Study on the complete genome sequence of Hantavirus Z10 strain which has been applied for inactivated vaccine production in China, to assess its molecular characteristics and the diversity with other hantaviruses.
The total RNA were prepared from Z10 virus infected cells and the RT-PCR products was cloned into T vector, sequenced and analyzed by using DNASTAR software.
The Z10 complete genome, L segment is 6,553, M segment is 3,615, S segment is 1,701 nucleotides in length, with a single open reading frame encoding 2,151, 1,135, 429 amino acids respectively. Sequence homology comparison showed that the 3 segment nucleotide of Z10 strain were close to HTN type virus, but only 83.6-87.4% homology with other HTN viruses at the nucleotide level. The phylogenetic analysis was made on their nucleotide and amino acid sequences.
The results firstly demonstrates that Z10 strain is a new subtype of the Hantaan(HTN) type.
"In contrast to the topology of the S tree, all HTNV isolates formed seven distinct phylogroups and showed monophyletic ancestry in the tree constructed from the M segment sequences (Fig. 1b). Furthermore, strains Z5 (EF103195) and Z10 (Yao et al., 2001b) formed group M7, which was different from the other S3 viruses, although there was only weak bootstrap support for the M7 group. "
[Show abstract][Hide abstract] ABSTRACT: To gain further insight into the molecular epidemiology of Hantaan virus (HTNV) in Guizhou, China, rodents were captured in this region in 2004 and 2005. In addition, serum samples were collected from four patients. Ten hantaviruses were isolated successfully in cell culture from four humans, two Apodemus agrarius, three Rattus norvegicus and one Rattus nitidus. The nucleotide sequences for their small (S), medium (M) and partial large (L) segments were determined. Phylogenetic analysis of the S and M segment sequences revealed that all of these isolates belong to the species HTNV, suggesting a spillover of HTNV from A. agrarius to Rattus rats. All available isolates from Guizhou were divided into four distinct groups either in the S segment tree or in the M segment tree. The clustering pattern of these isolates in the S segment tree was not in agreement with that in the M or L segment tree, showing that genetic reassortment between HTNV had occurred naturally. Analysis of the S segment sequences from available HTNV strains indicated that they formed three clades. The first clade, which comprised only viruses from Guizhou, was the outgroup of clades II and III. The viruses in the second clade were found in Guizhou and mainly in the far-east Asian region, including China. However, the viruses in the third clade were found in most areas of China, including Guizhou, in which haemorrhagic fever with renal syndrome (HFRS) is endemic. Our results reveal that the highest genetic diversity of HTNV is in a limited geographical region of Guizhou, and suggest that Guizhou might be a radiation centre of the present form of HTNV.
Journal of General Virology 08/2008; 89(Pt 8):1987-97. DOI:10.1099/vir.0.2008/000497-0 · 3.18 Impact Factor
[Show abstract][Hide abstract] ABSTRACT: We have determined the genomic sequence of an Andes virus (ANDV) strain isolated from an infected Oligoryzomys longicaudatus rodent trapped in Chile in 1997. This strain, for which we propose the designation Chile R123, reproduces essential attributes of hantavirus pulmonary syndrome (HPS) when injected intramuscularly into laboratory hamsters (Hooper et al., Virology 289 (2001) 6-14). The L, M, and S segment sequences of Chile R123 are 6562, 3671, and 1871 nt long, respectively, with an overall G+C content of 38.5%. These respective genome segments could encode a 247 kd RNA-dependent RNA polymerase (RdRP), 126 kd glycoprotein precursor (GPC), and 48 kd nucleocapsid (N) protein, in line with other Sigmodontine rodent-associated hantaviruses. Among hantaviruses for which complete genomic sequences are available, Chile R123 is most closely related to Sin Nombre virus (SNV) strain NM R11, with greater than 85% amino acid identity between translated L and S segments and 78% amino acid identity between translated M segments. Because Chile R123 shares essentially 100% amino acid identity in regions of overlap with partially sequenced Argentinian and Chilean ANDV strains, Syrian hamster pathogenicity and the potential for interhuman transmission are features likely common to all ANDV strains.
Virus Research 11/2002; 89(1):131-43. DOI:10.1016/S0168-1702(02)00129-6 · 2.32 Impact Factor
[Show abstract][Hide abstract] ABSTRACT: To gain more insights into the epidemiology of hantaviruses in the Guizhou province, China, rodents were captured in Guizhou during the period from 2001 to 2003. In addition, serum sample was collected from one patient. Virus isolation was attempted from human serum and rodent samples. Four hantaviruses were isolated successfully in cell culture from one human, two A. agrarius, and one R. norvegicus. The nucleotide sequences for the entire S and M and partial L segment were determined from these four isolates as well as six viruses isolated in 1980s. Phylogenetic analysis revealed that the S segment from all isolates belong to the Hantaan virus (HTNV) clade, regardless of the sources from which they were derived. According to the S sequences, these viruses could be divided into three distinct phylogroups, showing geographical clustering. Analysis of the entire M and the partial L segment sequences demonstrated that 8 out of the 10 isolates belong to the HTNV clade. However, two isolates (CGRn8316 and CGRn9415) isolated from R. norvegicus belong to the Seoul virus (SEOV) clade. In addition, these two isolates were distinct from other known members of SEOV clade. Together, the data suggest that at least three groups of HTNV are co-circulating and one new variant of SEOV may be present in Guizhou. Our results also suggest that HTNV from A. agrarius spilled over to R. norvegicus and natural reassortment between HTNV and SEOV occurred during or after the spillover.
Journal of Medical Virology 06/2008; 80(6):1033-41. DOI:10.1002/jmv.21149 · 2.35 Impact Factor
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