小麦G2-like转录因子家族基因鉴定与表达模式分析

doi:10.3724/SP.J.1006.2023.21036

作物学报 ›› 2023, Vol. 49 ›› Issue (5): 1410-1425.doi: 10.3724/SP.J.1006.2023.21036

小麦G2-like转录因子家族基因鉴定与表达模式分析

贾玉库(), 高宏欢(), 冯健超, 郝紫瑞, 王晨阳, 谢迎新, 郭天财, 马冬云()

河南农业大学农学院/国家小麦工程技术研究中心/河南省小麦技术创新中心, 河南郑州 450046

收稿日期:2022-05-13 接受日期:2022-07-22 出版日期:2023-05-12 网络出版日期:2022-08-18
通讯作者: *马冬云, E-mail: xmzxmdy@126.com
作者简介:贾玉库, E-mail: 13633969649@163.com;
高宏欢, E-mail: 2972620298@qq.com第一联系人：^**同等贡献
基金资助:
国家科技支撑计划项目(2015BAD26B00);河南省科技攻关项目(212102110281)

Genome-wide identification and expression analysis of G2-like transcription factors family genes in wheat

JIA Yu-Ku(), GAO Hong-Huan(), FENG Jian-Chao, HAO Zi-Rui, WANG Chen-Yang, XIE Ying-Xin, GUO Tian-Cai, MA Dong-Yun()

College of Agronomy, Henan Agricultural University/National Engineering Research Center for Wheat/Technology Innovation Center of Henan Wheat, Zhengzhou 450046, Henan, China

Received:2022-05-13 Accepted:2022-07-22 Published:2023-05-12 Published online:2022-08-18
Contact: *E-mail: xmzxmdy@126.com
About author:First author contact:^**Contributed equally to this work
Supported by:
National Science and Technology Support Program of China(2015BAD26B00);Science and Technology Project of Henan Province(212102110281)

摘要/Abstract

摘要：

Golden2-Like (G2-like)转录因子, 是属于MYB类转录因子中GARP超家族的成员, 在调节叶绿体发育中起重要作用。本研究利用生物信息学方法对小麦G2-like基因进行了全基因组鉴定, 并对其理化性质、亚细胞定位、启动子顺式作用元件及对非生物胁迫和激素的响应模式进行了分析。从小麦中共鉴定出87个G2-like基因, 不均匀的分布在小麦21条染色体上, 系统发育分析将这些基因分为14个亚族。蛋白质二级结构预测表明, 小麦G2-like基因的氨基酸序列均以α螺旋和随机卷曲为主要结构。启动子顺式作用元件分析表明其上游2 kb区域含有7种(P-box、SpI、LTR、ABRE、MBS、TGA-element和AE-box)与逆境胁迫诱导相关顺式作用元件。其中Ta3AG2-like19含有顺式调控元件结合位点最多, 一共有18个结合位点。qRT-PCR验证发现, Ta3AG2-like19、Ta3AG2-like20、Ta4AG2-like29和Ta6AG2-like52在PEG和盐胁迫下以及GA、IAA和ABA激素诱导下表达量显著上调, 这些基因可能介导了小麦对多种非生物逆境的响应。

关键词: 小麦, G2-like转录因子, 生物信息学, 逆境胁迫, 表达分析

Abstract:

Golden2-like (G2-like) transcription factor, a member of the GARP superfamily of MYB transcription factors, plays an important role in regulating chloroplast development. In this study, genome-wide identification of G2-like genes in wheat was carried out by bioinformatics methods, and their physicochemical properties, subcellular localization, cis-acting elements of promoters, and response patterns to abiotic stresses and hormones were analyzed. A total of 87 G2-like genes were identified from wheat, which distributed in evenly on 21 chromosomes in wheat. Phylogenetic analysis showed that these genes were divided into 14 subfamilies, and fragment replication was the main reason for the expansion of this gene family. The prediction of protein secondary structure revealed that α helix and random curl were the main amino acid sequences of G2-like gene in wheat. Promoter cis-acting elements showed that there were seven cis-acting elements (P-box, SpI, LTR, ABRE, MBS, TGA-Element, and AE-box) in 2-kb region upstream of the promoter. Among them, Ta3AG2-Like19 contained the most cis-regulatory element binding sites with a total of 18 binding sites. The qRT-PCR revealed. that the relative expression levels of Ta3AG2-like19, Ta3AG2-Like20, Ta4AG2-Like29, and Ta6AG2-Like52 were significantly up-regulated under PEG and salt stresses, and induced by GA, IAA, and ABA hormones. These genes may mediate the response of wheat plant to various abiotic stresses.

