Skip to main page content
U.S. flag

An official website of the United States government

Dot gov

The .gov means it’s official.
Federal government websites often end in .gov or .mil. Before sharing sensitive information, make sure you’re on a federal government site.

Https

The site is secure.
The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely.

Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation
. 2019 Oct;47(5):793-803.
doi: 10.1007/s15010-019-01306-5. Epub 2019 Apr 8.

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

Khalid Abdallah Enan #  1 , Claudia Minosse #  2 , Abdel Rahim Mohammed El Hussein  1 , Marina Selleri  2 , Emanuela Giombini  2 , Maria Rosaria Capobianchi  2 , Isam Mohamed Elkhidir  3 , Mohamed Omer Mustafa  1 , Osama Mohamed Khair  3 , Dina Ahamed Hassan  1 , Anna Rosa Garbuglia  4
Affiliations

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

Khalid Abdallah Enan et al. Infection. 2019 Oct.

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.

Keywords: Co-infection; Hepatitis B virus; High-throughput nucleotide sequencing; Sudan.

PubMed Disclaimer

Similar articles

See all similar articles

Cited by

References

    1. Kramvis A. Genotypes and genetic variability of hepatitis B virus. Intervirology. 2014;57:141–50. https://doi.org/10.1159/000360947 . - DOI - PubMed
    1. Norder H, Couroucé A-M, Coursaget P, Echevarria JM, Lee S-D, Mushahwar IK, et al. Genetic diversity of hepatitis B virus strains derived worldwide: genotypes, subgenotypes, and HBsAg subtypes. Intervirology. 2004;47:289–309. https://doi.org/10.1159/000080872 . - DOI - PubMed
    1. Santos AO, Alvarado-Mora MV, Botelho L, Vieira DS, Pinho JRR, Carrilho FJ, et al. Characterization of hepatitis B virus (HBV) genotypes in patients from Rondônia, Brazil. Virol J. 2010;7:315. https://doi.org/10.1186/1743-422X-7-315 . - DOI - PubMed - PMC
    1. Stuyver L, De Gendt S, Van Geyt C, Zoulim F, Fried M, Schinazi RF, et al. A new genotype of hepatitis B virus: complete genome and phylogenetic relatedness. J Gen Virol. 2000;81:67–74. https://doi.org/10.1099/0022-1317-81-1-67 . - DOI - PubMed
    1. Arauz-Ruiz P, Norder H, Robertson BH, Magnius LO. Genotype H: a new Amerindian genotype of hepatitis B virus revealed in Central America. J Gen Virol. 2002;83:2059–73. https://doi.org/10.1099/0022-1317-83-8-2059 . - DOI - PubMed

LinkOut - more resources