中国大陆引起手足口病柯萨奇病毒A组4型基因特征分析
[Abstract]:[BACKGROUND] Human Enterovirus (HEV) belongs to the genus Enterovirus of the Picornavirdae family. At present, 119 serotypes have been reported and divided into four groups: EV-A, EV-B, EV-C and EV-D. In most cases, patients infected with HEV are asymptomatic or cause only mild symptoms, such as fever, rash, or EV-D. Mild upper respiratory symptoms; but sometimes HEV infection can also cause a wide range of clinical diseases, such as acute hemorrhagic conjunctivitis, aseptic meningitis, acute flaccid paralysis (AFP), hand, foot and mouth disease (Hand, Foot and Mouth Disease, myocarditis, cold-like diseases, etc. In recent years, caused by HEV a variety of diseases. The genome of the HEV virus is a single strand of positive strand RNA, about 7.5 KB long. The whole genome contains only one Open Reading Frame (ORF), encodes a polyprotein, and finally hydrolyzes to produce VP1-VP4 with four structural proteins and seven non-structural proteins. VP1 protein is the main structure that recognizes and binds to receptors on the host cells and contains important serotype-specific neutralizing sites; VP1 protein is located in the outermost appearance of viral particles and mutates under the immune pressure to form different epidemic strains. Hand-foot-mouth disease (HFMD) is a common infectious disease caused by a variety of enteroviruses (EV). Since the outbreak of HFMD in the mainland of China in 2007, hand-foot-mouth disease (HFMD) has gradually attracted attention, according to the relevant literature in recent years. It is reported that HFMD has become one of the major public health problems that seriously threaten the health and life safety of the broad population, especially children. EV71 and CA16 are the main pathogens causing HFMD. EV71 and CA16 are the main pathogens of HFMD. The etiological studies of HFMD are mostly focused on EV71 and CA16, and other intestines. However, in recent years, HFMD surveillance data in some areas show that the pathogenic composition of other enteroviruses has increased, and CVA4 is one of them. [Objective] Through systematic analysis of VP1 and 3D gene characteristics of CVA4 strains from HFMD cases in mainland China from 2008 to 2012, to elucidate their genetic variation in China and enrich the CVA4 strain library and gene information database in China and the world, so as to provide scientific support for the diagnosis, prevention and control of HFMD caused by CVA4 in China. Source of the virus: In 2012, 1246 HFMD, viral encephalitis and herpes angina were isolated from clinical specimens of Ganyu County, Jiangsu Province, 57 strains of CVA4 virus were isolated; in 2008-2012, 19 strains of CVA4.2 were isolated from HFMD cases in other areas by HFMD Surveillance Network Laboratory of mainland China. Gene sequencing: virus RNA was extracted, VP 1 and 3D region genes were amplified by RT-PCR. Bioinformatics analysis: The VP1 and 3D genes of CVA4 in this study were compared with the VP1 and 3D genes of CVA4 retrieved from GenBank in China and other countries and regions by using BioEdit Sequence Alignment Editor software 7.0. The phylogenetic tree of VP1 and 3D regions was constructed by Neighbor-joining method, and the phylogenetic relationship and evolution were analyzed. [Results] 1. HFMD, viral encephalitis, herpes angina and other clinical specimens in Ganyu County, Jiangsu Province were separated. Among 350 strains, CVB3 (142 strains), CVA4 (57 strains), CVA10 (31 strains), CVA16 (29 strains), EV71 (24 strains), etc. CVA4 ranked second, accounting for 16%. The 564 nucleotide sequence homology of 57 CVA4 strains isolated from Ganyu County was 94.0%-100%, amino acid sequence homology was 97.8%-100%. Two strains were selected as 915 nucleotides of VPl coding region gene. The nucleotide sequence homology and amino acid sequence homology were 94.1% - 100% and 97.3% - 100% respectively. The homology was high and the evolutionary relationship was close. 