Identification and expression analysis of Thionin-like gene family in wheat

doi:10.3969/j.issn.1004-1524.20230048

Acta Agriculturae Zhejiangensis ›› 2024, Vol. 36 ›› Issue (4): 729-737.DOI: 10.3969/j.issn.1004-1524.20230048

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Identification and expression analysis of Thionin-like gene family in wheat

LI Jingjing¹(), LI Chuang², LU Yanan², ZHENG Wenming²^,^*()

1. Henan Vocational College of Nursing, Anyang 455000, Henan, China
2. State Key Laboratory of Wheat and Maize Crop Science, College of Life Sciences, Henan Agricultural University, Zhengzhou 450046, China

Received:2023-01-05 Online:2024-04-25 Published:2024-04-29
Contact: ZHENG Wenming

Abstract

Abstract:

Thionin-like (Thil) has important biological functions in plant defense response to pathogenic microorganisms. In this study, the Thil gene family of Triticum aestivum L. was initially identified using the homologous search and bioinformatics method based on Thil genes of the model plant Arabidopsis thaliana. A total of 26 Thil genes are included in the wheat genome. Structural analysis of gene sequences showed that the conserved motif structure exists in the Thil family, Thil genes encode proteins of 79-196 amino acids, most proteins have less than 140 amino acids, and 20 Thil proteins contain signal peptides. The cis-acting element prediction indicated that promoter elements of the Thil genes are mainly affected by corresponding hormones about adversity stress such as abscisic acid. Gene expression profiles showed that diversifying expression of the Thil family genes exists in response to pathogenic infection. qRT-PCR analysis showed that the expressions of TaThil-4A, TaThil-4B, and TaThil-4D were induced in the early response to wheat leaf rust fungus. The results of this study can provide a reference for wheat disease resistance breeding in wheat and functional study and application of the Thil gene family.

Key words: wheat, Thionin-like, disease-resistance, Puccinia triticina

CLC Number:

S512.1

LI Jingjing, LI Chuang, LU Yanan, ZHENG Wenming. Identification and expression analysis of Thionin-like gene family in wheat[J]. Acta Agriculturae Zhejiangensis, 2024, 36(4): 729-737.

