Identification and analysis of HP gene family in wheat

doi:10.3969/j.issn.1004-1524.20221279

Acta Agriculturae Zhejiangensis ›› 2023, Vol. 35 ›› Issue (9): 2023-2032.DOI: 10.3969/j.issn.1004-1524.20221279

• Crop Science • Previous Articles Next Articles

Identification and analysis of HP gene family in wheat

LOU Yuangen¹(), LI Chuang², LI Jingjing¹, XING Guozhen², LU Yanan², ZHENG Wenming²^,^*()

1. Henan Vocational College of Nursing, Anyang 455000, Henan, China
2. College of Life Sciences/State Key Laboratory of Wheat and Maize Crop Science, Henan Agricultural University, Zhengzhou 450002, China

Received:2022-08-31 Online:2023-09-25 Published:2023-10-09
Contact: ZHENG Wenming

Abstract

Abstract:

HP (histidine phosphotransfer proteins) plays an important role in regulating growth and development and responding to stress in plants. In order to understand the evolution and function of HP genes in wheat genome, this study identified the HP gene family for Triticum aestivum by the bioinformatics method, and analyzed the physicochemical properties, evolutionary characteristics, gene structure, cis-acting elements, and expression patterns under stress. The results showed that 31 HP genes were identified. The length of amid acids of HP proteins ranged from 116 to 200. Comparison with HP proteins of other plants and analysis of protein structure, gene structure and motif showed that sequences of HP gene family were conserved in wheat. Analysis of cis-acting elements revealed that the promoter regions of HP genes contained regulatory elements involved in abiotic stress, such as light, phytohormone, drought and low temperature. Heatmap analysis showed that HP genes significantly differed in the expression levels under abiotic stress. qRT-PCR analysis indicated that TaHP5-6B was strongly induced under low phosphorus stress. In conclusion, HP family genes identified at the genome-wide level are important gene resources associated with abiotic stress response in wheat.

Key words: wheat, histidine phosphotransfer protein, conserved sequence, HP gene family, low phosphorus stress

CLC Number:

S512.1

LOU Yuangen, LI Chuang, LI Jingjing, XING Guozhen, LU Yanan, ZHENG Wenming. Identification and analysis of HP gene family in wheat[J]. Acta Agriculturae Zhejiangensis, 2023, 35(9): 2023-2032.

Figures/Tables 7

References 36

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基因名称	正向引物	反向引物
Gene name	Forward primer(5'→3')	Reverse primer(5'→3')
TaHP1-4B;1	CGGAACTTGCTTGTACCGTG	CGTTCAAGAGACCCCCAACA
TaHP1-4A;1	GCGAGTATATAGCGGGTCGG	CCATGTTCAGGGGCTCCGAT
TaHP1-4D;2	CTCCGGGTTGAAACCCATCA	ACCTTGCTTGGTGCCTCTTT
TaHP2-6D;2	CTTGATGGCTGCGCATCTTTGT	GGCTGGTTCAACATTGGGGC
TaHP4-4D	CTGGAAGGTGTGTCCATGGTT	AGAGAGGTAGCTGGTCCCTT
TaHP5-4A	AGGAGAAGAGCAGAGATGGGT	GATTAAGGCTTGGACTCGCT
Ta26S	GAAGAAGGTCCCAAGGGTTC	TCTCCCTTTAACACCAACGG

基因名称	正向引物	反向引物
Gene name	Forward primer(5'→3')	Reverse primer(5'→3')
TaHP1-4B;1	CGGAACTTGCTTGTACCGTG	CGTTCAAGAGACCCCCAACA
TaHP1-4A;1	GCGAGTATATAGCGGGTCGG	CCATGTTCAGGGGCTCCGAT
TaHP1-4D;2	CTCCGGGTTGAAACCCATCA	ACCTTGCTTGGTGCCTCTTT
TaHP2-6D;2	CTTGATGGCTGCGCATCTTTGT	GGCTGGTTCAACATTGGGGC
TaHP4-4D	CTGGAAGGTGTGTCCATGGTT	AGAGAGGTAGCTGGTCCCTT
TaHP5-4A	AGGAGAAGAGCAGAGATGGGT	GATTAAGGCTTGGACTCGCT
Ta26S	GAAGAAGGTCCCAAGGGTTC	TCTCCCTTTAACACCAACGG

