赤苍藤WRI1基因家族的全基因组鉴定及表达模式分析

doi:10.13560/j.cnki.biotech.bull.1985.2024-1212

摘要/Abstract

摘要：

目的鉴定赤苍藤WRI1转录因子，为进一步探究WRI1在油脂合成中的作用提供基础。方法基于赤苍藤全基因组数据利用生物信息学方法，鉴定赤苍藤中的WRI1转录因子，基于转录组数据分析WRI1在赤苍藤不同组织中的表达模式。结果在赤苍藤鉴定出17个含有2个AP2保守结构域的WRI1蛋白（EsWRI1-1-EsWRI1-17），氨基酸数为359-776，平均分子量为56 kD，多为偏酸性不稳定亲水性蛋白。亚细胞定位显示其多位于细胞核，17个EsWRI1s成员不均匀分布在8条染色体上；蛋白序列系统发育分析结果将17个WRI1蛋白分为9个亚家族（Grooup1-Group9），其中Group3成员与拟南芥、大豆亲缘关系较近，EsWRI1-10与拟南芥亲缘关系最近。EsWRI1s基因家族启动子分析显示，含有较多的生物与非生物胁迫、植物激素响应及植物生长发育相关的基序，其中生长发育相关的元件最多。基因表达模式分析显示，EsWRI1-10、EsWRI1-14、EsWRI1-16基因在未成熟种仁中的表达量高于其他组织，其中EsWRI1-10基因在赤苍藤种仁形成中发挥主要作用；EsWRI1-11、EsWRI1-17、EsWRI1-7在赤苍藤的不同组织中均有较高表达。RT-qPCR验证与转录组数据一致。结论共鉴定出17个WRI1基因，编码蛋白均具有良好的热稳定性和亲水性且预测主要定位于细胞核；EsWRI1s基因家族与拟南芥、大豆、蒜头果WRI1都具有较高的同源性；特定基因在未成熟种仁特异性表达，暗示其对种仁生长发育有重要作用，可能在赤苍藤油脂合成中发挥着关键作用。

关键词: 赤苍藤, WRI1转录因子, 基因家族, 油脂, 药食同源植物, 油酸, 表达模式分析

Abstract:

Objective Identification of the WRI1 transcription factor in Erythropalum scandens provides a foundation for further investigation into its role in lipid biosynthesis. Method The whole genome data of E. scandens were used to identify the WRI1 transcription factors in E. scandens by bioinformatics methods. Based on transcriptome data, the expression patterns of WRI1 in different tissues of E. scandens were analyzed. Result A total of 17 WRI1proteins (EsWRI1-1-EsWRI1-17) containing two AP2 conserved domains were identified in E. scandens. The number of amino acids was 359-776, and the average molecular weight was 56 kD. Most of them were acidic and unstably hydrophilic proteins. Subcellular localization showed that it was mostly located in the nucleus, and 17 EsWRI1s members were unevenly distributed on 8 chromosomes. The results of protein sequence phylogenetic analysis divided 17 WRI1 proteins into nine subfamilies (Group 1-Group 9). Among them, Group 3 members were closely related to Arabidopsis thaliana and Glycine max, and EsWRI1-10 was closely related to A. thaliana. The promoter analysis of the EsWRI1s gene family showed that it contained more motifs related to biotic and abiotic stress, plant response to hormone,and plant growth and development, among which the growth and development-related elements were the most. The analysis of gene expression patterns showed that the expressions of EsWRI1-10, EsWRI1-14 and EsWRI1-16 genes in immature kernels were higher than those in other tissues, among which EsWRI1-10 gene played a major role in the formation of kernels, EsWRI1-11, EsWRI1-17 and EsWRI1-7 were highly expressed in different tissues of E. scandens. The RT-qPCR validation was consistent with the transcriptome data. Conclusion A total of 17 WRI1 genes are identified. Their encoded proteins possess favorable thermal stability and hydrophilicity and are predicted to be mainly located in the cell nucleus. The EsWRI1s gene family shares high homology with that of A. thaliana, G. max and M. oleifera. Specific genes are expressed specifically in immature seed kernels, implying their significant roles in kernel growth and development and potentially in lipid synthesis of E. scandens.

Key words: Erythropalum scandens, WRI1 transcription factor, gene family, oil, medicine and food homologous plants, oleic acid, expression pattern analysis

黄诗宇, 田姗姗, 杨天为, 高曼熔, 张尚文. 赤苍藤WRI1基因家族的全基因组鉴定及表达模式分析[J]. 生物技术通报, 2025, 41(8): 242-254.

