Screening and Expression Analysis of ERF Gene Related to Anthocyanin Synthesis in Colored Potato

doi:10.13560/j.cnki.biotech.bull.1985.2024-0460

Abstract

Abstract:

【Objective】Ethylene responsive factor（ERF）is an important transcription factor involved in the regulation of anthocyanin biosynthesis in plants. Screening of StERF genes that may be involved in the regulation of anthocyanin synthesis in potato tubers lays the foundation for the next step of research on the function of anthocyanin-related StERFs genes in colored potato.【Method】Bioinformatics methods were used to analyze their physicochemical properties, subcellular localization, conserved motifs, evolutionary relationships, protein secondary structure, promoter cis-acting elements, and protein interactions, while RT-qPCR was used to analyze the expression patterns of StERFs in potato flesh of different colors.【Result】Seven differentially expressed ERF transcription factors were obtained based on the transcriptome expression profiles of potato tubers of different colors. The seven StERFs are hydrophilic proteins, all of which are predicted to be localized in the nucleus. Motif 1（RWLG）and Motif 2（YRG）are the common conserved motifs in the seven StERFs, which belong to the structural domains of the characteristic sequences of AP2. The promoter sequences of the StERFs genes contain hormone-responsive action elements, as well as cis-action elements in response to defense and stress, low temperature and light, etc. The expressions of the seven StERFs were significantly higher in purple potato flesh than in yellow potato flesh, among which StERF72 and StERF110 were closer to known anthocyanin-associated ERFs（IbERF71 and PyERF3）. The existence of protein interactions between the seven StERFs and 56 transcription factors.【Conclusion】Seven StERFs may be involved in the regulation of anthocyanin synthesis in potato tubers, among which StERF72 and StERF110 can be candidated genes to further validate their functions.

Key words: colored potato, anthocyanin, ERF transcription factor, bioinformatics analysis, expression pattern analysis

WU Juan, WU Xiao-juan, WANG Pei-jie, XIE Rui, NIE Hu-shuai, LI Nan, MA Yan-hong. Screening and Expression Analysis of ERF Gene Related to Anthocyanin Synthesis in Colored Potato[J]. Biotechnology Bulletin, 2024, 40(9): 82-91.

Figures/Tables 12

References 36

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基因序号Gene ID	基因名称Gene name	引物序列Primer sequence（5'-3'）
Soltu.DM.05G020900	StERF92-1	F-ATGGAGTTAGGGTTTGGCTAGGAAC R-CCCTCATTGATAATGCGGCTTGATC
Soltu.DM.09G021200	StERF92-2	F-CTGAAGAAGCTGCGTTAGCGTATG R-ACCGGCGAACAATTCTCATCAAATC
Soltu.DM.09G023730	StERF72	F-GAAAAGGGGTTAGGGTCTGGTTAGG R-AGTAGTGGTCGTCGTCTTCATTGG
Soltu.DM.04G021630	StERF059	F-TGCATCAACAACAACAGAGCTTAGG R-GTTTGCTTCATCGGGACTGGTTTC
Soltu.DM.04G027450	StEF110	F-TGATGACGCCGCTCTTAGATTCAG R-TGGTGCTGGTGCTGTGGTTG
Soltu.DM.03G031310	StERF3	F-TGCCACATGACATCTCTCACTGC R-TCTCACTCTGCCTTTCTTCTCCATC
Soltu.DM.04G033390	StERF10	F-CAGAGGAATACGGATGAGGAAGTGG R-GTAAGCACGAGCAGCAGCAAC
	Actin	F-CCTTGTATGCTAGTGGTCG R-GCTCATAGTCAAGAGCCAC

