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All Journal Berkala Penelitian Hayati
Nia Kurniawan
Department of Biology, Faculty Mathematics and Natural Sciences, Universitas Brawijaya, Malang, Indonesia
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Immunology & microbiology Materials Science & Nanotechnology Medicine & Pharmacology

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Future zoonis forecasting of Betacoronavirus group using phylogenetics and haplotype network analysis Rahmat Grahadi; Rizka Vamelia Sulistya Ningrum; Najma Zahira; Nia Kurniawan; Fatchiyah Fatchiyah
JURNAL PENELITIAN BIOLOGI BERKALA PENELITIAN HAYATI Vol 25 No 2 (2020): June 2020
Publisher : The East Java Biological Society

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (731.878 KB) | DOI: 10.23869/79

Abstract

Genetic diversity and species relationship contribute to the inter-species transmission of coronavirus-derived diseases. This research aimed to investigate the probability of newly emergence Betacoronavirus zoonosis according to genetic relationship and haplotype network. A total of 24 Betacoronavirus sequences from different continents were used to construct the phylogenetic tree and the haplotype network. A phylogenetic tree was constructed using the Maximum Likelihood method with RaxML in CIPRES Science Gateway portal and GTRGAMMA+I analysis with 1000 bootstrap. Haplotype Network was done using Network 10.0.0.0 version with median-joining analysis. The result of the phylogenetic and haplotype network formed 4 groups of Betacoronavirus. Group A consisted of Human Coronavirus (HCoV) type OC43 and HKU1, Bovine Coronavirus, and Rodent Coronavirus. Group B consisted of SARS-CoV and SARS-CoV-2. Group C consisted of MERS-CoV (2012 pandemic) and MERS-CoV from camels. Reliable with phylogenetic results, haplotype network also grouped Betacoronaviruses into three groups in accordance with their subgenera. Bovine and Rodent coronavirus are constant to group with previously human coronavirus, i.e. HCoV-OC43 and HCoV-HKU1, respectively. According to the high genetic similarity that the Bovine and Rodent coronavirus may infect to human and provide a new emergence. This study is basic for further research related to inter-species transmission from animal to human.
Co-Authors fatchiyah . Najma Zahira Rahmat Grahadi Rizka Vamelia Sulistya Ningrum