基因名称	基因ID	染色体位置	氨基酸含量	分子量	等电点	亚细胞定位
Gene name	Gene ID	Chromosome position	Number of amino acids	Molecular mass	pI	Subcellular location
TaHP4-1A	TraesCS1A03G0301300.1	Chr1A:139 488 938~139 490 861	161	18.26	5.14	细胞核Nucleus
TaHP4-1B	TraesCS1B03G0386500.1	Chr1B:195 339 334~195 341 635	151	17.71	8.99	细胞核Nucleus
TaHP1-1B;1	TraesCS1B03G0149500LC.1	Chr1B:51 508 176~51 511 907	126	14.60	5.27	细胞核Nucleus
TaHP1-1B;2	TraesCS1B03G0149800.1	Chr1B:51 797 244~51 800 921	143	15.92	5.25	细胞外,细胞质
						Extracellular, cytoplasm
TaHP4-4D	TraesCS1D03G0292800.1	Chr1D:127 880 013~127 882 294	161	18.29	5.26	细胞核Nucleus
TaHP4-3A	TraesCS3A03G0696000.1	Chr3A:516 395 786~516 397 748	151	17.30	8.37	细胞核Nucleus
TaHP4-3B	TraesCS3B03G0793900.1	Chr3B:510 793 612~510 799 305	151	17.27	8.37	细胞核Nucleus
TaHP4-3D	TraesCS3D03G0637200.1	Chr3D:383 120 723~383 126 233	151	17.30	8.37	细胞核Nucleus
TaHP5-4A	TraesCS4A03G0040600.1	Chr4A:15 943 315~15 946 508	147	16.20	6.81	细胞外、细胞核
						Extracellular, Nucleus
TaHP1-4A;1	TraesCS4A03G0762900.1	Chr4A:598 187 231~598 190 702	147	16.19	4.99	细胞外,细胞质
						Extracellular, cytoplasm
TaHP1-4A;2	TraesCS4A03G0763300.1	Chr4A:598 397 078~598 399 836	200	21.71	5.91	细胞外、细胞核
						Extracellular, Nucleus
TaHP1-4A;3	TraesCS4A03G0763600.1	Chr4A:598 445 049~598 447 922	197	21.38	5.90	细胞外、细胞核
						Extracellular, Nucleus
TaHP1-4B;3	TraesCS4B03G0744200.1	Chr4B:563 210 073~563 212 796	147	16.22	6.07	叶绿体,细胞核
						Chloroplast, Nucleus
TaHP1-4B;1	TraesCS4B03G0021100.1	Chr4B:8 349 077~8 352 483	147	16.13	4.98	细胞外Extracellular
TaHP5-4B	TraesCS4B03G0022400.1	Chr4B:8 928 149~8 930 990	188	21.00	8.55	细胞外,线粒体,