HUANG Shi-yu, TIAN Shan-shan, YANG Tian-wei, GAO Man-rong, ZHANG Shang-wen. Genome-wide Identification and Expression Pattern Analysis of WRI1 Gene Family in Erythropalum scandens[J]. Biotechnology Bulletin, 2025, 41(8): 242-254.

图/表 10

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引物名称 Primer name	引物序列 Primer sequence F （5′-3′）	引物序列 Primer sequence R （5′-3′）
EsWRI1-1	ATCGGCAGGGGACAATGAG	ATAGAGTCACCCGCACAGGC
EsWRI1-2	AGTAAAATCTGAAGCCAGCCCA	CTCAAACCGTCCAGTCCATCTAT
EsWRI1-4	CAAAGCCGCAAGAACACTACTC	GCCAAACACCCTCCCAATC
EsWRI1-5	CCTCCGTGTCTAATGCCGTT	TGGTAGTACATGCTGTCTAAGCTCA
EsWRI1-6	TGCCGCCAAGAACCCTAA	CCCCACATTCACAAAACCGT
EsWRI1-7	GAGAAGGGGATGGATGTGGA	GCAACCGATGAAGCAGTGG
EsWRI1-8	TCACTATGAAAGCAACGGCAG	TGGGTATTGTGGAACCTGAATCT
EsWRI1-9	AGGATTTTCGGGTTCTCGGT	TGCGAAACCTCCGTAGACTT
EsWRI1-10	CCTACACCCTTCTTCCTGCA	GCATCTCCTCCCTGATCGAA
EsWRI1-11	ACGTCAGAACACCCTCCTTT	GAATGAATGGCAGCAGAGGG
EsWRI1-13	TGGGGTCAGTCATTGCTCAT	TGATCATACCCCGCAACCTT
EsWRI1-14	TTGAGATGAGCCGCTACGAT	AGATGGTGGGAATTGGCTGA
EsWRI1-15	CAACGACGAGGCTTCTGATG	GAAATCCCCTCCTCCACCAA
EsWRI1-16	AAAATGCCACCATCAACCC	TTCCATTGCCACTTCCAACG
EsWRI1-17	TACCCCAATGCCATCACTGT	AAGAAGTGTTGGCGGTTGAC
EsWRI1-ACTIN	CTGGACTCTGGTGATGGTGT	AGCTGTAGTGGTGAACGAGT

引物名称 Primer name	引物序列 Primer sequence F （5′-3′）	引物序列 Primer sequence R （5′-3′）
EsWRI1-1	ATCGGCAGGGGACAATGAG	ATAGAGTCACCCGCACAGGC
EsWRI1-2	AGTAAAATCTGAAGCCAGCCCA	CTCAAACCGTCCAGTCCATCTAT
EsWRI1-4	CAAAGCCGCAAGAACACTACTC	GCCAAACACCCTCCCAATC
EsWRI1-5	CCTCCGTGTCTAATGCCGTT	TGGTAGTACATGCTGTCTAAGCTCA
EsWRI1-6	TGCCGCCAAGAACCCTAA	CCCCACATTCACAAAACCGT
EsWRI1-7	GAGAAGGGGATGGATGTGGA	GCAACCGATGAAGCAGTGG
EsWRI1-8	TCACTATGAAAGCAACGGCAG	TGGGTATTGTGGAACCTGAATCT
EsWRI1-9	AGGATTTTCGGGTTCTCGGT	TGCGAAACCTCCGTAGACTT
EsWRI1-10	CCTACACCCTTCTTCCTGCA	GCATCTCCTCCCTGATCGAA
EsWRI1-11	ACGTCAGAACACCCTCCTTT	GAATGAATGGCAGCAGAGGG
EsWRI1-13	TGGGGTCAGTCATTGCTCAT	TGATCATACCCCGCAACCTT
EsWRI1-14	TTGAGATGAGCCGCTACGAT	AGATGGTGGGAATTGGCTGA
EsWRI1-15	CAACGACGAGGCTTCTGATG	GAAATCCCCTCCTCCACCAA
EsWRI1-16	AAAATGCCACCATCAACCC	TTCCATTGCCACTTCCAACG
EsWRI1-17	TACCCCAATGCCATCACTGT	AAGAAGTGTTGGCGGTTGAC
EsWRI1-ACTIN	CTGGACTCTGGTGATGGTGT	AGCTGTAGTGGTGAACGAGT