Figures/Tables 7

References 31

[1]	HAN G Z. Origin and evolution of the plant immune system[J]. The New Phytologist, 2019, 222(1): 70-83.
[2]	LI P, LU Y J, CHEN H, et al. The lifecycle of the plant immune system[J]. Critical Reviews in Plant Sciences, 2020, 39(1): 72-100.
[3]	JONES J D G, DANGL J L. The plant immune system[J]. Nature, 2006, 444: 323-329.
[4]	YUAN M H, JIANG Z Y, BI G Z, et al. Pattern-recognition receptors are required for NLR-mediated plant immunity[J]. Nature, 2021, 592: 105-109.
[5]	YUAN M H, NGOU B P M, DING P T, et al. PTI-ETI crosstalk: an integrative view of plant immunity[J]. Current Opinion in Plant Biology, 2021, 62: 102030.
[6]	SILVERSTEIN K A T, MOSKAL W A Jr, WU H C, et al. Small cysteine-rich peptides resembling antimicrobial peptides have been under-predicted in plants[J]. The Plant Journal, 2007, 51(2): 262-280.
[7]	DOS SANTOS-SILVA C A, ZUPIN L, OLIVEIRA-LIMA M, et al. Plant antimicrobial peptides: state of the art, in silico prediction and perspectives in the omics era[J]. Bioinformatics and Biology Insights, 2020, 14: 1177932220952739.
[8]	HÖNG K, AUSTERLITZ T, BOHLMANN T, et al. The thionin family of antimicrobial peptides[J]. PLoS One, 2021, 16(7): e0254549.
[9]	STEC B. Plant thionins-the structural perspective[J]. Cellular and Molecular Life Sciences CMLS, 2006, 63(12): 1370-1385.
[10]	ALMAGHRABI B, ALI M A, ZAHOOR A, et al. Arabidopsis thionin-like genes are involved in resistance against the beet-cyst nematode (Heterodera schachtii)[J]. Plant Physiology and Biochemistry, 2019, 140: 55-67.
[11]	TAVEIRA G B, MATHIAS L S, DA MOTTA O V, et al. Thionin-like peptides from Capsicum annuum fruits with high activity against human pathogenic bacteria and yeasts[J]. Biopolymers, 2014, 102(1): 30-39.
[12]	TAVEIRA G B, CARVALHO A O, RODRIGUES R, et al. Thionin-like peptide from Capsicum annuum fruits: mechanism of action and synergism with fluconazole against Candida species[J]. BMC Microbiology, 2016, 16: 12.
[13]	杨宏亮, 袁桢, 钱徐佳志, 等. 大麦Thionin-like基因家族基因表达谱分析[J]. 生物技术通报, 2022, 38(10): 140-147.
	YANG H L, YUAN Z, QIAN X, et al. Expression profile analysis of thionin-like gene family in barley[J]. Biotechnology Bulletin, 2022, 38(10): 140-147. (in Chinese with English abstract)
[14]	LARKIN M A, BLACKSHIELDS G, BROWN N P, et al. Clustal W and Clustal X version 2.0[J]. Bioinformatics, 2007, 23(21): 2947-2948.
[15]	FINN R D, CLEMENTS J, EDDY S R. HMMER web server: interactive sequence similarity searching[J]. Nucleic Acids Research, 2011, 39(Web Server issue): W29-W37.
[16]	ZHU T T, WANG L, RIMBERT H, et al. Optical maps refine the bread wheat Triticum aestivum cv. Chinese Spring genome assembly[J]. The Plant Journal, 2021, 107(1): 303-314.
[17]	YU C S, CHEN Y C, LU C H, et al. Prediction of protein subcellular localization[J]. Proteins: Structure, Function, and Bioinformatics, 2006, 64(3): 643-651.
[18]	ALMAGRO ARMENTEROS J J, TSIRIGOS K D, SØNDERBY C K, et al. SignalP 5.0 improves signal peptide predictions using deep neural networks[J]. Nature Biotechnology, 2019, 37: 420-423.
[19]	HU B, JIN J P, GUO A Y, et al. GSDS 2.0: an upgraded gene feature visualization server[J]. Bioinformatics, 2015, 31(8): 1296-1297.
[20]	KUMAR S, STECHER G, LI M, et al. MEGA X: molecular evolutionary genetics analysis across computing platforms[J]. Molecular Biology and Evolution, 2018, 35(6): 1547-1549.
[21]	BAILEY T L, JOHNSON J, GRANT C E, et al. The MEME suite[J]. Nucleic Acids Research, 2015, 43(W1): W39-W49.
[22]	LESCOT M, DÉHAIS P, THIJS G, et al. PlantCARE, a database of plant cis-acting regulatory elements and a portal to tools for in silico analysis of promoter sequences[J]. Nucleic Acids Research, 2002, 30(1): 325-327.
[23]	CHEN C J, CHEN H, ZHANG Y, et al. TBtools: an integrative toolkit developed for interactive analyses of big biological data[J]. Molecular Plant, 2020, 13(8): 1194-1202.
[24]	BORRILL P, RAMIREZ-GONZALEZ R, UAUY C. expVIP: a customizable RNA-seq data analysis and visualization platform[J]. Plant Physiology, 2016, 170(4): 2172-2186.
[25]	WANG Y, TAO X, TANG X M, et al. Comparative transcriptome analysis of tomato (Solanum lycopersicum) in response to exogenous abscisic acid[J]. BMC Genomics, 2013, 14(1): 841.
[26]	BJORNSON M, PIMPRIKAR P, NÜRNBERGER T, et al. The transcriptional landscape of Arabidopsis thaliana pattern-triggered immunity[J]. Nature Plants, 2021, 7: 579-586.
[27]	LI W, DENG Y W, NING Y S, et al. Exploiting broad-spectrum disease resistance in crops: from molecular dissection to breeding[J]. Annual Review of Plant Biology, 2020, 71: 575-603.
[28]	袁娜, 李阳, 杨郁文, 等. 棉花CLE多肽家族的全基因组鉴定与生物信息学分析[J]. 棉花学报, 2019, 31(4): 263-281.
	YUAN N, LI Y, YANG Y W, et al. Genome-wide identification and characterization of CLE family in cotton (Gossypium spp.)[J]. Cotton Science, 2019, 31(4): 263-281. (in Chinese with English abstract)
[29]	WANG S, TIAN L, LIU H, et al. Large-scale discovery of non-conventional peptides in maize and Arabidopsis through an integrated peptidogenornic pipeline[J]. Mol Plant, 2020, 13(7):1078-1093.
[30]	NIRMALA J, DRADER T, LAWRENCE P K, et al. Concerted action of two avirulent spore effectors activates Reaction to Puccinia graminis 1 (Rpg1)-mediated cereal stem rust resistance[J]. Proceedings of the National Academy of Sciences of the United States of America, 2011, 108(35): 14676-14681.
[31]	SHEN Y L, LIU N, LI C, et al. The early response during the interaction of fungal phytopathogen and host plant[J]. Open Biology, 2017, 7(5): 170057.

