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Article
Multidisciplinary Sciences
Delphine Planas et al.
Summary: The Omicron variant of SARS-CoV-2, identified in November 2021, has spread rapidly worldwide and shows resistance to most therapeutic monoclonal antibodies and vaccine-elicited antibodies. However, it can be neutralized by antibodies generated by a booster vaccine dose.
Article
Multidisciplinary Sciences
Elisabetta Cameroni et al.
Summary: The Omicron variant of SARS-CoV-2 has raised concerns due to its 37 amino acid substitutions in the spike protein, particularly in the receptor-binding domain (RBD), leading to increased binding affinity with human ACE2. Neutralizing activity against Omicron was greatly reduced in convalescent and vaccinated individuals compared to the ancestral virus, but this decrease was less significant after a third vaccine dose. Broadly neutralizing monoclonal antibodies recognizing conserved RBD epitopes may be crucial in combating the Omicron variant and future zoonotic transmissions.
Article
Multidisciplinary Sciences
Yunlong Cao et al.
Summary: The Omicron variant of SARS-CoV-2 contains 15 mutations in the receptor-binding domain, leading to evasion of over 85% of tested neutralizing antibodies. Different epitope groups of neutralizing antibodies are affected to varying degrees by single mutations of Omicron. Antibodies targeting the conserved region of sarbecovirus remain most effective against Omicron.
Article
Multidisciplinary Sciences
Lihong Liu et al.
Summary: The B.1.1.529/Omicron variant of SARS-CoV-2, initially detected in southern Africa, has rapidly spread globally and is expected to become dominant due to its enhanced transmissibility in the coming weeks. This variant poses a threat to the efficacy of current COVID-19 vaccines and antibody therapies due to its significant antibody resistance. Even individuals who have received vaccines and booster doses may have reduced neutralizing activity against B.1.1.529.
Letter
Medicine, General & Internal
Fabian Schmidt et al.
Summary: Neutralization assays showed much lower omicron neutralization compared to Wuhan-hu-1 after two doses of mRNA vaccine, but individuals who received a booster vaccine or were vaccinated after recovering from Covid-19 exhibited high levels of omicron neutralization.
NEW ENGLAND JOURNAL OF MEDICINE
(2022)
Article
Biochemical Research Methods
Ziyaad Valley-Omar et al.
Summary: Routine surveillance in the Western Cape region of South Africa found reduced RT-PCR amplification efficiency of the RdRp-gene target of the Seegene, Allplex 2019-nCoV diagnostic assay when detecting the Delta variant. Increased RT-PCR cycle threshold values (R Delta E) could serve as an indirect measure of SARS-CoV-2 Delta variant prevalence. Whole genome sequencing identified a mutation exclusively within the RdRp gene of Delta variants, which may cause reduced RT-PCR amplification efficiency. Monitoring R Delta E value can be a useful surrogate for rapid tracking of Delta variant prevalence.
JOURNAL OF VIROLOGICAL METHODS
(2022)
Article
Multidisciplinary Sciences
Matthew McCallum et al.
Summary: The SARS-CoV-2 Omicron variant evades antibody-mediated immunity and exhibits enhanced affinity for host cells due to accumulation of spike mutations and remodeling of interactions with the ACE2 receptor.
Article
Microbiology
Anupriya Aggarwal et al.
Summary: A platform for rapid isolation of SARS-CoV-2 variants has been developed, which also facilitates the characterization of variant immune evasion and viral fitness. The platform enabled rapid detection of the Omicron variant in the first cases in Australia. The platform allows for viral variant isolation, rapid assessment of variant fitness using nasopharyngeal swabs, and evaluation of evasion of neutralizing antibodies.
NATURE MICROBIOLOGY
(2022)
Article
Infectious Diseases
Janet Robishaw et al.
Summary: While vaccines offer hope for recovery from the COVID-19 pandemic, genomic surveillance is crucial in detecting and responding to virus variants in a timely manner to mitigate and contain outbreaks effectively.
Article
Multidisciplinary Sciences
Pengfei Wang et al.
Summary: The COVID-19 pandemic has had global repercussions, with promising vaccines and monoclonal antibody therapies. However, newly detected variants of SARS-CoV-2 present challenges to these treatment options.
Article
Multidisciplinary Sciences
Nicholas G. Davies et al.
Summary: A new variant of SARS-CoV-2 has emerged in England, with a higher reproduction number and potential for large resurgences of COVID-19 cases. Without stringent control measures, it is projected that COVID-19 hospitalizations and deaths in England for the first 6 months of 2021 will exceed those in 2020. The variant has spread globally and exhibited similar transmission increases in Denmark, Switzerland, and the United States.
Letter
Medicine, General & Internal
Kevin A. Brown et al.
JAMA-JOURNAL OF THE AMERICAN MEDICAL ASSOCIATION
(2021)
Article
Microbiology
Oran Erster et al.
Summary: This study describes the design and utilization of a multiplex reverse transcriptase quantitative PCR (RT-qPCR) to specifically identify the B.1.1.7 and B.1.351 SC-2 variants with high specificity and sensitivity. The method has been implemented in clinical diagnostic work and may aid in the diagnosis of globally circulating SC-2 variants.
MICROBIOLOGY SPECTRUM
(2021)
Article
Multidisciplinary Sciences
Erik Volz et al.
Summary: Genetic and testing data from England indicate that the SARS-CoV-2 variant B.1.1.7 has a transmission advantage over other lineages, showing a rapid expansion during autumn 2020. Analysis of S gene target failures (SGTF) in community-based diagnostic PCR testing suggests that B.1.1.7 is more transmissible than non-variant of concern lineages and has a significant transmission advantage, with a reproduction number 50% to 100% higher. Additionally, cases of B.1.1.7 appear to include a larger share of under 20-year-olds compared to non-variant cases.
Article
Biochemical Research Methods
Andreas Untergasser et al.
Summary: The analysis of amplification and melting curves in qPCR experiments provides valuable information on reaction quality and leads to reliable results. The LinRegPCR web application allows visualization and analysis of individual qPCR runs, highlighting deviant reactions for further calculation of gene-expression ratios and fold-change between conditions.
BMC BIOINFORMATICS
(2021)
Article
Multidisciplinary Sciences
A. Ceci et al.
Summary: The text discusses the importance of widespread testing for SARS-CoV-2 in the COVID-19 pandemic, and introduces a university laboratory-based detection assay that can be deployed in areas with limited testing resources. The assay shows comparable sensitivity and higher specificity compared to other tests, and can be adapted for different clinical specimens.
NATURE COMMUNICATIONS
(2021)
Review
Microbiology
Edyta Janik et al.
Summary: Since the discovery of the SARS-CoV-2 responsible for COVID-19 in December 2019, the virus has continually mutated, with three variants of concern and four variants of interest being distinguished in recent months and requiring close monitoring.
Article
Microbiology
Chantal B. F. Vogels et al.
NATURE MICROBIOLOGY
(2020)
Review
Biotechnology & Applied Microbiology
Daniel R. Noguera et al.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2014)
Article
Microbiology
Erik S. Wright et al.
ENVIRONMENTAL MICROBIOLOGY
(2014)
Article
Medical Laboratory Technology
Steve Lefever et al.
CLINICAL CHEMISTRY
(2013)
Article
Virology
DA Whiley et al.
JOURNAL OF CLINICAL VIROLOGY
(2005)
Article
Biochemistry & Molecular Biology
MW Pfaffl
NUCLEIC ACIDS RESEARCH
(2001)
