eng Science and Education Publishing American Journal of Biomedical Research 2328-3955 2016-06-29 4 3 46 60 10.12691/ajbr-4-3-1 AJBR2016431 article Marwan Mustafa Badawi mmbadwi44new@gmail.com 1 Marwa Mohamed Osman 1 Afra AbdElhamid Fadl Alla 1 Ammar Mohammed Ahmedani 1 Mohamed hamed Abdalla 1 Mosab Mohamed Gasemelseed 2 Ahmed Abubakar Elsayed 3 Mohamed Ahmed Salih 3 Department of Biotechnology, Africa city of Technology- Khartoum, Sudan Al Neelain University, Faculty of Medical Laboratory Sciences Department of Microbiology, Soba University Hospital, Khartoum-Sudan Zika virus (ZIKV) is positive sense single stranded RNA of Flavivirus genus belonging to the Flaviviridae family. It has neither drug nor protective vaccine, and considered to be in relatedness to neurological abnormalities such as Guillain Barre Syndrome and microcephaly of neonates. The aim of this study is to analyze envelope glycoprotein E of all Zika strains using in silico approaches looking for conservancy, which is further studied to predict all potential epitopes that can be used after in vitro and in vivo confirmation as a therapeutic peptide vaccine. A total of 50 Zikavirusvariants' (include 12 from South America) polyproteins retrieved from NCBI database were aligned, and the conserved regions of Envelope Glycoprotein-E were selected for epitopes prediction. IEDB analysis resource was used to predict B and T cell epitopes and to calculate the population coverage. Epitopes with high scores in both B cell and T cell epitopes predicting tools were suggested. Three epitopes were proposed for international therapeutic peptide vaccine for B cell (AQDKP, TPNSPRAE and TPHWNNK) and two other epitopes designed especially for South America strains (LDKQSDTQYV and EVQYAGTDGPCK). For T cell epitopes, MMLELDPPF epitope was highly recommended as therapeutic peptide vaccine to interact with MHC class I along with three other epitopes (MAVLGDTAW, KEWFHDIPL and DTAWDFGSV) which showed very good population coverage against the whole world population. Three epitopes showed high affinity to interact with MHC class II alleles (FKSLFGGMS, LITANPVIT and VHTALAGAL) with excellent population coverage throughout the world and South America region. Herd immunity protocols can be achieved in countries with low population coverage percentage to minimize the active transmission of the virus, especially among pregnant women and other groups at risk.We recommend in vitro and in vivo proving the effectiveness of these proposed epitopes as a vaccine, as well as to be used as a diagnostic screening test. http://pubs.sciepub.com/ajbr/4/3/1/ajbr-4-3-1.pdf Zika virus (ZIKV) arboviruses peptide vaccine Immune Epitope Database IEDB epitopes Herd immunity and Vaccine