Identification and Expression Analysis of CPP Gene Family in Sorghum

doi:10.13560/j.cnki.biotech.bull.1985.2024-0569

Abstract

Abstract:

【Objective】CPP gene family exists widely in eukaryotes and plays an important role in plant growth and development. Identifying the members of the CPP gene family from the sorghum genome and analyzing their expression characteristics provides a theoretical basis for functional study and genetic improvement of the CPP gene family in sorghum.【Method】Bioinformatics techniques were used to analyze the sequences of the sorghum CPP gene family, and transcriptome and RT-qPCR techniques were used to analyze the expressions of SbCPP in different tissues of sorghum and under salt alkali stress.【Result】A total of eight SbCPP genes were identified in sorghum, and they were distributed unevenly on seven chromosomes and had similar gene structure and protein physicochemical properties among the members of the families. The SbCPP gene was closely related to rice（Oryza sativa）, and there were 6 pairs of homologous genes. The promoter analysis showed that the SbCPP gene promoter contained elements such as light response, hormone response and stress response. The transcriptome data analysis results indicated that SbCPP gene might be involved in the regulation process of sorghum under saline-alkali stress. The results of real-time quantitative PCR showed that SbCPP gene was widely expressed in sorghum under saline-alkali stress, but the expression patterns of family members varied in different periods. The expressions of SbCPP01 and SbPP04 were high at 12 h, and that of SbPP02 was high at 6 h, the expression of SbPP03 was high at 1 h, and the above genes were significantly expressed.【Conclusion】Eight CPP genes were obtained from sorghum, among which SbCPP01, SbCPP02 and SbCPP04 were highly expressed under saline-alkali stress, indicating that these genes play an important role in resisting saline-alkali stress in sorghum.

Key words: sorghum, CPP gene, bioinformatics, RT-qPCR, expression pattern analysis

DU Pin-ting, WU Guo-jiang, WANG Zhen-guo, LI Yan, ZHOU Wei, ZHOU Ya-xing. Identification and Expression Analysis of CPP Gene Family in Sorghum[J]. Biotechnology Bulletin, 2025, 41(1): 132-142.

Figures/Tables 11

References 28

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Gene	Forward primer（5'-3'）	Reverse primer（5'-3'）
GAPDH	CCTGTACCGTCCCTCGACTT	ATGCTTGCACCCTGTACTGC
SbCPP01	CAAGAACTACGAAGGGAGTGAGGAG	GGCACCATTCAGAGCAACATTAGC
SbCPP02	TGCTTCGCTTCTGGTACTCACTG	TCACGCCTGGCAACCTCATTC
SbCPP03	CCAACAAGAGGAACAGCAATGACAG	AGGATCTGGACGCACTTCGATATG
SbCPP04	ACAGGAAGAGGAGGAGGAAGGC	AGGTTCGCATCCACATGACTCAG
SbCPP05	CACCAAACAAGAAGCGAATCTCTCC	CCACCAAGGGAAGGGAAAGAAGG
SbCPP06	GGCTTCCATTGGTCTGAAACTTCG	TTAGTGCTTGTGTTGTTGGAGATGC
SbCPP07	CGCAAGCAGACTGAATCTCGTAAC	CGGAAGCAGGAGTGTTGTTAGAATC
SbCPP08	GTTCTCTCCACTCGGAAGCAGATAG	TTCCAGACCAGCATCAGACATACG

Gene	Forward primer（5'-3'）	Reverse primer（5'-3'）
GAPDH	CCTGTACCGTCCCTCGACTT	ATGCTTGCACCCTGTACTGC
SbCPP01	CAAGAACTACGAAGGGAGTGAGGAG	GGCACCATTCAGAGCAACATTAGC
SbCPP02	TGCTTCGCTTCTGGTACTCACTG	TCACGCCTGGCAACCTCATTC
SbCPP03	CCAACAAGAGGAACAGCAATGACAG	AGGATCTGGACGCACTTCGATATG
SbCPP04	ACAGGAAGAGGAGGAGGAAGGC	AGGTTCGCATCCACATGACTCAG
SbCPP05	CACCAAACAAGAAGCGAATCTCTCC	CCACCAAGGGAAGGGAAAGAAGG
SbCPP06	GGCTTCCATTGGTCTGAAACTTCG	TTAGTGCTTGTGTTGTTGGAGATGC
SbCPP07	CGCAAGCAGACTGAATCTCGTAAC	CGGAAGCAGGAGTGTTGTTAGAATC
SbCPP08	GTTCTCTCCACTCGGAAGCAGATAG	TTCCAGACCAGCATCAGACATACG

