果树学报2025，Vol.42Issue(3)：526-542,17.DOI:10.13925/j.cnki.gsxb.20240533
中国沙棘ACBPs基因家族成员鉴定及响应铅胁迫的表达分析
Identification and expression analysis of ACBPs family members of Hip-pophae rhamnoides subsp.sinensis Rousi in response to lead stress
摘要
Abstract
[Objective]Hippophae rhamnoides subsp.sinensis Rousi is a plant of substantial economic value and ecological significance,attracting sustained research interest.The ACBPs gene family is inte-gral to plant biology,playing a critical role in normal plant growth and development.This gene family is deeply involved in cellular material and energy metabolism and plays a vital role in plants'adapta-tion to abiotic stress and biomembrane repair,particularly in response to heavy metal stress.Informa-tion on the ACBPs gene family in H.rhamnoides remains scarce.This study aims to accurately and com-prehensively identify the members of the ACBPs gene family in H.rhamnoides using bioinformatics tools,and to investigate the expression of these genes under heavy metal(lead)stress through molecular biology approaches.[Methods]In this study,the ACBPs gene family in H.rhamnoides subsp.sinensis Rousi was identified using the hidden Markov model(PF00887)and the HMMER search script.Physi-cochemical properties and subcellular localization were analyzed via the ExPASy and WoLF PSORT websites.Multiple sequence alignment and gene structure analyses were conducted using MEGA soft-ware and the GSDS website.Phylogenetic and motif analyses were performed using the TBtools Fast-Tree plugin and the MEME website.Chromosome localization and cis-acting element analyses were conducted using Mapchart software and the PlantCARE website.Intra-and interspecific gene collineari-ty analyses were conducted via the TBtools Advanced Circos and One Step MCScanX plugins.Protein-protein interaction networks and three-dimensional structure prediction analyses were conducted using the STRING database and the SWISS-MODEL website.Additionally,expression profiles of ACBPs gene were visualized using heatmaps based on FPKM values from RNA-Seq data,and relative gene ex-pression levels were validated through qRT-PCR experiments.[Results]A comprehensive search of the H.rhamnoides subsp.sinensis Rousi proteome identified eight ACBPs genes,named HrLACBPs1-Hr-LACBPs8.Physicochemical analysis revealed that most translated protein sequences were rich in acidic amino acids,with only one being basic,and most of the proteins were localized in the nucleus.Multiple sequence alignments identified two main motifs,YKQA and KWDAW,responsible for acyl-CoA bind-ing.Chromosomal mapping indicated that HrLACBPs4 and HrLACBPs5 were on chromosome 4,while the other six genes were on chromosomes 1,2,3,5,11,and 12.Phylogenetic analysis with the ACBPs gene families of Arabidopsis,Elaeagnus mollis Diels and Helianthus annuus divided the HrLACBPs family into three groups:Groups 1 with three members,Group 2 with one member,and Group 3 and 4 each with two members.Gene structure and motif analysis showed conserved gene structures and mini-mal motif differences within each group,with Group 3 containing the most exons and motif sequences.Cis-acting element analysis,focusing on hormone regulation,meristem expression,and stress response elements,revealed that the promoters of HrLACBPs members generally contained three or more of these elements.Collinearity analysis demonstrated no collinearity between HrLACBPs4 and the other seven genes,but HrLACBPs2,HrLACBPs3,and HrLACBPs5 exhibited mutual collinearity on chromo-somes 2,3,and 4.Nine collinearities were identified between the H.rhamnoides ACBPs gene family and the Arabidopsis ACBPs gene family,and seventeen with the Elaeagnus mollis Diels ACBPs gene family.Protein interaction network analysis suggested that HrLACBPs1 in H.rhamnoides may function-ally resemble ACBP6 in Arabidopsis.Protein 3D structure predictions revealed that Group 3 proteins were the most complex with high model similarity;Group 1 proteins were simpler but also similar;Group 4 proteins showed low similarity and large differences.Transcriptome analysis and qRT-PCR vali-dation indicated that,except for HrLACBPs1,the other genes had lower expression levels at 2000 mg·kg-1 lead compared to controls,while their expression increased at 5000 mg·kg-1 lead.[Conclusion]In H.rhamnoides subsp.sinensis Rousi,eight ACBPs were identified,with Group 1 and 3 members exhib-iting conserved patterns in gene structure,motif sequences,and three-dimensional protein structures.Group 3 contained the most exons,increasing the likelihood of alternative splicing and enhancing func-tional diversity.The gene family's promoter regions contain various cis-acting elements responsive to plant hormones,meristematic activity,and stress stimuli,suggesting that HrLACBPs have multiple bio-logical functions.Protein interaction network analysis highlighted AtACBP6,from the Arabidopsis ACBP family,as a core protein that enhances plant cold tolerance when overexpressed under cold stress.Low-temperature stress response elements were also identified in HrLACBPs1,suggesting its role in enhancing plant cold tolerance.Transcriptome analysis and qRT-PCR validation showed that most ACBPs genes in H.rhamnoides were significantly downregulated at 1000 mg·kg-1 lead,with up-regulation occurring at 5000 mg·kg-1.This may occur because low lead concentrations cause less oxida-tive stress,allowing plants to enhance antioxidant defenses by upregulating gene expression to mitigate lead damage.HrLACBPs1 expression,localized in the endoplasmic reticulum,decreased at 500 mg·kg-1 lead compared to controls,then gradually increased at 2000 and 5000 mg·kg-1.Expression of the genes in the endoplasmic reticulum may reduce to alleviate protein synthesis burden at low lead stress and may increase to address protein damage and accumulation at higher stress levels.These findings provide a solid theoretical basis for further research on H.rhamnoides's response to heavy metal lead stress.关键词
中国沙棘/生物信息学/ACBPs基因家族/铅胁迫Key words
Hippophae rhamnoides subsp.sinensis Rousi/Bioinformatics/ACBPs gene family/Lead stress分类
农业科技引用本文复制引用
陈科,李昕娟,张恬,任乾丹,孙菁,周武..中国沙棘ACBPs基因家族成员鉴定及响应铅胁迫的表达分析[J].果树学报,2025,42(3):526-542,17.基金项目
国家自然科学基金项目(32160386) （32160386）
青海省青藏高原特色生物资源研究重点实验室开放课题(2024-KF-04) （2024-KF-04）
