Genome-wide Characterization of WRKY Gene Family in Hydrangea macrophylla and Expression Analysis in Response to Leaf Spot Disease

doi:10.7668/hbnxb.20195347

Abstract

Abstract:

To understand the member characteristics of the WRKY transcription factor family in hydrangea and their roles in response to leaf spot disease,this study utilized the bioinformatics method to characterize WRKY family members in Hydrangea macrophylla Endless Summer,and systematically analyzed the protein physicochemical features,gene structure,systematic evolution,collinearity and expression patterns under the infection with Corynespora cassiicola of WRKY family members.The results showed that there were 84 non-redundant HmWRKY members in H.macrophylla genome.All of the HmWRKYs were hydrophilic proteins and unevenly distributed on 18 chromosomes of H.macrophylla,encoding 112—1 046 amino acids.In addition,HmWRKY members were divided into 3 subgroups(Group Ⅰ—Group Ⅲ),which contained a conserved DNA binding domain composed of WRKYGQK and C2H2.The sequence length of HmWRKY varies greatly from 512 bp to 40 338 bp,and 8 collinear gene pairs with Ka/Ks ratios less than 1 were detected,indicating that the HmWRKY family experienced purification selection in evolution.18 HmWRKY members showed significantly differential expression after infection with C.cassiicola,of which 9 up-regulated and 9 down-regulated.The results indicated that these HmWRKY genes might play important roles in response to leaf spot disease of hydrangea.

Key words: Hydrangea macrophylla, WRKY gene family, Transcription factor, Leaf spot disease, Corynespora cassiicola

LIU Xintong, CHEN Huijie, CHEN Shuangshuang, FENG Jing, QI Xiangyu, ZHOU Huimin, JIN Yuyan, SUN Ming, DENG Yanming. Genome-wide Characterization of WRKY Gene Family in Hydrangea macrophylla and Expression Analysis in Response to Leaf Spot Disease[J]. Acta Agriculturae Boreali-Sinica, 2025, 40(1): 93-103. doi: 10.7668/hbnxb.20195347.

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References 46

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基因名称 Gene name	正向引物 (5'—3') Forward primer (5'—3')	反向引物 (5'—3') Reverse primer (5'—3')
HmWRKY13	CTCTTCGCTTGGGATTTGGCTCAT	TGGTTCGCAGGGTCAGATAGTGC
HmWRKY15	AGACATTAGTTGATTGTTCGGTGGG	AATAAGGGTCGTGCCTTGGCTGA
HmWRKY18	ACCAGCCGAGGAGTGGGTGAACT	GCTACCGCCGAGCAGACAAGAAT
HmWRKY19	TTACCATCCCGATCATTTGACGA	GACGAGGGTTGTTGCTTGCTGTC
HmWRKY36	GCTGAAGTTGATCCCTTGATGGC	CGGTCGAAACCCGAGAATTGTTA
HmWRKY40	CCATTCCCTACTATCACATTGGACC	GCCGTTGCTTCCCTCATCATCTC
HmWRKY71	ACAGAACTGCCACTCCGCAGAAA	GAAGAAGGCTCCGATGAAGACGA
HmWRKY79	GCACCCACCATTGATTCACAGAG	GGCACCCACAAAGGCAAGTAAGA

基因名称 Gene name	正向引物 (5'—3') Forward primer (5'—3')	反向引物 (5'—3') Reverse primer (5'—3')
HmWRKY13	CTCTTCGCTTGGGATTTGGCTCAT	TGGTTCGCAGGGTCAGATAGTGC
HmWRKY15	AGACATTAGTTGATTGTTCGGTGGG	AATAAGGGTCGTGCCTTGGCTGA
HmWRKY18	ACCAGCCGAGGAGTGGGTGAACT	GCTACCGCCGAGCAGACAAGAAT
HmWRKY19	TTACCATCCCGATCATTTGACGA	GACGAGGGTTGTTGCTTGCTGTC
HmWRKY36	GCTGAAGTTGATCCCTTGATGGC	CGGTCGAAACCCGAGAATTGTTA
HmWRKY40	CCATTCCCTACTATCACATTGGACC	GCCGTTGCTTCCCTCATCATCTC
HmWRKY71	ACAGAACTGCCACTCCGCAGAAA	GAAGAAGGCTCCGATGAAGACGA
HmWRKY79	GCACCCACCATTGATTCACAGAG	GGCACCCACAAAGGCAAGTAAGA

