海洋琼胶降解菌FG15基因组从头测序分析  

Genome de novo Sequencing of Agar-degrading Marine Strain FG15

作　　者：曾鸿俏 张力雄[1] 刘明明[1] 方再光[1] Zeng Hongqiao Zhang Lixiong Liu Mingming Fang Zaiguang(Key Laboratory of Tropical Biological Resources of Ministry of Education, Key Laboratory of Biotechnology of Tropical Aquatic Organisms of Hainan Province, Hainan University, Haikou 570228, Chin)

机构地区：[1]海南大学热带生物资源教育部重点实验室/海南省热带水生生物技术重点实验室,海南海口570228

出　　处：《海南大学学报（自然科学版）》2017年第3期260-267,共8页Natural Science Journal of Hainan University

基　　金：国家自然科学基金项目(40666001);海南大学青年基金(qnjj1205);校县合作项目(02005001)

摘　　要：为充分了解琼胶降解菌FG15的基因功能和代谢途径,本研究使用SOAP de novo 2.04对Illumina Hiseq2000平台测序产生的基因片段进行了拼接和组装,同时利用Glimmer 3.02来预测基因的开放性阅读框,并采用蛋白质直系同源基因簇(COG)、基因本体数据库(GO)以及京都基因和基因组百科全书(KEGG)的数据来预测其基因功能,获得了代谢途径.结果表明:FG15的基因组大小为5.10 Mb,G+C含量为44.58%,共有38条Scaffolds,4 922个开放性阅读框,82个tRNA,2个rRNA;通过COG分析可将菌株FG15注释到22种COG功能类型,主要包括细胞代谢、细胞信号转导等;利用GO注释可将FG15注释到3大类39个GO功能亚类上;KEGG分析能将其定位到154个代谢通路中,包括物质代谢、次生代谢产物的生物合成等.次生代谢产物的合成代谢途径精确显示,FG15能合成青霉素和头孢菌素,且其与抗生素抗性实验的结果一致.研究结果为FG15功能基因组学的研究和相关次级代谢产物的生物合成途径以及异源表达的研究提供了理论基础.In order to fully understand gene function and metabolic pathways of FG15, its genome was de novo sequenced by Illumina Hiseq2000 sequencing system and assembled by SOAP de novo 2.04. Its open reading frames （ORFs） , rRNA, and tRNA were predicted by Glimmer 3.02, RNAmmer 1.2, and tRNAscan-SE 1.23, respectively. The function of the genes and the metabolic pathways were annotated by Cluster of Orthologous Groups of proteins （COG）, gene ontology （GO）, and Kyoto Encyclopedia of Genes and Genomes （KEGG）. The analysis results from Glimmer 3.02, RNAmmer 1.2, and tRNAscan-SE 1.23 showed that FG15 genome contain 5.10 Mb with a G ＋ C content of 44.58% , a total of 38 scaffolds, 4 922 ORFs, 82 tRNA and 2 rRNA. COG analysis results showed that the genes can be assigned into 22 kinds of COG function, including cell metab- olism, cell signal transduction; GO analysis results showed that the genes can be assigned into the 3 major cate- gories, which include 39 GO function class; KEGG analysis results showed that the genes can be assigned into 154 metabolic pathways, including material metabolism, secondary metabolite biosynthesis. The synthesis and metabolism of secondary metabolites analysis results showed that FG15 can synthesize penicillin and cephalospo- rin, consistent with the results of antibiotic resistance test. Our findings can provide genome sequence informa- tion for future functional genomics, biosynthetic pathways and heterologous expression of secondary metabolites of FG15.

关 键 词：琼胶降解菌 琼胶寡糖 基因组从头测序 基因功能 代谢途径 

分 类 号：Q5[生物学—生物化学]