ArticleJournal of medical virology2021
A rapid and cost-effective multiplex ARMS-PCR method for the simultaneous genotyping of the circulating SARS-CoV-2 phylogenetic clades.
Article in Journal of medical virology, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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Who cites it
15 citing papers in PubMed.
- Visual Screening of Genetic Polymorphisms inSensors (Basel, Switzerland) · 2026Article
- Targeted next-generation sequencing characterization of respiratory pathogens in children with acute respiratory infection.BMC infectious diseases · 2025Article
- Dengue Virus Serotype 2 Cosmopolitan C Genotype Reemerges With a New Strain in Southwest Region of Bangladesh.Transboundary and emerging diseases · 2025Article
- Integrated approach for detection of SARS-CoV-2 and its variant by utilizing LAMP and ARMS-PCR.Annals of clinical microbiology and antimicrobials · 2024Article
- DetectingHeliyon · 2023Article
- Evaluation of RT-PCR assays for detection of SARS-CoV-2 variants of concern.Scientific reports · 2023Article
- Article
- Tetra-Primer Amplification-Refractory Mutation System (ARMS)-PCR for Genotyping Mouse Leptin Gene Mutation.Animals : an open access journal from MDPI · 2022Article
- Development and validation of cost-effective one-step multiplex RT-PCR assay for detecting the SARS-CoV-2 infection using SYBR Green melting curve analysis.Scientific reports · 2022Article
- Developing an Amplification Refractory Mutation System-Quantitative Reverse Transcription-PCR Assay for Rapid and Sensitive Screening of SARS-CoV-2 Variants of Concern.Microbiology spectrum · 2022Article
- Genomic analysis of SARS-CoV-2 variants of concern identified from the ChAdOx1 nCoV-19 immunized patients from Southwest part of Bangladesh.Journal of infection and public health · 2022Article
- SARS-CoV-2 detection in wastewater using multiplex quantitative PCR.The Science of the total environment · 2021Article
- Prevalence and stability of SARS-CoV-2 RNA on Bangladeshi banknotes.The Science of the total environment · 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
- Extensive genetic diversity with novel mutations in spike glycoprotein of severe acute respiratory syndrome coronavirus 2, Bangladesh in late 2020.New microbes and new infections · 2021Article
Corrections and comments
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Authors and funding
10 authors.
Funding
Abstract
Tracing the globally circulating severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) phylogenetic clades by high-throughput sequencing is costly, time-consuming, and labor-intensive. We here propose a rapid, simple, and cost-effective amplification refractory mutation system (ARMS)-based multiplex reverse-transcription polymerase chain reaction (PCR) assay to identify six distinct phylogenetic clades: S, L, V, G, GH, and GR. Our multiplex PCR is designed in a mutually exclusive way to identify V-S and G-GH-GR clade variants separately. The pentaplex assay included all five variants and the quadruplex comprised of the triplex variants alongside either V or S clade mutations that created two separate subsets. The procedure was optimized with 0.2-0.6 µM primer concentration, 56-60°C annealing temperature, and 3-5 ng/µl complementary DNA to validate on 24 COVID-19-positive samples. Targeted Sanger sequencing further confirmed the presence of the clade-featured mutations with another set of primers. This multiplex ARMS-PCR assay is a fast, low-cost alternative and convenient to discriminate the circulating phylogenetic clades of SARS-CoV-2.
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