PMID- 25380768
OWN - NLM
STAT- MEDLINE
DCOM- 20150702
LR  - 20220110
IS  - 1743-422X (Electronic)
IS  - 1743-422X (Linking)
VI  - 11
DP  - 2014 Nov 8
TI  - Prediction of T-cell epitopes of hepatitis C virus genotype 5a.
PG  - 187
LID - 10.1186/1743-422X-11-187 [doi]
LID - 187
AB  - BACKGROUND: Hepatitis C virus (HCV) is a public health problem with almost 185 
      million people estimated to be infected worldwide and is one of the leading 
      causes of hepatocellular carcinoma. Currently, there is no vaccine for HCV 
      infection and the current treatment does not clear the infection in all patients. 
      Because of the high diversity of HCV, protective vaccines will have to overcome 
      significant viral antigenic diversities. The objective of this study was to 
      predict T-cell epitopes from HCV genotype 5a sequences. METHODS: HCV near 
      full-length protein sequences were analyzed to predict T-cell epitopes that bind 
      human leukocyte antigen (HLA) class I and HLA class II in HCV genotype 5a using 
      Propred I and Propred, respectively. The Antigenicity score of all the predicted 
      epitopes were analysed using VaxiJen v2.0. All antigenic predicted epitopes were 
      analysed for conservation using the IEDB database in comparison with 406, 221, 
      98, 33, 45, 45 randomly selected sequences from each of the HCV genotypes 1a, 1b, 
      2, 3, 4 and 6 respectively, downloaded from the GenBank. For epitope prediction 
      binding to common HLA alleles found in South Africa, the IEDB epitope analysis 
      tool was used. RESULTS: A total of 24 and 77 antigenic epitopes that bind HLA 
      class I and HLA class II respectively were predicted. The highest number of HLA 
      class I binding epitopes were predicted within the NS3 (63%), followed by NS5B 
      (21%). For the HLA class II, the highest number of epitopes were predicted in the 
      NS3 (30%) followed by the NS4B (23%) proteins. For conservation analysis, 8 and 
      31 predicted epitopes were conserved in different genotypes for HLA class I and 
      HLA class II alleles respectively. Several epitopes bind with high affinity for 
      both HLA class I alleles and HLA class II common in South Africa. CONCLUSION: The 
      predicted conserved T-cell epitopes analysed in this study will contribute 
      towards the future design of HCV vaccine candidates which will avoid variation in 
      genotypes, which in turn will be capable of inducing broad HCV specific immune 
      responses.
FAU - Gededzha, Maemu P
AU  - Gededzha MP
FAU - Mphahlele, M Jeffrey
AU  - Mphahlele MJ
FAU - Selabe, Selokela G
AU  - Selabe SG
AD  - HIV and Hepatitis Research Unit, Department of Virology, University of Limpopo, 
      Medunsa Campus/National Health Laboratory Service, Pretoria, South Africa. 
      selokela.selabe@ul.ac.za.
LA  - eng
PT  - Journal Article
PT  - Research Support, Non-U.S. Gov't
DEP - 20141108
PL  - England
TA  - Virol J
JT  - Virology journal
JID - 101231645
RN  - 0 (Epitopes, T-Lymphocyte)
RN  - 0 (Histocompatibility Antigens Class I)
RN  - 0 (Histocompatibility Antigens Class II)
RN  - 0 (NS3 protein, hepatitis C virus)
RN  - 0 (Viral Nonstructural Proteins)
RN  - EC 2.7.7.48 (NS-5 protein, hepatitis C virus)
SB  - IM
MH  - Alleles
MH  - Base Sequence
MH  - Epitopes, T-Lymphocyte/genetics/*immunology
MH  - Genotype
MH  - Hepacivirus/genetics/*immunology
MH  - Hepatitis C/genetics/immunology/*virology
MH  - Histocompatibility Antigens Class I/genetics/immunology
MH  - Histocompatibility Antigens Class II/genetics/immunology
MH  - Humans
MH  - South Africa
MH  - Viral Nonstructural Proteins/genetics/immunology
PMC - PMC4289306
EDAT- 2014/11/09 06:00
MHDA- 2015/07/03 06:00
PMCR- 2014/11/08
CRDT- 2014/11/09 06:00
PHST- 2014/03/17 00:00 [received]
PHST- 2014/10/14 00:00 [accepted]
PHST- 2014/11/09 06:00 [entrez]
PHST- 2014/11/09 06:00 [pubmed]
PHST- 2015/07/03 06:00 [medline]
PHST- 2014/11/08 00:00 [pmc-release]
AID - 1743-422X-11-187 [pii]
AID - 2514 [pii]
AID - 10.1186/1743-422X-11-187 [doi]
PST - epublish
SO  - Virol J. 2014 Nov 8;11:187. doi: 10.1186/1743-422X-11-187.