基因名称	正向引物(5'→3')	反向引物(5'→3')
Gene name	Forward primer(5'→3')	Reverse primer(5'→3')
TaThil-4A	CCGTCCCAGCCATCGTG	TCTTGAGCATCCGCTTGGAG
TaThil-4B	GCAGCGGAGGATTGGAGAAT	AAGGGTCAAACCAAGCCTCA
TaThil-4D	GCGGAGGAGTGGAGAATCTG	ACGCCTACCAAATCAGGACA
Ta26S	GAAGAAGGTCCCAAGGGTTC	TCTCCCTTTAACACCAACGG

基因名称	正向引物(5'→3')	反向引物(5'→3')
Gene name	Forward primer(5'→3')	Reverse primer(5'→3')
TaThil-4A	CCGTCCCAGCCATCGTG	TCTTGAGCATCCGCTTGGAG
TaThil-4B	GCAGCGGAGGATTGGAGAAT	AAGGGTCAAACCAAGCCTCA
TaThil-4D	GCGGAGGAGTGGAGAATCTG	ACGCCTACCAAATCAGGACA
Ta26S	GAAGAAGGTCCCAAGGGTTC	TCTCCCTTTAACACCAACGG

基因名称	基因ID	染色体位置	氨基酸数量	半胱氨酸数量	编码蛋白	等电点	亚细胞定位	信号肽
Gene name	Gene ID	Chromosome position	Number of amino acids	Number of cysteines	分子量 Molecular mass/ku	pI	Subcellular location	Signal peptide
TaThil-1B;1	TraesCS1B03G1120400LC.1	1B:648189213-648189524	103	5	11.95	10.45	细胞核Nucleus	-
TaThil-1B;2	TraesCS1B03G1155100.1	1B:659630413-659631542	130	13	13.63	4.39	细胞外Extracellular	√
TaThil-2B	TraesCS2B03G0504400LC.1	2B:198179489-198179953	154	6	16.54	11.51	细胞核Extracellular	-
TaThil-3A;1	TraesCS3A03G0552900.1	3A:395791412-395792540	195	13	20.09	4.42	细胞外Extracellular	√
TaThil-3A;2	TraesCS3A03G0553000.1	3A:395835980-395837038	158	14	16.96	8.92	细胞外Extracellular	√
TaThil-3A;3	TraesCS3A03G1150100LC.1	3A:718510414-718510833	139	5	15.37	7.68	细胞外Extracellular	√
TaThil-3B;1	TraesCS3B03G0636600.1	3B:396308838-396309889	173	13	17.98	4.93	细胞外Extracellular	-
TaThil-3B;2	TraesCS3B03G0636800.1	3B:396354614-396355551	168	13	18.10	9.23	细胞外Extracellular	√
TaThil-3D;1	TraesCS3D03G0514500.1	3D:293341730-293342870	196	13	20.30	4.36	细胞外Extracellular	√
TaThil-3D;2	TraesCS3D03G0514700.1	3D:293354488-293355046	155	14	16.48	8.64	细胞外Extracellular	√
TaThil-4A	TraesCS4A03G0005400.1	4A:2778918-2779295	125	10	13.84	8.74	细胞外Extracellular	-
TaThil-4B	TraesCS4B03G0791300.1	4B:587455267-587456199	125	10	13.87	8.74	细胞外Extracellular	-
TaThil-4D	TraesCS4D03G0708500.1	4D:468863939-468864781	125	10	13.87	8.74	细胞外Extracellular	-
TaThil-5A	TraesCS5A03G0585800.1	5A:445399009-445399659	139	15	14.94	7.38	细胞外Extracellular	√
TaThil-5B	TraesCS5B03G0129000.1	5B:56613644-56614396	79	9	8.48	8.09	细胞外Extracellular	√
TaThil-5D;1	TraesCS5D03G0000700.1	5D:504194-504552	110	6	12.00	8.52	细胞外Extracellular	√
TaThil-5D;2	TraesCS5D03G0000900.1	5D:716462-716794	110	6	12.00	8.52	细胞外Extracellular	√
TaThil-6A;1	TraesCS6A03G0166000.1	6A:44857118-44857880	101	13	11.01	7.94	细胞外Extracellular	√
TaThil-6A;2	TraesCS6A03G0803600LC.1	6A:543299654-543299977	107	6	11.55	8.26	细胞外Extracellular	√
TaThil-6B;1	TraesCS6B03G0169000.1	6B:52931251-52932028	124	13	12.75	6.03	细胞外Extracellular	√
TaThil-6B;2	TraesCS6B03G0171400.1	6B:54283983-54284834	109	12	11.76	8.76	细胞外Extracellular	√
TaThil-6D;1	TraesCS6D03G0024500LC.1	6D:4597285-4597644	119	9	13.18	4.97	细胞外Extracellular	√
TaThil-6D;2	TraesCS6D03G0117500.1	6D:33532140-33532823	113	13	11.83	7.44	细胞外Extracellular	√
TaThil-6D;3	TraesCS6D03G0117700.1	6D:33587808-33588272	109	12	11.75	8.63	细胞外Extracellular	√
TaThil-7A	TraesCS7A03G1387900.1	7A:744208691-744208981	96	6	10.18	6.87	细胞外Extracellular	√
TaThil-7D	TraesCS7D03G1304800LC.1	7D:642451602-642451922	106	7	11.38	8.27	细胞外Extracellular	√

