Identification of TCP Gene Family in Medicago ruthenica and Their Expression Pattern Analysis under Drought Stress

doi:10.13560/j.cnki.biotech.bull.1985.2024-1205

Abstract

Abstract:

Objective TCP (Teosinte-branched 1/Cincinnata/Proliferating) is a class of transcription factors that regulate plant growth and development and response to stress. Dissecting the sequence structure and physicochemical properties of the TCP gene family members (MruTCP) in Medicago ruthenica will help to understand the role of MruTCP genes under drought stress and provide genetic resources for molecular breeding of forage. Method MruTCP genes were identified based on the whole genome level and analyzed for bioinformatics and expression patterns under drought stress. Result A total of 20 TCP genes were identified in M. ruthenica, and distributed on seven chromosomes. The results of phylogenetic analysis showed that the MruTCP proteins were categorized into three subfamilies: PCF, CIN and CYC/TB1, with differences in the motif types and order of the proteins, but all of them contained a common conserved motif: Motif 1, and the structure of the family members was relatively simple. The results of the covariance analysis indicated that there were two fragment duplication events within the alfalfa TCP family and the closest affinity with soybean. The results of promoter cis-acting element analysis indicated that the MruTCP family members were more complex in function and played roles in signaling, response to abiotic stress, light signaling response, and hormone regulation. Transcriptomic data and qRT-PCR results under drought stress indicated that the expression patterns of MruTCP gene family members differed at different time points and under different concentrations of drought treatments. Among them, MruTCP05 and MruTCP09 contained abundant hormone-responsive elements and stress-responsive elements and were strongly induced by drought stress. Conclusion Combined with the bioinformatics analysis and expression pattern analysis of the TCP gene family, this study hypothesized that MruTCP05 and MruTCP09 are candidate genes for regulating drought tolerance in M. ruthenica.

Key words: Medicago ruthenica, TCP gene, drought stress, transcriptional expression analysis

WANG Miao-miao, ZHAO Xiang-long, WANG Zhao-ming, LIU Zhi-peng, YAN Long-feng. Identification of TCP Gene Family in Medicago ruthenica and Their Expression Pattern Analysis under Drought Stress[J]. Biotechnology Bulletin, 2025, 41(6): 179-190.

Figures/Tables 11

References 49

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基因名称 Gene name	正向引物Forward primer sequence （5'-3'）	反向引物Reverse primer sequence （5'-3'）
MruActin	ATCCAGGCTGTCCTCTCCCT	ACGAAGGATGGCATGTGGGA
MruTCP01	CCACTCCTGCTTCTTTCTCT	GCCGGAAGGTTTTTCTGTTT
MruTCP02	GGAAACGGAAAACAACAGCC	GGAGCTAGGTCACAAATCCG
MruTCP03	GGAAACGGAAAACAACAGCC	GGAGCTAGGTCACAAATCCG
MruTCP05	CACTTCACTCGACCACAAAC	CGGCCTGATTTTGGACAAAT
MruTCP06	CAGATCTGAACCACCTCCTC	TGTGCAGCTAGAGTTTTCCA
MruTCP09	TGTTGGTGGTGGTAATGGAA	TTAGGTTCAGGAATCGTCGG
MruTCP16	AGGAACAAATTTGGGAGGGA	GGTTCATCAGCAGAATCAGC
MruTCP17	ACTCAAAATCCCAACCACCT	CGTTTCTGTTTCAACCGGTT
MruTCP18	ACCGATCCAACCAACTAGTC	CTTTGCGCTGCTAGAGTTTT

基因名称 Gene name	正向引物Forward primer sequence （5'-3'）	反向引物Reverse primer sequence （5'-3'）
MruActin	ATCCAGGCTGTCCTCTCCCT	ACGAAGGATGGCATGTGGGA
MruTCP01	CCACTCCTGCTTCTTTCTCT	GCCGGAAGGTTTTTCTGTTT
MruTCP02	GGAAACGGAAAACAACAGCC	GGAGCTAGGTCACAAATCCG
MruTCP03	GGAAACGGAAAACAACAGCC	GGAGCTAGGTCACAAATCCG
MruTCP05	CACTTCACTCGACCACAAAC	CGGCCTGATTTTGGACAAAT
MruTCP06	CAGATCTGAACCACCTCCTC	TGTGCAGCTAGAGTTTTCCA
MruTCP09	TGTTGGTGGTGGTAATGGAA	TTAGGTTCAGGAATCGTCGG
MruTCP16	AGGAACAAATTTGGGAGGGA	GGTTCATCAGCAGAATCAGC
MruTCP17	ACTCAAAATCCCAACCACCT	CGTTTCTGTTTCAACCGGTT
MruTCP18	ACCGATCCAACCAACTAGTC	CTTTGCGCTGCTAGAGTTTT

