In silico Cloning of Homogentisate Phytyltransferase Gene from Soybean

doi:10.7668/hbnxb.2007.04.004

Abstract

Abstract: In silico cloning based on EST sequence is a new method of gene cloning, using Arabidopsis thaliana homogentisate phytyltransferase cDNA sequence as a query probe to blast Glycine max EST database, a soybean HPT gene cDNA of 1777 bp was obtained (GeneBank Accession, AY956421). This sequence was confirmed by RT-PCR, molecular cloning and sequencing, It contained a complete ORF, from 173 bp to 1408 bp, encoded 411 amino acids, and conserved with Arabidopsis thaliana, Medicago sative, Oryza, Zea mays and Synechocystis. The results show that it is 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, Homogentisate phytyltransferase, Soybean

CLC Number:

S565.103

MENG Xian-ping, LI Xiao-xiao, LI Ya-xuan, CAI Min-hua, HU Ying-kao. In silico Cloning of Homogentisate Phytyltransferase Gene from Soybean[J]. ACTA AGRICULTURAE BOREALI-SINICA, 2007, 22(4): 14-18. doi: 10.7668/hbnxb.2007.04.004.

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http://www.hbnxb.net/EN/Y2007/V22/I4/14

References

[1] Gill R, Sanseau P. Rapid in silico cloning of genes using expressed sequence tags (ESTs)[J]. Biotechnol Annu Rev, 2000, 5: 25-44.
[2] 黄骥, 王建飞, 张红生, 等. 水稻葡萄糖-6-磷酸脱氢酶cDNA的电子克隆[J]. 遗传学报, 2002, 29(11): 1012-1016.
[3] Wiemann S, Weil B, Wellenreuther R, et al. Towards a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs[J]. Genome Res, 2001, 11: 422-435.
[4] 张华莉, 邓昊, 张瑞芳, 等. 人类TECIB基因的电子克隆[J]. 遗传学报, 2003, 30(4): 317-320.
[5] 张德礼, 孙晓静, 凌伦奖, 等. 人类SR蛋白超家族新成员-SFR12(SRrp508)的基因克隆和特性分析[J]. 遗传学报, 2002, 29(5): 377-383.
[6] 刘庆坡, 冯英, 董辉. 水稻线粒体丝氨酸羟甲基转移酶基因的电子克隆[J]. 生物信息学, 2005, 3(1): 5-9.
[7] Collakova E, Dellapenna D. Isolation and Functional Analysis Phytyltransferase from Synechocystis sp. PCC 6803 and Arabidopsis[J]. Plant Physiology, 2001, 127: 1113-1124.
[8] Collakova E, DellaPenna D. Homogentisate phytyltransferase activity is limiting for tocopherol biosynthesis in Arabidopsis[J]. Plant Physiol, 2003, 131 (2): 632-642.
[9] 吴梅花, 张丽, 牛一丁, 等. 拟南芥逆境胁迫诱导表达基因rd29A启动子的克隆与序列分析[J]. 华北农学报, 2005, 20(2): 527-529.
[10] 王伟权, 刘莉, 王景雪. 水稻Glu B-1启动子克隆及序列分析[J]. 华北农学报, 2006, 21(6): 16-18.
[11] Prigent C, Ill R, Trower M, et al. In silico cloning of a new protein kianse, Aik2, related to Drosophila aurora using the new tool: EST Blast[J]. In Silico Biology, 1999, 1 (2): 123-128.
[12] 陈大福, 牛宝龙, 翁宏飚, 等. 利用EST库资源克隆家蚕腺苷酸转移酶基因[J]. 蚕业科学, 2004, 30(2): 151-153.

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