黄杆菌菌株RC2-3基因组生物信息学分析及高效降解岩藻多糖功能基因的挖掘

Genome Bioinfomatics Analysis and Excavation of A Flavobacterium RC2-3 Strain with High Efficient Fucoidan Degradation Functional Genes

以从海带中筛选获得的一株具有降解岩藻多糖能力的黄杆菌菌株RC2-3为研究对象,该菌株产的岩藻多糖酶可以高效降解不同来源的岩藻多糖。为进一步探究菌株RC2-3降解岩藻多糖的机制,推动岩藻寡糖的酶法生产,采用Illumina测序技术对菌株RC2-3进行基因组测序、基因功能注释和碳水化合物活性酶注释以及岩藻多糖降解相关基因的生物信息学分析。结果表明,黄杆菌菌株RC2-3基因组全长3414532 bp,共编码2967个基因,GC含量为30.92%。经碳水化合物活性酶数据库注释获得213个基因,与岩藻多糖降解有关的包括7个岩藻糖结合结构域的基因;2个β-D-岩藻糖苷酶(EC 3.2.1.38)基因;2个属于GH141家族的α-L-岩藻糖苷酶(EC 3.2.1.51)基因;12个属于GH29家族的α-1,3/1,4-L-岩藻糖苷酶(EC 3.2.1.111)基因;9个属于GH95家族的α-1,2-L-岩藻糖苷酶(EC 3.2.1.63)基因。此外,通过与已报道的蛋白序列比对发现,岩藻多糖酶基因RC2.3_GM001247编码的蛋白序列与FunA蛋白序列同源性达到70.98%,岩藻多糖酶基因RC2.3_GM001269编码的蛋白序列与P5AfcnA和P19DFcnA蛋白序列同源性达到43.43%。因此,菌株RC2-3在岩藻多糖资源的开发利用领域具有极大潜力。

In this paper a Flavobacterium RC2-3 strain with high fucoidan degradable capability was screened and obtained from kelp(Laminaria japonica)as research object.The strain could efficiently utilize resources from different fucoidan and promote the production of low molecular weight fucoidan prepared by fucoidanase degradation,Illumina sequencing technology was used to sequence the genome of RC2-3 strain,function annotation of the genes,carbohydrate-active enzymes annotation and bioinformatics analysis of genes related to fucoidan degradation were performed.The results showed that the whole length of genome of Flavobacterium RC2-3 strain was 3414532 bp,encoding a total of 2967 genes,and the GC content was 30.92%.A total of 213 genes were annotated by carbohydrate-active enzyme database,genes related to fucoidan degradation including 7 fucose-binding domain genes,2β-D-fucosidase(EC 3.2.1.38)genes;2α-L-fucosidase(EC 3.2.1.51)genes belonging to GH141 family,12α-1,3/1,4-L-fucosidase(EC 3.2.1.111)genes belonging to GH29 family,9α-1,2-L-fucosidase(EC 3.2.1.63)genes belonging to GH95 family.Besides,through comparison with reported protein sequence the fucoidase genes in RC2-3 strain were found by sequence alignment,the homology between the protein sequence encoded by fucoidanase gene RC2.3_GM001247 and FunA protein sequence was as high as 70.98%,and the sequence homology of protein sequence encoded by fucoidanase gene RC2.3_GM001269 with P5AfcnA and P19DFcnA was as high as 43.43%.Therefore,the RC2-3 strain has great potential in the development and utilization field of fucoidan resources.