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Article
Biophysics
Changsheng He et al.
Summary: The increasing prevalence of SARS-CoV-2 variants with spike mutations has raised concerns. Rapid and accurate detection of these variants is crucial for infection prevention and control. The RT-CORDS platform accurately, sensitively, specifically, and rapidly detects SARS-CoV-2 variants, making it a potential tool for clinical diagnosis.
BIOSENSORS & BIOELECTRONICS
(2022)
Article
Medical Laboratory Technology
Christoph Buchta et al.
Summary: Mutation-specific PCR assays have shown high accuracy in detecting known SARS-CoV-2 variants, with melting curve assays achieving 99% correct results. However, errors and inconclusive results still occur due to inadequate target selection, highlighting the importance of careful target selection for successful detection of current variants.
CLINICAL CHEMISTRY AND LABORATORY MEDICINE
(2022)
Article
Immunology
Stefania Dispinseri et al.
Summary: SARS-CoV-2 vaccination induces antibodies that recognize virus variants, but these antibodies have reduced neutralization ability against the variants. Individuals with prior mild COVID-19 may rapidly lose neutralizing antibodies after disease and have post-vaccination antibody levels similar to those without prior infection. In individuals naive to SARS-CoV-2 infection, vaccination can transiently reactivate pre-existing seasonal coronavirus antibody responses and subsequently reduce the ability to neutralize alpha and beta variants.
JOURNAL OF CLINICAL IMMUNOLOGY
(2022)
Article
Virology
Matthew M. Hernandez et al.
Summary: The COVID-19 pandemic has accelerated the development of SARS-CoV-2 diagnostics, but emerging variants can lead to target dropout and false-negative results. This study analyzed data from 1262 SARS-CoV-2-positive specimens and found a correlation between target dropout and new variants, showcasing the importance of target redundancy and its potential to shed light on the spread of virus variants.
JOURNAL OF MEDICAL VIROLOGY
(2022)
Article
Pathology
Ryan J. Dikdan et al.
Summary: Developed a multiplex quantitative RT-PCR assay that can identify different variants of SARS-CoV-2 and other important mutations with high sensitivity and specificity. The assay can be easily implemented on widely available devices and aids in tracking the spread of variants.
JOURNAL OF MOLECULAR DIAGNOSTICS
(2022)
Article
Immunology
Christopher Dachert et al.
Summary: This study reports a laboratory diagnostic method for the omicron variant, which combines PCR and full-length genome sequencing to rapidly and sensitively identify the variant. The study is of great significance for the diagnosis and surveillance of the pandemic, and proposes that specialized diagnostic laboratories should continuously update their testing methods.
MEDICAL MICROBIOLOGY AND IMMUNOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Nicole L. Welch et al.
Summary: A microfluidic CRISPR-based platform called mCARMEN enables multiplexed and high-throughput identification of a wide range of respiratory viruses, including specific SARS-CoV-2 variants. The platform combines cost-effectiveness, diagnostic-grade performance, and a streamlined workflow for clinical use.
Article
Pathology
Adriana E. Rosato et al.
Summary: The emergence of the B.1.617.2 (Delta) variant of the SARS-CoV-2 virus has caused a surge in cases, especially in India. This variant is more transmissible and potentially more severe, leading to an increase in hospitalizations. The study focuses on validating and implementing a rapid detection method for the B.1.617.2 (Delta) variant, which can be easily implemented in clinical laboratories with limited resources.
Article
Virology
Jong-Hwan Lee et al.
Summary: This study developed specific monoclonal antibodies for the rapid detection of SARS-CoV-2 NP. The rapid biosensor was able to detect cultured virus samples and recombinant NP of SARS-CoV-2, and was validated with clinical specimens. This rapid biosensor could be important for detecting SARS-CoV-2 NP in the presence of spreading variants.
Article
Biochemical Research Methods
Zahir Ali et al.
Summary: Bio-SCAN is a rapid and accurate pathogen detection platform for SARS-CoV-2, offering high sensitivity and efficiency in distinguishing between different variants.
ACS SYNTHETIC BIOLOGY
(2022)
Article
Microbiology
Dongyan Xiong et al.
Summary: In this study, common mutations specific to the Alpha and Delta variants of SARS-CoV-2 were identified by analyzing over 1 million genomic sequences. A method using ARMS-RT-qPCR was developed based on these mutations, which showed 100% agreement with sequencing-based methods in detecting the variants in clinical samples. The assay is cost-effective, rapid, and can be used in PCR laboratories for screening the highly concerning Alpha and Delta variants.
MICROBIOLOGY SPECTRUM
(2022)
Article
Microbiology
Karrie K. K. Ko et al.
Summary: This study reveals a previously unreported mutation in the N gene of SARS-CoV-2, which may render certain commercial tests unable to accurately detect the virus, highlighting the importance of real-time surveillance of viral variants.
