Osong Public Health Res Perspect.  2016 Apr;7(2):83-89. 10.1016/j.phrp.2015.11.004.

Comparison of Three Different Methods for Detection of IL28 rs12979860 Polymorphisms as a Predictor of Treatment Outcome in Patients with Hepatitis C Virus

• Fateh A
• Aghasadeghi M
• Siadat SD
• Vaziri F
• Sadeghi F
• Fateh R
• Keyvani H
• Tasbiti AH
• Yari S
• Ataei-Pirkooh A
• Monavari SH

• KMID: 2518250
• DOI: http://doi.org/10.1016/j.phrp.2015.11.004

Abstract

Objectives
This study aimed to evaluate the specificity, sensitivity, cost, and turn-around time of three methods of gene polymorphism analysis and to study the relationship between IL28B rs12979860 and SVR rate to pegIFN-α/RVB therapy among patients with chronic hepatitis C.
Methods
A total of 100 samples from chronic hepatitis C patients were analyzed in parallel using the three methods: direct sequencing, real-time polymerase chain reaction (PCR), amplification refractory mutation system (ARMS)-PCR.
Results
The different profiles for IL28B rs12979860 alleles (CC, CT, and TT) obtained with PCR-RFLP, ARMS-PCR, and direct sequencing were consistent among the three methods. Prevalence of rs12979860 genotypes CC, CT and TT in HCV genotype 1a was 10(19.6%), 35(68.6%), and six (11.8%), respectively, and in HCV genotype 31, it was 13(26.5%), 31(63.3%), and five (10.2%), respectively. No significant difference was seen between rs12979860 genotype and HCV genotype (p = 0.710).
Conclusion
Screening by ARMS – PCR SNOP detection represents the most efficient and reliable method to determine HCV polymorphisms in routine clinical practice.

Keyword

amplification refractory mutation system (ARMS)-PCR; direct DNA sequencing; Hepatitis C; real-time polymerase chain reaction (PCR)