基因 Gene	基因号 Gene ID	氨基酸数目Number of amino acids/aa	分子量Molecular weight/kD	等电点pI	不稳定性系数Instability index	脂肪系数Aliphatic index	亲水性平均值Grand average of hydropathicity	亚细胞定位预测 Prediction of subcellular location
SbCPP01	Sobic.010G147000.v3.2	509	56 257.23	7.11	51.64	64.24	-0.758	细胞核 Nucleus
SbCPP02	Sobic.003G303800.v3.2	613	67 297.16	8.84	57.48	62.07	-0.747	细胞核 Nucleus
SbCPP03	Sobic.009G191600.v3.2	359	40 038.23	8.5	52.7	56.55	-0.735	细胞核 Nucleus
SbCPP04	Sobic.008G160500.v3.2	409	44 239.48	6.82	80.47	64.72	-0.543	细胞核 Nucleus
SbCPP05	Sobic.008G160600.v3.2	767	82 644.05	6.54	59.91	66.4	-0.579	细胞核 Nucleus
SbCPP06	Sobic.004G124300.v3.2	543	59 446.12	7.17	58.52	53.22	-0.779	细胞核 Nucleus
SbCPP07	Sobic.001G159500.v3.2	747	81 124.88	8.1	54.62	68.3	-0.579	细胞核 Nucleus
SbCPP08	Sobic.002G050700.v3.2	776	83 360.06	6.04	53.58	64.86	-0.599	细胞核 Nucleus

基因 Gene	基因号 Gene ID	氨基酸数目Number of amino acids/aa	分子量Molecular weight/kD	等电点pI	不稳定性系数Instability index	脂肪系数Aliphatic index	亲水性平均值Grand average of hydropathicity	亚细胞定位预测 Prediction of subcellular location
SbCPP01	Sobic.010G147000.v3.2	509	56 257.23	7.11	51.64	64.24	-0.758	细胞核 Nucleus
SbCPP02	Sobic.003G303800.v3.2	613	67 297.16	8.84	57.48	62.07	-0.747	细胞核 Nucleus
SbCPP03	Sobic.009G191600.v3.2	359	40 038.23	8.5	52.7	56.55	-0.735	细胞核 Nucleus
SbCPP04	Sobic.008G160500.v3.2	409	44 239.48	6.82	80.47	64.72	-0.543	细胞核 Nucleus
SbCPP05	Sobic.008G160600.v3.2	767	82 644.05	6.54	59.91	66.4	-0.579	细胞核 Nucleus
SbCPP06	Sobic.004G124300.v3.2	543	59 446.12	7.17	58.52	53.22	-0.779	细胞核 Nucleus
SbCPP07	Sobic.001G159500.v3.2	747	81 124.88	8.1	54.62	68.3	-0.579	细胞核 Nucleus
SbCPP08	Sobic.002G050700.v3.2	776	83 360.06	6.04	53.58	64.86	-0.599	细胞核 Nucleus

蛋白Protein	α-螺旋α-helix/%	延长链 Extended strand/%	β-转角β-turn/%	无规则卷曲Random coil/%
SbCPP01	27.11	6.48	3.34	63.06
SbCPP02	27.41	5.38	3.92	63.30
SbCPP03	21.17	9.75	3.62	65.46
SbCPP04	19.56	11.00	3.67	65.77
SbCPP05	16.95	9.91	1.96	71.19
SbCPP06	26.15	5.34	3.50	65.01
SbCPP07	18.74	9.64	2.41	69.21
SbCPP08	21.13	6.70	2.45	69.72