基因名 Gene name	染色体 Chromosome	起始/Mb Start	终止/Mb End	编码氨基酸数 Number of amino acids	分子质量/ku Molecular weight	等电点 Isoelectric point	疏水系数 Hydrophobic coefficient
HmWRKY1	Chr01	13.683	13.695	732	80.782	6.11	-0.704
HmWRKY2	Chr01	79.282	79.287	364	40.177	8.78	-0.698
HmWRKY3	Chr01	95.448	95.452	565	62.043	8.34	-0.918
HmWRKY4	Chr01	115.941	115.943	256	29.060	5.04	-1.012
HmWRKY5	Chr01	116.506	116.507	283	31.296	6.25	-0.739
HmWRKY6	Chr02	83.419	83.429	507	55.480	6.82	-0.881
HmWRKY7	Chr02	86.751	86.767	1 046	113.474	6.25	-0.372
HmWRKY8	Chr02	111.319	111.323	466	51.692	9.01	-0.949
HmWRKY9	Chr02	114.086	114.089	112	12.937	9.59	-1.220
HmWRKY10	Chr02	120.571	120.573	604	66.932	7.69	-0.939
HmWRKY11	Chr03	89.989	89.990	348	37.964	9.57	-0.669
HmWRKY12	Chr03	91.032	91.033	348	38.032	9.57	-0.676
HmWRKY13	Chr04	12.983	13.000	525	57.528	8.15	-0.740
HmWRKY14	Chr04	22.807	22.815	239	27.579	8.99	-0.855
HmWRKY15	Chr04	92.267	92.269	281	31.524	8.37	-0.626
HmWRKY16	Chr04	110.396	110.404	543	59.178	7.10	-0.722
HmWRKY17	Chr05	1.284	1.286	428	46.985	6.70	-0.666
HmWRKY18	Chr05	1.539	1.540	253	29.168	5.02	-1.028
HmWRKY19	Chr05	83.729	83.735	332	36.473	9.52	-0.742
HmWRKY20	Chr05	101.262	101.264	158	18.187	9.43	-0.969
HmWRKY21	Chr06	0.794	0.797	224	25.434	6.55	-0.975
HmWRKY22	Chr06	8.941	8.946	468	51.251	6.45	-0.842
HmWRKY23	Chr06	9.292	9.295	306	33.568	5.70	-0.698
HmWRKY24	Chr06	56.424	56.428	292	32.865	8.42	-0.683
HmWRKY25	Chr07	22.245	22.250	483	53.027	6.68	-0.845
HmWRKY26	Chr07	33.488	33.489	284	31.865	5.39	-0.923
HmWRKY27	Chr07	42.898	42.899	285	31.932	5.39	-0.916
HmWRKY28	Chr07	53.864	53.868	313	35.034	6.60	-0.811
HmWRKY29	Chr07	59.481	59.485	309	34.531	6.56	-0.795
HmWRKY30	Chr07	110.028	110.031	593	64.482	6.22	-0.644
HmWRKY31	Chr07	119.099	119.100	318	34.535	9.56	-0.667
HmWRKY32	Chr07	121.753	121.754	312	34.110	9.49	-0.720
HmWRKY33	Chr07	132.340	132.355	512	56.360	5.20	-0.828
HmWRKY34	Chr08	115.250	115.251	134	15.508	5.74	-0.723
HmWRKY35	Chr08	117.781	117.783	196	22.184	9.30	-0.854
HmWRKY36	Chr08	122.276	122.278	337	38.202	5.29	-0.734
HmWRKY37	Chr09	83.549	83.550	124	13.819	7.79	-0.737
HmWRKY38	Chr09	86.770	86.773	638	70.111	6.09	-0.852
HmWRKY39	Chr09	88.002	88.006	638	70.045	6.06	-0.851
HmWRKY40	Chr09	102.949	102.957	510	56.144	8.05	-0.652
