Comparative phylogenetic analysis of individual structural Envelope (E) gene sequences insight of molecular evolution of Zika Virus

Muhammad Amir; Muhammad Ali Khan; Nelofer Jamil; Zainia Rehmat; Musarat Riaz; Sahar Munir; Muhammad Asif

doi:10.52587/njmhs.v5i1.61

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Comparative phylogenetic analysis of individual structural Envelope (E) gene sequences insight of molecular evolution of Zika Virus

Author(s)

Muhammad Amir Center for Advanced Studies in Vaccinology and Biotechnology, University of Balochistan, Quetta, Pakistan; Department of Biotechnology, Balochistan University of Information Technology, Engineering and Management Sciences (BUITEMS), Quetta, Pakistan.

Muhammad Ali Khan Center for Advanced Studies in Vaccinology and Biotechnology, University of Balochistan, Quetta, Pakistan

Nelofer Jamil Center for Advanced Studies in Vaccinology and Biotechnology, University of Balochistan, Quetta, Pakistan

Zainia Rehmat Department of Microbiology, Sardar Bahadur Khan Women University, Quetta, Pakistan.

Musarat Riaz Center for Advanced Studies in Vaccinology and Biotechnology, University of Balochistan, Quetta, Pakistan

Sahar Munir Department of Microbiology, Balochistan University of Information Technology, Engineering and Management Sciences (BUITEMS), Quetta, Pakistan; Office of Research Operations and Development, Balochistan University of Information Technology, Engineering and Management Sciences (BUITEMS), Quetta, Pakistan.

Muhammad Asif Office of Research Operations and Development, Balochistan University of Information Technology, Engineering and Management Sciences (BUITEMS), Quetta, Pakistan; Office of Research Operations and Development, Balochistan University of Information Technology, Engineering and Management Sciences (BUITEMS), Quetta, Pakistan.

Abstract

Objective: Zika virus (ZIKV) is an arthropod-borne virus (arbovirus) with Flavivirus genus of the Flaviviridae family. ZIKV was originated in Africa, but it has become a substantial community health concern. The genus is associated to mosquito or tick-borne viruses of public health interest especially Yellow Fever Virus (YFV), Dengue Virus serotype 1-4 (DENV 1-4), and West Nile virus (WNV). A comparative analysis based on individual structural envelope (E) gene phylogenies is performed to identify the genetic variation and evolutionary configuration. Material and Methods: Molecular evolutionary analyses of zika virus (ZIKV) isolates across the globe were conducted to infer phylogenetic relationships. Twenty-one full genome sequences and one Spondweni virus were downloaded from NCBI GenBank. The evolutionary distances of the sequences were determined by means of three“Neighbor-joining (NJ), Maximum-likelihood (ML), and Maximum-parsimony (MP) methods.” Results: Phylogenetic-constructed trees based on the individual envelope (E) nucleotide along with the sequences of amino acid showed that the globally diverse zika virus (ZIKV) strains belong to the two main lineages which suggested genetic intimacy. The evolutionary history of the E-gene of zika virus (ZIKV) represents a most existing common ancestor observed at the tips of the tree. The topology of the NJ-based phylogeny differed from ML and MP analysis of structural envelop (E) nucleotide gene as supported by strong bootstrap. While the key difference was noted such as the Nigerian strain swapped into the first main lineage in the ML-based amino acid tree. These findings recommend a considerable discrepancy in the evolutionary trajectory of the premeditated gene. Conclusion: In light of the prospect investigation, we propose that evolutionary studies on zika virus (ZIKV) strains ought to be achieved on envelope (E) gene phylogenies. It is suggested that the differences in phylogenetic trees, especially the ML-based amino acid tree, emphasized distinct evolutionary trajectories, such as the unique positioning of the Nigerian strain.

Publication Details

Page(s) 9-17

DOI 10.52587/njmhs.v5i1.61

Published Journal: National Journal of Medical and Health Sciences, Volume: 5, Issue: 1, Year: 2023

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Keywords

phylogenetic analysis, phylogenetic, Zika virus, West nile virus, Envelope gene

References

Amir M.,Hussain A.,Asif M.,Ahmed S.,Alam H.,Moga M. A.,Cocuz M. E.,Marceanu L.,Blidaru A. .2021 .Full-length genome and partial viral genes phylogenetic and geographical analysis of dengue serotype 3 isolates. , 9(2) : 323.

Amir M.,Khan M. A.,Iram S.,Khan S.,Asif M. .2021 .Molecular Evolution of Zika Virus by Phylogenetic Analysis of Individual Structural Capsid (C) Gene and Whole genome Sequences Worldwide. Pak-Euro Journal of Medical and Life Sciences, 4(4) : 227-234.

Besnard M.,Lastere S.,Teissier A.,Cao-Lormeau V.,Musso D. .2014 .February 2014. , 19(13) : 20751.

