龙眼DRB家族全基因组鉴定及其表达分析

doi:10.16420/j.issn.0513-353x.2020-0526

摘要/Abstract

摘要：

为了解龙眼中双链RNA结合蛋白家族(DRB)的潜在功能,采用生物信息学方法鉴定龙眼DRB基因家族成员,并分析其在龙眼体胚发生早期、不同组织部位和外源脱落酸、水杨酸、茉莉酸甲酯处理下的表达模式。结果显示:龙眼DRB家族的8个成员分布在5个亚组中,并且都具有2 ~ 3个双链RNA结合结构域,内含子数1 ~ 7;龙眼DRB家族含有6种motif;启动子中含有大量光响应元件、激素响应元件和逆境胁迫响应元件;龙眼DRB家族成员在体胚发生的各个阶段、各器官中均有表达,但表达量差异较大;外源脱落酸、水杨酸及茉莉酸甲酯处理显著抑制龙眼DRB家族成员的表达。本研究结果表明,龙眼DRB家族成员高度保守,该家族成员可能参与龙眼体胚及各器官各阶段的生长发育过程,且参与脱落酸、水杨酸及茉莉酸甲酯响应过程。

关键词: 龙眼, DRB基因家族, 全基因组鉴定, 启动子, 生物信息学, 表达分析

Abstract:

In order to understand the potential functions of DRB(dsRNA-binding proteins)in longan,the bioinformatics analysis was carried out to identify members of the DRB gene family,and then their expression patterns were analyzed. The results showed that the DlDRB gene family contained eight members with two or three DSRM(double-stranded RNA binding motif)domains and could be distributed into five subgroups. The numbers of introns varied from one to seven. DlDRBs contain six kinds of motifs. The promoters ofDlDRBscontain a large number of light response elements,hormone response elements and stress response elements. DlDRBswere expressed in all stages of longan somatic embryogenesis and different organs. Under ABA,SA and MeJA treatments,the expression ofDlDRBsis clearly inhibited. This study indicated that members of the DlDRBs were highly conserved,they may be involved in the growth and development of somatic embryogenesis and organs in longan,and may be related to the response processes of ABA,SA and MeJA.

Key words: Dimocarpus longan, DRB gene family, genome-wide identification, promoter, bioinformatics, expression analysis

中图分类号:

S667.2

蔡柔荻, 厉雪, 陈燕, 徐小萍, 陈晓慧, 赖钟雄, 林玉玲. 龙眼DRB家族全基因组鉴定及其表达分析[J]. 园艺学报, 2021, 48(5): 921-933.

CAI Roudi, LI Xue, CHEN Yan, XU Xiaoping, CHEN Xiaohui, LAI Zhongxiong, LIN Yuling. Genome-wide Identification and Expression Analysis of DRB Gene Family in Dimocarpus longan[J]. Acta Horticulturae Sinica, 2021, 48(5): 921-933.

图/表 8

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基因名称 Gene name	引物名称 Primer name	引物序列(5′-3′) Sequence
DlDRB1	Dlo_011608.1	F:CGGGAACTCAGCAAGAAG;R:ACCAACCATGTGCTCAGTC
DlDRB2	Dlo_032918.1	F:GCCGCAATACACAACAGTC;R:TCGAGATGTCCAAGCTGC
DlDRB3A	Dlo_006566.1	F:ATCTGCTGCTTTGGATGG;R:TGCAATAGGTGGTGGTCTG
DlDRB3B	Dlo_004997.1	F:AGATTCTGGTTTTAGGCTCG;R:GGCCC CAGTTCTCATAGTC
DlDRB3C	Dlo_031650.1	F:AATCAGCACAGATGGACCC;R:CAGGGGGAGCAAATGAAG
DlDRB4A	Dlo_006595.1	F:CAACCATCCCTCCAAGAC;R:CATTGACCTCAGGAGCTTG
DlDRB4B	Dlo_010748.1	F:CACCTCACATGCCGACTTTT;R:TCTCCAACACTCTGCCCAAT
DlDRB6	Dlo_015255.1	F:CGCTGCGTAAAGTGAAGG;R:CCCACAGACAGCTTGCAC

