Genome-wide Identification and Functional Analysis of HBD Gene Family in Wheat

doi:10.7668/hbnxb.20195577

Abstract

Abstract:

To explore the potential biological functions of HBD family members in the important cereal crop wheat,it first conducted a bioinformatic analysis of the HBD family members and their sequence characteristics in common hexaploid wheat.Subsequently,transcriptome and Real-time Quantitative PCR(qRT-PCR)analyses were performed to assess their expression patterns and functions.The results identified a total of 90 wheat HBD genes,which contained between 2 and 18 exons and comprised 111 to 1 863 amino acids;they could be divided into six subgroups based on their evolutionary relationships.The tissue expression pattern results showed that most HBD genes were relatively highly expressed in the roots,stems,spikes,and grains of the plants,while their expression in leaves was relatively low,reflecting the diversity of their biological functions.The promoter regions of these HBD members contain 62 types of cis-acting elements,mainly involved in light and hormone regulatory elements that participated in stress responses.Different members of the HBD gene family responded to various abiotic stresses,including phosphorus,salinity,low temperature,high temperature,drought,and heat-drought synergistic stress.Among these,TaHBD23,TaHBD28,TaHBD67,TaHBD78,and TaHBD85 showed significant differential expression under various stresses,serving as important candidate genes for stress response.In response to biotic stress,the number of HBD family genes responding to Fusarium pseudograminearum and Pseudomonas translucens was fewer than those responding to F.graminearum, suggesting their critical role in the response to F. graminearum resistance.Further research on the transcriptome data from wheat Bobwhite materials infected with F.graminearum and treated with water identified 41 HBD genes with significantly changed expression levels.Among them,10 genes overlapped with the database,and quantitative analysis was consistent with the trends in transcriptome data,indicating that TaHBD28/17,TaHBD67,and TaHBD90/84 negatively responded to Fusarium head blight,while TaHBD39/37,TaHBD45,and TaHBD68/79 positively responded to Fusarium head blight.

Key words: Wheat, HBD gene family, Bioinformatics analysis, Expression analysis

CLC Number:

S512.1小麦

JIANG Hao, ZHANG Linjie, CAI Jiaru, WANG Xueqing, LU Jie, ZHOU Yi, ZHU Yulei, WANG Shengxing. Genome-wide Identification and Functional Analysis of HBD Gene Family in Wheat[J]. Acta Agriculturae Boreali-Sinica, 2025, 40(4): 29-40. doi: 10.7668/hbnxb.20195577.

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Figures/Tables 11

Tab.1 Primers used in this study for qRT-PCR

基因ID或基因名 Gene ID or gene name	正向引物(5'-3') Forward primer (5'-3')	反向引物(5'-3') Reverse primer (5'-3')
Actin	CTATGTTCCCGGGTATTGCT	AAGGGAGGCAAGAATCGAC
TraesCS2D02G387300	TTCCAGAACAAGCGCGCG	GAGGGCGAGCTTCTCTTG
TraesCS2D02G473700	GAGAGCGGCGACAACAAC	CTCCTGCTCCGCGTTGTC
TraesCS2D02G515600	CATGCGCCGTCCTACCTG	GGGAGATCTTGGGCGCCA
TraesCS6A02G120300	CGCTAGTAGGGAGTCGCTG	TCCTTCCAGTATTTCCCGGC
TraesCS6A02G120600	CGCAGGAAGTAGAGGAGCTC	TCCCTTGACTCCCTTCCTCT
TraesCS6A02G240400	GAGGTGGACGACAAGAGCA	TGTCATACTCGTACCAGCCC
TraesCS6B02G148700	TACCGTGACGACCATAAGCA	CCGATATTTCCCGCCACATG
TraesCS6D02G222600	TGAAGGCGAAGGATGAGAGC	ATGACGTCTCCCACAGCTC
TraesCS2A02G389400	ACTACGACGCCCTCCACT	TTGCAGCTGCTGCTGCT
TraesCS4B02G084700	GGCATGCAAACCGCCAA	CTTCTTTGCATTGCGTCG
TraesCS5A02G043400	CCTCTGCAACATCGAGC	GGAGGACTCCTTGCGCT
TraesCS6A02G240400	GAGTCGCTCAAGCAGGAA	CTTGCGCTCTGGTCCTGC
TraesCS6A02G255800	CATGCAGTTCCCTTACG	CGACCGGCTGTCGTTCT
TraesCS7B02G208600	CTGGTTCCAGAACAAGC	AGTGCCGTGTTCTCCTG