Calvet G.,Aguiar R. S.,Melo A. S. O.,Sampaio S. A.,de Filippis I.,Fabri A.,Araujo E. S. M.,de Sequeira E. S. M.,de Mendonça E. S. M.,de Oliveira L.,Tschoeke D. A.,Schrago C. G.,Thompson F. L.,Brasil P.,Dos Santos F. B.,Nogueira R. M. R.,Tanuri R. M. R.,de Filippis A. M. B. .2016 .Detection and sequencing of Zika virus from amniotic fluid of fetuses with microcephaly in Brazil: a case study. The Lancet. Infectious diseases, 16(6) : 653-60.

Camacho E.,Paternina-Gomez M.,Blanco P. J.,Osorio J. E.,Aliota M. T. .2016 .Detection of Autochthonous Zika Virus Transmission in Sincelejo, Colombia. , 22(5) : 927-9.

Campos G. S.,Bandeira A. C.,Sardi S. I. .2015 .. , 21(10) : 1885-6.

Cao-Lormeau V. M.,Roche C.,Teissier A.,Robin E.,Berry A. L.,Mallet H. P.,Sall A. A.,Musso D. .2013 .Zika virus, French polynesia. , 20(6) : 1085-6.

Darwish M. A.,Hoogstraal H.,Roberts T. J.,Ahmed I. P.,Omar F. .1983 .A seroepidemiological survey for certain arboviruses (Togaviridae) in Pakistan. Transactions of the Royal Society of Tropical Medicine and Hygiene, 77(4) : 442-45.

Dick G. W.,Kitchen S. F.,Haddow A. J. .1952 .Zika virus. I. Isolations and serological specificity. Transactions of the Royal Society of Tropical Medicine and Hygiene, 46(5) : 509-20.

Ebranati E.,Veo C.,Carta V.,Percivalle E.,Rovida F.,Frati E. R.,Amendola A.,Ciccozzi M.,Tanzi E.,Galli M.,Baldanti F.,Zehender G. .2019 .Time-scaled phylogeography of complete Zika virus genomes using discrete and continuous space diffusion models. Infection, genetics and evolution: journal of molecular epidemiology and evolutionary genetics in infectious diseases. , 73 : 33-43.

Faria N. R.,Quick J.,Claro I. M.,Thézé J. G.,Giovanetti M.,Kraemer M.,Hill S. C.,Black A.,da Costa A. C.,Franco L. C.,Silva S. P.,Wu C. H.,Raghwani J.,Cauchemez S.,Plessis L.,Verotti M. P.,Carmo W. K.,Coelho E. H.,Pybus G. E.,O. G. G. E. .2017 .Establishment and cryptic transmission of Zika virus in Brazil and the Americas. Nature, 546(7658) : 406-10.

Faye M.,Zein N.,Loucoubar C.,Weidmann M.,Faye O.,Cunha M. D. P.,Zanotto P. M. A.,Alpha Sall,Faye A.,O. A. .2020 .Biological Characteristics and Patterns of Codon Usage Evolution for the African Genotype Zika Virus. Viruses, 12(11) : 1306.

Gatherer D.,Kohl A. .2016 .Zika virus: a previously slow pandemic spreads rapidly through the Americas. The Journal of general virology, 97(2) : 269-73.

Giovanetti M.,Milano T.,Alcantara L. C.,Carcangiu L.,Cella E.,Lai A.,Lo Presti,Pascarella A.,Zehender S.,Angeletti G.,Ciccozzi S.,M. S. .2016 .Zika Virus spreading in South America: Evolutionary analysis of emerging neutralizing resistant Phe279Ser strains. Asian Pacific journal of tropical medicine, 9(5) : 445-52.

Goeijenbier M.,Slobbe M.,van der Eijk M.,Koopmans M. P.,Reusken C. B. .2016 .Zika virus and the current outbreak: an overview. The Netherlands journal of medicine, 74(3) : 104-9.

Gong Z.,Xu X.,G. Z. X. .2017 .The Diversification of Zika Virus: Are There Two Distinct Lineages?. Genome biology and evolution, 9(11) : 2940-45.

Guerbois M.,Fernandez-Salas I.,Azar S. R.,Danis-Lozano R.,Alpuche-Aranda C. M.,Leal G.,Garcia-Malo I. R.,Diaz-Gonzalez E. E.,Casas-Martinez M.,Rossi S. L.,Del S. L.,Sanchez-Casas R. M.,Roundy C. M.,Wood T. G.,Widen S. G.,Vasilakis N.,Weaver S. C. .2015 .First Comparative phylogenetic analysis of individual structural Envelope (E) gene of ZIKV Confirmed Transmission by Aedes aegypti Mosquitoes in the Americas. The Journal of infectious diseases, 214(9) : 1349-56.

