To analyze the genomic molecular structure and genotype of human astrovirus isolated from infant in Guangzhou of China, the primers were designed based on the genomic sequence of astrovirus from the GenBank and the ta...To analyze the genomic molecular structure and genotype of human astrovirus isolated from infant in Guangzhou of China, the primers were designed based on the genomic sequence of astrovirus from the GenBank and the target sequence were amplified by RT-PCR. Then the PCR-products were cloned to T vector and sequenced. The genomic nucleotide sequences were analyzed by the programs CLUSTAL W and DNASTAR. It was found that the full genomic length of HASTVgz01 strain was 6721 bp and the ORFs were 6558 bp. The 5' and 3' UTR were 82 and 81 nucleotides. The genome included 3 open reading frames (ORFs): ORF1a, ORF1b and ORF2. The 5'-terminal ORF1a started at nucleotide 83 and extended to nucleotide 2845. ORFlb (nt 2785 to nt 4332) overlaped ORFla by 61 nucleotides. The 3'-terminal ORF2 began at nucleotide 4325 and terminated at nucleotide 6640. ORF2 had 2316 nucleotides. Compared with other astrovirus sequences in GenBank, the homology of the amino acid sequence of ORF2 of HASTVgz01 strain with that of serotype 4 was 93% . Homology with other serotypes ranged from 61% to 70% . The complete nucleotide sequence of astrovirus HASTVgz01 strain isolated from Guangzhou in China was 6721 bp in length, GenBank accession NO. DQ344027. Comparing the ORF2 of astrovirus HASTVgz01 with the known sequences of types 1-8 the highest homology was serotype 4 (93%). Comparative sequence analysis of the HASTVgz01 ORF2 with the reported human astrovirus sequences revealed that the isolated astrovirus belongs to genotype (serotype) 4.展开更多
The aim of this study is to explore the genomic molecular organization and genogroup of human norovirus from infected infants in Guangzhou of China.Primers were designed according to the genomic sequence of norovirus ...The aim of this study is to explore the genomic molecular organization and genogroup of human norovirus from infected infants in Guangzhou of China.Primers were designed according to the genomic sequence of norovirus in the GenBank,and the norovirus genome was amplified by RT-PCR.The PCR- products were cloned into T vector and sequenced,and the genomic nucleotide sequences were analyzed with the programs CLUSTAL W/X,DNASTAR and RAT(Recombination Analysis Tool).The NVgz01 strain genome is 7558 bp in length and encodes three open reading frames(GenBank accession No.is DQ369797).The genomic sequences of NVgz01 were compared with those of nomvirus in GenBank, which revealed that the homology with genogroupⅡranges between 76%-90%,and genogroupⅠbe- tween 43%-44%.The ORF1 region shared 94% and 88% identity with Mc37 and Farmington strains, respectively;the capsid region(ORF2)shared 65% and 94% identity with Mc37 and Farmington strains,respectively.Phylogenetic trees were reconstructed by the neighbor-joining method.Comparative complete sequence analysis of the NVgz01 with reported human norovims genomic sequences revealed that this isolate belongs to genogmupⅡ.The ORF1 and ORF2 regions shared different identity with Mc37 and Farmington strains,suggesting NVgz01 could be a recombinant vires.展开更多
文摘To analyze the genomic molecular structure and genotype of human astrovirus isolated from infant in Guangzhou of China, the primers were designed based on the genomic sequence of astrovirus from the GenBank and the target sequence were amplified by RT-PCR. Then the PCR-products were cloned to T vector and sequenced. The genomic nucleotide sequences were analyzed by the programs CLUSTAL W and DNASTAR. It was found that the full genomic length of HASTVgz01 strain was 6721 bp and the ORFs were 6558 bp. The 5' and 3' UTR were 82 and 81 nucleotides. The genome included 3 open reading frames (ORFs): ORF1a, ORF1b and ORF2. The 5'-terminal ORF1a started at nucleotide 83 and extended to nucleotide 2845. ORFlb (nt 2785 to nt 4332) overlaped ORFla by 61 nucleotides. The 3'-terminal ORF2 began at nucleotide 4325 and terminated at nucleotide 6640. ORF2 had 2316 nucleotides. Compared with other astrovirus sequences in GenBank, the homology of the amino acid sequence of ORF2 of HASTVgz01 strain with that of serotype 4 was 93% . Homology with other serotypes ranged from 61% to 70% . The complete nucleotide sequence of astrovirus HASTVgz01 strain isolated from Guangzhou in China was 6721 bp in length, GenBank accession NO. DQ344027. Comparing the ORF2 of astrovirus HASTVgz01 with the known sequences of types 1-8 the highest homology was serotype 4 (93%). Comparative sequence analysis of the HASTVgz01 ORF2 with the reported human astrovirus sequences revealed that the isolated astrovirus belongs to genotype (serotype) 4.
文摘The aim of this study is to explore the genomic molecular organization and genogroup of human norovirus from infected infants in Guangzhou of China.Primers were designed according to the genomic sequence of norovirus in the GenBank,and the norovirus genome was amplified by RT-PCR.The PCR- products were cloned into T vector and sequenced,and the genomic nucleotide sequences were analyzed with the programs CLUSTAL W/X,DNASTAR and RAT(Recombination Analysis Tool).The NVgz01 strain genome is 7558 bp in length and encodes three open reading frames(GenBank accession No.is DQ369797).The genomic sequences of NVgz01 were compared with those of nomvirus in GenBank, which revealed that the homology with genogroupⅡranges between 76%-90%,and genogroupⅠbe- tween 43%-44%.The ORF1 region shared 94% and 88% identity with Mc37 and Farmington strains, respectively;the capsid region(ORF2)shared 65% and 94% identity with Mc37 and Farmington strains,respectively.Phylogenetic trees were reconstructed by the neighbor-joining method.Comparative complete sequence analysis of the NVgz01 with reported human norovims genomic sequences revealed that this isolate belongs to genogmupⅡ.The ORF1 and ORF2 regions shared different identity with Mc37 and Farmington strains,suggesting NVgz01 could be a recombinant vires.
