐A09‐S19941634	A09	16,914,495	4.48	6.31	W16	New
12	SNb,SNw,	Bn‐A09‐S29186255	A09	27,063,736	4.31	7.32	W14	New
13	SNb,SNw,	Bn‐A09‐S25899875	A09	28,211,039	4.47	6.16	W14	New
14	SNm	Bn‐A09‐S33976464	A09	31,210,585	5.05	7.10	N14	Shi et al. (2013)
15	SNm,SNw	Bn‐A10‐S3921433	A10	900,559	4.84	6.63	W14,W16	Lu et al. (2017)
16	SNm,SNb,SNw	Bn‐A10‐S10298013	A10	11,677,067	6.43	8.71	W14, W16,BLUP	New
17	SNm,SNb,SNw	Bn‐A10‐S13789579	A10	13,825,021	5.29	7.20	BLUP, N14,W16	New
18	SNm,SNb,SNw	Bn‐scaff_15712_6‐S1336179	C02	38,045,422	5.41	8.69	BLUP, N14	New
19	SNm,SNb,SNw	Bn‐scaff_17109_1‐S557859	C02	41,808,474	5.00	7.07	W14	Radoev et al. (2008)
20	SNm	Bn‐scaff_16614_1‐S1480092	C03	660,236	4.55	6.29	W14	New
21	SNm	Bn‐scaff_18936_1‐S102755	C03	2,745,162	5.86	8.55	BLUP,W14	New
22	SNm	Bn‐scaff_15877_1‐S926737	C03	4,656,329	6.27	8.66	BLUP,W14	New
23	SNm,SNw	Bn‐scaff_22466_1‐S754489	C03	14,826,392	4.60	6.36	BLUP,W16	New
24	SNb, SNw	Bn‐scaff_18602_1‐S270185	C03	51,667,421	5.88	7.97	W14	New
25	SNb, SNw	Bn‐scaff_20901_1‐S369010	C05	3,670,200	6.39	8.63	W14	New
26	SNm	Bn‐scaff_15705_3‐S436841	C07	36,219,357	5.09	6.96	W14	New
27	SNm	Bn‐scaff_17487_1‐S512535	C09	6,772,003	4.82	7.45	BLUP, W14	New

SNm, SNb and SNw were the abbreviations of silique number from the main inflorescence, branch inflorescence and whole plant, respectively.

N14, W14 and W16 were the codes of the three environments: 2014 in Nanchang; 2014 in Wuhan; 2016 in Wuhan.