Analysis of hepatitis B virus-mixed genotype infection by ultra deep pyrosequencing in Sudanese patients, 2015–2016

Khalid Abdallah Enan, Claudia Minosse, Abdel Rahim Mohammed El Hussein, Marina Selleri, Emanuela Giombini, Maria Rosaria Capobianchi, Isam Mohamed Elkhidir, Mohamed Omer Mustafa, Osama Mohamed Khair, Dina Ahamed Hassan, Anna Rosa Garbuglia

Research output: Contribution to journalArticle

Abstract

Purpose: The frequency of detection of HBV co-infection with multiple HBV genotypes is influenced by the detection method; usually co-infections are detected by multiplex PCR or hybridization assays, and are rarely confirmed by sequencing and conventional cloning. The objective of this study was to confirm by ultra-deep pyrosequencing (UDPS) mixed HBV infections, previously detected by multiplex-nested PCR. Methods: Sixteen samples from HBV co-infected Sudanese patients detected by multiplex-nested PCR, were amplified targeting the P/S region and sequenced by UDPS. Results: The only genotypes identified using UDPS were D and E, while A, B, C and F genotypes, previously detected by multiplex-nested PCR, were not detected. Specifically, 10 samples were shown to be mono-infected (D or E); in 3 out of 10 mono-infected D patients, a subtype combination was observed: D1 + D7 in 2 cases and D2 + D6 in 1 case. The remaining 6 subjects were D + E co-infected (harboring different mixtures of D subtypes). Conclusions: Overall, UDPS is more effective than multiplex-nested PCR for identifying multiple HBV genotypes and subtypes infections.

Original languageEnglish
Pages (from-to)1-11
Number of pages11
JournalInfection
DOIs
Publication statusPublished - Jan 1 2019

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Keywords

  • Co-infection
  • Hepatitis B virus
  • High-throughput nucleotide sequencing
  • Sudan

ASJC Scopus subject areas

  • Microbiology (medical)
  • Infectious Diseases

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