						细胞核Nucleus
TaHP1-4B;2	TraesCS4B03G0022600.1	Chr4B:8 969 015~8 972 206	143	15.88	5.46	细胞外、细胞质
						Extracellular, cytoplasm
TaHP1-4D;1	TraesCS4D03G0015000.1	Chr4D:4 383 334~4 385 938	148	16.23	5.03	细胞外Extracellular
TaHP1-4D;2	TraesCS4D03G0015300.1	Chr4D:4 459 320~4 462 959	148	16.23	5.11	细胞外Extracellular
TaHP1-4D;5	TraesCS4D03G0663400.1	Chr4D:450 877 753~450 880 632	147	16.18	6.07	细胞外、叶绿体、细胞核
						Extracellular, chloroplast, nucleus
TaHP1-4D;3	TraesCS4D03G0016500.1	Chr4D:4 750 051~4 759 673	143	16.10	5.09	细胞质Cytoplasm
TaHP1-4D;4	TraesCS4D03G0016600.1	Chr4D:4 770 250~4 773 081	157	17.14	5.26	细胞外Extracellular
TaHP1-6B	TraesCS6B03G0056700LC.1	Chr6B:18 219 103~18 222 259	116	13.04	5.76	细胞外、细胞核
						Extracellular, Nucleus
TaHP5-6B	TraesCS6B03G0062000.1	Chr6B:19 461 239~19 464 989	148	16.27	5.07	细胞外Extracellular
TaHP2-6D;2	TraesCS6D03G0142300.1	Chr6D:43 880 491~43 885 697	172	18.67	6.27	细胞外Extracellular
TaHP5-6D;1	TraesCS6D03G0044300.1	Chr6D:9 463 496~9 468 488	142	15.83	5.07	细胞外Extracellular
TaHP5-6D;2	TraesCS6D03G0044500.1	Chr6D:9 480 515~9 484 022	146	15.95	5.07	细胞外Extracellular
TaHP2-6D;1	TraesCS6D03G0046300.1	Chr6D:9 866 922~9 869 326	132	14.80	5.22	细胞外Extracellular
TaHP1-U;1	TraesCSU03G0055300.1	ChrUn:30 655 396~30 658 275	143	16.16	5.32	细胞质Cytoplasm
TaHP1-U;2	TraesCSU03G0055400.1	ChrUn:30 680 718~30 683 643	143	16.16	5.32	细胞质Cytoplasm
TaHP2-U;1	TraesCSU03G0055200.1	ChrUn:30 644 548~30 647 198	143	15.79	5.66	细胞外Extracellular
TaHP2-U;2	TraesCSU03G0055500.1	ChrUn:30 691 793~30 699 402	122	13.34	6.17	细胞外Extracellular