Key words: wheat, G2-like transcription factors, bioinformatics, adversity stress, the relative expression level

贾玉库, 高宏欢, 冯健超, 郝紫瑞, 王晨阳, 谢迎新, 郭天财, 马冬云. 小麦G2-like转录因子家族基因鉴定与表达模式分析[J]. 作物学报, 2023, 49(5): 1410-1425.

JIA Yu-Ku, GAO Hong-Huan, FENG Jian-Chao, HAO Zi-Rui, WANG Chen-Yang, XIE Ying-Xin, GUO Tian-Cai, MA Dong-Yun. Genome-wide identification and expression analysis of G2-like transcription factors family genes in wheat[J]. Acta Agronomica Sinica, 2023, 49(5): 1410-1425.

图/表 10

表1

表2

小麦G2-like转录因子家族成员基本信息"

基因名 Gene name	登录号 Accession number	氨基酸长度 Length of amino acids	分子量 Molecular weight (kD)	等电点 Isoelectric point	不稳定系数 Instability coefficient	疏水性指数 Hydrophobicity index	α螺旋 α-helix (%)	延伸链 Extending chain (%)	β折叠 β-folding (%)	无规则卷曲 Random crimp (%)	亚细胞定位 Subcellular localization
Ta1AG2-like1	TraesCS1A02G202500.1	353	38.40	8.82	41.82	0.724	28.33	9.07	10.20	52.41	N
Ta1AG2-like2	TraesCS1A02G258400.1	312	31.91	6.59	53.71	0.459	27.56	5.77	6.41	60.26	N
Ta1AG2-like3	TraesCS1A02G305500.2	407	45.60	6.35	39.59	0.776	37.59	9.09	2.46	50.86	N
Ta1BG2-like4	TraesCS1B02G216600.1	352	38.35	8.73	45.09	0.693	23.86	10.23	7.95	57.95	N
Ta1BG2-like5	TraesCS1B02G268900.1	308	31.59	6.59	52.98	0.447	27.27	7.79	7.79	57.14	N
Ta1BG2-like6	TraesCS1B02G316200.2	407	45.83	6.58	39.24	0.755	34.89	8.11	5.16	51.84	N
Ta1DG2-like7	TraesCS1D02G205800.1	352	38.33	8.78	45.10	0.749	26.14	9.66	8.81	55.40	N
Ta1DG2-like8	TraesCS1D02G257700.1	309	31.51	6.57	53.38	0.441	27.18	7.12	7.44	58.25	N
Ta1DG2-like9	TraesCS1D02G305200.2	407	45.62	6.47	39.89	0.761	33.66	9.09	3.19	54.05	N
Ta2AG2-like10	TraesCS2A02G100600.1	355	38.90	7.70	58.76	0.686	42.82	12.11	5.63	39.44	N
Ta2AG2-like11	TraesCS2A02G441300.1	279	30.63	6.19	35.67	0.589	45.88	9.68	4.30	40.14	M
Ta2AG2-like12	TraesCS2A02G488200.1	452	49.66	6.11	67.78	0.637	29.20	11.28	3.10	56.42	N
Ta2BG2-like13	TraesCS2B02G117800.1	357	39.07	7.26	57.22	0.681	42.02	10.36	3.92	43.70	N
Ta2BG2-like14	TraesCS2B02G515800.1	455	49.59	6.25	67.20	0.559	29.67	11.43	3.96	54.95	N
Ta2DG2-like15	TraesCS2D02G100100.1	357	38.95	7.71	58.72	0.644	49.30	9.24	3.92	37.54	N
Ta2DG2-like16	TraesCS2D02G488500.1	452	49.56	6.10	69.81	0.610	30.31	12.39	3.98	53.32	N
Ta3AG2-like17	TraesCS3A02G105500.2	430	46.95	5.11	54.42	0.578	29.77	6.05	3.02	61.16	P
Ta3AG2-like18	TraesCS3A02G161000.1	509	54.84	5.69	58.88	0.501	25.34	5.70	2.75	66.21	N
Ta3AG2-like19	TraesCS3A02G361800.1	225	24.23	5.85	62.38	0.568	26.67	7.11	6.22	60.00	N
Ta3AG2-like20	TraesCS3A02G526600.1	285	29.70	7.37	46.77	0.540	29.82	10.18	8.77	51.23	N
Ta3BG2-like21	TraesCS3B02G124100.1	432	46.98	5.12	57.01	0.579	26.85	3.70	3.24	66.20	P
Ta3BG2-like22	TraesCS3B02G191600.1	503	54.28	5.79	56.66	0.490	27.83	5.17	2.19	64.81	N
Ta3BG2-like23	TraesCS3B02G394200.1	225	24.31	5.84	59.07	0.566	29.33	5.33	5.78	59.56	N