HmWRKY41	Chr09	104.708	104.713	610	66.257	6.71	-0.736
HmWRKY42	Chr09	107.864	107.868	738	80.527	5.90	-0.783
HmWRKY43	Chr10	88.252	88.254	181	20.576	9.44	-0.824
HmWRKY44	Chr10	93.157	93.160	181	20.576	9.44	-0.824
HmWRKY45	Chr10	115.441	115.443	331	36.416	6.25	-0.674
HmWRKY46	Chr10	119.771	119.772	329	36.320	6.25	-0.697
HmWRKY47	Chr11	49.019	49.021	355	39.403	5.74	-0.762
HmWRKY48	Chr11	88.046	88.050	444	50.000	5.59	-0.905
HmWRKY49	Chr12	69.607	69.615	211	24.342	6.50	-0.399
HmWRKY50	Chr12	87.386	87.389	351	38.375	9.74	-0.621
HmWRKY51	Chr13	27.441	27.446	505	54.716	5.59	-0.565
HmWRKY52	Chr13	36.015	36.026	415	46.128	6.61	-0.962
HmWRKY53	Chr13	41.469	41.474	505	54.737	5.51	-0.584
HmWRKY54	Chr13	119.199	119.201	335	36.514	9.51	-0.637
HmWRKY55	Chr13	137.123	137.125	336	36.595	9.57	-0.627
HmWRKY56	Chr14	8.248	8.252	224	25.620	6.15	-0.926
HmWRKY57	Chr14	12.296	12.298	185	21.330	5.29	-1.147
HmWRKY58	Chr14	47.904	47.910	232	26.352	6.91	-0.625
HmWRKY59	Chr14	49.227	49.232	300	34.243	6.77	-0.785
HmWRKY60	Chr14	105.534	105.536	316	35.538	5.94	-0.566
HmWRKY61	Chr14	107.698	107.699	308	34.660	5.44	-0.658
HmWRKY62	Chr15	16.795	16.797	307	33.868	5.23	-0.740
HmWRKY63	Chr15	18.197	18.209	488	52.812	6.08	-0.716
HmWRKY64	Chr15	62.669	62.681	211	24.562	5.98	-0.951
HmWRKY65	Chr15	84.245	84.248	495	55.368	5.27	-0.806
HmWRKY66	Chr16	5.706	5.710	303	34.270	5.63	-0.713
HmWRKY67	Chr16	7.562	7.567	182	21.128	9.26	-0.911
HmWRKY68	Chr16	7.588	7.590	303	33.513	5.28	-0.825
HmWRKY69	Chr16	9.131	9.136	183	21.188	9.16	-0.931
HmWRKY70	Chr16	9.159	9.161	303	33.495	5.27	-0.828
HmWRKY71	Chr16	21.874	21.895	420	47.909	9.22	-0.660
HmWRKY72	Chr16	54.006	54.046	230	26.153	8.53	-1.081
HmWRKY73	Chr17	19.090	19.093	315	35.130	6.27	-0.885
HmWRKY74	Chr17	29.651	29.653	267	29.792	5.63	-0.688
HmWRKY75	Chr17	60.788	60.793	535	58.326	6.32	-0.651
HmWRKY76	Chr17	66.838	66.844	526	57.605	6.39	-0.657
HmWRKY77	Chr17	78.718	78.719	124	13.916	7.79	-0.675
HmWRKY78	Chr17	78.765	78.765	124	13.916	7.79	-0.675
HmWRKY79	Chr17	78.811	78.812	124	13.916	7.79	-0.675
HmWRKY80	Chr17	105.308	105.310	322	36.103	6.67	-0.847
HmWRKY81	Chr18	4.759	4.761	308	34.809	5.73	-0.732
HmWRKY82	Chr18	13.134	13.139	322	36.188	6.86	-0.683
HmWRKY83	Chr18	13.154	13.161	355	39.032	5.64	-0.728
HmWRKY84	Chr18	107.003	107.008	297	33.288	5.05	-0.740

