In silico comparative study of Zika Virus Proteins and analysis of Membrane glycoprotein M as a candidate for vaccine design
This thesis is submitted in partial fulfilment of the requirements for the degree of Bachelor of Science in Biotechnology, 2018.
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BRAC Univeristy
2018
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10361-105482019-09-30T05:08:10Z In silico comparative study of Zika Virus Proteins and analysis of Membrane glycoprotein M as a candidate for vaccine design Nowshen, Afia Hossain, Dr. M. Mahboob Department of Mathematics and Natural Sciences, BRAC University Zika virus Vaccine This thesis is submitted in partial fulfilment of the requirements for the degree of Bachelor of Science in Biotechnology, 2018. Cataloged from PDF version of thesis. Includes bibliographical references (page 72-75). Zika virus is a (+) RNA virus that has become a major concern of public health in the last few years. It is known to cause microcephaly, reduction of brain circumference along with many type of brain injury in new-borns at a high rate. An effective vaccine against Zika virus is not yet discovered. In this investigation, a comparative study of Zika virus with its other relative species was performed. In order to do so, polyprotein sequences of 10 viruses (West Nile Virus, Rubella Virus, Dengue Virus 2, Human Immunodeficiency Virus 1 (Partial Polyprotein), Human Immunodeficiency Virus 1 (Partial Polyprotein), Ebola Virus (Structural Polyprotein), Chikungunya Virus (Non-Structural Polyprotein), Hepatitis C virus polyprotein, Cytomegalovirus Polyprotein) were analysed by Multiple Sequence Alignment using T Coffee (EMBL) and COBALT (NCBI) respectively. From the analysis, the most conserved regions among species were further analysed using InterProScan and ScanProSite for finding out their precise function and involvement. The overall biological processes, molecular function, and cell component characteristics were also identified. A phylogenetic tree considering 100% data coverage was also constructed. As an effort to find out an epitope for a probable peptide vaccine design, ZIKA virus Membrane Glycoprotein (M) was analysed because this was the only complete protein sequence submitted to NCBI so far. Using three distinct antigenicity and epitope prediction software, Vaxijen, BepiPred and BCPREDS five sequences were found to be antigenic. Among the five sequences, a seven amino acid long sequence ‘GSSTSQK’ and 12 amino acid long ENWIFRNPGFAL were determined to be most antigenic by Vaxijen (Antigenicity of GSSTSQK- 1.1341 and ENWIFRNPGFAL- 0.8161 where threshold value of antigenicity ≥ 0.4). These sequences have a high antigenicity, conservancy and surface accessibility suggesting that, these might be epitopes that are most compatible for designing a peptide vaccine. Here a complete comparative study of Zika virus with its relatives were conducted to get insights about how Zika virus works. Alongside, identification of peptide vaccine candidate epitopes was done using bioinformatic tools. Afia Nowshen B. Biotechnology 2018-09-16T07:35:40Z 2018-09-16T07:35:40Z 2018 2018-07-26 Thesis ID 13136006 http://hdl.handle.net/10361/10548 BRAC University theses are protected by copyright. They may be viewed from this source for any purpose, but reproduction or distribution in any format is prohibited without written permission. 75 pages application/pdf BRAC Univeristy |
| institution |
Brac University |
| collection |
Institutional Repository |
| topic |
Zika virus Vaccine |
| spellingShingle |
Zika virus Vaccine Nowshen, Afia In silico comparative study of Zika Virus Proteins and analysis of Membrane glycoprotein M as a candidate for vaccine design |
| description |
This thesis is submitted in partial fulfilment of the requirements for the degree of Bachelor of Science in Biotechnology, 2018. |
| author2 |
Hossain, Dr. M. Mahboob |
| author_facet |
Hossain, Dr. M. Mahboob Nowshen, Afia |
| format |
Thesis |
| author |
Nowshen, Afia |
| author_sort |
Nowshen, Afia |
| title |
In silico comparative study of Zika Virus Proteins and analysis of Membrane glycoprotein M as a candidate for vaccine design |
| title_short |
In silico comparative study of Zika Virus Proteins and analysis of Membrane glycoprotein M as a candidate for vaccine design |
| title_full |
In silico comparative study of Zika Virus Proteins and analysis of Membrane glycoprotein M as a candidate for vaccine design |
| title_fullStr |
In silico comparative study of Zika Virus Proteins and analysis of Membrane glycoprotein M as a candidate for vaccine design |
| title_full_unstemmed |
In silico comparative study of Zika Virus Proteins and analysis of Membrane glycoprotein M as a candidate for vaccine design |
| title_sort |
in silico comparative study of zika virus proteins and analysis of membrane glycoprotein m as a candidate for vaccine design |
| publisher |
BRAC Univeristy |
| publishDate |
2018 |
| url |
http://hdl.handle.net/10361/10548 |
| work_keys_str_mv |
AT nowshenafia insilicocomparativestudyofzikavirusproteinsandanalysisofmembraneglycoproteinmasacandidateforvaccinedesign |
| _version_ |
1814309103343763456 |