Ta3BG2-like24	TraesCS3B02G594300.1	287	29.91	6.81	50.21	0.506	25.09	11.50	8.01	55.40	N
Ta3DG2-like25	TraesCS3D02G107800.1	432	47.11	5.07	53.12	0.618	30.09	6.25	3.01	60.65	P
Ta3DG2-like26	TraesCS3D02G168200.1	377	40.53	4.84	55.49	0.415	33.16	10.34	4.77	51.72	N
Ta3DG2-like27	TraesCS3D02G355500.1	227	24.43	5.84	61.74	0.541	25.55	6.17	4.85	63.44	N
Ta3DG2-like28	TraesCS3D02G531900.1	281	29.27	6.83	43.21	0.514	32.03	9.25	7.47	51.25	N
Ta4AG2-like29	TraesCS4A02G130000.1	354	39.68	8.28	57.73	0.711	36.44	8.47	3.39	51.69	N
Ta4AG2-like30	TraesCS4A02G131700.1	486	53.39	6.26	60.73	0.773	30.25	4.94	2.88	61.93	P
Ta4AG2-like31	TraesCS4A02G180900.1	341	37.76	7.02	48.84	0.709	27.86	13.49	4.99	53.67	N
Ta4BG2-like32	TraesCS4B02G172900.1	437	48.08	5.99	62.97	0.806	27.69	5.26	2.06	64.99	P
Ta4BG2-like33	TraesCS4B02G174600.1	355	39.82	7.06	58.02	0.701	39.44	9.30	3.38	47.89	N
Ta4DG2-like34	TraesCS4D02G071300.2	224	24.03	9.33	45.49	0.559	35.71	10.71	3.12	50.45	N
Ta4DG2-like35	TraesCS4D02G131500.1	341	37.91	8.54	44.89	0.728	29.62	15.25	5.28	49.85	N
Ta4DG2-like36	TraesCS4D02G175000.1	451	49.30	5.89	60.76	0.792	28.82	4.43	1.55	65.19	P
Ta4DG2-like37	TraesCS4D02G176500.1	354	39.73	8.57	57.50	0.703	41.81	7.06	3.67	47.46	N
Ta5AG2-like38	TraesCS5A02G153000.1	326	35.77	7.32	53.69	0.678	33.13	13.50	6.75	46.63	N
Ta5AG2-like39	TraesCS5A02G178500.1	255	27.69	8.71	53.52	0.500	40.00	11.76	4.71	43.53	N
Ta5AG2-like40	TraesCS5A02G178600.1	286	30.98	5.76	53.63	0.836	33.22	6.29	4.90	55.59	P
Ta5BG2-like41	TraesCS5B02G151800.1	337	37.06	7.35	46.54	0.677	31.45	12.46	5.93	50.15	N
Ta5BG2-like42	TraesCS5B02G176200.1	255	27.72	8.71	53.85	0.510	40.39	10.59	5.10	43.92	N
Ta5BG2-like43	TraesCS5B02G176300.1	286	31.02	5.75	54.74	0.856	29.72	4.55	3.15	62.59	P
Ta5DG2-like44	TraesCS5D02G158300.1	324	35.73	8.68	55.56	0.710	33.95	12.96	5.86	47.22	N
Ta5DG2-like45	TraesCS5D02G183000.1	255	27.73	8.71	53.52	0.509	36.47	10.59	4.31	48.63	N
Ta5DG2-like46	TraesCS5D02G183100.1	286	31.02	5.75	53.39	0.853	31.82	5.59	2.45	60.14	P
Ta6AG2-like47	TraesCS6A02G108800.1	415	45.89	6.18	61.00	0.640	28.19	8.67	2.65	60.48	N
Ta6AG2-like48	TraesCS6A02G109700.1	477	52.25	8.92	51.15	0.699	28.51	11.11	5.24	55.14	N
Ta6AG2-like49	TraesCS6A02G155400.1	362	39.28	8.30	45.73	0.540	39.23	11.33	5.25	44.20	N
Ta6AG2-like50	TraesCS6A02G254700.1	303	33.19	9.44	63.28	0.558	39.93	6.60	6.93	46.53	N
Ta6AG2-like51	TraesCS6A02G269000.1	276	30.36	8.92	29.87	0.561	45.65	10.51	5.07	38.77	N
Ta6AG2-like52	TraesCS6A02G385500.1	406	45.10	5.98	46.92	0.645	30.54	9.36	2.96	57.14	N
Ta6BG2-like53	TraesCS6B02G137300.1	409	45.35	7.23	57.66	0.652	33.25	6.85	1.96	57.95	N
Ta6BG2-like54	TraesCS6B02G138200.1	528	58.32	7.88	54.92	0.705	31.25	8.71	4.36	55.68	N
Ta6BG2-like55	TraesCS6B02G183500.1	362	39.29	7.78	48.07	0.536	41.44	9.39	4.42	44.75	N
