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Deletion in the C-terminal region of the envelope glycoprotein in some of the Indian SARS-CoV-2 genome.
Kumar, Ballamoole Krishna; Rohit, Anusha; Prithvisagar, Kattapuni Suresh; Rai, Praveen; Karunasagar, Indrani; Karunasagar, Iddya.
  • Kumar BK; Division of Infectious Diseases, Nitte University Centre for Science Education and Research, Nitte (Deemed to be University), Deralakatte, Mangaluru, 575018, India.
  • Rohit A; Department of Microbiology, The Madras Medical Mission, 4-A, Dr, Mogappair, Chennai, Tamil Nadu, 600037, India.
  • Prithvisagar KS; Division of Infectious Diseases, Nitte University Centre for Science Education and Research, Nitte (Deemed to be University), Deralakatte, Mangaluru, 575018, India.
  • Rai P; Division of Infectious Diseases, Nitte University Centre for Science Education and Research, Nitte (Deemed to be University), Deralakatte, Mangaluru, 575018, India.
  • Karunasagar I; Division of Infectious Diseases, Nitte University Centre for Science Education and Research, Nitte (Deemed to be University), Deralakatte, Mangaluru, 575018, India.
  • Karunasagar I; Nitte (Deemed to be University), University Enclave, Medical Sciences Complex, Deralakatte, Mangaluru, 575018, India. Electronic address: iddya.karunasagar@nitte.edu.in.
Virus Res ; 291: 198222, 2021 01 02.
Article in English | MEDLINE | ID: covidwho-912664
ABSTRACT
The envelope glycoprotein (E) is the smallest structural component of SARS-CoVs; plays an essential role in the viral replication starting from envelope formation to assembly. The in silico analysis of 2086 whole genome sequences from India performed in this study provides the first observation on the extensive deletion of amino acid residues in the C-terminal region of the envelope glycoprotein in 34 Indian SARS-CoV-2 genomes. These amino acid deletions map to the homopentameric interface and PDZ binding motif (PBM) present in the C-terminal region of E protein as well as immediately after the reverse primer binding region as per Charité protocol in 26 of these genomes, hence, their detection through RT-qPCR may not be hampered and therefore E gene-based RT-qPCR would still detect these isolates. Eight genomes from the State of Odisha had deletion even in the primer binding site. It is possible that the deletions in the C-terminal region of E protein of these genomes are a result of adapting to a newer geographical area and host. The information on the clinical status was available only for 9 out of 34 cases and these were asymptomatic. However, further studies are indispensable to understand the functional consequences of amino acid deletion in the C terminal region of SARS-CoV-2 envelope protein in the viral pathogenesis and host adaptation.
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Full text: Available Collection: International databases Database: MEDLINE Main subject: Coronavirus Envelope Proteins / SARS-CoV-2 Type of study: Observational study / Prognostic study Limits: Adult / Female / Humans / Male / Middle aged Country/Region as subject: Asia Language: English Journal: Virus Res Journal subject: Virology Year: 2021 Document Type: Article Affiliation country: J.virusres.2020.198222

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Full text: Available Collection: International databases Database: MEDLINE Main subject: Coronavirus Envelope Proteins / SARS-CoV-2 Type of study: Observational study / Prognostic study Limits: Adult / Female / Humans / Male / Middle aged Country/Region as subject: Asia Language: English Journal: Virus Res Journal subject: Virology Year: 2021 Document Type: Article Affiliation country: J.virusres.2020.198222