基因名 Gene name	染色体 Chromosome	起始/Mb Start	终止/Mb End	编码氨基酸数 Number of amino acids	分子质量/ku Molecular weight	等电点 Isoelectric point	疏水系数 Hydrophobic coefficient
HmWRKY1	Chr01	13.683	13.695	732	80.782	6.11	-0.704
HmWRKY2	Chr01	79.282	79.287	364	40.177	8.78	-0.698
HmWRKY3	Chr01	95.448	95.452	565	62.043	8.34	-0.918
HmWRKY4	Chr01	115.941	115.943	256	29.060	5.04	-1.012
HmWRKY5	Chr01	116.506	116.507	283	31.296	6.25	-0.739
HmWRKY6	Chr02	83.419	83.429	507	55.480	6.82	-0.881
HmWRKY7	Chr02	86.751	86.767	1 046	113.474	6.25	-0.372
HmWRKY8	Chr02	111.319	111.323	466	51.692	9.01	-0.949
HmWRKY9	Chr02	114.086	114.089	112	12.937	9.59	-1.220
HmWRKY10	Chr02	120.571	120.573	604	66.932	7.69	-0.939
HmWRKY11	Chr03	89.989	89.990	348	37.964	9.57	-0.669
HmWRKY12	Chr03	91.032	91.033	348	38.032	9.57	-0.676
HmWRKY13	Chr04	12.983	13.000	525	57.528	8.15	-0.740
HmWRKY14	Chr04	22.807	22.815	239	27.579	8.99	-0.855
HmWRKY15	Chr04	92.267	92.269	281	31.524	8.37	-0.626
HmWRKY16	Chr04	110.396	110.404	543	59.178	7.10	-0.722
HmWRKY17	Chr05	1.284	1.286	428	46.985	6.70	-0.666
HmWRKY18	Chr05	1.539	1.540	253	29.168	5.02	-1.028
HmWRKY19	Chr05	83.729	83.735	332	36.473	9.52	-0.742
HmWRKY20	Chr05	101.262	101.264	158	18.187	9.43	-0.969
HmWRKY21	Chr06	0.794	0.797	224	25.434	6.55	-0.975
HmWRKY22	Chr06	8.941	8.946	468	51.251	6.45	-0.842
HmWRKY23	Chr06	9.292	9.295	306	33.568	5.70	-0.698
HmWRKY24	Chr06	56.424	56.428	292	32.865	8.42	-0.683
HmWRKY25	Chr07	22.245	22.250	483	53.027	6.68	-0.845
HmWRKY26	Chr07	33.488	33.489	284	31.865	5.39	-0.923
HmWRKY27	Chr07	42.898	42.899	285	31.932	5.39	-0.916
HmWRKY28	Chr07	53.864	53.868	313	35.034	6.60	-0.811
HmWRKY29	Chr07	59.481	59.485	309	34.531	6.56	-0.795
HmWRKY30	Chr07	110.028	110.031	593	64.482	6.22	-0.644
HmWRKY31	Chr07	119.099	119.100	318	34.535	9.56	-0.667
HmWRKY32	Chr07	121.753	121.754	312	34.110	9.49	-0.720
HmWRKY33	Chr07	132.340	132.355	512	56.360	5.20	-0.828
HmWRKY34	Chr08	115.250	115.251	134	15.508	5.74	-0.723
HmWRKY35	Chr08	117.781	117.783	196	22.184	9.30	-0.854
HmWRKY36	Chr08	122.276	122.278	337	38.202	5.29	-0.734
HmWRKY37	Chr09	83.549	83.550	124	13.819	7.79	-0.737
HmWRKY38	Chr09	86.770	86.773	638	70.111	6.09	-0.852
HmWRKY39	Chr09	88.002	88.006	638	70.045	6.06	-0.851
HmWRKY40	Chr09	102.949	102.957	510	56.144	8.05	-0.652
HmWRKY41	Chr09	104.708	104.713	610	66.257	6.71	-0.736
HmWRKY42	Chr09	107.864	107.868	738	80.527	5.90	-0.783
HmWRKY43	Chr10	88.252	88.254	181	20.576	9.44	-0.824
HmWRKY44	Chr10	93.157	93.160	181	20.576	9.44	-0.824
HmWRKY45	Chr10	115.441	115.443	331	36.416	6.25	-0.674
HmWRKY46	Chr10	119.771	119.772	329	36.320	6.25	-0.697
HmWRKY47	Chr11	49.019	49.021	355	39.403	5.74	-0.762
