Characterization of cotton ARF factors and the role of GhARF2b in fiber development

Zhang, Xiufang; Cao, Junfeng; Huang, Chaochen; Zheng, Zishou; Liu, Xia; Shangguan, Xiaoxia; Wang, Lingjian; Zhang, Yugao; Chen, Zhiwen

doi:10.1186/s12864-021-07504-6

BMC Genomics

Table 1 Ka, Ks and Ka/Ks analyses of GhARF genes compared with their corresponding progenitor homoeologs

From: Characterization of cotton ARF factors and the role of GhARF2b in fiber development

Locus Name	Gene Name	Chrom	Locus Name	Gene Name	Chrom	Ka	Ks	Ka/Ks
Gh_A10G1402	GhARF1_A	A10	Cotton_A_31395	GaARF1	CA_chr1	0.0147	0.0261	0.5632
Gh_D10G0803	GhARF1_D	D10	Gorai.011G091100.1	GrARF1	Chr11	0.0019	0.0108	0.1759
Gh_A07G0411	GhARF2a_A	A07	Cotton_A_03644	GaARF2a	CA_chr1	0.0035	0.0068	0.5147
Gh_D07G0476	GhARF2a_D	D07	Gorai.001G054600.1	GrARF2a	Chr1	0.0061	0.0169	0.3609
Gh_A11G0358	GhARF2b_A	A11	Cotton_A_01955	GaARF2b	CA_chr6	0.0015	0.0151	0.0993
Gh_D11G0416	GhARF2b_D	D11	Gorai.007G044900.1	GrARF2b	Chr7	0.0028	0.0045	0.6222
Gh_D12G1909	GhARF2c_D	D12	Gorai.008G210200.1	GrARF2c	Chr8	0.0083	0.0263	0.3156
Gh_A11G1082	GhARF2d_A	A11	Cotton_A_08273	GaARF2d	CA_chr4	0.0012	0.0021	0.5714
Gh_D11G1233	GhARF2d_D	D11	Gorai.007G131900.1	GrARF2d	Chr7	0.0058	0.0181	0.3204
Gh_A08G0656	GhARF2e_A	A08	Cotton_A_22543	GaARF2e	CA_chr10	0.0032	0.0000	2.0000
Gh_D08G0758	GhARF2e_D	D08	Gorai.004G085400.1	GrARF2e	Chr4	0.0098	0.0213	0.4601
Gh_A10G0266	GhARF3a_A	A10	Cotton_A_03933	GaARF3a	CA_chr9	0.0096	0.0167	0.5749
Gh_D10G0266	GhARF3a_D	D10	Gorai.011G030900.1	GrARF3a	Chr11	0.0038	0.0125	0.3040
Gh_A06G2038	GhARF3b_A	A06	Cotton_A_40208	GaARF3b	CA_chr8	0.0019	0.0060	0.3167
Gh_D06G1415	GhARF3b_D	D06	Gorai.010G157400.1	GrARF3b	Chr10	0.0089	0.0077	1.1558
Gh_A05G1337	GhARF3c_A	A05	Cotton_A_11311	GaARF3c	CA_chr10	0.0165	0.0140	1.1786
Gh_D05G1506	GhARF3c_D	D05	Gorai.009G166100.1	GrARF3c	Chr9	0.0018	0.0076	0.2368
Gh_A09G0993	GhARF4a_A	A09	Cotton_A_01738	GaARF4a	CA_chr11	0.0017	0.0116	0.1466
Gh_A05G3908	GhARF4b_A	A05	Cotton_A_11048	GaARF4b	CA_chr10	0.0027	0.0018	1.5000
Gh_A01G0908	GhARF5a_A	A01	Cotton_A_27669	GaARF5a	CA_chr13	0.0009	0.0110	0.0818
Gh_D01G0951	GhARF5a_D	D01	Gorai.002G124400.1	GrARF5a	Chr2	0.0032	0.0094	0.3404
Gh_A05G1607	GhARF5b_A	A05	Cotton_A_16408	GaARF5b	CA_chr8	0.0046	0.0079	0.5823
Gh_D05G1792	GhARF5b_D	D05	Gorai.009G196100.1	GrARF5b	Chr9	0.0067	0.0172	0.3895
Gh_A10G0412	GhARF6a_A	A10	Cotton_A_02933	GaARF6a	CA_chr9	0.0038	0.0159	0.2390
Gh_D10G0426	GhARF6a_D	D10	Gorai.011G048200.1	GrARF6a	Chr11	0.0019	0.0047	0.4043
Gh_A05G1225	GhARF6b_A	A05	Cotton_A_26156	GaARF6b	CA_chr10	0.0034	0.0095	0.3579
Gh_D05G3848	GhARF6b_D	D05	Gorai.009G152700.1	GrARF6b	Chr9	0.0107	0.0205	0.5220
Gh_D07G1785	GhARF8a_D	D07	Gorai.001G204500.1	GrARF8a	Chr1	0.0028	0.0091	0.3077
Gh_A12G0813	GhARF8b_A	A12	Cotton_A_35443	GaARF8b	CA_chr6	0.0017	0.0054	0.3148
Gh_D12G0831	GhARF8b_D	D12	Gorai.008G097200.1	GrARF8b	Chr8	0.0039	0.0049	0.7959
Gh_A12G0483	GhARF8c_A	A12	Cotton_A_21333	GaARF8c	CA_chr6	0.0235	0.0303	0.7756
