流感病毒基因的密码子偏好性及聚类分析

流行性感冒病毒是一种造成人类及动物患流行性感冒的RNA病毒,它造成急性上呼吸道感染,并由空气迅速传播,在世界各地常有周期性的大流行。根据该病毒的基因组CDS序列,探讨了基因组序列密码子的使用模式和特性,并进行了病毒间的聚类分析。结果表明:流感病毒的G+C含量均低于A+U含量,偏向使用以A、U结尾的密码子的程度比使用以G、C结尾的较高,CUG、UCA、AGU、AGC、AGA、AGG、GUG、CCA、ACA、GGA、GCA、AUU、UGA、CAU、CAA、AAU、AAA、GAA等18个密码子为流感病毒共有的偏好性密码子,且以A结尾的居多,尤其偏爱AGA、GGA。聚类结果表明首先亚洲流感病毒H2N2和香港流感病毒H2N2聚为一类,亚洲流感病毒H1N1和俄罗斯流感病毒H1N1聚为一类,1997年和2003年~2004年发生的人禽流感聚为一类,说明它们的密码子使用的偏好性相似;而2009年爆发的甲型H1N1流感和任何一个流感的距离都比较远,说明甲型H1N1流感病毒是一种新型的病毒,不同于以往任何一种流感病毒。

Cluster analysis and codon usage bias studies on genes of influenza virus

Influenza virus is one of RNA virus, which can cause influenza disease in human and animal. Coding sequences of influenza virus are analyzed with codon programe, and the relative synonymous codon usage frequency between Influenza virus is analyzed by a hierarchical cluster method. The results showed that ： the content of G ＋ C in Influenza virus is lower than the A ＋ U,tending to use the codons ending with A, U, and CUG, UCA, AGU, AGC, et al are influenza virus＇ optimal codon. The cluster result shows similar preferences of codon usage between H2N2 of Asia influenza viruses and H2N2 of Hong Kong influenza viruses, H1N1 of Asia influenza viruses and H1N1 of Russian influenza viruses, et al, And influenza A H1N1 outbreak in 2009 is far away any other influenza viruses, which suggests that influenza A H1N1 is a new influenza virus and unlike any influenza virus ever.