Fig.1 Phylogenetic tree of HBD gene families in Arabidopsis thaliana and Triticum aestivum L.

Fig.2 HBD gene structure,and distribution of promoter cis-acting elements in Triticum aestivum L. Figures 1-24 represent different types of promoter cis-acting elements:1.Anaerobic induction,2.Light response,3.Low temperature response,4.Abscisic acid response,5.Jasmonic acid response,6.Gibberellic acid response,7.Auxin response,8.Zein metabolism,9.Circadian rhythm,10.Meristem,11.Drought induction,12.Salicylic acid response,13.DNA binding protein,14.Hypoxia-specific induction,15.Seed-specific,16.Defense stress-related,17.Endosperm expression,18.Maximal stimulus-mediated,19.Endosperm-specific negative regulation,20.The conserved sequence of α-amylase promoter,21.Meristem-specific activity,22.Root-specific activity,23.Cell cycle regulation-related activity,24.Photochrome down-regulated expression.The Roman numerals Ⅰ and Ⅱ represent the untranslated region(UTR)and the coding region(CDS),respectively.The letters A-Q represent different types of domains:A.START_ArGLABRA2_like,B.Homeobox,C.COG5576,D.bZIP,E.SRPBCC,F.SbcC,G.MEKHLA,H.BRLZ,I.HALZ,J.EEP,K.WAD,L.DDT,M.HARE-HTH,N.WHIM1,O.PTZ00121,P.TPH,Q.PHA03247.

Fig.3 Chromosome localization of HBD gene family in Triticum aestivum L.

Fig.4 Collinearity analysis of HBD gene family in Triticum aestivum L.

Fig.5 GO analysis of HBD gene family in Triticum aestivum L.

Fig.6 Expression of HBD gene family in different tissues in Triticum aestivum L.

Fig.7 Transcriptome expression of the HBD gene family under abiotic stresses in Triticum aestivum L. Phosphorus stress(P).The ratio of roots under phosphorus stress for 10 days to roots under phosphorus stress for 0 days;Salt stress(S).The ratio of salt stress to water treatment after 24 h;Low temperature stress(LT).The ratio of 4 ℃ stress to 23 ℃ stress;High temperature stress(HT).The ratio of high temperature stress to the control group after 6 h;Drought stress(D).The ratio of drought stress 6 h to the control group;Drought and high temperature stress(D&HT).The ratio of drought and heat stress to the control group after 6 h.

Fig.8 The expression of some HBD genes under salt stresses in Triticum aestivum L. S_CS.Salt stress expression in CS transcriptome data;S_AN188.Salt stress expression in Annong 188 quantitative data;S_HJ18.Salt stress expression in Hengjinmai 18 quantitative data.Different lowercase letters indicate significant differences(P<0.05).The same as Fig.10.

Fig.9 Transcriptome expression of the HBD gene family under biological stresses in Triticum aestivum L. Fhb.Fusarium graminearum stress;Fp.F.pseudograminearum stress;Xt.Xanthomonas stress.

Fig.10 The expression of some HBD genes under Fusarium graminosarum stresses in Triticum aestivum L. Fhb_F.The stress of Fusarium graminearum in the Fielder transcriptome data;Fhb_BW.The stress of Fusarium graminearum in Bobwhite transcriptome data;Fhb_BWq.The stress of Fusarium graminearum in Bobwhite quantitative data.

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