MICROBIOLOGY SPECTRUM
(2022)
Article
Microbiology
Hsing-Yi Chung et al.
Microbiology Spectrum
(2022)
Article
Medicine, General & Internal
Jidapa Szekely et al.
Summary: The study developed and evaluated an antigen rapid diagnostic test (the Kestrel(TM) COVID-19 Ag Rapid Test) for professional use. The test showed high sensitivity, low limit of detection, and high accuracy in detecting and managing COVID-19, making it a potential tool for screening, surveillance, and infection control in global SARS-CoV-2 variant outbreaks.
Article
Public, Environmental & Occupational Health
Carlos Barrera-Avalos et al.
Summary: This study evaluated the sensitivity and specificity of RAT (SD BIOSENSOR, South Korea) widely used for COVID-19 testing and diagnosis in Santiago of Chile, and found that it had a certain effectiveness in detecting the virus. However, it is important to be cautious of its potential impact from new viral variants.
FRONTIERS IN PUBLIC HEALTH
(2022)
Article
Multidisciplinary Sciences
Anuradha Rao et al.
Summary: This study assessed the performance of the Abbott BinaxNOW COVID-19 Antigen Self-Test in detecting SARS-CoV-2 variants and found that it can reliably detect Omicron, Delta, and other variants of concern and interest.
Article
Cell Biology
Mathieu Durand et al.
Summary: In this study, a multitarget real-time TaqMan reverse transcription PCR (rRT-PCR) assay was developed to detect and quantify SARS-CoV-2 and its circulating variants. The assay showed high sensitivity and specificity, and could detect multiple variants in a single reaction.
Article
Infectious Diseases
Joachim Mertens et al.
Summary: The study introduces a flexible testing algorithm for rapid detection of current and emerging SARS-CoV-2 variants of concern/interest, which can be easily adjusted based on the local endemicity of specific variants.
CLINICAL MICROBIOLOGY AND INFECTION
(2022)
Article
Biotechnology & Applied Microbiology
Marlene Wolfe et al.
Summary: Changes in the circulation of SARS-CoV-2 variants of concern can be detected and monitored through targeted RT-PCR assays in wastewater, providing valuable information for public health responses.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Hiroshi Miyoshi et al.
Summary: High-resolution melting (HRM) analysis was used to detect G339D and D796Y variations in the spike protein of SARS-CoV-2 Omicron variant. Two-step PCR was performed to prepare the amplicon for HRM analysis, and the melting temperatures (Tm) were measured. The results showed distinct Tm values for the Omicron variant, indicating the potential utility of HRM analysis in detecting mutations in the SARS-CoV-2 gene.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2022)
Article
Biophysics
Zecheng Zhong et al.
Summary: This study developed a new diagnostic method that can simultaneously monitor multiple single-nucleotide variants of the SARS-CoV-2 variants of concern. The method has a lower detection limit and high accuracy, allowing for timely detection of new variants. It presents a clinical availability that traditional sequencing methods do not have.
BIOSENSORS & BIOELECTRONICS
(2022)
Article
Biophysics
Jong-Hwan Lee et al.
Summary: The study developed an ACE2-based biosensor that can detect S1 mutations and neutralizing antibodies of SARS-CoV-2. The biosensor can detect various variants and the wild-type SARS-CoV-2, distinguishing them based on color differences. This approach will facilitate the development of various biosensors against SARS-CoV-2.
BIOSENSORS & BIOELECTRONICS
(2022)
Article
Biochemical Research Methods
Les Jones et al.
Summary: The study aimed to develop a rapid and sensitive nucleic acid amplification assay for the detection of the novel coronavirus and its variants. The researchers successfully designed a fluorescence-quenched reverse transcription loop-mediated isothermal amplification method, which can detect the virus in clinical samples within a short time and has high sensitivity and specificity.
Article
Engineering, Chemical
Zhen Luo et al.
Summary: In this study, an optimized LAMP assay was designed based on the N gene of SARS-CoV-2, which showed high efficiency, robustness, and visual detection capability. The assay was applicable for the detection of emerging SARS-CoV-2 variants.
CHEMICAL ENGINEERING SCIENCE
(2022)
Article
Medical Laboratory Technology
Mirai Matsubara et al.
Summary: Genomic surveillance of the SARS-CoV-2 virus is crucial for assessing its transmissibility, disease severity, and vaccine effectiveness. This study analyzed the mutational dynamics of the SARS-CoV-2 genome by performing Sanger sequencing of the entire S-gene. The findings suggest that analyzing the entire S-gene may be useful for molecular surveillance of SARS-CoV-2 in clinical laboratories.
CLINICA CHIMICA ACTA
(2022)
Article
Medical Laboratory Technology
Andrew E. Clark et al.
Summary: Multiplex fragment analysis method (CoVarScan) was validated for detection of SARS-CoV-2 variants. It exhibited high sensitivity and specificity compared to whole genome sequencing. The method provides rapid genotyping results.