基因序号Gene ID	基因名称Gene name	引物序列Primer sequence（5'-3'）
Soltu.DM.05G020900	StERF92-1	F-ATGGAGTTAGGGTTTGGCTAGGAAC R-CCCTCATTGATAATGCGGCTTGATC
Soltu.DM.09G021200	StERF92-2	F-CTGAAGAAGCTGCGTTAGCGTATG R-ACCGGCGAACAATTCTCATCAAATC
Soltu.DM.09G023730	StERF72	F-GAAAAGGGGTTAGGGTCTGGTTAGG R-AGTAGTGGTCGTCGTCTTCATTGG
Soltu.DM.04G021630	StERF059	F-TGCATCAACAACAACAGAGCTTAGG R-GTTTGCTTCATCGGGACTGGTTTC
Soltu.DM.04G027450	StEF110	F-TGATGACGCCGCTCTTAGATTCAG R-TGGTGCTGGTGCTGTGGTTG
Soltu.DM.03G031310	StERF3	F-TGCCACATGACATCTCTCACTGC R-TCTCACTCTGCCTTTCTTCTCCATC
Soltu.DM.04G033390	StERF10	F-CAGAGGAATACGGATGAGGAAGTGG R-GTAAGCACGAGCAGCAGCAAC
	Actin	F-CCTTGTATGCTAGTGGTCG R-GCTCATAGTCAAGAGCCAC

基因序号 Gene ID	基因名称 Gene name	NCBI数据库BLAST序列ID NCBI database BLAST sequence ID	PlantTB数据库BLAST序列ID PlantTB database BLAST sequence ID	相似度 Identities/%
Soltu.DM.05G020900	StERF92-1	XP_006360378.1	PGSC0003DMP400025705	100
Soltu.DM.09G021200	StERF92-2	XP_006351652.2	PGSC0003DMP400018171	100
Soltu.DM.09G023730	StERF72	NP_001275232.1	PGSC0003DMP400055026	92
Soltu.DM.04G021630	StERF059	XP_006355363.1	PGSC0003DMP400035842	100
Soltu.DM.04G027450	StEF110	XP_006363442.1	PGSC0003DMP400011298	100
Soltu.DM.03G031310	StERF3	XP_006341371.1	PGSC0003DMP400024835	92
Soltu.DM.04G033390	StERF10	XP_006354856.1	PGSC0003DMP400013982	100

基因序号 Gene ID	基因名称 Gene name	NCBI数据库BLAST序列ID NCBI database BLAST sequence ID	PlantTB数据库BLAST序列ID PlantTB database BLAST sequence ID	相似度 Identities/%
Soltu.DM.05G020900	StERF92-1	XP_006360378.1	PGSC0003DMP400025705	100
Soltu.DM.09G021200	StERF92-2	XP_006351652.2	PGSC0003DMP400018171	100
Soltu.DM.09G023730	StERF72	NP_001275232.1	PGSC0003DMP400055026	92
Soltu.DM.04G021630	StERF059	XP_006355363.1	PGSC0003DMP400035842	100
Soltu.DM.04G027450	StEF110	XP_006363442.1	PGSC0003DMP400011298	100
Soltu.DM.03G031310	StERF3	XP_006341371.1	PGSC0003DMP400024835	92
Soltu.DM.04G033390	StERF10	XP_006354856.1	PGSC0003DMP400013982	100

蛋白名称 Protein name	氨基酸数目 Number of amion acids/aa	相对分子质量 Molecular weight/ kD	理论等电点 pI	分子式 Molecular formula	脂肪系数 Aliphatc index	总平均亲水性 GRAVY	亚细胞定位 Subcellular localization
StERF92-1	225	25 615.43	5.4	C₁₁₂₅H₁₇₄₉N₃₁₁O₃₆₄S₅	70.18	-0.738	细胞核
StERF92-2	197	22 839.51	4.89	C₁₀₀₃H₁₅₅₄N₂₇₆O₃₁₉S₈	68.78	-0.652	细胞核
StERF72	278	31 714.03	5.1	C₁₃₈₅H₂₁₂₉N₃₉₁O₄₄₈S₉	57.55	-0.905	细胞核
StERF059	370	40 579.22	5.61	C₁₇₈₅H₂₇₆₂N₄₈₀O₅₇₆S₁₃	66.84	-0.465	细胞核
StEF110	441	48 254.51	5.97	C₂₀₈₄H₃₁₈₆N₆₁₂O₆₉₅S₁₀	46.78	-0.834	细胞核
StERF3	159	18 282.48	6.91	C₇₈₂H₁₂₅₀N₂₃₄O₂₅₄S₉	59.62	-0.899	细胞核
StERF10	145	16 663.74	9.04	C₇₂₂H₁₁₃₉N₂₁₉O₂₂₂S₇	56.62	-0.974	细胞核