Full-Length Genomic Sequence of Subgenotype IIIA Hepatitis A Virus Isolate in Republic of Korea

Lee, Ahra; Lee, Sung-Geun; Kang, Lae Hyung; Jheong, Weon-Hwa; Paik, Soon-Young

doi:10.1155/2013/426034

Cited by 7 publications

(4 citation statements)

References 30 publications

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“…Amino acid sequences of VP3-VP1 were compared with diverse subgenotype strains reported in various countries, and all samples from affected area II were identified to contain a unique amino acid, M519T, compared with those from affected area I and other reported IA strains from the DNA Data Bank. The samples from affected area II also had a unique amino acid, K813N, in VP1-P2A, whereas samples from affected area I did not exhibit K813 mutations, similar to previous reports from Indonesia and other countries (27,34,35). Thus, although these epidemics in the two areas occurred at a similar time and the causative epidemic agents were HAV-IA, they were different strains of HAV.…”

Section: Or -------------------------------------------------------Assupporting

confidence: 86%

Molecular epidemiology of hepatitis A outbreaks in two districts in Indonesia in 2018: Same subtype, but different strains

Setyowati

Mubawadi²,

Mirasa³

et al. 2019

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The present study aimed to analyse molecular epidemiological data from hepatitis A virus (HAV) outbreaks in two affected areas. The association between the knowledge of hepatitis A and incidence of infection was also determined. Serum samples were obtained from 88 individuals with clinical manifestations of acute hepatitis in Lamongan (n=54) in January 2018 and Bangkalan (n=34) in March 2018. The outbreak investigation was started one day after the outbreaks were reported by the Public Health Offices in Lamongan and Bangkalan. Anti-HAV immunoglobulin M (IgM) and PCR amplification products of the VP1 capsid protein-P2A protease and VP1-VP3 junctions were analysed. Positive PCR products were sequenced, and a phylogenetic tree was constructed using Molecular Evolutionary Genetics Analysis X software. The control group comprised healthy students and staff members from the two affected areas. Thus, 172 responses from the control and hepatitis A case groups were analysed to assess the association between the students' knowledge level and the incidence of HAV infection. A total of 32 (59.25%) of the 54 individuals from Lamongan and 19 (55.9%) of the 34 participants from Bangkalan were positive for anti-HAV IgM; 26 PCR tests were positive in the VP3-VP1 and/or VP1-P2A junction, which were identified as HAV subgenotype IA. The subtype of HAV in the two areas was IA, similar to those identified previously, but the viruses did not originate from the same strain, as identified by multiple alignment. The knowledge level of the students and staff members in Lamongan studying and working at a half-day school exhibited a significant association with the incidence; however, no association was observed among the students in Bangkalan studying at a full-day school with a dormitory.

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Section: Or -------------------------------------------------------Assupporting

confidence: 86%

Molecular epidemiology of hepatitis A outbreaks in two districts in Indonesia in 2018: Same subtype, but different strains

Setyowati

Mubawadi²,

Mirasa³

et al. 2019

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“…This is not surprising, since approximately 80% of the human HAV strains isolated are type I, with most remaining human strains being type III [33]- [35]. Subgenotypes IA and IB are the most common found in Brazil, France, China, and Japan [36]. In this study, however, HAV sequences were classified as genotype IA which is endemic in North America [37].…”

Section: Discussionmentioning

confidence: 58%

Monitoring the Hepatitis A Virus in Oyster from Korea

Park¹,

Jeong²,

Jung³

et al. 2015

AiM

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Hepatitis A virus (HAV) causes many cases of oyster-or clam-associated gastroenteritis in various countries. HAV was detected on oyster by RT-PCR in 19.6% (11/56) in Korea. The percentages of HAV-positive samples in 2011 and 2012 were 27.6% and 11.1%, respectively. Phylogenetic analysis revealed that several nucleotide sequences highly similar to those of HAVs isolated in this study. Phylogenetic analysis of the coding regions of the viral protein VP4/VP2 revealed that all amplicons were classified into IA genogroup. It will provide useful data that aids in our understanding circulating HAVs and may contribute to future control.

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“…To elucidate sequence identity, viral RNA was extracted using total nucleic acid isolation (TNAi) extraction methodologies on an Ampliprep instrument (Roche Ltd.). Rescued RNA was reverse transcribed and directly amplified with the SuperScript III one-step reverse transcription-PCR (RT-PCR) system with Platinum Taq HiFi (Invitrogen) using primer pairs described previously ( 3 , 4 ). In combination, these were as follows: GCCTAGGCTATAGGCTAAAT (HAV-1F) and CGTTCCCAACATCTGTGT (HAV-1R), GTTGTAAATATTAATTCCTGCAGG (HAV-2F) and CAGACAATCCACTTAATGCAT (HAV-2R), CTATGAAGAGATGCTTTGGAT (HAV-3F) and TGTATCTCAATTCCAAATCTTGC (HAV-3R), ATTCATTCTGCTGAYTGGTTG (HAV-4F) and CAACTGGRATAACCTTGATCT (HAV-4R), AGGAAGATTGGAAATCTGATG (HAV-5F) and TTCACTGTTGTAATRCCAACTTG (HAV-5R), CAAGTTGGCATTACAACAGTG (HAV-6F) and GAGCAATTCTATCCATCATTG (HAV-6R), GAAATGGATGCTGGAGTTTTTACT (HAV-7F) and CTGAACARATATCYCTAAGCC (HAV-7R), GTTGAGAGTGATGAATTATGC (HAV-8F) and YTGTCCACTATATCCATCCCA (HAV-8R) and AATGGTGMCAAGATGTGAGCC (HAV-9F) and AACTGCAACCCACTTRTGRTT (HAV-9R), GGGATTATCAGATGATGACAA (HAV-10F) and TACCTCTCCARGCTTGATCAA (HAV-10R), GGACTCCAATGTTAATTTCAG (HAV-11F) and TCCATATTRATTGCATCTATCCC (HAV-11R), GATGAGCCAGATGATTATAAAGA (HAV-12F) and AGAAGGCATTGAMCCACATAC (HAV-12R), GTATGTGGKTCAATGCCTTCT (HAV-13F) and WATTTACTGAAAAGAYAAAATAAACAAAC (HAV-13R), TTCAAGAGGGGTCTCCGG (HAV-1F) and GGAGAGCCCTGGAAGAAAGA (240R), TCACCGCCGTTTGCCTAG (68F) and AGGAATGAGGAAAAACCTAAA (725R), TTATGTGGTGTTTGCCTCTGAG (661F) and AACAAACCATGAGGATAAACT (1249R), ATTTGAGCTAGCGTGCTATGGTACCTGGTGACCA (1180F) and GTTAGAAGGAGAGGTCAATCTG (2115R), GTGAGTACACTGCCATTGG (2050F) and CATTTCCTAGGAGGTGG (3225R), CCAGAGCTCCATTGAACTC (3006F) and AACTGAACAACCAATATCTGC (3908R), CATAATTGGTTTGTTGAGAGTC (3875F) and ATGAATTCAGTCATGTTTTG (4985R), GACTGAATTCATGGAGTTG (4977F) and CATATCAAGATCTAGAAAATCATC (6225R), AACTGTAAATGGAACCCCTAT (5654F) and ATAATTCATCCCACTGTCTATC (6636R), GGGTAAGACTCAGTTAGTTGATG (6225F) and TTGTCCAATCAAATCAAGATTATC (7044R), and TTGTCCAATCAAATCAAGATTATC (6984F) and TTTTTTTTTTTTTTT (15dT).…”

Section: Genome Announcementmentioning

confidence: 99%