基因名称	基因ID	染色体位置	氨基酸数量	半胱氨酸数量	编码蛋白	等电点	亚细胞定位	信号肽
Gene name	Gene ID	Chromosome position	Number of amino acids	Number of cysteines	分子量 Molecular mass/ku	pI	Subcellular location	Signal peptide
TaThil-1B;1	TraesCS1B03G1120400LC.1	1B:648189213-648189524	103	5	11.95	10.45	细胞核Nucleus	-
TaThil-1B;2	TraesCS1B03G1155100.1	1B:659630413-659631542	130	13	13.63	4.39	细胞外Extracellular	√
TaThil-2B	TraesCS2B03G0504400LC.1	2B:198179489-198179953	154	6	16.54	11.51	细胞核Extracellular	-
TaThil-3A;1	TraesCS3A03G0552900.1	3A:395791412-395792540	195	13	20.09	4.42	细胞外Extracellular	√
TaThil-3A;2	TraesCS3A03G0553000.1	3A:395835980-395837038	158	14	16.96	8.92	细胞外Extracellular	√
TaThil-3A;3	TraesCS3A03G1150100LC.1	3A:718510414-718510833	139	5	15.37	7.68	细胞外Extracellular	√
TaThil-3B;1	TraesCS3B03G0636600.1	3B:396308838-396309889	173	13	17.98	4.93	细胞外Extracellular	-
TaThil-3B;2	TraesCS3B03G0636800.1	3B:396354614-396355551	168	13	18.10	9.23	细胞外Extracellular	√
TaThil-3D;1	TraesCS3D03G0514500.1	3D:293341730-293342870	196	13	20.30	4.36	细胞外Extracellular	√
TaThil-3D;2	TraesCS3D03G0514700.1	3D:293354488-293355046	155	14	16.48	8.64	细胞外Extracellular	√
TaThil-4A	TraesCS4A03G0005400.1	4A:2778918-2779295	125	10	13.84	8.74	细胞外Extracellular	-
TaThil-4B	TraesCS4B03G0791300.1	4B:587455267-587456199	125	10	13.87	8.74	细胞外Extracellular	-
TaThil-4D	TraesCS4D03G0708500.1	4D:468863939-468864781	125	10	13.87	8.74	细胞外Extracellular	-
TaThil-5A	TraesCS5A03G0585800.1	5A:445399009-445399659	139	15	14.94	7.38	细胞外Extracellular	√
TaThil-5B	TraesCS5B03G0129000.1	5B:56613644-56614396	79	9	8.48	8.09	细胞外Extracellular	√
TaThil-5D;1	TraesCS5D03G0000700.1	5D:504194-504552	110	6	12.00	8.52	细胞外Extracellular	√
TaThil-5D;2	TraesCS5D03G0000900.1	5D:716462-716794	110	6	12.00	8.52	细胞外Extracellular	√
TaThil-6A;1	TraesCS6A03G0166000.1	6A:44857118-44857880	101	13	11.01	7.94	细胞外Extracellular	√
TaThil-6A;2	TraesCS6A03G0803600LC.1	6A:543299654-543299977	107	6	11.55	8.26	细胞外Extracellular	√
TaThil-6B;1	TraesCS6B03G0169000.1	6B:52931251-52932028	124	13	12.75	6.03	细胞外Extracellular	√
TaThil-6B;2	TraesCS6B03G0171400.1	6B:54283983-54284834	109	12	11.76	8.76	细胞外Extracellular	√
TaThil-6D;1	TraesCS6D03G0024500LC.1	6D:4597285-4597644	119	9	13.18	4.97	细胞外Extracellular	√
TaThil-6D;2	TraesCS6D03G0117500.1	6D:33532140-33532823	113	13	11.83	7.44	细胞外Extracellular	√
TaThil-6D;3	TraesCS6D03G0117700.1	6D:33587808-33588272	109	12	11.75	8.63	细胞外Extracellular	√
TaThil-7A	TraesCS7A03G1387900.1	7A:744208691-744208981	96	6	10.18	6.87	细胞外Extracellular	√
TaThil-7D	TraesCS7D03G1304800LC.1	7D:642451602-642451922	106	7	11.38	8.27	细胞外Extracellular	√

Identification and expression analysis of Thionin-like gene family in wheat

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