基因名称 Gene name	引物名称 Primer name	引物序列(5′-3′) Sequence
DlDRB1	Dlo_011608.1	F:CGGGAACTCAGCAAGAAG;R:ACCAACCATGTGCTCAGTC
DlDRB2	Dlo_032918.1	F:GCCGCAATACACAACAGTC;R:TCGAGATGTCCAAGCTGC
DlDRB3A	Dlo_006566.1	F:ATCTGCTGCTTTGGATGG;R:TGCAATAGGTGGTGGTCTG
DlDRB3B	Dlo_004997.1	F:AGATTCTGGTTTTAGGCTCG;R:GGCCC CAGTTCTCATAGTC
DlDRB3C	Dlo_031650.1	F:AATCAGCACAGATGGACCC;R:CAGGGGGAGCAAATGAAG
DlDRB4A	Dlo_006595.1	F:CAACCATCCCTCCAAGAC;R:CATTGACCTCAGGAGCTTG
DlDRB4B	Dlo_010748.1	F:CACCTCACATGCCGACTTTT;R:TCTCCAACACTCTGCCCAAT
DlDRB6	Dlo_015255.1	F:CGCTGCGTAAAGTGAAGG;R:CCCACAGACAGCTTGCAC

基因名 Gene name	基因ID Accession No.	CDS/bp	氨基酸数/aa Amino acid	pI	分子量/ kD Mw	染色体位置 Genomic location	注释到拟南芥中 Annotated members of Arabidopsis thaliana	糖基化位点 N-glycosyl sites	亚细胞定位 Subcellular location
DlDRB1	Dlo_011608.1	1 164	387	6.68	41 832.07	scaffold2177;19929;24057;+	AT1G09700.1 (DRB1)	1	线粒体Mitochondrial
DlDRB2	Dlo_032918.1	1 389	462	9.14	50 375.63	scaffold905;239727;242523;-	AT12G28380.1 (DRB2)	1	细胞质Cytoplasmic
DlDRB3A	Dlo_006566.1	1 431	476	9.45	52 055.49	scaffold1488;15186;16811;+	AT3G26932.1 (DRB3)	4	细胞质Cytoplasmic
DlDRB3B	Dlo_004997.1	1 716	571	9.09	63 187.06	scaffold1339;54033;56503;+	AT3G26932.1 (DRB3)	4	细胞质Cytoplasmic
DlDRB3C	Dlo_031650.1	1 749	582	8.66	63 734.75	scaffold839;144409;147126;-	AT3G26932.1 (DRB3)	2	细胞质Cytoplasmic
DlDRB4A	Dlo_006595.1	801	266	6.20	29 386.63	scaffold149;147015;151451;-	AT3G62800.1 (DRB4)	0	细胞核Nuclear
DlDRB4B	Dlo_010748.1	1 599	532	6.45	58 942.26	scaffold202;352210;357863;-	AT3G62800.1 (DRB4)	0	细胞核Nuclear
DlDRB6	Dlo_015255.1	1 371	456	9.42	48 959.58	scaffold288;75960;78995;+	无 No result	2	细胞核Nuclear

基因名 Gene name	基因ID Accession No.	CDS/bp	氨基酸数/aa Amino acid	pI	分子量/ kD Mw	染色体位置 Genomic location	注释到拟南芥中 Annotated members of Arabidopsis thaliana	糖基化位点 N-glycosyl sites	亚细胞定位 Subcellular location
DlDRB1	Dlo_011608.1	1 164	387	6.68	41 832.07	scaffold2177;19929;24057;+	AT1G09700.1 (DRB1)	1	线粒体Mitochondrial
DlDRB2	Dlo_032918.1	1 389	462	9.14	50 375.63	scaffold905;239727;242523;-	AT12G28380.1 (DRB2)	1	细胞质Cytoplasmic
DlDRB3A	Dlo_006566.1	1 431	476	9.45	52 055.49	scaffold1488;15186;16811;+	AT3G26932.1 (DRB3)	4	细胞质Cytoplasmic
DlDRB3B	Dlo_004997.1	1 716	571	9.09	63 187.06	scaffold1339;54033;56503;+	AT3G26932.1 (DRB3)	4	细胞质Cytoplasmic
DlDRB3C	Dlo_031650.1	1 749	582	8.66	63 734.75	scaffold839;144409;147126;-	AT3G26932.1 (DRB3)	2	细胞质Cytoplasmic
DlDRB4A	Dlo_006595.1	801	266	6.20	29 386.63	scaffold149;147015;151451;-	AT3G62800.1 (DRB4)	0	细胞核Nuclear
DlDRB4B	Dlo_010748.1	1 599	532	6.45	58 942.26	scaffold202;352210;357863;-	AT3G62800.1 (DRB4)	0	细胞核Nuclear
DlDRB6	Dlo_015255.1	1 371	456	9.42	48 959.58	scaffold288;75960;78995;+	无 No result	2	细胞核Nuclear