基因ID Gene ID	基因名称 Gene name	氨基酸数量 Number of amino acids	分子量 Molecular weight （Da）	理论等电点 Theoretical pI	不稳定指数 Instability index	脂肪族氨基酸指数 Aliphatic index	亲水度 Grand average of hydropathicity	亚细胞定位预测 Prediction of subcellular localizations
rna-Esc18949.1	EsWRI1-1	366	40 146.65	5.63	72.25	61.45	-0.684	细胞核
rna-Esc20888.1	EsWRI1-2	414	46 482.77	8.17	68.63	67.63	-0.652	细胞核
rna-Esc17587.1	EsWRI1-3	395	45 425.88	8.54	56.95	67.19	-0.732	细胞核
rna-Esc03120.1	EsWRI1-4	359	40 429.59	7.25	52.93	53.93	-0.845	叶绿体
rna-Esc06811.1	EsWRI1-5	654	72 603.55	6.60	49.21	58.65	-0.705	细胞核
rna-Esc08324.1	EsWRI1-6	505	55 072.66	6.68	43.03	61.31	-0.590	细胞核
rna-Esc21664.1	EsWRI1-7	455	49 570.36	6.10	49.52	68.44	-0.428	细胞核
rna-Esc10505.1	EsWRI1-8	682	75 623.87	6.44	64.94	56.00	-0.727	细胞核
rna-Esc10658.1	EsWRI1-9	516	56 494.17	6.26	52.68	51.65	-0.784	细胞核
rna-Esc09593.1	EsWRI1-10	373	41 400.93	6.56	69.97	54.21	-0.760	叶绿体
rna-Esc11447.1	EsWRI1-11	498	54 081.18	6.11	58.43	61.75	-0.541	细胞核
rna-Esc07556.1	EsWRI1-12	776	86 018.87	7.65	38.19	64.34	-0.558	细胞核
rna-Esc20152.1	EsWRI1-13	626	68 403.11	5.96	43.21	57.86	-0.632	细胞外基质
rna-Esc10394.1	EsWRI1-14	495	54 505.45	5.82	46.52	66.10	-0.464	细胞核
rna-Esc02568.1	EsWRI1-15	451	49 572.57	5.06	50.92	64.32	-0.610	细胞核
rna-Esc07558.1	EsWRI1-16	606	66 890.17	7.71	49.21	59.75	-0.734	细胞核
rna-Esc09123.1	EsWRI1-17	469	51 678.94	8.93	48.29	61.81	-0.575	细胞核

基因ID Gene ID	基因名称 Gene name	氨基酸数量 Number of amino acids	分子量 Molecular weight （Da）	理论等电点 Theoretical pI	不稳定指数 Instability index	脂肪族氨基酸指数 Aliphatic index	亲水度 Grand average of hydropathicity	亚细胞定位预测 Prediction of subcellular localizations
rna-Esc18949.1	EsWRI1-1	366	40 146.65	5.63	72.25	61.45	-0.684	细胞核
rna-Esc20888.1	EsWRI1-2	414	46 482.77	8.17	68.63	67.63	-0.652	细胞核
rna-Esc17587.1	EsWRI1-3	395	45 425.88	8.54	56.95	67.19	-0.732	细胞核
rna-Esc03120.1	EsWRI1-4	359	40 429.59	7.25	52.93	53.93	-0.845	叶绿体
rna-Esc06811.1	EsWRI1-5	654	72 603.55	6.60	49.21	58.65	-0.705	细胞核
rna-Esc08324.1	EsWRI1-6	505	55 072.66	6.68	43.03	61.31	-0.590	细胞核
rna-Esc21664.1	EsWRI1-7	455	49 570.36	6.10	49.52	68.44	-0.428	细胞核
rna-Esc10505.1	EsWRI1-8	682	75 623.87	6.44	64.94	56.00	-0.727	细胞核
rna-Esc10658.1	EsWRI1-9	516	56 494.17	6.26	52.68	51.65	-0.784	细胞核
rna-Esc09593.1	EsWRI1-10	373	41 400.93	6.56	69.97	54.21	-0.760	叶绿体
rna-Esc11447.1	EsWRI1-11	498	54 081.18	6.11	58.43	61.75	-0.541	细胞核
rna-Esc07556.1	EsWRI1-12	776	86 018.87	7.65	38.19	64.34	-0.558	细胞核
rna-Esc20152.1	EsWRI1-13	626	68 403.11	5.96	43.21	57.86	-0.632	细胞外基质
rna-Esc10394.1	EsWRI1-14	495	54 505.45	5.82	46.52	66.10	-0.464	细胞核
rna-Esc02568.1	EsWRI1-15	451	49 572.57	5.06	50.92	64.32	-0.610	细胞核
rna-Esc07558.1	EsWRI1-16	606	66 890.17	7.71	49.21	59.75	-0.734	细胞核
rna-Esc09123.1	EsWRI1-17	469	51 678.94	8.93	48.29	61.81	-0.575	细胞核