Eight novel hepatitis C virus genomes reveal the changing taxonomic structure of genotype 6

Wang, Hongren; Yuan, Zenan; Barnes, Eleanor; Yuan, Manqiong; Li, Chunhua; Fu, Yongshui; Xia, Xueshan; Li, Gang; Newton, Paul N.; Vongsouvath, Manivanh; Klenerman, Paul; Pybus, Oliver G.; Murphy, Donald G.; Abe, Kenji; Lü, Ling

doi:10.1099/vir.0.047506-0

Cited by 21 publications

(24 citation statements)

References 27 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Previous studies have revealed that multiple lineages of HCV-6 are exclusively detected in Southeast Asia or among the expatriates from this region [25]. In contrast, the endemic subtypes of HCV genotypes 1, 2, and 4 have been found mainly in populations in geographically restricted areas in the sub-Saharan Africa or among African descendants in other geographic regions, but showing persistence for fewer centuries than that we here estimated for those novel Hainan variants [26–29].…”

Section: Discussionmentioning

confidence: 99%

Conservation in China of a novel group of HCV variants dating to six centuries ago

Wang

et al. 2014

Virology

Self Cite

View full text Add to dashboard Cite

We characterized a novel group of HCV variants that are genetically related but distinct from each other belonging to genotype 6 (HCV-6). From 26 infected Austronesian-descended aborigines on Hainan Island, China, HCV sequences were determined followed by genetic analyses. Six nearly full-length genomes and 20 E1 sequences of HCV were obtained, which differ from each other and from all known HCV lineages by nucleotides above the intra-subtype level of 13%. Together with subtypes 6g and 6w, they constitute a phylogenetic group sharing a common ancestor dating from the end of the 12th century. Conclusion our data indicate the maintenance of an isolated HCV-6 indigenous circulation on Hainan Island at least for six centuries.

show abstract

Section: Discussionmentioning

confidence: 99%

Conservation in China of a novel group of HCV variants dating to six centuries ago

Wang

et al. 2014

Virology

Self Cite

View full text Add to dashboard Cite

show abstract

“…Among the seven genotypes of HCV, genotype 6 (HCV 6) exhibits the highest genetic diversity [16,17]. Currently, a total of 31 subtypes, denoted 6a-6xf, are formally assigned to HCV 6, and each has at least one full-length genome determined.…”

Section: Discussionmentioning

confidence: 99%

Analysis of HCV Isolates Among the Li Ethnic in Hainan Island of South China Reveals Their HCV-6 Unique Evolution and a New Subtype

Xing²,

Yuan

et al. 2018

Cell Physiol Biochem

Self Cite

View full text Add to dashboard Cite

Background/Aims: Hainan Island has been inhabited by the “Li” aboriginal minority for centuries where the HCV genotype distribution patterns maybe remarkably different from other parts of China. We aimed to provide a better understanding of the infection with HCV genotype 6 among “Li” aboriginals on Hainan Island. Methods: Firstly, using RT-PCR and DNA sequencing to determined 517 partial HCV Core-E1(115 from Li Ethnic, 402 from Han Ethnic) and 8 full-length genomes from Li ethnic in Hainan Island successfully, and then using the phylogenetic tree to determine the HCV genotype distribution and analyze the evolution of them. Results: Phylogenetic tree analysis showed that the distribution pattern of HCV genotypes among the Han and Li ethnic population exhibits significant diferences: 6a was the most prevalent subtype in Han ethnic of Hainan Island followed by 1b, 3b, 2a, 3a, and 1a. All genomes from Li ethnic were classified into genotype 6, while 84 out of 115 (73%) could not be classified. Nine sequences (HN1350 et al.) from Li ethnic might be assigned to a new subtype 6xh as their p-distances ranged from 5.9∼9.7%. Furthermore, we sequenced and characterized full-length genomes for eight HCV-6 isolates which were all from Li ethnic in Hainan Island. Among these isolates, the HN1350 was classified as a new subtype: 6xh. Conclusion: Overall, we firstly defined a new subtype of genotype 6xh through partial and new full length genome. And we found a unique distribution pattern of HCV 6 in the Li tribe, which might provide a better way to understand the genetic diversity of HCV-6 and to investigate the phylogeny of HCV strains from Li tribe.

show abstract

“…Although their full-length genome sequencing is currently under completion, these variants appear to obscure the clear separation between 6a and 6b (data not shown). Unlike 6u and 6v and the ZS96 isolate, these newly identified variants were exclusively detected in Laos (Wang et al, 2013). However, due to the lack of further information for the patient from whom ZS202 was isolated, we are uncertain whether ZS202 is also epidemically linked to Laos (Gu et al, 2013).…”

Section: Discussionmentioning

confidence: 92%

A panel of 16 full-length HCV genomes was characterized in China belonging to genotypes 1–6 including subtype 2f and two novel genotype 6 variants

Tong

et al. 2013

Infection, Genetics and Evolution

Self Cite

View full text Add to dashboard Cite

In this study, we characterized the full-length genomes of 16 HCV isolates obtained from patients in a single hospital in China using overlapping PCR followed by DNA sequencing. The obtained genomes are 9,414-9,628 nucleotides in length, and each genome contains a single ORF of 9,021-9,102 nucleotides. Nine genomes represent the common subtypes 1a, 1b, 2a, 2b, 3a, 3b, and 6a, while seven represent the infrequent lineages 1c, 2f, 4d, and 5a, and two novel genotype 6 variants. GZ51969 and GZ52540 are subtype 1b isolates belonging to two unique clusters designated A and B, which account for 29.5% and 59.5% of the 1b infections in China, respectively. ZS542 and GZ98799 represent the first two complete genomes of the provisionally assigned subtype 2f. ZS96 and ZS202 are novel genotype 6 variants that may qualify for two new subtypes. ZS17, ZS537, and ZS631 represent three alien subtypes, namely, 1c, 4d, and 5a, which were detected in China for the first time in this study and may have been recently introduced as a result of globalization. Taken together, these results confirmed a large variety of HCV taxonomic lineages in China through the sequencing of their full-length genomes. These lineages represent six genotypes, 11 subtypes, and two novel variants. They were characterized for achieving a better understanding of the HCV genetic variation patterns and for possible future research applications.

show abstract

Eight novel hepatitis C virus genomes reveal the changing taxonomic structure of genotype 6

Cited by 21 publications

References 27 publications

Conservation in China of a novel group of HCV variants dating to six centuries ago

Conservation in China of a novel group of HCV variants dating to six centuries ago

Analysis of HCV Isolates Among the Li Ethnic in Hainan Island of South China Reveals Their HCV-6 Unique Evolution and a New Subtype

A panel of 16 full-length HCV genomes was characterized in China belonging to genotypes 1–6 including subtype 2f and two novel genotype 6 variants

Contact Info

Product

Resources

About