CLINICAL CHEMISTRY
(2022)
Article
Infectious Diseases
Daniel Castaneda-Mogollon et al.
Summary: The SARS-CoV-2 coronavirus pandemic has posed an unprecedented challenge to global pandemic response and preparedness. Genomic surveillance and diagnosis tools are essential in reducing viral transmission and prevalence.
DIAGNOSTIC MICROBIOLOGY AND INFECTIOUS DISEASE
(2022)
Article
Infectious Diseases
Ylenia D'Agostino et al.
Summary: The SARS-CoV-2 virus is continuously evolving, with the appearance of new variants characterized by multiple genomic mutations. This study proposes a PCR-based assay panel for the identification of SARS-CoV-2 genotypes, which is rapid, sensitive, and low-cost. The assay can detect variations in multiple viral genome positions and is effective even in diluted and poor-quality samples.
DIAGNOSTIC MICROBIOLOGY AND INFECTIOUS DISEASE
(2022)
Article
Microbiology
Kyle G. Rodino et al.
Summary: Mutations in the genome of SARS-CoV-2 can impact the performance of molecular diagnostic assays. This study introduces a new mutation indicator, pOGTF, which can be used to track the emerging variant BA.2.12.1 faster than whole-genome sequencing, benefiting laboratories without sequencing capabilities.
JOURNAL OF CLINICAL MICROBIOLOGY
(2022)
Article
Virology
Kathleen Subramoney et al.
Summary: This study evaluated the ability to detect Omicron BA.1 using genotyping assays in the Gauteng province of South Africa. The results showed that genotyping assays for the detection of del69/70 and K417N mutations coupled with spike gene target failure (SGTF) can efficiently exclude Alpha and Beta variants and rapidly detect Omicron BA.1. However, there is still a need for assays to detect unique mutations for differentiation between other Omicron sublineages.
JOURNAL OF MEDICAL VIROLOGY
(2022)
Article
Biochemical Research Methods
Mandy Bloemen et al.
Summary: This article describes an easy, cheap and fast method for detecting mutations in the spike protein of SARS-CoV-2, particularly the Omicron variant.
JOURNAL OF VIROLOGICAL METHODS
(2022)
Article
Biochemical Research Methods
Kanti Pabbaraju et al.
Summary: This study developed five real-time reverse transcriptase PCR (rRT-PCR) assays for the detection of SARS-CoV-2 variants of concern. These assays target specific mutations in the spike protein to accurately identify different variants with high sensitivity and specificity. The assays play an important role in virus surveillance and genomic sequencing.
JOURNAL OF VIROLOGICAL METHODS
(2022)
Article
Environmental Sciences
Shelley W. Peterson et al.
Summary: SARS-CoV-2 variants of concern have been detected in clinical surveillance in Canada and internationally, and this study presents a national wastewater survey of these variants. The results show low percentages of variants in most tested sites, but a significant increase in Toronto. The study highlights the utility of wastewater monitoring for informing public health responses and providing early warning to communities.
SCIENCE OF THE TOTAL ENVIRONMENT
(2022)
Article
Infectious Diseases
Wai Ning Tiffany Tsui et al.
Summary: A new molecular assay was developed to detect and differentiate the Delta and Omicron variants, with a coverage rate of over 99%. The assay was designed based on the Delta 31-33 amino acid deletion in the N-gene for the detection of the Omicron variant. Standard curves generated with human clinical samples showed high amplification efficiencies and accuracy of the assay.
TRANSBOUNDARY AND EMERGING DISEASES
(2022)
Article
Engineering, Environmental
Xiaoqing Xu et al.
Summary: To effectively control the ongoing outbreaks of fast-spreading SARS-CoV-2 variants, it is urgent to add rapid variant detection and discrimination methods to the existing sewage surveillance systems worldwide. Researchers designed eight assays based on allele-specific RT-qPCR for real-time allelic discrimination of eight SARS-CoV-2 variants in sewage. The assays demonstrated high specificity and sensitivity, and successfully identified and quantified target variants even in sewage samples containing mixtures of SARS-CoV-2 variants. Integration of this method into routine sewage surveillance in Hong Kong showed promising results in detecting the Beta and Delta variants, and also provided real-time discrimination of the emerging Omicron variant.
Article
Virology
Zachary A. Weishampel et al.
Summary: This study investigated the sensitivity of the OraSure InteliSwab COVID-19 Rapid Test for various variants of SARS-CoV-2. Using different cultured strains and recombinant nucleocapsid protein, the limit of detection for each variant was determined. The results showed that the OraSure InteliSwab test demonstrated comparable performance in detecting different variants and did not show decreased sensitivity for any of the variants, including Omicron.
Article
Biochemical Research Methods
Yuanhao Liang et al.
