巨菌草内生固氮菌Klebsiella variicola GN02 nifH基因的克隆及生物信息学分析

doi:10.14088/j.cnki.issn0439-8114.2020.03.033

湖北农业科学 ›› 2020, Vol. 59 ›› Issue (3): 147-153.doi: 10.14088/j.cnki.issn0439-8114.2020.03.033

巨菌草内生固氮菌Klebsiella variicola GN02 nifH基因的克隆及生物信息学分析

林标声^1,2, 张浣星³, 何玉琴¹, 罗茂春¹, 林占熺^2,4

1.龙岩学院生命科学学院,福建龙岩 364012;
2.福建农林大学生命科学学院,福建福州 350002;
3.奥兰多（杭州）实业有限公司,浙江杭州 310051;
4.国家菌草工程技术研究中心,福建福州 350002

收稿日期:2019-01-04 发布日期:2020-05-11
通讯作者: 林占熺（1943-）,男,研究员,博士生导师,主要从事菌草技术研究,（电话）0591-83769269（电子信箱）lzxjuncao@163.com。
作者简介:林标声（1981-）,男,福建连城人,副教授,博士,主要从事农业微生物学研究,（电话）13959464889（电子信箱）150391768@qq.com。
基金资助:
中央引导地方科技发展专项（2018L3003）

Cloning and bioinformatics analysis on nifH gene of endophytic nitrogen-fixing bacteria Klebsiella variicola GN02 isolated from Pennisetum giganteum

LIN Biao-sheng^1,2, ZHANG Huan-xing³, HE Yu-qin¹, LUO Mao-chun¹, LIN Zhan-xi^2,4

1.College of Life Science,Longyan University,Longyan 364012,Fujian,China;
2.College of Life Science,Fujian Agriculture and Forestry University,Fuzhou 350002,China;
3.Orlando （Hangzhou） Industrial Co.,Ltd.,Hangzhou 310051,China;
4.China National Engineering Research Center of JUNCAO Technology,Fuzhou 350002,China

Received:2019-01-04 Published:2020-05-11

摘要/Abstract

摘要： 研究巨菌草（Pennisetum giganteum）内生固氮菌Klebsiella variicola GN02 nifH基因的生物学信息,对GN02菌株nifH基因进行克隆及完整性验证,并采用多种生物学在线软件对其进行生物信息学预测和分析。结果表明,GN02菌株nifH基因具有完整的ORF,长度882 bp,编码293个氨基酸,NCBI GenBank登录号为MK131264。生物信息学分析表明,GN02菌株nifH基因具有高度保守性,与其他物种来源的nifH基因核苷酸序列及氨基酸序列同源性均达到95%以上。nifH蛋白总相对分子量为31 970.73、理论等电点pI为4.72;跨膜模型倾向N-末端向外的由内到外的跨膜、整个多肽链表现为亲水性;有2个糖基化位点但无分泌信号肽,有可能存在螺旋卷曲结构;二级结构预测表明α-螺旋和无规则卷曲是其多肽链中的主要结构元件,延伸链散布于整个蛋白质中;在数据库中能对该蛋白进行三维同源建模。

关键词: 巨菌草（Pennisetum giganteum）, 内生固氮菌, Klebsiella variicola, nifH基因, 克隆, 生物信息学

Abstract: To research the bioinformatics on the nifH gene of endophytic nitrogen-fixing bacteria Klebsiella variicola GN02 isolated from Pennisetum giganteum, the nifH gene of GN02 strain was cloned and its integrity was verified, and bioinformatics prediction and analysis of nifH gene were carried out by a variety of online biological software. The results showed that the nifH gene of GN02 strain had a complete ORF, length of 882 bp and encoded 293 amino acid, and the gene accession numbers registered in NCBI GenBank was MK131264. Bioinformatics analysis showed that the nifH gene of GN02 strain was highly conserved and had more than 95% homology with the nucleotide sequence and amino acid sequence of nifH gene from other species. The total relative molecular weight of nifH protein was 31 970.73 and the theoretical isoelectric point pI was 4.72. The transmembrane model inclined to the inward to outward transmembrane of N-end, and the whole polypeptide chain was hydrophilic. nifH protein had two glycosylation sites but no signal peptide secretion, which may had a helical crimp structure. The prediction of secondary structure showed that α-helix and irregular curl were the main structural elements in the polypeptide chain of nifH protein, and the extended chain was scattered in the whole protein. Three-dimensional homologous modeling of nifH protein can be carried out in the database.

Key words: Pennisetum giganteum, endophytic nitrogen-fixing bacteria, Klebsiella variicola, nifH gene, cloning, bioinformatics

中图分类号:

林标声, 张浣星, 何玉琴, 罗茂春, 林占熺. 巨菌草内生固氮菌Klebsiella variicola GN02 nifH基因的克隆及生物信息学分析[J]. 湖北农业科学, 2020, 59(3): 147-153.

LIN Biao-sheng, ZHANG Huan-xing, HE Yu-qin, LUO Mao-chun, LIN Zhan-xi. Cloning and bioinformatics analysis on nifH gene of endophytic nitrogen-fixing bacteria Klebsiella variicola GN02 isolated from Pennisetum giganteum[J]. HUBEI AGRICULTURAL SCIENCES, 2020, 59(3): 147-153.

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巨菌草内生固氮菌Klebsiella variicola GN02 nifH基因的克隆及生物信息学分析

Cloning and bioinformatics analysis on nifH gene of endophytic nitrogen-fixing bacteria Klebsiella variicola GN02 isolated from Pennisetum giganteum

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