Analyses on the Overall Codon Usage Pattern in Fish Rhabdovirus  

作　　者：Yanping MA Hao KE Jiangyao MA Zhiling LIANG Le HAO Zhenxing LIU 

机构地区：[1]Key Laboratory of Livestock Disease Prevention of Guangdong Province/Scientific Observation and Experiment Station of Veterinary Drugs and Diagnostic Techniques of Guangdong Province, Ministry of Agriculture/Institute of Animal Health, Guangdong Academy of Agricultural Sciences, Gumlgzhou 510640, China

出　　处：《Agricultural Biotechnology》2018年第1期97-103,108,共8页农业生物技术（英文版）

基　　金：Supported by National Natural Science Foundation of China(No.31402347);Guangdong Special Marine Fishery Science and Technology Project(A201701C04);"Molecular epidemiological study of Cy HV-3 in Guangdong Province",2016 Guangdong Special Funds for Fish Diseases;Guangzhou Science and Technology Plan Projects(201707010216);Guangdong Science and Technology Plan Projects(2017A020224019);Guangdong Science and Technology Plan Projects(2016A020210029)

摘　　要：The codon usage bias and the base compositions in the available 49 complete fish rhabdovirus genome sequences were investigated. The high correlation between GC12% and GC3% suggested that mutational pressure rather than natural selection was the main factor determining the codon usage and base component in fish rhabdovirns, most of the spots lying below the expected curve （ ENC vs GC3% ） also suggested that codon usage bias in these 49 genomes was influenced by mutational pressure in codon usage pattern. Through PCA analysis based on RSCU, all ORFs in the 49 fish rhabdoviurs genomes were clustered into two parts, and this result showed that hosts played a role in codon usage pattern of fish rhabdovirns genomes. Further, comparison between SVCV, INHV, VHSV and their hosts suggested the effect of natural host on the codon usage pattern took part in the evolution process of fish rhabdovirns. This study represents the most comprehensive analysis to date for fish rhabdovirus eodon usage patterns.The codon usage bias and the base compositions in the available 49 complete fish rhabdovirus genome sequences were investigated. The high correlation between GC12% and GC3% suggested that mutational pressure rather than natural selection was the main factor determining the codon usage and base component in fish rhabdovirns, most of the spots lying below the expected curve （ ENC vs GC3% ） also suggested that codon usage bias in these 49 genomes was influenced by mutational pressure in codon usage pattern. Through PCA analysis based on RSCU, all ORFs in the 49 fish rhabdoviurs genomes were clustered into two parts, and this result showed that hosts played a role in codon usage pattern of fish rhabdovirns genomes. Further, comparison between SVCV, INHV, VHSV and their hosts suggested the effect of natural host on the codon usage pattern took part in the evolution process of fish rhabdovirns. This study represents the most comprehensive analysis to date for fish rhabdovirus eodon usage patterns.

关 键 词：Fish rhabdovirns Complete genome Codon usage Base composition 

分 类 号：S941.41[农业科学—水产养殖]