Summary: The CRISPR-Cas12a-based genotyping assay is highly sensitive and specific in detecting both the SARS-CoV-2 wild-type strain and major VOCs. It is a simple and rapid assay that can monitor and track the circulating SARS-CoV-2 variants and the dynamics of the coronavirus disease 2019 (COVID-19) pandemic and can be easily implemented in resource-limited settings.
ACS SYNTHETIC BIOLOGY
(2022)
Article
Immunology
Jianing Yang et al.
Summary: A genotyping RT-LAMP method was designed and validated to specifically detect the Delta variant. By analyzing the amplification efficiency of two sets of primers, a Cq ratio-based RT-LAMP method was developed, which showed 100% accuracy in detecting SARS-CoV-2 clinical samples. The method demonstrated a good ability to distinguish between Delta and non-Delta variants. The study suggests that this rapid, accurate, and cost-effective RT-LAMP method may facilitate COVID-19 surveillance.
EMERGING MICROBES & INFECTIONS
(2022)
Article
Medicine, General & Internal
Long T. Nguyen et al.
Summary: This study describes a one-pot detection reaction using a thermostable Cas12b effector endonuclease from Brevibacillus sp. that can efficiently detect and discriminate SARS-CoV-2 VOCs, validated in clinical samples. The technology offers a fast, sensitive, and cost-effective approach for COVID-19 diagnostics, enabling real-time monitoring and point-of-care testing.
Article
Biotechnology & Applied Microbiology
Mengwei Niu et al.
Summary: This study establishes a highly sensitive and portable on-site detection method for identifying the HV69-70del mutation in SARS-CoV-2 variants. The PCR-based CRISPR/Cas13a detection system (PCR-CRISPR) is used to screen for specific CRISPR RNA (crRNA) targeting the HV69-70del mutation. The method shows high sensitivity and specificity, being able to detect low amounts of mutant RNA in mixed samples, and it is more sensitive than commercial SARS-CoV-2 variant detection kits and sanger sequencing.
FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY
(2022)
Article
Medicine, General & Internal
Cinzia Peronace et al.
Summary: Diagnostic laboratory tools are crucial for ensuring safety and tracking emerging COVID-19 variants. Rapid antigen tests (RATs) offer a valuable screening method, especially for asymptomatic individuals. The GeneFinder COVID-19 Ag Plus Rapid Test shows good performance in early diagnosis, including the detection of variants of concern.
Article
Medicine, General & Internal
Dounia Cherkaoui et al.
Summary: The COVID-19 pandemic has highlighted the need for expanding diagnostic capabilities to accommodate high-volume testing during peak demand. A rapid nucleic acid testing method based on isothermal amplification has been validated as an alternative to real-time reverse transcription polymerase chain reaction (RT-PCR), helping to address the current testing gap. This clinical validation study demonstrates the effectiveness of a one-pot multi-gene reverse transcription recombinase polymerase amplification (RT-RPA) assay in detecting SARS-CoV-2 variants, while also achieving high sensitivity and specificity with clinical samples. The assay showed no cross-reactivity with other respiratory pathogens and successfully detected all tested SARS-CoV-2 lineages, including variants of concern.
Article
Medicine, General & Internal
Alessandro Medoro et al.
Summary: This study evaluated the diagnostic sensitivity and specificity of the AMAZING COVID-19 Antigen Sealing Tube Test Strip (Colloidal Gold). The results showed that this test strip has high positive and negative percent values and overall diagnostic accuracy, and can reliably detect Omicron and Delta/Kappa variants.
Article
Biophysics
Taehwi Yoon et al.
Summary: This study presents a novel method called STAR for the rapid and convenient detection of viral RNA. By utilizing a split T7 promoter and a light-up RNA aptamer, STAR achieves high sensitivity and specificity in detecting viral RNA. Experimental results demonstrate the broad applicability of this assay for the detection of SARS-CoV-2 variants and bacterial 16S rRNA.
BIOSENSORS & BIOELECTRONICS
(2022)
Article
Chemistry, Multidisciplinary
Kefan Yang et al.
Summary: The SARS-CoV-2 virus has developed new strains that are more transmissible and less susceptible to vaccines. To address the rapid spread of these harmful strains worldwide, researchers have designed a novel genotyping assay called REVEALR, which accurately detects major SARS-CoV-2 strains in the United States. In experimental tests, REVEALR demonstrated 100% accuracy in identifying the correct variant in patient samples.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2022)
Article
Environmental Sciences
Esther G. Lou et al.
Summary: Targeted amplicon sequencing and RT-ddPCR were compared for detecting SARS-CoV-2 variants in wastewater samples. The study found that sequencing had limited sensitivity and missed some mutation detections. Therefore, relying solely on sequencing results for quantitative measurements of variants in wastewater samples is not recommended.
SCIENCE OF THE TOTAL ENVIRONMENT
(2022)
Review
Chemistry, Analytical
Olena Filchakova et al.
