Advanced Molecular Detection Clips Content (Published on 02/10/2022)
NEWS
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New Pathogen Detection Assay Pairs Molecular Inversion Probes, Next-Generation Sequencing
Zhang H. GenomeWeb, Feb 7, 2022. -
Omicron's molecular structure could help explain its global takeover
Kwon D. Nature, Feb 3, 2022. -
UK Researchers Develop Low-Cost Molecular COVID-19 Testing in a Backpack
Zhang H. GenomeWeb, Feb 3, 2022. -
CDC Launches Public COVID-19 Wastewater Surveillance Dashboard
Johnson M. GenomeWeb, Feb 4, 2022. -
Meet the scientist at the center of the covid lab leak controversy
Qiu J. MIT Tech Rev, Feb 9, 2022. -
New York Deer Infected With Omicron, Study Finds
Anthes E, Imbler S. New York Times, Feb 8, 2022. -
How sneezing hamsters sparked a COVID outbreak in Hong Kong
Mallapaty S. Nature, Feb 4, 2022. -
Highly virulent HIV variant found circulating in Europe
Guglielmi G. Nature, Feb 3, 2022. -
EBV linked to multiple sclerosis
Du Toit A. Nat Rev Microbiol, Feb 2, 2022.
EVENTS / TRAINING / WEB RESOURCES
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"Epidemiology and genomics go hand-in-hand": How genomics is helping us to understand transmission of COVID-19 in universities.
(blog post) COG-UK, Feb 8, 2022.
CONCEPTS / COMMENTS
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The costs and benefits of primary prevention of zoonotic pandemics.
Bernstein Aaron S et al. Science advances 2022 2 (5) eabl4183 -
There are no equal opportunity infectors: Epidemiological modelers must rethink our approach to inequality in infection risk.
Zelner Jon et al. PLoS computational biology 2022 2 (2) e1009795 -
Collaboration between clinical and academic laboratories for sequencing SARS-CoV-2 genomes.
Wang Jeremy et al. Journal of clinical microbiology 2022 1 JCM0128821
METHODS / TOOLS
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Multi-laboratory evaluation of the Illumina iSeq platform for whole genome sequencing of Salmonella, Escherichia coli and Listeria.
Mitchell Patrick K et al. Microbial genomics 2022 2 (2)
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VirStrain: a strain identification tool for RNA viruses.
Liao Herui et al. Genome biology 2022 2 (1) 38 -
Rapid, High-Throughput, Cost Effective Whole Genome Sequencing of SARS-CoV-2 Using a Condensed One Hour Library Preparation of the Illumina DNA Prep Kit
Hickman R, et al. medRxiv, Feb 8, 2022.
EVOLUTION / ECOLOGY / POPULATIONS
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An invasive Haemophilus influenzae serotype b infection in an Anglo-Saxon plague victim.
Guellil Meriam et al. Genome biology 2022 2 (1) 22 -
Spatiotemporal Analyses of 2 Co-Circulating SARS-CoV-2 Variants, New York State, USA.
Russell Alexis et al. Emerging infectious diseases 2022 2 (3) -
SARS-CoV-2 prolonged infection during advanced HIV disease evolves extensive immune escape.
Cele Sandile et al. Cell host & microbe 2022 2 -
Multiple expansions of globally uncommon SARS-CoV-2 lineages in Nigeria.
Ozer Egon A et al. Nature communications 2022 2 (1) 688 -
Molecular epidemiology of AY.28 and AY.104 delta sub-lineages in Sri Lanka
Ranasinghe D, et al. medRxiv, Feb 7, 2022. -
Population genomics and geographic dispersal in Chagas disease vectors: Landscape drivers and evidence of possible adaptation to the domestic setting.
Hernandez-Castro Luis E et al. PLoS genetics 2022 2 (2) e1010019 -
Detection and population genetic analysis of kdr L1014F variant in eastern Ethiopian Anopheles stephensi.
Samake Jeanne N et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2022 2 105235
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
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Beyond to the Stable: Role of the Insertion Sequences as Epidemiological Descriptors in Corynebacterium striatum.
Leyton-Carcaman Benjamín et al. Frontiers in microbiology 2022 2 806576 -
Characterization of Genetic Elements Carrying mcr-1 Gene in Escherichia coli from the Community and Hospital Settings in Vietnam.
Vu Thi Ngoc Bich et al. Microbiology spectrum 2022 2 e0135621 -
Signals of significantly increased vaccine breakthrough, decreased hospitalization rates, and less severe disease in patients with COVID-19 caused by the Omicron variant of SARS-CoV-2 in Houston, Texas.
