《Table 3 The synonymous codon usage pattern in Fish rhabdovirus》

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《Analyses on the Overall Codon Usage Pattern in Fish Rhabdovirus》

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The completely sequenced 49 rhabdovirus genomes available from NCBI Gen Bank were used in this study（Table 1），which belong to rhabdovirus.As follows，infectious hematopoietic necrosis virus:IHNV（Gen Bank No.FN665788，GQ413939，HM461966，JX649101，KJ421216，L40883，NC_001652，X89213）；viral hemorrhagic septicemia virus:VHSV（Gen Ban K No.AB179621，AB490792，AB672614，AB839745，AF143862，EU481506，FJ460590，FN665788，GQ385941，KC778774，KF477302，KM926343，KP334106，NC_00855，Z93414）；hirame rhabdovirus:HIRV（Gen Bank No.AF104985，FJ376982，NC_005093，）；snakehead rhabdovirus:SHRV（Gen Bank No.AF147498，NC_000903）；spring viremia of carp virus:SVCV（Gen Bank No.AJ318079，DQ097384，DQ491000，EU177782，KJ513477，KR012465，NC_002803，U18101）；Scophthalmus maximus rhabdovirus:SMRV（Gen Bank No.HQ003891，NC_025387.1）；pike fry rhabdovirus:PFRV（Gen Bank No.FJ872827，NC_025356）；Mandarin fish Siniperca-chuatsi rhabdovirus:SCRV（Gen Bank No.DQ399789，NC_008514）；sea trout rhabdovirus:STRV（Gen Bank No.AF434991，NC_000903）；dolphin rhabdovirus:DORV（Gen Bank No.KF958252）；grass carp rhabdovirus:GCRV（Gen Bank No.NC_025376）；Paralichthys olivaceus rhabdovirus:PORV（Gen Bank No.KC685626）；tench rhabdovirus:TERV（Gen Bank No.KC113517）；trout rhabdovirus:TRRV（Gen Bank No.AF434991）.To reduce the sampling error due to very short length sequences，only those genes of length greater than or equal to 150bp were taken for this study，thus the remaining gene sequences were used for the analysis.In addition，codon usage frequencies of rainbow trout（Oncorhynchus mykiss）and common carp（Cyprinus carpio）were obtained from the codon usage database（Http://www.kazusa.or.jp/codon/）to investigate codon adaptation to the hosts.