ArticleInternational journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases2020
A genetic barcode of SARS-CoV-2 for monitoring global distribution of different clades during the COVID-19 pandemic.
Article in International journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.
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Who cites it
31 citing papers in PubMed, 56 citations in OpenAlex.
- Identification of potential SARS-CoV-2 genomic regions representing hallmarks for adaptation to different hosts.iMetaOmics · 2025Article
- RNA barcode segments for SARS-CoV-2 identification from HCoVs and SARSr-CoV-2 lineages.Virologica Sinica · 2024Article
- Deciphering dengue: novel RNA barcoding segments for enhanced serotype-specific identification and global surveillance of dengue viruses.Frontiers in microbiology · 2024Article
- A systematic review of the barcoding strategy that contributes to COVID-19 diagnostics at a population level.Frontiers in molecular biosciences · 2023Review
- Development of antibody resistance in emerging mutant strains of SARS CoV-2: Impediment for COVID-19 vaccines.Reviews in medical virology · 2022Review
- Detection and classification of SARS-CoV-2 using high-resolution melting analysis.Microbial biotechnology · 2022Article
- SARS-CoV-2 genomes from Saudi Arabia implicate nucleocapsid mutations in host response and increased viral load.Nature communications · 2022Article
- COVID-19: A review of newly formed viral clades, pathophysiology, therapeutic strategies and current vaccination tasks.International journal of biological macromolecules · 2021Review
- SARS-CoV-2, Zika viruses and mycoplasma: Structure, pathogenesis and some treatment options in these emerging viral and bacterial infectious diseases.Biochimica et biophysica acta. Molecular basis of disease · 2021Article
- Modeling the onset of symptoms of COVID-19: Effects of SARS-CoV-2 variant.PLoS computational biology · 2021Article
- Probe design for simultaneous, targeted capture of diverse metagenomic targets.Cell reports methods · 2021Article
- Insilico study on the effect of SARS-CoV-2 RBD hotspot mutants' interaction with ACE2 to understand the binding affinity and stability.Virology · 2021Article
- Evolutionary trajectory of SARS-CoV-2 and emerging variants.Virology journal · 2021Review
- Multilevel systems biology analysis of lung transcriptomics data identifies key miRNAs and potential miRNA target genes for SARS-CoV-2 infection.Computers in biology and medicine · 2021Article
- Generation of restriction endonucleases barcode map to trace SARS-CoV-2 origin and evolution.Scientific reports · 2021Article
- V483A: an emerging mutation hotspot of SARS-CoV-2.Future virology · 2021Review
- SARS-CoV-2 biology and variants: anticipation of viral evolution and what needs to be done.Environmental microbiology · 2021Article
- A rapid and cost-effective multiplex ARMS-PCR method for the simultaneous genotyping of the circulating SARS-CoV-2 phylogenetic clades.Journal of medical virology · 2021Article
- Genomic Epidemiology of SARS-CoV-2 Infection During the Initial Pandemic Wave and Association With Disease Severity.JAMA network open · 2021Article
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Authors and funding
13 authors at 6 institutions in 6 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
objectiveThe SARS-CoV-2 pathogen has established endemicity in humans. This necessitates the development of rapid genetic surveillance methodologies to serve as an adjunct with existing comprehensive, albeit though slower, genome sequencing-driven approaches.
methodsA total of 21,789 complete genomes were downloaded from GISAID on May 28, 2020 for analyses. We have defined the major clades and subclades of circulating SARS-CoV-2 genomes. A rapid sequencing-based genotyping protocol was developed and tested on SARS-CoV-2-positive RNA samples by next-generation sequencing.
resultsWe describe 11 major mutations which defined five major clades (G
conclusionGlobally circulating SARS-CoV-2 genomes could be classified into 5 major clades based on mutational profiles defined by an 11-nucleotide barcode. We have successfully developed a multiplexed sequencing-based, rapid genotyping protocol for high-throughput classification of major clade types of SARS-CoV-2 in clinical samples. This barcoding strategy will be required to monitor decreases in genetic diversity as treatment and vaccine approaches become widely available.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.