Ta6BG2-like56	TraesCS6B02G270800.1	318	34.61	9.27	53.80	0.524	38.68	6.92	4.09	50.31	M
Ta6BG2-like57	TraesCS6B02G296300.1	280	30.91	8.72	28.89	0.585	46.07	11.43	4.64	37.86	N
Ta6BG2-like58	TraesCS6B02G394700.1	534	58.47	5.51	41.81	0.376	33.71	9.55	6.18	50.56	C
Ta6BG2-like59	TraesCS6B02G424600.1	431	48.08	6.09	39.85	0.637	32.02	9.51	2.09	56.38	N
Ta6DG2-like60	TraesCS6D02G097000.1	386	42.63	6.28	52.91	0.682	31.35	8.81	1.30	58.55	N
Ta6DG2-like61	TraesCS6D02G098200.1	475	51.73	8.92	50.50	0.648	36.42	9.26	4.63	49.68	N
Ta6DG2-like62	TraesCS6D02G145300.1	363	39.35	8.30	48.93	0.528	36.09	10.74	3.86	49.31	N
Ta6DG2-like63	TraesCS6D02G236000.1	304	33.43	9.65	59.00	0.578	40.79	7.89	3.29	48.03	N
Ta6DG2-like64	TraesCS6D02G245900.1	277	30.36	8.72	28.00	0.542	47.65	10.11	3.97	38.27	N
Ta6DG2-like65	TraesCS6D02G370300.1	407	45.39	5.90	40.98	0.635	32.92	6.63	2.70	57.74	N
Ta7AG2-like66	TraesCS7A02G339800.1	461	49.17	5.30	65.82	0.319	31.45	8.46	3.25	56.83	N
Ta7AG2-like67	TraesCS7A02G345200.1	512	55.89	9.36	52.35	0.785	33.40	6.84	5.47	54.30	N
Ta7AG2-like68	TraesCS7A02G381900.1	339	36.57	5.69	46.54	0.594	28.91	7.96	5.01	58.11	N
Ta7AG2-like69	TraesCS7A02G415800.1	454	49.57	5.71	65.91	0.706	28.63	7.93	1.32	62.11	N
Ta7AG2-like70	TraesCS7A02G469900.1	249	27.44	6.76	61.15	0.816	31.73	11.65	6.02	50.60	N
Ta7AG2-like71	TraesCS7A02G470100.1	252	27.84	7.09	71.64	0.840	28.57	11.11	6.75	53.57	M
Ta7AG2-like72	TraesCS7A02G470200.1	246	27.56	8.39	71.73	0.725	30.89	10.57	5.28	53.25	N
Ta7AG2-like73	TraesCS7A02G483100.1	348	37.47	6.83	53.15	0.457	39.66	7.18	3.16	50.00	N
Ta7BG2-like74	TraesCS7B02G251400.1	459	49.29	5.24	64.16	0.381	33.99	7.19	2.61	56.21	N
Ta7BG2-like75	TraesCS7B02G315800.1	454	49.53	5.71	67.55	0.719	29.07	7.05	1.54	62.33	N
Ta7BG2-like76	TraesCS7B02G372000.1	250	27.76	7.77	64.83	0.853	28.80	10.40	6.00	54.80	N
Ta7BG2-like77	TraesCS7B02G372100.1	240	27.00	9.12	64.75	0.945	25.00	13.33	7.50	54.17	N
Ta7BG2-like78	TraesCS7B02G372200.1	245	27.17	7.75	72.37	0.736	33.06	6.53	5.71	54.69	N
Ta7BG2-like79	TraesCS7B02G385700.1	348	37.41	7.17	53.37	0.449	39.08	7.18	3.74	50.00	N
Ta7DG2-like80	TraesCS7D02G334100.1	517	55.27	8.40	46.25	0.750	33.27	7.54	4.84	54.35	N
Ta7DG2-like81	TraesCS7D02G347500.1	458	48.96	5.51	65.44	0.369	29.69	6.33	2.84	61.14	N
Ta7DG2-like82	TraesCS7D02G409100.1	454	49.40	5.78	64.55	0.667	28.63	7.27	1.32	62.78	N
Ta7DG2-like83	TraesCS7D02G457300.1	250	27.67	8.33	64.87	0.858	27.20	8.80	6.00	58.00	N
Ta7DG2-like84	TraesCS7D02G457400.1	251	27.67	7.16	73.87	0.881	28.29	7.17	6.77	57.77	N
Ta7DG2-like85	TraesCS7D02G457500.1	246	27.74	9.21	67.18	0.798	32.93	9.35	6.91	50.81	N
Ta7DG2-like86	TraesCS7D02G457600.1	247	27.27	6.50	72.08	0.678	35.22	8.50	4.86	51.42	N
Ta7DG2-like87	TraesCS7D02G470000.1	348	37.40	7.17	52.82	0.449	41.38	6.90	4.89	46.84	N