Haddow A. D.,Woodall J. P. .2016 .Distinguishing between Zika and Spondweni viruses. Bulletin of the World Health Organization, 94(10) : 711-711A.

Hatcher E. L.,Zhdanov S. A.,Bao Y.,Blinkova O.,Nawrocki E. P.,Ostapchuck Y.,Schäffer A. A.,Brister J. R. .2017 .Virus Variation Resource - improved response to emergent viral outbreaks. Nucleic acids research, 45(D1) : D482-D490.

Kumar S.,Stecher G.,Li M.,Knyaz C.,Tamura K. .2018 .MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms. Molecular biology and evolution, 35(6) : 1547-49.

Kuno G.,Chang G. J. .2007 .Full-length sequencing and genomic characterization of Bagaza, Kedougou, and Zika viruses. Archives of virology, 152(4) : 687-96.

Lanciotti R. S.,Kosoy O. L.,Laven J. J.,Velez J. O.,Lambert A. J.,Johnson A. J.,Stanfield S. M.,Duffy M. R. .2007 .Genetic and serologic properties of Zika virus associated with an epidemic, Yap State. , 14(8) : 1232-9.

Lanciotti R. S.,Lambert A. J.,Holodniy M.,Saavedra S.,Signor L. .2015 .. Phylogeny of Zika Virus in Western Hemisphere, 22(5) : 933-5.

Li G.,Bos S.,Tsetsarkin K. A.,Pletnev A. G.,Desprès P.,Gadea G.,Zhao R. Y. .2019 .The Roles of prM-E Proteins in Historical and Epidemic Zika Virus-mediated Infection and Neurocytotoxicity. , 11(2) : 157.

Macnamara F.N. .1954 .Zika virus: a report on three cases of human infection during an epidemic of jaundice in Nigeria. Transactions of the Royal Society of Tropical Medicine and Hygiene, 48(2) : 139-45.

McCrae A. W.,Kirya B. G. .1982 .Yellow fever and Zika virus epizootics and enzootics in Uganda. Transactions of the Royal Society of Tropical Medicine and Hygiene, 76(4) : 552-62.

Musso D.,Nilles E. J.,Cao-Lormeau V. M. .2014 .Rapid spread of emerging Zika virus in the Pacific area. Clinical microbiology and infection: the official publication of the European Society of Clinical Microbiology. , 20(10) : O595-O596.

Nambala P.,Su W. C. .2018 .Role of Zika Virus prM Protein in Viral Pathogenicity and Use in Vaccine Development. , 9 : 1797.

Nicholls C. M. R.,Sevvana M.,Kuhn R. J. .2020 .Structure-guided paradigm shifts in flavivirus assembly and maturation mechanisms. Advances in virus research, 108 : 33-83.

Seligman S. J. .2008 .Constancy and diversity in the flavivirus fusion peptide. Virology journal, 5 : 27.

Simón D.,Fajardo A.,Moreno P.,Moratorio G.,Cristina J. .2018 .An Evolutionary Insight into Zika Virus Strains Isolated in the Latin American Region. , 10(12) : 698.

Villamil-Gómez W. E.,Rodríguez-Morales A. J.,Uribe-García A. M.,González-Arismendy E.,Castellanos J. E.,Calvo E. P.,Álvarez-Mon M.,Musso D. .2016 .Zika, dengue, and chikungunya co-infection in a pregnant woman from Colombia. International journal of infectious diseases: IJID: official publication of the International Society for Infectious Diseases, 51 : 135-38.

Wang Z.,Wang P.,An J. .2016 .Zika virus and Zika fever. Virologica Sinica, 31(2) : 103-9.

Yokoyama S.,Starmer S. .2017 .Possible Roles of New Mutations Shared by Asian and American Zika Viruses. Molecular biology and evolution, 34(3) : 525-534.

Yuan L.,Huang X. Y.,Liu Z. Y.,Zhang F.,Zhu X. L.,Yu J. Y.,Ji X.,Xu Y. P.,Li G.,Li C.,Wang H. J.,Deng Y. Q.,Wu M. L.,Ye Q.,Xie D. Y.,Li X. F.,Wang X.,Shi W.,Hu B.,Qin C. F. .2017 .A single mutation in the prM protein of Zika virus contributes to fetal microcephaly. Science, 358(6365) : 933-6.

Zanluca C.,Melo V. C.,Mosimann A. L.,Santos G. I.,Santos C. N.,Luz K. .2015 .First report of autochthonous transmission of Zika virus in Brazil. Memorias do Instituto Oswaldo Cruz, 110(4) : 569-72.

Amir M.,Khan M. A.,Jamil N.,Rehmat Z.,Riaz M.,Munir S.,Asif M. .2023 .Comparative phylogenetic analysis of individual structural Envelope (E) gene sequences insight of molecular evolution of Zika Virus. National Journal of Medical and Health Sciences, 5(1) : 9-17.

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