In Silico Cloning of Pyridoxine Biosynthesis Protein Gene from Soybean and Evolution Analysis

doi:10.3321/j.issn:1000-7091.2007.01.015

Abstract

Abstract: In silico cloning is developing with the project of genomic and EST. It is a new method of gene-cloning through bioinformatics. A query probe from the cDNA sequence of Arabidopsis thaliana pyridoxine biosynthesis protein was designed to blast Glycine max EST database according to the relative conservation of homologous genes and a soybean PDX gene cDNA of 1280 bp was obtained (GenBank Accession, DQ139265). This sequence was confirmed by RT-PCR, genomic PCR, molecular cloned and sequenced. It contained a complete ORF, from 20 to 955 bp, encoded 311 amino acids, and conserved with Arabidopsis thaliana, Oryza sativa, Lotus corniculatus var. japonicus, Nicotiana tabacum, Medicago truncatula and Triticum aestivum. The results showed that it was an efficient technique to clone new genes by searching EST database with homologous gene of model species.

Key words: In silico cloning, EST database, RT-PCR, Genomic PCR, Glycine max, Pyridoxine biosynthesis(protein)

CLC Number:

S565.1

LI Rui, MENG Xian-ping, HU Ying-kao, CAI Min-hua, LI Ya-xuan. In Silico Cloning of Pyridoxine Biosynthesis Protein Gene from Soybean and Evolution Analysis[J]. ACTA AGRICULTURAE BOREALI-SINICA, 2007, 22(1): 64-68. doi: 10.3321/j.issn:1000-7091.2007.01.015.

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References

[1] Zhang C, Yu Y, Zhang S, et al. Characterization, chromosomal assignment, and tissue expression of a novel human gene belonging to the ARF GAP family[J]. Genomics, 2000, 63(3): 400-408.
[2] Wei M H, Karavanova I, Ivanov S V, et al. In silico-initiated cloning and molecular characterization of a novel human member of the L1 gene family of neural cell adhesion molecules[J]. Human Genetics, 1998, 103 (3): 355-364.
[3] Hosoi T, Koguchi Y, Sugikawa E, et al. Identification of a novel human eicosanoid receptor coupled to G (i/o)[J]. The Journal of Biological Chemistry, 2002, 277 (35): 31459-31465.
[4] West A B, Lockhart P J, O'farell C, et al. Identification of a novel gene linked to parkin via a bi-directional promoter[J]. Journal of Molecular Biology, 2003, 326 (1): 11-19.
[5] Chen H, Xiong L. Pyridoxine is required for post-embryonic root development and tolerance to osmotic and oxidative stresses[J]. Plant J, 2005, 44(3): 396-408.
[6] Wang H, Liu D, Liu C, et al. The pyridoxal kinase gene TaPdxK from wheat complements vitamin B6 synthesis-defective Escherichia coli[J]. Journal of Plant Physiology, 2004, 161: 1053-1060.
[7] 陈大福, 牛宝龙, 翁宏飚, 等. 蜜蜂(Apis mellifera)腺苷酸转移载体基因cDNA的电子克隆[J]. 中国农业科学, 2004, 37(6): 923-927.
[8] 黄骥, 张红生, 曹雅君, 等. 一个新的C2H2型水稻锌指蛋白cDNA的克隆与序列分析[J]. 南京农业大学学报, 2002, 25(2): 110-112.
[9] 林慧贤, 刘筱斌, 李发强. 一个水稻小GTP结合蛋白基因Osrab5B的克隆和分析[J]. 高技术通讯, 2001, 11(3): 9-14.
[10] Ehrenshaft M, Bilski P, Li M, et al. A highly conserved sequence is a novel gene involved in de novo vitamin B6 biosynthesis[J]. Microbiology, 1999, 96: 9374-9378.
[11] Tambasco-Studart M, Titiz O, Raschle T, et al. Vitamin B6 biosynthesis in higher plants[J]. PNAS, 2005, 102 (38): 13687-13692.

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