Summary: More than six billion tests for COVID-19 have been conducted worldwide. This article emphasizes the importance of testing for the SARS-CoV-2 virus and corresponding human antibodies, not only for medical diagnosis and treatment, but also for economic and social activities. The review discusses the parameters of these tests and compares different detection methods. While RT-PCR remains the gold standard, there is a need for alternative methods that are less expensive and more accessible.
Article
Engineering, Environmental
Wei Lin Lee et al.
Summary: This article introduces a wastewater monitoring method for tracking the dynamics of SARS-CoV-2 variants in communities. The authors developed an RT-qPCR assay that can quantitatively detect the presence of the Omicron variant in wastewater and validated it through experiments. They found that the Omicron variant rapidly displaced the Delta variant within a short period of time, which is consistent with previous clinical studies and vaccination rates.
Article
Polymer Science
Williams Chiari et al.
Summary: This report presents the trend of polymer research related to the COVID-19 pandemic through bibliometric analysis, focusing on personal protective equipment (PPE) and waste management. The field is primarily concentrated in the United States and China, with the Ministry of Education of China and the National Science Foundation of China being the most active institution and prominent funding source, respectively.
Article
Microbiology
Hongqing Lin et al.
Summary: In this study, a simple and rapid method for detecting and tracking SARS-CoV-2 variants was developed. The method involves isothermal recombinase-aided amplification (RAA) and CRISPR-Cas12a technology, allowing for accurate identification of variant infections in a short amount of time with high sensitivity and specificity. The method can also easily distinguish subtypes of the Omicron variant and does not cross-react with other respiratory pathogens. This simple assay is suitable for rapid detection and ongoing monitoring of SARS-CoV-2 variant spread.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Virology
Margaret G. Mills et al.
Summary: This study developed an assay that can rapidly and accurately detect variants, including the Omicron subvariant, in clinical specimens for case tracking and appropriate clinical treatment selection. The assay demonstrated high sensitivity and specificity, and remained accurate and robust under different sample conditions.
JOURNAL OF CLINICAL VIROLOGY
(2022)
Article
Chemistry, Analytical
Jadera Talap et al.
Summary: This article presents a simple and accurate testing tool for SARS-CoV-2 viral RNA detection, highlighting its importance in preventing the spread of the virus and enabling timely government actions. The method utilizes reverse transcription loop-mediated isothermal amplification (RT-LAMP) assay to simultaneously detect ORF1ab and N gene fragments of the virus, demonstrating high sensitivity and specificity for mutation differentiation. It is a resource-friendly option for clinical settings.
Article
Microbiology
Ting Yan et al.
Summary: Rapid identification and continuous surveillance of SARS-CoV-2 variants are crucial for COVID-19 control, management, and prevention. In this study, two rapid molecular assays based on the real-time PCR platform were developed to identify important variants of concern, including the Omicron variant with a large number of mutations. These assays could be performed within 2.5 hours in a standard microbiology laboratory, providing a high-throughput choice for dynamic monitoring of SARS-CoV-2 VOCs.
MICROBIOLOGY SPECTRUM
(2022)
Article
Infectious Diseases
Kaoru Murakami et al.
Summary: This study evaluated the performance of ICA and CLEIA in detecting the Omicron variant in saliva. The results showed that CLEIA had high sensitivity and specificity and could effectively detect the Omicron variant. ICA had lower sensitivity, but its sensitivity was higher when the PCR Ct value was low.
JOURNAL OF CLINICAL VIROLOGY PLUS
(2022)
Article
Infectious Diseases
Lihong Liu et al.
Summary: The development of a rapid antigen test using two pairs of monoclonal antibodies has resulted in a high-performing test that remains effective across multiple variants in both laboratory and clinical evaluations. The test is capable of identifying almost all individuals carrying infectious SARS-CoV-2.
JOURNAL OF CLINICAL VIROLOGY PLUS
(2022)
Article
Public, Environmental & Occupational Health
Zhiqing Zhan et al.
Summary: The COVID-19 pandemic has caused a significant disease burden globally, and the Delta variant has become dominant in 53 countries. Recent studies have shown that rapid antigen tests (RAT) yield similar results to reverse transcriptase-polymerase chain reaction (RT-PCR) tests during periods of high viral load. This perspective recommends combining RT-PCR and RAT at points of entry to detect asymptomatic infections early and improve outbreak management.
JOURNAL OF EPIDEMIOLOGY AND GLOBAL HEALTH
(2022)
Article
Biochemical Research Methods
Jongwon Lim et al.
Summary: This study presents a microfluidic assay and device for rapid detection and differentiation of the Alpha variant and early strains of the SARS-CoV-2 virus in saliva samples. The detection assay utilizes isothermal RT-LAMP amplification and takes advantage of the S-gene target failure to distinguish between different variants using a binary detection system. Clinical sample testing confirms the high sensitivity and specificity of the developed point-of-care device.
Article
Biochemical Research Methods
Bo Ning et al.