基因名称	基因ID	染色体位置	氨基酸含量	分子量	等电点	亚细胞定位
Gene name	Gene ID	Chromosome position	Number of amino acids	Molecular mass	pI	Subcellular location
TaHP4-1A	TraesCS1A03G0301300.1	Chr1A:139 488 938~139 490 861	161	18.26	5.14	细胞核Nucleus
TaHP4-1B	TraesCS1B03G0386500.1	Chr1B:195 339 334~195 341 635	151	17.71	8.99	细胞核Nucleus
TaHP1-1B;1	TraesCS1B03G0149500LC.1	Chr1B:51 508 176~51 511 907	126	14.60	5.27	细胞核Nucleus
TaHP1-1B;2	TraesCS1B03G0149800.1	Chr1B:51 797 244~51 800 921	143	15.92	5.25	细胞外,细胞质
						Extracellular, cytoplasm
TaHP4-4D	TraesCS1D03G0292800.1	Chr1D:127 880 013~127 882 294	161	18.29	5.26	细胞核Nucleus
TaHP4-3A	TraesCS3A03G0696000.1	Chr3A:516 395 786~516 397 748	151	17.30	8.37	细胞核Nucleus
TaHP4-3B	TraesCS3B03G0793900.1	Chr3B:510 793 612~510 799 305	151	17.27	8.37	细胞核Nucleus
TaHP4-3D	TraesCS3D03G0637200.1	Chr3D:383 120 723~383 126 233	151	17.30	8.37	细胞核Nucleus
TaHP5-4A	TraesCS4A03G0040600.1	Chr4A:15 943 315~15 946 508	147	16.20	6.81	细胞外、细胞核
						Extracellular, Nucleus
TaHP1-4A;1	TraesCS4A03G0762900.1	Chr4A:598 187 231~598 190 702	147	16.19	4.99	细胞外,细胞质
						Extracellular, cytoplasm
TaHP1-4A;2	TraesCS4A03G0763300.1	Chr4A:598 397 078~598 399 836	200	21.71	5.91	细胞外、细胞核
						Extracellular, Nucleus
TaHP1-4A;3	TraesCS4A03G0763600.1	Chr4A:598 445 049~598 447 922	197	21.38	5.90	细胞外、细胞核
						Extracellular, Nucleus
TaHP1-4B;3	TraesCS4B03G0744200.1	Chr4B:563 210 073~563 212 796	147	16.22	6.07	叶绿体,细胞核
						Chloroplast, Nucleus
TaHP1-4B;1	TraesCS4B03G0021100.1	Chr4B:8 349 077~8 352 483	147	16.13	4.98	细胞外Extracellular
TaHP5-4B	TraesCS4B03G0022400.1	Chr4B:8 928 149~8 930 990	188	21.00	8.55	细胞外,线粒体,
						细胞核Nucleus
TaHP1-4B;2	TraesCS4B03G0022600.1	Chr4B:8 969 015~8 972 206	143	15.88	5.46	细胞外、细胞质
						Extracellular, cytoplasm
TaHP1-4D;1	TraesCS4D03G0015000.1	Chr4D:4 383 334~4 385 938	148	16.23	5.03	细胞外Extracellular
TaHP1-4D;2	TraesCS4D03G0015300.1	Chr4D:4 459 320~4 462 959	148	16.23	5.11	细胞外Extracellular
TaHP1-4D;5	TraesCS4D03G0663400.1	Chr4D:450 877 753~450 880 632	147	16.18	6.07	细胞外、叶绿体、细胞核
						Extracellular, chloroplast, nucleus
TaHP1-4D;3	TraesCS4D03G0016500.1	Chr4D:4 750 051~4 759 673	143	16.10	5.09	细胞质Cytoplasm
TaHP1-4D;4	TraesCS4D03G0016600.1	Chr4D:4 770 250~4 773 081	157	17.14	5.26	细胞外Extracellular
TaHP1-6B	TraesCS6B03G0056700LC.1	Chr6B:18 219 103~18 222 259	116	13.04	5.76	细胞外、细胞核
						Extracellular, Nucleus
TaHP5-6B	TraesCS6B03G0062000.1	Chr6B:19 461 239~19 464 989	148	16.27	5.07	细胞外Extracellular
TaHP2-6D;2	TraesCS6D03G0142300.1	Chr6D:43 880 491~43 885 697	172	18.67	6.27	细胞外Extracellular
TaHP5-6D;1	TraesCS6D03G0044300.1	Chr6D:9 463 496~9 468 488	142	15.83	5.07	细胞外Extracellular
TaHP5-6D;2	TraesCS6D03G0044500.1	Chr6D:9 480 515~9 484 022	146	15.95	5.07	细胞外Extracellular
TaHP2-6D;1	TraesCS6D03G0046300.1	Chr6D:9 866 922~9 869 326	132	14.80	5.22	细胞外Extracellular
TaHP1-U;1	TraesCSU03G0055300.1	ChrUn:30 655 396~30 658 275	143	16.16	5.32	细胞质Cytoplasm
TaHP1-U;2	TraesCSU03G0055400.1	ChrUn:30 680 718~30 683 643	143	16.16	5.32	细胞质Cytoplasm
TaHP2-U;1	TraesCSU03G0055200.1	ChrUn:30 644 548~30 647 198	143	15.79	5.66	细胞外Extracellular
TaHP2-U;2	TraesCSU03G0055500.1	ChrUn:30 691 793~30 699 402	122	13.34	6.17	细胞外Extracellular

