番茄ZIP基因家族全基因组鉴定及表达模式分析
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S562.01

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四川省高校重点实验室项目(GR-2017-E-03、GR-2018-C-01);金沙江干热河谷生态修复与治理创新研究团队专项经费项目(035200179)


Genome-Wide Identification and Expression Analysis of ZIP Gene Family in Solanum lycopersicum
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    摘要:

    ZIP蛋白是生物体一类非常重要的阳离子通道蛋白,在维持机体新陈代谢和生长发育过程中阳离子的动态平衡中发挥重要生理功能。为明确番茄SlZIP基因家族的序列特性以及不同组织和果实不同发育时期的表达情况,利用系统的生物信息学方法进行分析,从番茄基因组鉴定出SlZIP基因家族成员,并对其序列基本特性、染色体分布、基因结构、跨膜结构域及组织表达情况进行分析。结果表明,番茄SlZIP基因家族共包含15个成员。染色体分布显示,SlZIP基因不均匀地分布在7条染色体上,其中2号染色体上分布的基因最多。SlZIP基因间的编码区序列长度、CDS序列长度和编码蛋白序列长度的跨度差异较大。SlZIP蛋白有9个属于酸性蛋白、6个属于碱性蛋白,基本上都是亲水性的稳定蛋白。基因结构分析表明,有9个SlZIP基因是3个外显子2个内含子的模式。有5个和4个SlZIP蛋白分别具有8个和9个跨膜结构域,有13个SlZIP蛋白具有膜内侧的可变区,有7个SlZIP蛋白的可变区具有组氨酸富集结构。系统进化树分析表明,番茄的SlZIP蛋白同拟南芥(Arabidopsis thaliana)的AtZIP蛋白进化关系最近。组织表达模式研究表明,有7个SlZIP基因在所有组织中都有表达,有12个SlZIP基因在根部表达;从果实的表达来看,有11个SlZIP基因在果实中有表达,且在果实不同发育期的表达差异显著。本研究结果为番茄SlZIP基因的克隆及功能研究提供了理论基础,为通过调控SlZIP基因的表达强化果实中Zn和Fe的含量提供了理论依据。

    Abstract:

    ZIP protein is a kind of vital cation transporter, which plays an important physiological role in maintaining the cations dynamic equilibrium in the process of metabolism and growth development of organism. This study using the analysis of systematic bioinformatics method to clarify the sequence characteristics of SlZIP gene family and the expression pattern of those genes in different tissues and fruits at different development stages. The content includes the identification of SlZIP gene family members from tomato genome, and the analysis of its basic sequence characteristics, chromosome distribution, gene structure, transmembrane domain and tissue specific expression. The results showed that there were 15 members in SlZIP gene family and those genes were unevenly distributed on 7chromosomes, among the chromosome 2 with the largest number of SlZIP genes. The length of coding region, CDS sequence and amino acid sequence among the member of SlZIP genes have a large span difference. There were 9acidic proteins and 6 basic proteins in SlZIP, which were basically hydrophilic stable proteins. Gene structure analysis showed that 9 SlZIP genes had 3 exons and 2 introns. There were 5 and 4 SlZIP proteins with 8 and 9 transmembrane domains, respectively. And 13 SlZIP proteins possessed variable region which located on the inner membrane,and 7 SlZIP proteins possessed histidine rich domain which distributed in the variable region. Phylogenetic tree analysis indicated that the evolutionary relationship between SlZIP and AtZIP(Arabidopsis thaliana ZIP) was the closest. The study on tissue expression pattern showed that 7 SlZIP genes expressed in all tissues, and 12 SlZIP genes expressed in the roots. From the perspective of fruit expression, 11 SlZIP genes expressed in the fruits, but with significant differences expression in various fruit development stages. This study would provide an theoretical basis on cloning and functional research of SlZIP genes, and provide an theoretical foundation on through regulating SlZIP gene expression to fortify the Zn and Fe concentration in tomato fruits.

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巩元勇,赵丽华,闫飞.番茄ZIP基因家族全基因组鉴定及表达模式分析[J].东北农业科学,2023,48(2):42-48,109.

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  • 收稿日期:2020-04-08
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  • 在线发布日期: 2024-10-24
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