Summary: This study describes a CRISPR-based assay that can rapidly identify SARS-CoV-2 variants of concern with good sensitivity and specificity. It can be used in laboratory and point-of-care settings, facilitating surveillance and characterization efforts.
CELL REPORTS METHODS
(2022)
Article
Engineering, Environmental
Wei Lin Lee et al.
Summary: The study successfully validated a new method for detecting the Omicron variant using wastewater-based monitoring at a wastewater treatment plant in Italy, revealing a rapid displacement trend of the Omicron variant over the Delta variant in wastewater. These data support clinical studies that found the Omicron variant to have an infection advantage in vaccinated populations.
Article
Chemistry, Analytical
Philippe Bechtold et al.
Summary: This study aimed to develop a rapid diagnostic approach for identifying gene mutations associated with SARS-CoV-2 VOCs, which can be run on various laboratory equipment. The assays showed excellent diagnostic performance and are suitable for resource-limited settings.
ANALYTICAL CHEMISTRY
(2021)
Article
Biophysics
Jong-Hwan Lee et al.
Summary: This study presents a novel rapid detection method for the SARS-CoV-2 S1 antigen using a matched pair of ACE2 and antibody. The detection method showed high specificity and sensitivity without cross-reactivity, making it a valuable tool in detecting the S1 antigen from COVID-19 patients.
BIOSENSORS & BIOELECTRONICS
(2021)
Article
Infectious Diseases
Quentin Le Hingrat et al.
Summary: The evaluation of SARS-CoV-2 nucleocapsid antigen (N-antigen) ELISA detection in serum or plasma using the COVID-19 Quantigene (R) showed high specificity and sensitivity within the first 14 days after symptom onset, offering a valuable new option for COVID-19 diagnosis.
CLINICAL MICROBIOLOGY AND INFECTION
(2021)
Article
Infectious Diseases
Antonin Bal et al.
Summary: The study reported the strategy leading to the first detection of the variant of concern 202012/01 (VOC) in France, by screening for mutations such as Delta H69/Delta V70 associated with VOC and identifying co-occurring mutations like S:N501Y.
Article
Environmental Sciences
Karin Yaniv et al.
Summary: Less than a year after the outbreak of the SARS-CoV-2 virus, variants of concern like Alpha (B.1.1.7, the British variant) and Beta (B.1.351, the South Africa variant) have emerged, prompting the development of improved primers-probe sets for rapid and cost-effective detection of these variants. These new primer-probe sets have been successfully utilized in wastewater samples to detect and quantify new variants before official medical testing reports, enabling better pandemic containment responses.
ENVIRONMENTAL RESEARCH
(2021)
Article
Biotechnology & Applied Microbiology
Erick Gustavo Dorlass et al.
Summary: The rapid detection of genetic variants of SARS-CoV-2 plays a crucial role in impacting virus transmission, disease severity, vaccine response, and patient management. Sanger sequencing has been effective in quickly detecting the introduction and spread of different SARS-CoV-2 variants, aiding in timely response measures.
Article
Biochemistry & Molecular Biology
Qianqian Li et al.
Summary: The 501Y.V2 variants of SARS-CoV-2 with multiple mutations are rapidly spreading from South Africa to other countries, showing reduced susceptibility to neutralizing antibodies and potential compromise of monoclonal antibodies and vaccines. Enhanced infectivity in murine ACE2-overexpressing cells suggests the possibility of transmission to mice.
Article
Multidisciplinary Sciences
Jun Yang et al.
Summary: This study demonstrates the critical role of chimeric crRNA in enhancing the specificity of CRISPR-Cas12a for detecting the N501Y mutation, shared by different variants of SARS-CoV-2. This strategy could be applied to detect other SARS-CoV-2 variants with minimal nucleotide differences while maintaining sensitivity.
Letter
Biotechnology & Applied Microbiology
Jacob J. Adashek et al.
NATURE BIOTECHNOLOGY
(2021)
Article
Environmental Sciences
Leo Heijnen et al.
Summary: Wastewater surveillance using RT-ddPCR for specific detection of the N501Y mutation in SARS-CoV-2 variants has proven to be an effective tool in monitoring the trends and spread of COVID-19 variants in the community, supporting public health decision-making for control measures.
SCIENCE OF THE TOTAL ENVIRONMENT
(2021)
Article
Cell Biology
Alon Chappleboim et al.
Summary: This study introduces a novel NGS diagnostic method called ApharSeq, which significantly improves virus detection efficiency and accuracy, while reducing labor costs and reagent requirements.
SCIENCE TRANSLATIONAL MEDICINE
(2021)
Article
Multidisciplinary Sciences
Seiya Ozono et al.
Summary: The naturally occurring mutations of SARS-CoV-2 spike protein can affect cell entry, with the D614G mutation resulting in increased cell entry and maintaining susceptibility to neutralization by antisera against prototypic viruses. Further global surveillance is needed to understand the transmissibility of SARS-CoV-2 among humans.
