农业生物技术学报2025，Vol.33Issue(8)：1697-1710,14.DOI:10.3969/j.issn.1674-7968.2025.08.005
青梗菜HDM基因家族全基因组鉴定及热胁迫下的表达谱分析
Genome-Wide Identification of Pakchoi(Brassica rapa ssp.chinensis)HDM Genes Family and Expression Profile Analysis Under Heat Stress
摘要
Abstract
Pakchoi(Brassica rapa ssp.chinesis)also referred to as small bok choy,this variety belongs to the category of Shanghai white cabbage renowned for its robust resistance to heat,cold,and pests,coupled with its straightforward cultivation techniques.Histone demethylase(HDM)is one of the epigenetic factors,which participates in regulating the transcriptional expression of genes by adjusting the level of histone methylation modification.Therefore,in this study,a total of 33 BrcHDM gene members were identified,including 4 B.rapa ssp.chinensis lysine-specific demethylase 1(BrcLSD1)genes and 29 B.rapa ssp.chinensis JmjC domain-containing histone demethylases(BrcJHDM)genes,were identified by homologous comparison based on the genome data of pakchoi.Chromosomal localization,phylogenetic tree,conserved structural domains and gene structures as well as promoter cis-acting elements were analyzed;The phylogenetic tree analysis and chromosomal localization analysis indicated that the BrcHDM proteins in B.rapa var.chinensis were classified into the LSD 1 subfamily and the JHDM subfamily.These proteins were unevenly distributed across 10 chromosomes.Analysis of conserved domains revealed that the BrcHDM proteins harbored the PLN02529,PLN03000,PLN02976,and PLN02328 domains,respectively.Gene structure analysis showed that the genes within the BrcHDM family contained 1 to 25 exons.Specifically,the members of the LSD1 subfamily had 1 to 8 exons,while the members of the JHDM subfamily had 2 to 25 exons.Analysis of ci.s-acting elements in the promoter region indicated that the number of stress-related cis-acting elements in the promoters of BrcHDM genes was generally greater than that of hormone-related and growth-and-development-related cis-acting elements.At the same time,based on the transcriptome data of high-temperature stress,it was found that BrcJMJ1/13/26 were the candidate genes for high-temperature response of pakchoi,and BrcJMJ26 might have been the main BrcHDM gene that formed the difference in heat resistance between high-temperature resistant'PC-fu'and sensitive'JP20'cultivars.Subcellular localization analysis showed that BrcJMJ13 was localized in the nucleus.The results of qRT-PCR showed that the expression of BrcJMJ1/13/26 increased with the extension of high temperature treatment.This study provides important candidate histone methylation modification factors for the cultivation of high-temperature resistant pakchoi.关键词
青梗菜/BrcHDM基因家族/生物信息学分析/高温胁迫Key words
Pakchoi/BrcHDM genes family/Bioinformatics analysis/Heat stress分类
农业科技引用本文复制引用
刘洪闯,欧阳文东,薛建平,兰蔚..青梗菜HDM基因家族全基因组鉴定及热胁迫下的表达谱分析[J].农业生物技术学报,2025,33(8):1697-1710,14.基金项目
淮北师范大学博士科研启动经费(03106238) （03106238）
安徽省教育厅高校自然科学研究项目(2023AH050321) （2023AH050321）
