In-silico analysis of Covid-19 genome sequences of Indian origin: Impact of mutations in identification of SARS-Co-V2
| Autor: | Ramalingam Sankaran, Divya Sri Kathiresan, Sankarganesh Jeyaraj, Sudha Ramalingam, Kannan Thirumalmuthu, Kabilan Mani |
|---|---|
| Rok vydání: | 2021 |
| Předmět: |
Indian SARS-CoV-2 genome sequences
Coronavirus disease 2019 (COVID-19) Primer and Probe mismatches In silico rRT-PCR India Genome Viral Biology Real-Time Polymerase Chain Reaction Genome Sensitivity and Specificity Article Disease Outbreaks 03 medical and health sciences Open Reading Frames Humans Computer Simulation Molecular Biology Gene 030304 developmental biology DNA Primers Genetics 0303 health sciences 030306 microbiology SARS-CoV-2 Hybridization probe Outbreak COVID-19 Reproducibility of Results Cell Biology Mutation RNA Viral Identification (biology) Primer (molecular biology) DNA Probes |
| Zdroj: | Molecular and Cellular Probes |
| ISSN: | 1096-1194 |
| Popis: | Covid-19 disease caused by SARS-CoV-2 is still being transmitted in developed and developing countries irrespective of healthcare setups. India with 1.3 billion people in the world is severely affected by Covid-19 with 11.3 million cases and 157,000 deaths so far. We have assessed the mismatches in WHO recommended rRT-PCR assays primer and probe binding regions against SARS-CoV-2 Indian genome sequences through in-silico bioinformatics analysis approach. Primers and probe sequences belonging to CN-CDC-ORF1ab from China and HKU-ORF1b from Hong Kong targeting ORF1ab gene while NIH-TH-N from Thailand, HKU-N from Hong Kong and US-CDCN-2 from USA targeting N genes displayed accurate matches (>98.3 %) with the 2019 novel corona virus sequences from India. On the other hand, none of the genomic sequences displayed exact match with the primer/probe sequences belonging to Charité-ORF1b from Germany targeting ORF1ab gene. We think it will be worthwhile to release this information to the clinical and medical communities working in Indian Covid-19 frontline taskforce to tackle the recently emerging Covid-19 outbreaks as of March-2021. |
| Databáze: | OpenAIRE |
| Externí odkaz: |
|
Full Text from ScienceDirect