Hepatitis C virus genotype 1a core gene nucleotide patterns associated with hepatocellular carcinoma risk

Brent Korba, Kirti Shetty, Alexei Medvedev, Prasanth Viswanathan, Rency Varghese, Bin Zhou, Rabindra Roy, Kepher Makambi, Habtom Ressom, Christopher A. Loffredo

Research output: Contribution to journalArticle

Abstract

Specific sequence changes in codons 70 and 91 of the hepatitis C virus genotype 1b (HCV GT1b) core gene have been associated with increased risk of hepatocellular carcinoma (HCC). Essentially all previous studies were conducted in Asian populations with a wide range of liver disease, and none were conducted specifically in GT1a-infected individuals. We conducted a pilot study in a multiethnic population in the USA with HCV-related cirrhosis to determine if this association extended to GT1a-infected individuals and to determine if other sequence changes in the HCV core gene were associated with HCC risk. HCV core gene sequences from sera of 90 GT1 HCV carriers with cirrhosis (42 with HCC) were analysed using standard RT-PCRbased procedures. Nucleotide sequence data were compared with reference sequences available from GenBank. The frequency of sequence changes in codon 91 was not statistically different between HCC (7/19) and non-HCC (11/22) GT1b carriers. In GT1a carriers, sequence changes in codon 91 were observed less often than in GT1b carriers but were not observed in non-HCC subjects (4/23 vs 0/26, P50.03, Fisher’s exact test). Sequence changes in codon 70 were not distributed differently between HCC and non-HCC GT1a and 1b carriers. Most importantly, for GT1a carriers, a panel of specific nucleotide changes in other codons was collectively present in all subjects with HCC, but not in any of the non-HCC patients. The utility of this test panel for early detection of HCC in GT1a-infected individuals needs to be assessed in larger populations, including longitudinal studies.

Original languageEnglish (US)
Pages (from-to)2928-2937
Number of pages10
JournalJournal of General Virology
Volume96
Issue number9
DOIs
StatePublished - Sep 1 2015

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Hepacivirus
Hepatocellular Carcinoma
Nucleotides
Genotype
Codon
Genes
Carcinoma
Fibrosis
Population
Nucleic Acid Databases
Longitudinal Studies
Liver Diseases
Serum

ASJC Scopus subject areas

  • Virology
  • Medicine(all)

Cite this

Korba, B., Shetty, K., Medvedev, A., Viswanathan, P., Varghese, R., Zhou, B., ... Loffredo, C. A. (2015). Hepatitis C virus genotype 1a core gene nucleotide patterns associated with hepatocellular carcinoma risk. Journal of General Virology, 96(9), 2928-2937. https://doi.org/10.1099/jgv.0.000219

Hepatitis C virus genotype 1a core gene nucleotide patterns associated with hepatocellular carcinoma risk. / Korba, Brent; Shetty, Kirti; Medvedev, Alexei; Viswanathan, Prasanth; Varghese, Rency; Zhou, Bin; Roy, Rabindra; Makambi, Kepher; Ressom, Habtom; Loffredo, Christopher A.

In: Journal of General Virology, Vol. 96, No. 9, 01.09.2015, p. 2928-2937.

Research output: Contribution to journalArticle

Korba, B, Shetty, K, Medvedev, A, Viswanathan, P, Varghese, R, Zhou, B, Roy, R, Makambi, K, Ressom, H & Loffredo, CA 2015, 'Hepatitis C virus genotype 1a core gene nucleotide patterns associated with hepatocellular carcinoma risk', Journal of General Virology, vol. 96, no. 9, pp. 2928-2937. https://doi.org/10.1099/jgv.0.000219
Korba, Brent ; Shetty, Kirti ; Medvedev, Alexei ; Viswanathan, Prasanth ; Varghese, Rency ; Zhou, Bin ; Roy, Rabindra ; Makambi, Kepher ; Ressom, Habtom ; Loffredo, Christopher A. / Hepatitis C virus genotype 1a core gene nucleotide patterns associated with hepatocellular carcinoma risk. In: Journal of General Virology. 2015 ; Vol. 96, No. 9. pp. 2928-2937.
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