| 钱义容 1,2，王 弋 1，全振炫 1，郑雪文 1，李伟才 1，董 晨 1.荔枝铝激活苹果酸转运蛋白基因家族的鉴定及表达分析[J].广东农业科学,2023,50(9):79-88 |
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荔枝铝激活苹果酸转运蛋白基因家族的鉴定及表达分析 |
| Identification and Analysis of the ALMT Gene Family in Litchi |
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| DOI：10.16768/j.issn.1004-874X.2023.09.008 |
| 中文关键词: 荔枝 ALMT 基因家族 系统进化 生物信息学 表达分析 |
| 英文关键词: litchi ALMT gene family phylogenetic evolution bioinformatics expression analysis |
| 基金项目:海南省自然科学基金（321MS077）；国家重点研发计划项目（2019YFD1000900）；中央级公益性科研院所基本科研业务专项（1630042022004，1630062023017）；国家荔枝龙眼产业技术体系专项（CARS-32-20） |
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| 中文摘要: |
| 【 目 的】 挖 掘 参 与 荔 枝 生 长 发 育 的 铝 激 活 苹 果 酸 转 运 蛋 白（Al-activated malate transporter，ALMT）基因家族成员，探究其生物学功能。【方法】基于荔枝基因组数据库，借助 META SEARCH 工具和NCBI 的 CDD 数据库鉴定荔枝ALMTs成员，利用生物信息学方法系统分析LcALMT基因家族成员的蛋白理化性质、亚细胞定位预测、系统发育、基因结构、保守基序、染色体定位、启动子顺式作用元件、蛋白结构和表达模式等，通过 qPCR 方法分析荔枝 LcALMTs 的表达情况。【结果】荔枝 LcALMT 基因家族有 16 个成员，CDS 长度为118~803 bp，等电点在 5.16~9.07 之间。亚细胞定位预测显示，LcALMTs 均定位于质膜上，根据系统进化树将该家族划分为 5 个亚族。荔枝 LcALMTs 外显子数目在 3~10 个，有 4 个 LcALMTs 基因均不含非编码区。染色体定位分析发现，LcALMTs 只定位在荔枝 15 条染色体中的 6 条上，且主要定位在 13 号染色体上。保守基序分析发现，荔枝 ALMT 家族成员含有 ALMT 和 ALMT superfamily 两个结构域。顺式作用元件中，光响应元件占比最多，其次是激素响应元件。表达模式分析发现，荔枝 LcALMTs 在各个组织中的表达存在较大差异，其中 LcALMT5 和LcALMT15 在各个组织中均有表达且表达量较高，qPCR 结果表明 LcALMT5 的表达水平与转录组结果较为一致。【结论】16 个荔枝 ALMTs 具有保守的基因结构和蛋白结构域，组织表达存在差异。 |
| 英文摘要: |
| 【Objective】This study aims to discover members of the Al-activated malate transporter ALMT gene family that may be involved in the growth and development of litchi and to investigate their biological functions.【Method】The physicochemical properties of proteins, subcellular localisation predictions, phylogeny, gene structure, conservative motifs, chromosomal positioning, promoter cis-acting elements, protein structure and expression patterns of litchi ALMT gene family members were systematically analysed using bioinformatics methods, expression of the litchi LcALMTs was analysed by qPCR.【Result】The results showed that the litchi LcALMT gene family has 16 members with CDS lengths ranging from 118 to 803 bp and isoelectric points between 5.16 and 9.07. Subcellular localisation predictions showed that the LcALMTs were all localised to the plasma membrane, and the family was divided into five subclades based on a phylogenetic tree. The number of exons of the LcALMTs ranged from 3 to 10, and four LcALMT genes did not contain any non-coding regions. Chromosomal localisation analysis revealed that LcALMTs was localised on only six of the 15 chromosomes of litchi, and mainly on chromosome 13. Conservative motif analysis revealed that litchi ALMT family members contain both ALMT and ALMT superfamily structural domains. Among the cis-acting elements, light-responsive elements accounted for the largest proportion, followed by hormone-responsive elements. Expression pattern analysis revealed that the expression of Litchi LcALMTs was highly variable in different tissues, with LcALMT5 and LcALMT15 being expressed at high levels in all tissues, the qPCR results showed that the expression level of LcALMT5 was more consistent with the results of the transcriptome.【Conclusion】
There are 16 members of the litchi ALMT Gene family, which has a conservative gene structure and protein domain, and there are differences in tissue expression. |
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