NATURE COMMUNICATIONS
(2021)
Article
Genetics & Heredity
Dave J. Baker et al.
Summary: CoronaHiT is a flexible sequencing method for SARS-CoV-2 genomes, suitable for rapid expansion of global sequencing efforts. In experiments, CoronaHiT demonstrated good performance on both nanopore and Illumina platforms.
Article
Virology
Xiaoming Huang et al.
Summary: The fast evolution of the SARS-CoV-2 virus has led to the rapid spread of COVID-19 globally, with the D614G mutation being a dominant strain. A dual synthetic mismatches CRISPR/Cas12a method has been developed for high sensitivity and specificity in detecting the SARS-CoV-2 D614G mutation, showing significant potential for sensitive and specific assay in detection.
Article
Engineering, Environmental
Karin Yaniv et al.
Summary: SARS-CoV-2 variants of concern, including Alpha and Delta, have different impacts on infection rates and vaccine effectiveness. The study found that the Alpha variant dominated during the second morbidity peak, while the Delta variant emerged during the third peak. It also showed that vaccines had higher neutralization efficiency towards the Alpha variant compared to the Delta variant, and that a third vaccine dose improved neutralization against the Delta variant.
Article
Virology
Sin Hang Lee
Summary: The article introduces a protocol for sequencing ACE2 RBD and S gene NTD to accurately determine variants of SARS-CoV-2.
Article
Virology
Richard Hale et al.
Summary: The emergence of SARS-CoV-2 variants has posed challenges to testing infrastructure, emphasizing the need for rapid and cost-effective alternatives. The PCR-SNP approach allows for rapid identification of SARS-CoV-2 lineages in a short period of time.
Article
Biophysics
Dounia Cherkaoui et al.
Summary: The study introduces a rapid, simple, highly sensitive, and multiplexed molecular detection method which simultaneously targets two conserved genes, offering potential advantages and application prospects. The technology demonstrates high specificity for detecting various coronaviruses and shows promise for point-of-care testing.
BIOSENSORS & BIOELECTRONICS
(2021)
Article
Microbiology
Laura A. E. Van Poelvoorde et al.
Summary: The ongoing COVID-19 pandemic, caused by SARS-CoV-2, highlights the importance of continuous monitoring of the virus to inform decision-making on public health measures. Emerging variants have increased the need for genomic surveillance to detect specific strains. Current surveillance methods mainly focus on the consensus genome sequence, potentially overlooking the presence of co-infections or quasispecies in diagnostic samples.
FRONTIERS IN MICROBIOLOGY
(2021)
Article
Microbiology
Pedro A. Alves et al.
Summary: The study validated a pH-dependent colorimetric reverse transcription loop-mediated isothermal amplification (RT-LAMP) method for SARS-CoV-2 detection, showing good sensitivity and specificity, suitable for large-scale COVID-19 testing.
FRONTIERS IN MICROBIOLOGY
(2021)
Article
Infectious Diseases
Sabrina Jungnick et al.
News Item
Medicine, General & Internal
Rita Rubin
Summary: Efficiency of COVID-19 vaccines against SARS-CoV-2 variants is still being studied.
JAMA-JOURNAL OF THE AMERICAN MEDICAL ASSOCIATION
(2021)
Article
Microbiology
Fei Zhao et al.
Summary: A novel detection strategy using mPCR-MS minisequencing was developed for identifying SARS-CoV-2 variants, demonstrating high specificity and accuracy. This method allows for simultaneous detection of multiple mutation types and can be easily expanded to track new variants. The study highlights the importance of this method for monitoring and managing SARS-CoV-2 infections and emerging variants.
MICROBIOLOGY SPECTRUM
(2021)
Article
Microbiology
Yuanhao Liang et al.
Summary: This study developed a CRISPR-Cas12-based system for the direct detection of SARS-CoV-2 variants, achieved high sensitivity, and successfully distinguished specific mutations in different variants. The approach has the potential for rapid development and implementation in resource-limited settings.
MICROBIOLOGY SPECTRUM
(2021)
Article
Medicine, General & Internal
Joseph C. Lownik et al.
Summary: The emergence of SARS-CoV-2 variants has highlighted the global demand for rapid, affordable, and accurate testing methods. The use of snapback primer-based high-resolution melting technology can effectively track over 20 high-risk SARS-CoV-2 spike mutations, at a low cost and within a short testing period.
Article
Medicine, General & Internal
Rama Devudu Puligedda et al.
Summary: Efforts to control SARS-CoV-2 have been hindered by the emergence of variant strains, which require the development of diagnostic methods to rapidly identify these variants. Specific monoclonal antibodies can distinguish different variants, aiding in rapid diagnosis and appropriate measures.
Article
Medicine, General & Internal
Marina Di Domenico et al.