HmWRKY48	Chr11	88.046	88.050	444	50.000	5.59	-0.905
HmWRKY49	Chr12	69.607	69.615	211	24.342	6.50	-0.399
HmWRKY50	Chr12	87.386	87.389	351	38.375	9.74	-0.621
HmWRKY51	Chr13	27.441	27.446	505	54.716	5.59	-0.565
HmWRKY52	Chr13	36.015	36.026	415	46.128	6.61	-0.962
HmWRKY53	Chr13	41.469	41.474	505	54.737	5.51	-0.584
HmWRKY54	Chr13	119.199	119.201	335	36.514	9.51	-0.637
HmWRKY55	Chr13	137.123	137.125	336	36.595	9.57	-0.627
HmWRKY56	Chr14	8.248	8.252	224	25.620	6.15	-0.926
HmWRKY57	Chr14	12.296	12.298	185	21.330	5.29	-1.147
HmWRKY58	Chr14	47.904	47.910	232	26.352	6.91	-0.625
HmWRKY59	Chr14	49.227	49.232	300	34.243	6.77	-0.785
HmWRKY60	Chr14	105.534	105.536	316	35.538	5.94	-0.566
HmWRKY61	Chr14	107.698	107.699	308	34.660	5.44	-0.658
HmWRKY62	Chr15	16.795	16.797	307	33.868	5.23	-0.740
HmWRKY63	Chr15	18.197	18.209	488	52.812	6.08	-0.716
HmWRKY64	Chr15	62.669	62.681	211	24.562	5.98	-0.951
HmWRKY65	Chr15	84.245	84.248	495	55.368	5.27	-0.806
HmWRKY66	Chr16	5.706	5.710	303	34.270	5.63	-0.713
HmWRKY67	Chr16	7.562	7.567	182	21.128	9.26	-0.911
HmWRKY68	Chr16	7.588	7.590	303	33.513	5.28	-0.825
HmWRKY69	Chr16	9.131	9.136	183	21.188	9.16	-0.931
HmWRKY70	Chr16	9.159	9.161	303	33.495	5.27	-0.828
HmWRKY71	Chr16	21.874	21.895	420	47.909	9.22	-0.660
HmWRKY72	Chr16	54.006	54.046	230	26.153	8.53	-1.081
HmWRKY73	Chr17	19.090	19.093	315	35.130	6.27	-0.885
HmWRKY74	Chr17	29.651	29.653	267	29.792	5.63	-0.688
HmWRKY75	Chr17	60.788	60.793	535	58.326	6.32	-0.651
HmWRKY76	Chr17	66.838	66.844	526	57.605	6.39	-0.657
HmWRKY77	Chr17	78.718	78.719	124	13.916	7.79	-0.675
HmWRKY78	Chr17	78.765	78.765	124	13.916	7.79	-0.675
HmWRKY79	Chr17	78.811	78.812	124	13.916	7.79	-0.675
HmWRKY80	Chr17	105.308	105.310	322	36.103	6.67	-0.847
HmWRKY81	Chr18	4.759	4.761	308	34.809	5.73	-0.732
HmWRKY82	Chr18	13.134	13.139	322	36.188	6.86	-0.683
HmWRKY83	Chr18	13.154	13.161	355	39.032	5.64	-0.728
HmWRKY84	Chr18	107.003	107.008	297	33.288	5.05	-0.740

基因1 Gene 1	基因2 Gene 2	非同义突变 (Ka) Non synonymous mutation(Ka)	同义突变 (Ks) Synonymous mutation(Ks)	Ka/Ks	有效长度/bp Effective length	平均同义突变位点 Average S-sites	平均非同义突变位点 Average N-sites
HmWRKY3	HmWRKY10	0.272 1	1.742 1	0.156 2	1 599	372.75	1 226.25
HmWRKY31	HmWRKY32	0.008 5	0.051 1	0.165 4	936	222.50	713.50
HmWRKY38	HmWRKY39	0.004 1	0.009 3	0.437 1	1 914	433.08	1 480.92
HmWRKY38	HmWRKY53	0.200 0	0.837 7	0.238 7	1 512	348.33	1 163.67
HmWRKY38	HmWRKY51	0.205 9	0.832 2	0.247 4	1 512	349.42	1 162.58
HmWRKY55	HmWRKY54	0.005 2	0.012 6	0.416 6	1 005	240.17	764.83
HmWRKY65	HmWRKY48	0.164 8	0.657 9	0.250 5	1 284	269.00	1 015.00
HmWRKY75	HmWRKY76	0.025 9	0.073 6	0.351 8	1 575	356.67	1 218.33

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