Table 2. The differently expressed soybean trihelix genes at 4 time points after submergence treatment identified by analyzing the public-RNA seq data.

Gene ID	clade	log2FC (3 h)	adjusted p value (3 h)	log2FC (6 h)	adjusted p value (6 h)	log2FC (12 h)	adjusted p value (12 h)	log2FC (24 h)	adjusted p value (24 h)
Glyma.13G229600	SIP1	1.78	1.61E−30	1.59	7.00E−21	1.64	2.48E−09	1.14	7.24E−14
Glyma.11G156700	SIP1	−1.93	4.68E−11	−1.04	3.34E−04	−1.46	9.01E−04	−1.26	1.10E−05
Glyma.07G042800	SIP1	1.69	9.01E−33	1.94	7.20E−41	2.43	2.10E−24	1.54	1.47E−16
Glyma.15G082900	SIP1	1.31	2.51E−17	1.26	3.32E−14	1.6	5.60E−09	1.47	7.56E−12
Glyma.03G189600	GTγ	10.27	8.06E−161	7.83	8.13E−49	9.76	1.56E−286	10.87	1.04E−142
Glyma.13G149700	GTγ	7.99	6.01E−278	6.78	2.31E−67	7.12	3.91E−174	7.68	9.37E−287
Glyma.19G190000	GTγ	8.66	4.32E−232	8.15	1.89E−83	8.57	0.00E+00	8.94	6.04E−146
Glyma.07G151100	GT-1	1.03	4.18E−03	1.29	3.58E−06	1.8	9.12E−06	2.14	1.08E−12
Glyma.11G247300	GT-1	1.53	7.30E−16	1.91	5.00E−19	1.68	8.41E−14	1.45	1.39E−10
Glyma.16G167600	GT-2	1.29	2.63E−11	2.02	1.35E−23	2.04	2.25E−14	2.23	2.32E−19
Glyma.06G149900	GT-2	3.14	2.06E−59	3.23	6.49E−105	2.73	2.54E−19	2.54	4.74E−23
Glyma.20G224000	GT-2	−2.19	2.22E−05	−1.5	2.54E−03	−1.67	2.92E−02	−2.06	4.93E−05
Glyma.09G116400	GT-2	4.04	7.48E−90	4.06	5.68E−107	3.94	2.36E−38	3.32	6.56E−40
Glyma.05G200400	SH4	−1.43	1.33E−02	−5.29	2.74E−08	−5.72	1.11E−09	−5.36	2.72E−08
Glyma.08G007800	SH4	−1.92	2.31E−02	−2.72	5.30E−03	−4.45	8.90E−06	−2.74	6.54E−03

Notes.

The genes written in red and black color were up-and down-regulated, respectively. The RNA-seq data was obtained from NCBI Sequence Read Archive (SRA) (SRP181976) (Lin et al., 2019). Log2FC, Log2FoldChange.