摘要
目的 对已完成测序的铜绿假单胞菌噬菌体PaP3基因组进行初步注释。方法 利用生物信息学软件和网上工具对噬菌体PaP3进行开发阅读框 (Openreadingframe ,ORFs)检索 ;编码序列鉴定 ;对公共数据库进行BLAST查询 ,分析基因的可能功能 ;对存在高度同源性序列的推定蛋白进行多重序列比对和系统发生树分析。结果 利用生物信息学软件在PaP3基因组中检索到2 5 2个大于 10 0bp的ORFs ,其中有 69个ORFs可确认为推定基因 ;核苷酸对核苷酸的BLASTn分析未发现有意义的同源性核苷酸序列 ;核苷酸对蛋白质的BLASTx分析共发现了 4个在公共数据库中有高度同源性序列的ORFs ,根据其同源性蛋白的功能推定ORF13 0 5 2 14 761编码产物为引物酶 解旋酶 ,ORF40 2 80 4172 8编码产物为末端酶大亚单位 ,ORF4172 8 42 2 2 5编码产物为溶菌酶 ,ORF16912 185 49编码产物为DNA聚合酶 ;绘制出了上述这四种蛋白的系统发生树。结论 噬菌体PaP3具有 2 5 2个大于 10 0bp的ORFs ,其中 69个为推定基因 ,有 4个推定基因的功能被确认为分别编码引物酶 解旋酶 ,末端酶大亚单位 ,溶菌酶及DNA聚合酶。
Objective To primarily annotate the genome of Pseudomonas areuginosa phage PaP3 after its sequencing. Methods The primary annotation items of the genome of the bacteriophage PaP3, including identification of open reading frames (ORFs) and coding sequence, BLAST query of each ORF, multiple alignment of homology sequences and phylogenetic analysis, were carried out with bioinformatic software and analysis tool in internet. Results A total of 252 of >100 bp ORFs and 69 coding sequences were detected in the phage PaP3 genome. BLASTn did not find any homology sequence, but BLASTx found out 4 high homology sequences, that is, ORF13052-14761 coding for primase/helicase, ORF40280 41728 for terminase large subunit, ORF41728 42225 for lysozyme and ORF16912 18549 for DNA polymerase. Multiple alignment of those 4 homology sequences was completed and their phylogenetic trees were obtained. Conclusion The 252 > 100 bp ORFs and 69 coding sequences are detected, and 4 functional genes, coding for primase/helicase, terminase large subunit, lysozyme and DNA polymerase respectively, are predicated in the phage PaP3 genome.
出处
《第三军医大学学报》
CAS
CSCD
北大核心
2002年第4期381-384,共4页
Journal of Third Military Medical University
基金
国家自然科学基金资助项目 ( 30 0 70 0 37)
重庆市攻关课题资助项目 ( 2 0 0 0 )