Gh_D12G0491	GhARF8c_D	D12	Gorai.008G054600.1	GrARF8c	Chr8	0.0061	0.0167	0.3653
Gh_A09G0074	GhARF8d_A	A09	Cotton_A_14740	GaARF8d	CA_chr11	0.0030	0.0131	0.2290
Gh_D09G0071	GhARF8d_D	D09	Gorai.006G008700.1	GrARF8d	Chr6	0.0031	0.0150	0.2067
Gh_A11G0231	GhARF9a_A	A11	Cotton_A_18937	GaARF9a	CA_chr10	0.0108	0.0301	0.3588
Gh_D11G0245	GhARF9a_D	D11	Gorai.007G026900.1	GrARF9a	Chr7	0.0098	0.0198	0.4949
Gh_A02G0979	GhARF9b_A	A02	Cotton_A_36154	GaARF9b	CA_chr7	0.0013	0.0044	0.2955
Gh_D03G0771	GhARF9b_D	D03	Gorai.003G078000.1	GrARF9b	Chr3	0.0019	0.0064	0.2969
Gh_A03G0274	GhARF10a_A	A03	Cotton_A_04263	GaARF10a	CA_chr7	0.0013	0.0062	0.2097
Gh_D03G1293	GhARF10a_D	D03	Gorai.003G142500.1	GrARF10a	Chr3	0.0058	0.0171	0.3392
Gh_A05G0895	GhARF10b_A	A05	Cotton_A_07064	GaARF10b	CA_chr10	0.0038	0.0102	0.3725
Gh_D05G0978	GhARF10b_D	D05	Gorai.009G107800.1	GrARF10b	Chr9	0.0025	0.0185	0.1351
Gh_A07G1254	GhARF11_A	A07	Cotton_A_31049	GaARF11	CA_chr1	0.0044	0.0105	0.4190
Gh_A10G1836	GhARF16a_A	A10	Cotton_A_23397	GaARF16a	CA_chr9	0.0019	0.0150	0.1267
Gh_D10G2093	GhARF16a_D	D10	Gorai.011G238900.1	GrARF16a	Chr11	0.0063	0.0193	0.3264
Gh_A05G3576	GhARF16b_A	A05	Cotton_A_06107	GaARF16b	CA_chr12	0.0097	0.0066	1.4697
Gh_D04G0030	GhARF16b_D	D04	Gorai.012G004800.1	GrARF16b	Chr12	0.0051	0.0087	0.5862
Gh_A09G1401	GhARF16c_A	A09	Cotton_A_24047	GaARF16c	CA_chr10	0.0031	0.0103	0.3010
Gh_D09G1405	GhARF16c_D	D09	Gorai.006G166400.1	GrARF16c	Chr6	0.0025	0.0081	0.3086
Gh_A13G2013	GhARF16d_A	A13	Cotton_A_10518	GaARF16d	CA_chr8	0.0080	0.0109	0.7339
Gh_D13G2411	GhARF16d_D	D13	Gorai.013G267100.1	GrARF16d	Chr13	0.0041	0.0223	0.1839
Gh_A05G1991	GhARF17a_A	A05	Cotton_A_16138	GaARF17a	CA_chr10	0.0030	0.0243	0.1235
Gh_D05G3805	GhARF17a_D	D05	Gorai.009G241900.1	GrARF17a	Chr9	0.0015	0.0121	0.1240
Gh_A06G0332	GhARF17b_A	A06	Cotton_A_18446	GaARF17b	CA_chr8	0.0030	0.0025	1.2000
Gh_D06G0360	GhARF17b_D	D06	Gorai.010G046000.1	GrARF17b	Chr10	0.0076	0.0099	0.7677
Gh_A11G0886	GhARF18a_A	A11	Cotton_A_14407	GaARF18a	CA_chr4	0.0041	0.0074	0.5541
Gh_D11G1034	GhARF18a_D	D11	Gorai.007G109500.1	GrARF18a	Chr7	0.0057	0.0133	0.4286
Gh_A12G1016	GhARF18b_A	A12	Cotton_A_25871	GaARF18b	CA_chr6	0.0045	0.0150	0.3000
Gh_D12G1134	GhARF18b_D	D12	Gorai.008G126200.1	GrARF18b	Chr8	0.0026	0.0201	0.1294
Gh_A06G0710	GhARF19.1a_A	A06	Cotton_A_38575	GaARF19.1a	CA_chr13	0.0048	0.0130	0.3692
Gh_D06G0818	GhARF19.1a_D	D06	Gorai.010G091300.1	GrARF19.1a	Chr10	0.0293	0.0343	0.8542
Gh_A07G2353	GhARF19.1b_A	A07	Cotton_A_05677	GaARF19.1b	CA_chr1	0.0042	0.0218	0.1927
Gh_D07G0132	GhARF19.1b_D	D07	Gorai.001G017000.1	GrARF19.1b	Chr1	0.0032	0.0113	0.2832
Gh_A05G3541	GhARF19.2_A	A05	Cotton_A_06071	GaARF19.2	CA_chr12	0.0148	0.0254	0.5827
Gh_D04G0067	GhARF19.2_D	D04	Gorai.012G009000.1	GrARF19.2	Chr12	0.0039	0.0040	0.9750
Gh_A05G0264	GhARF20_A	A05	Cotton_A_27843	GaARF20	CA_chr9	0.0020	0.0121	0.1653
Gh_D08G1407	GhARF21_D	D08	Gorai.006G045300.1	GrARF21	Chr6	0.1826	0.2293	0.7963

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ISSN: 1471-2164

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