表2

图1

图2

图3

图4

图5

图6

图7

图8

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基因ID Gene ID	上游引物Forward primer (5°−3°)	下游引物Reverse primer (5°−3°)
TraesCS1D02G305200.2	GACACCCGAGTTACATCAGCG	CCTATGGTGTTCTTGTTTGTCCC
TraesCS2A02G441300.1	CGGGCTTGTCGGAGAATGGAAC	TCCTGACTTCGTACACGGTAGAGC
TraesCS3A02G361800.1	GAAGTACCGCCTCTACCTCAAG	CTGGTAGGAAACGTACGGATAC
TraesCS3A02G526600.1	GGCAACCGGGACAACAACTCT	CCCTGCATCCGCTTGACGT
TraesCS4A02G130000.1	TTCCAGGAGAGTCAGGGCTTA	CCTCATAATGGTTTTTGGGGT
TraesCS4B02G172900.1	AATCCAATACGGAGAAGGTGC	CAAGGGGCTCAGAAGACTCG
TraesCS4B02G174600.1	AGCGACGGCTACATGAACAACTG	GTGTCTCGTGTGCCTTCTCCAAC
TraesCS4D02G175000.1	CGGTCCTGCTGTGACATCTGATG	TGTGACGCAGCCGAATTGGAAG
TraesCS4D02G176500.1	GCCAGTCAGCCACCACCTTAATAC	TGCACCTCCAGTTGTTCATGTAGC
TraesCS5A02G178500.1	TAAGGACAATGGGTGTAAAGGG	TGAGCATCAAGAAGATAGGACC
TraesCS5D02G183000.1	AGATGGGTCCTACCTTCTTGATGC	AGGCGAACTGCTCTGAGACGAT
TraesCS6A02G109700.1	GAACACCAATAGCCGCCTCTACG	ACGCCCAGTCTTGATTCCTGAAAC
TraesCS6A02G385500.1	GCAAGTACCTGGAGATGGTGATCG	GACTGCGTGTTTGAATGCTGGAAC
TraesCS7B02G315800.1	TCCATTGTCTCATGTCTCGCA	AGGCAGAGCACCCATTCGC
TraesCS7D02G334100.1	AACGGCAACACTGGCAGAAC	TCTTCGTCTTCCTCGCCTCTGC

小麦G2-like转录因子家族基因鉴定与表达模式分析

Genome-wide identification and expression analysis of G2-like transcription factors family genes in wheat

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