Identification and analysis of HP gene family in wheat

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[3]	YANG Kai, CHEN Kai, LI Hongmei, ZHAO Zhongjuan, HU Jindong, LI Jishun, YANG Hetong. Biocontrol efficacy and action mechanism of Trichoderma harzianum LTR-2 and Arthrobacter ureafaciens DnL1-1 against crown rot of wheat [J]. Acta Agriculturae Zhejiangensis, 2023, 35(6): 1385-1395.
[4]	YANG Songhua, SHI Guiyang, WANG Jingqin, CHEN Zhu. Effects of soybean root exudates on insoluble phosphorus in soil under low phosphorus stress [J]. Acta Agriculturae Zhejiangensis, 2023, 35(6): 1396-1406.
[5]	REN Kaiming, WANG Ben, YANG Wenjun, FAN Yonghui, ZHANG Wenjing, MA Shangyu, HUANG Zhenglai. Effects of nitrogen on physiological growth, quality and yield of weak gluten wheat after rice stubble [J]. Acta Agriculturae Zhejiangensis, 2023, 35(4): 769-779.
[6]	LU Shuai, LUO Xiaogang, LIU Quanwei, ZHANG Yi, MENG Yanghao, LI Jie, ZHANG Jinglai. Effect of organic-inorganic compound fertilizer on wheat growth, nutrients and heavy metal content of soil and wheat [J]. Acta Agriculturae Zhejiangensis, 2023, 35(4): 922-930.
[7]	BAI Weiwei, ZHAO Xueni, LUO Bin, ZHAO Wei, HUANG Shuo, ZHANG Han. Study of YOLOv5-based germination detection method for wheat seeds [J]. Acta Agriculturae Zhejiangensis, 2023, 35(2): 445-454.
[8]	WANG Ben, LI Yuxing, LI Zhe, JIANG Fengyi, HUANG Zhenglai, FAN Yonghui, ZHANG Wenjing, MA Shangyu. Performance of trehalose treatment on yield formation and quality of post-flowering heat-stressed weak gluten wheat Shengxuan No.6 [J]. Acta Agriculturae Zhejiangensis, 2023, 35(1): 1-9.
[9]	DONG Feiyan, SONG Jinghan, ZHANG Huadong, WU Haotian, LI Yaqian, LIU Mengwei, GAO Chunbao, FANG Zhengwu, LIU Yike. Clonging and expression analysis of TaPAT1-2D gene in wheat [J]. Acta Agriculturae Zhejiangensis, 2023, 35(1): 23-32.
[10]	GUO Han, LU Zhou, XU Feifei, LUO Ming, ZHANG Xu. Leaf area index estimation of winter wheat based on global sensitivity analysis and machine learning [J]. Acta Agriculturae Zhejiangensis, 2022, 34(9): 2020-2031.
[11]	LIANG Chenggang, WANG Yan, GUAN Zhixiu, WEI Chunyu, DENG Jiao, HUANG Juan, MENG Ziye, SHI Taoxiong. Identification and bioinformatics analysis of sucrose transporter family FtSUCs in Tartary buckwheat [J]. Acta Agriculturae Zhejiangensis, 2022, 34(8): 1591-1598.
[12]	WANG Siliang, SHAO Yue, YAN Chengjin. Transcriptome analysis of Spodoptera furgiperda during corn-wheat host alternation [J]. Acta Agriculturae Zhejiangensis, 2022, 34(6): 1236-1247.
[13]	WU Yifan, XIA Jie, CHEN Sheng, ZHANG Wei, XIE Jinzhong. Study on suitable ratio for bamboo sawdust and wheat bran composting as substrate of Stropharia rugosoannulata [J]. Acta Agriculturae Zhejiangensis, 2022, 34(5): 1024-1031.
[14]	CAI Yao, MIAO Yuxuan, WU Hao, WANG Dan. Hyperspectral characteristics and leaf area index (LAI) and SPAD value inversion of winter wheat under elevated CO₂ concentration [J]. Acta Agriculturae Zhejiangensis, 2022, 34(3): 582-589.
[15]	YAN Ning, ZHANG Han, DONG Hongtu, KANG Kai, LUO Bin. Wheat variety recognition method based on same position segmentation of transmitted light and reflected light images [J]. Acta Agriculturae Zhejiangensis, 2022, 34(3): 590-598.