Universität zu Köln

Walker, Andreas, Ennker, Kim Sophie, Kaiser, Rolf, Luebke, Nadine and Timm, Joerg (2019). A pan-genotypic Hepatitis C Virus NS5A amplification method for reliable genotyping and resistance testing. J. Clin. Virol., 113. S. 8 - 14. AMSTERDAM: ELSEVIER. ISSN 1873-5967

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Abstract

Background: Chronic infection with the Hepatitis C Virus (HCV) is associated with the risk of progressive liver disease. Although, HCV treatment options and viral cure rates have tremendously increased over the last decade, all currently licensed combination therapies contain inhibitors of the replication complex NS5A. Resistance-associated substitutions (RAS) in NS5A can limit the efficacy of therapy; however, resistance testing is routinely not recommended for all patients. Notably, pan-genotypic combinations have been approved, however the correct identification of the HCV genotype is still required for treatment decisions and is a good predictor for treatment success. Objective: The aim of this study was the establishment of a pan-genotypic NS5A amplification method for reliable genotyping and simultaneous resistance testing in a fast and cheap routine diagnostic setup. Study design: Pan-genotypic degenerated nested PCR primer were designed and tested in 262 HCV-patients. The collection included samples from genotypes 1-7 and the median viral load was 1.07x10(6) IU/ml (range 248-21x10(6) IU/ml). Results: Amplification of the expected 747bp fragment was successful in 257 of 262 (98.1%) samples including samples < 1000 IU/ml. The direct comparison of the genotype information obtained with core sequencing to those obtained by NS5A prediction showed high concordance (97.3%) and discrepancies occurred only for relatively rare subtypes. Resistance analysis using Geno2Pheno([HCV]) showed NS5A-RAS in 23 of 257 (8.9%) of samples. Conclusions: We successfully developed a routine diagnostic method for pan-genotypic amplification of NS5A. This amplicon can be used for simultaneous genotyping and resistance testing for enhancing and improving routine HCV diagnostic.

Item Type:	Journal Article
Creators:	Creators Email ORCID ORCID Put Code Walker, Andreas UNSPECIFIED UNSPECIFIED UNSPECIFIED Ennker, Kim Sophie UNSPECIFIED UNSPECIFIED UNSPECIFIED Kaiser, Rolf UNSPECIFIED UNSPECIFIED UNSPECIFIED Luebke, Nadine UNSPECIFIED UNSPECIFIED UNSPECIFIED Timm, Joerg UNSPECIFIED UNSPECIFIED UNSPECIFIED
URN:	urn:nbn:de:hbz:38-153089
DOI:	10.1016/j.jcv.2019.01.012
Journal or Publication Title:	J. Clin. Virol.
Volume:	113
Page Range:	S. 8 - 14
Date:	2019
Publisher:	ELSEVIER
Place of Publication:	AMSTERDAM
ISSN:	1873-5967
Language:	English
Faculty:	Unspecified
Divisions:	Unspecified
Subjects:	no entry
Uncontrolled Keywords:	Keywords Language JAPANESE PATIENTS; NATURAL PREVALENCE; ANTIVIRAL DRUGS; HCV NS5A; SOFOSBUVIR; VELPATASVIR; VARIANTS; SUBSTITUTIONS; COMBINATION; LEDIPASVIR Multiple languages Virology Multiple languages
Refereed:	Yes
URI:	http://kups.ub.uni-koeln.de/id/eprint/15308