3. The VP1 sequences of 21 CVA4 representative strains from 2008 to 2012 obtained from China and isolated from GenBank were analyzed. The VP1 sequences of 10 CVA4 isolates from mainland China were analyzed for homology: 31 CVA4 isolates from mainland China had 85.5% - 100% homology in VP1 region, 97.5% - 100% homology in amino acid sequence and high homology, belonging to the same genotype. The nucleotide mutations were mostly synonymous mutations; two AFP isolates from Shandong Province in 1998. The nucleotide sequence homology of CVA4 strain was 88.5% - 89.9% compared with other isolates. Excluding the isolates from 1998, the homology of nucleotide sequence and amino acid sequence between other HFMD and AFP isolates was 94.8% and 98.4%, respectively. There was no specific difference between the two types of cases. The nucleotide sequence homology and amino acid sequence homology were 95.5%, 98.8% and 95.5%, respectively. There were no specific differences in nucleotides and amino acids between the two types of HFMD cases. 4. The VP1 sequences of 21 representative CVA4 strains obtained in this study and the VP1 sequences of 21 global CVA4 strains obtained in GenBank were used as phylogenetic trees. Based on the international enterovirus genotyping standard, CVA4 can be divided into five genotypes according to the full length of VP1 coding gene, namely A, B, C, D and E genotypes. This is the first genotyping of CVA4 based on the full length of VP1 gene. 31 strains of CVA4 virus isolated from mainland China belong to E genotype, and E genotype is divided into E1 and E2 genotype. E1 genotype includes 2 strains isolated from AFP cases in Shandong Province in 1998 and 1 strain isolated from AFP cases in Jilin Province in 2006. E2 genotype includes 22 strains of CVA4 isolated from HFMD cases in 2008-2012. The average genetic distance of nucleotide sequences between E1 and E2 genotypes was 12.6%. It was found that there were at least two large transmission chains in mainland China. E1 genotype was predominant in 2006 and before, and E2 genotype was predominant after 2006. The sequence information of VP1 region 3'end of CVA4 in ank was more abundant than that of VP1 region. Based on the VP1 region 3'end of 420 nucleotide sequences of 21 CVA4 strains in this study, 420 nucleotide sequences of VP1 region and 44 CVA4 VP1 region 3'end of representative strains in GenBank were used as phylogenetic trees. The genetic distances were 13.4%-26.1% and 5.8%-9.6% respectively among the nucleotide sequences of Lineage A-E. The evolutionary branches were consistent with the results of the evolutionary tree of VP1 gene length. The genotypes A-E contained 31 strains of CVA4 isolated from mainland China. Viruses belong to Lineage E. Lineage E can also be divided into Lineage E1 and Lineage E2, and the results are consistent with the VP1 full-length division. Lineage E includes not only the Chinese mainland strains, but also the Taiwan strains. 57 strains of CVA 4 isolated from Ganyu County, Jiangsu Province. Sequence analysis based on the 5'end indicates that all of them are E2 genotypes. 5 CVA4 representative strains were selected to complete the 3D region sequencing and compared with other retrievable CVA4, HEV-A group enterovirus prototypes, BLAST high homology strains and EV71 C4a genotype representative strains to construct phylogenetic tree: 5 CVA4 strains and 2009 isolation from China. The CVA 4 strain from Shenzhen (HQ728260) and EV71 strain (JF 799986) isolated from Guangdong Province in 2009 had a high homology of 94.6% - 96% in one evolutionary branch; the genetic distance between the prototype strain of EV71 and BrCr strain of EV71 or other representative strains of EV71 C4a genotype was relatively long, and the sequence homology was only 73.3% - 81.7%. CVA4 is one of the main pathogens causing hand-foot-mouth disease, viral encephalitis, herpes angina and other diseases in Ganyu County, Jiangsu Province in 2012. It has a large-scale circulation and multiple transmission chains. 2. This study is the first time to compile the VP1 region of CVA4 strain. All CVA4 viruses isolated from mainland China belong to E1 and E2 subtypes of E genotype. 3. A Guangdong EV71 strain isolated in 2009 may be associated with a 3 D region EV71 strain. The present epidemic CVA4 in China has been recombined. We should pay attention to the role of the 3D region of CVA4 as a donor in the recombination of enteroviruses. At the same time, we should pay attention to the effects of the recombinant CVA4 on the biological characteristics, transmission and pathogenicity of EV71. 4. The results of this study provide important virological basic data for the diagnosis and prevention of infectious diseases such as HDMD caused by CVA4.
【学位授予单位】:中国疾病预防控制中心
【学位级别】:硕士
【学位授予年份】:2014
【分类号】:R512.5
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