Summary: The global pandemic of COVID-19 has created an unprecedented public health emergency, highlighting the importance of early identification of infected individuals and disruption of transmission pathways. This study aims to provide a rapid and sensitive method for diagnosing SARS-CoV-2 infection, with the goal of reducing the spread of the virus.
Article
Medicine, General & Internal
Rou-Jian Lu et al.
Summary: Researchers developed four rRT-PCR assays to effectively screen for variants of the SARS-CoV-2 virus, showing good performance in efficiently screening multiple virus strains.
CHINESE MEDICAL JOURNAL
(2021)
Article
Microbiology
Padmapriya Banada et al.
Summary: A simple, rapid RT-PCR melting-temperature screening assay was developed to identify major SARS-CoV-2 variants of concern (VOCs) with high sensitivity and specificity. The assay can be used to quickly screen large numbers of patient samples, providing early warnings for the emergence of these variants and offering a simple way to track their spread.
JOURNAL OF CLINICAL MICROBIOLOGY
(2021)
Article
Virology
David S. Y. Ong et al.
Summary: The study implemented a reverse transcriptase polymerase chain reaction (RT-PCR) multiple variants assay to monitor SARS-CoV-2 variants, revealing an increase in the proportion of the UK variant becoming dominant, along with the emergence of South-African and Brazilian variants. The rapid screening method allowed for prompt public health responses, facilitating early detection and reduction of unnoticed spread of variants.
JOURNAL OF CLINICAL VIROLOGY
(2021)
Article
Immunology
Moria Barlev-Gross et al.
Summary: The study confirmed that an antigen detection assay combining 4 monoclonal antibodies can sensitively detect the new SARS-CoV-2 variants from the UK and South Africa, despite multiple mutations in the S1 region of these variants. This method can simultaneously provide specificity and universality.
JOURNAL OF INFECTIOUS DISEASES
(2021)
Article
Immunology
Andreas Osterman et al.
Summary: A study evaluated the performance of five commercial antigen tests for SARS-CoV-2, finding that automated quantitative tests had specificities ranging from 97.0% to 99.7% but low clinical sensitivities. The study emphasized the need for careful evaluation of any alternative testing strategies before widespread implementation to complement nucleic acid-based assays.
MEDICAL MICROBIOLOGY AND IMMUNOLOGY
(2021)
Article
Biology
Manoj Kumar et al.
Summary: The COVID-19 pandemic has led to increased mortality rates among elderly and patients with comorbid conditions. A lateral flow assay using FnCas9 was developed for simultaneous detection of SARS-CoV-2 infection and identification of point mutations in the virus sequence with high sensitivity and specificity, showing potential for rapid CRISPR diagnostics.
Article
Multidisciplinary Sciences
Helena de Puig et al.
Summary: The miSHERLOCK is a low-cost CRISPR-based POC diagnostic platform that can rapidly detect SARS-CoV-2 and its variants with high sensitivity in just 1 hour. This modular system can be quickly adapted to different viruses and variants, and is complemented by a smartphone application for output interpretation and result reporting.
Article
Microbiology
Sabrina Jungnick et al.
Summary: Rapid antigen tests (RATs) are an essential part of SARS-CoV-2 containment strategies and their performance in detecting emerging variants of concern (VOCs) was tested in this study. The RATs showed comparable performance with different strains and did not exhibit cross-reactivity with seasonal human coronaviruses, highlighting the need for ongoing evaluation of their performance in the context of evolving mutations.
Article
Immunology
Nancy Matic et al.
Summary: In Vancouver, British Columbia, Canada, a real-time reverse transcription PCR-based algorithm was used to screen all severe acute respiratory syndrome coronavirus 2-positive samples and identify variants of concern. A total of 77 samples with variants were rapidly identified, with majority being B.1.1.7 and 8.1.351 variants.
EMERGING INFECTIOUS DISEASES
(2021)
Article
Immunology
Zsofia Igloi et al.
Summary: The Roche SD Biosensor rapid antigen test for SARS-CoV-2 demonstrated high sensitivity and specificity for detecting symptomatic individuals in the early phase of the disease, particularly those seeking care within 7 days of symptom onset. These rapid antigen tests could play a crucial role in identifying the most infectious persons and stopping the spread of SARS-CoV-2.
EMERGING INFECTIOUS DISEASES
(2021)
Article
Infectious Diseases
Victor M. Corman et al.
Review
Virology
Yu Chen et al.
JOURNAL OF MEDICAL VIROLOGY
(2020)
Article
Biochemistry & Molecular Biology
Qihui Wang et al.
Article
Multidisciplinary Sciences
Rowena A. Bull et al.
NATURE COMMUNICATIONS
(2020)
Review
Microbiology
Boris G. Andryukov
Review
Biotechnology & Applied Microbiology
Y. -P. Wong et al.
JOURNAL OF APPLIED MICROBIOLOGY
(2018)
Editorial Material
Multidisciplinary Sciences
Daniel S. Chertow
Article
Biochemical Research Methods
Deniz Pekin et al.