基因名称Gene name	基因ID Gene ID	氨基酸数目 Number of amino acids （aa）	分子量 Molecular weight （kD）	理论等电点 pI	不稳定系数Instability index	脂肪系数Aliphatic index	疏水性 Hydrophobicity	亚细胞定位 Subcellular localization
MruTCP01	MruT001875	225	24.52	8.01	56.29	62.98	-0.76	细胞核
MruTCP02	MruT002689	206	22.20	7.02	81.12	65.29	-0.47	细胞核
MruTCP03	MruT005553	342	35.89	4.97	56.45	62.84	-0.364	细胞核
MruTCP04	MruT005664	390	44.27	6.32	55.17	53.31	-0.766	细胞核
MruTCP05	MruT006387	255	27.23	9.51	48.03	69.76	-0.543	细胞核
MruTCP06	MruT006697	509	54.44	6.43	58.12	51.1	-0.863	细胞核
MruTCP07	MruT011216	328	36.21	6.03	45.67	61.89	-0.74	细胞核
MruTCP08	MruT022062	337	37.82	6.1	43.68	56.05	-0.904	细胞核
MruTCP09	MruT028007	418	44.08	6.26	57.08	59.35	-0.609	细胞核
MruTCP10	MruT031885	329	36.89	6.36	48.26	76.38	-0.604	细胞核
MruTCP11	MruT032111	412	46.55	9.35	54.68	57.31	-0.966	细胞核
MruTCP12	MruT033252	233	25.94	10.08	70.54	64.08	-0.682	细胞核
MruTCP13	MruT034692	351	39.72	7.23	48.98	57.75	-0.948	细胞核
MruTCP14	MruT034836	383	43.73	6.71	53.45	52.53	-1.155	细胞核
MruTCP15	MruT034841	383	43.74	6.71	53.45	52.27	-1.154	细胞核
MruTCP16	MruT035144	286	30.94	8.68	51.03	60.42	-0.851	细胞核
MruTCP17	MruT041006	325	35.38	9.27	62.8	75.94	-0.424	细胞核
MruTCP18	MruT043711	439	47.62	7.01	63.2	53.62	-0.893	细胞核
MruTCP19	MruT043927	390	44.87	8.9	50.63	55.23	-1.029	细胞核
MruTCP20	MruT045760	439	47.62	7.01	63.2	53.62	-0.893	细胞核

基因名称Gene name	基因ID Gene ID	氨基酸数目 Number of amino acids （aa）	分子量 Molecular weight （kD）	理论等电点 pI	不稳定系数Instability index	脂肪系数Aliphatic index	疏水性 Hydrophobicity	亚细胞定位 Subcellular localization
MruTCP01	MruT001875	225	24.52	8.01	56.29	62.98	-0.76	细胞核
MruTCP02	MruT002689	206	22.20	7.02	81.12	65.29	-0.47	细胞核
MruTCP03	MruT005553	342	35.89	4.97	56.45	62.84	-0.364	细胞核
MruTCP04	MruT005664	390	44.27	6.32	55.17	53.31	-0.766	细胞核
MruTCP05	MruT006387	255	27.23	9.51	48.03	69.76	-0.543	细胞核
MruTCP06	MruT006697	509	54.44	6.43	58.12	51.1	-0.863	细胞核
MruTCP07	MruT011216	328	36.21	6.03	45.67	61.89	-0.74	细胞核
MruTCP08	MruT022062	337	37.82	6.1	43.68	56.05	-0.904	细胞核
MruTCP09	MruT028007	418	44.08	6.26	57.08	59.35	-0.609	细胞核
MruTCP10	MruT031885	329	36.89	6.36	48.26	76.38	-0.604	细胞核
MruTCP11	MruT032111	412	46.55	9.35	54.68	57.31	-0.966	细胞核
MruTCP12	MruT033252	233	25.94	10.08	70.54	64.08	-0.682	细胞核
MruTCP13	MruT034692	351	39.72	7.23	48.98	57.75	-0.948	细胞核
MruTCP14	MruT034836	383	43.73	6.71	53.45	52.53	-1.155	细胞核
MruTCP15	MruT034841	383	43.74	6.71	53.45	52.27	-1.154	细胞核
MruTCP16	MruT035144	286	30.94	8.68	51.03	60.42	-0.851	细胞核
MruTCP17	MruT041006	325	35.38	9.27	62.8	75.94	-0.424	细胞核
MruTCP18	MruT043711	439	47.62	7.01	63.2	53.62	-0.893	细胞核
MruTCP19	MruT043927	390	44.87	8.9	50.63	55.23	-1.029	细胞核
MruTCP20	MruT045760	439	47.62	7.01	63.2	53.62	-0.893	细胞核

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