Christensen Paul A et al. The American journal of pathology 2022 2 -
Clinical Severity and mRNA Vaccine Effectiveness for Omicron, Delta, and Alpha SARS-CoV-2 Variants in the United States: A Prospective Observational Study
Lauring AS, et al. medRxiv, Feb 7, 2022.
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Impact of SARS-CoV-2 variants on inpatient clinical outcome.
Robinson Matthew L et al. medRxiv : the preprint server for health sciences 2022 2 -
A highly virulent variant of HIV-1 circulating in the Netherlands.
Wymant Chris et al. Science (New York, N.Y.) 2022 2 (6580) 540-545
DETECTION / DIAGNOSIS
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Comparison of Illumina and Oxford Nanopore Sequencing Technologies for Pathogen Detection from Clinical Matrices Using Molecular Inversion Probes.
Stefan Christopher P et al. The Journal of molecular diagnostics : JMD 2022 1 -
Improved Genomic Identification, Clustering, and Serotyping of Shiga Toxin-Producing Escherichia coli Using Cluster/Serotype-Specific Gene Markers.
Zhang Xiaomei et al. Frontiers in cellular and infection microbiology 2022 1 772574 -
Evaluation of a simple, rapid and field-adapted diagnostic assay for enterotoxigenic E. coli and Shigella.
Connor Sean et al. PLoS neglected tropical diseases 2022 2 (2) e0010192 -
Genomic Surveillance for SARS-CoV-2 Variants: Predominance of the Delta (B.1.617.2) and Omicron (B.1.1.529) Variants-- United States, June 2021-January 2022
Lambrou AS, et al. MMWR, Feb 11, 2022.
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Wastewater surveillance for SARS-CoV-2 in a small coastal community: Effects of tourism on viral presence and variant identification among low prevalence populations
Rainey AL, et al. Env Res, Feb 7, 2022. -
Evaluation of a Rapid and Accessible RT-qPCR Approach for SARS-CoV-2 Variant of Concern Identification
Yeung PSW, et al. medRxiv, Feb 8, 2022. -
Predicting daily COVID-19 case rates from SARS-CoV-2 RNA concentrations across a diversity of wastewater catchments.
Alessandro Zulli et al. FEMS Microbes 2022 2 xtab022 -
End-to-end system for rapid and sensitive early-detection of SARS-CoV-2 for resource-poor and field-test environments using a $51 lab-in-a-backpack.
Lin E Emily et al. PloS one 2022 1 (1) e0259886 -
Multiplexed CRISPR-based microfluidic platform for clinical testing of respiratory viruses and identification of SARS-CoV-2 variants.
Nicole L Welch et al. Nat Med 2022 2 (5) 1083-1094 -
Wastewater Surveillance of U.S. Coast Guard Installations and Seagoing Military Vessels to Mitigate the Risk of COVID-19 Outbreaks
Hall GJ, et al. medRxiv, Feb 6, 2022.
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Rapid, high throughput, automated detection of SARS-CoV-2 neutralizing antibodies against native-like vaccine and delta variant spike trimers
Cheedarla N, et al. medRxiv, Feb 2, 2022. -
Amplification Artifact in SARS-CoV-2 Omicron Sequences Carrying P681R Mutation, New York, USA
Heguy A, et al. Emerg Infect Dis, Feb 3, 2022.
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SARS-CoV-2 Variant Tracking and Mitigation During In-Person Learning at a Midwestern University in the 2020-2021 School Year.
Avendano Carolina et al. JAMA network open 2022 2 (2) e2146805
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Host genomes for the unique SARS-CoV-2 variant leaked into Antarctic soil metagenomic sequencing data
Csabai V, Solymosi N. Research Square, Feb 7, 2022. -
An overview of using fungal DNA for the diagnosis of invasive mycoses.
White P Lewis et al. Expert review of molecular diagnostics 2022 2
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
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Widespread sharing of pneumococcal strains in a rural African setting: proximate villages are more likely to share similar strains that are carried at multiple timepoints.
Senghore Madikay et al. Microbial genomics 2022 2 (2)
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Multistate Outbreak Investigation of Salmonella Infections Linked to Kratom: A Focus on Traceback, Laboratory, and Regulatory Activities.
Nsubuga Johnson et al. Journal of food protection 2022 2
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Multiple spillovers from humans and onward transmission of SARS-CoV-2 in white-tailed deer.
Kuchipudi Suresh V et al. Proceedings of the National Academy of Sciences of the United States of America 2022 1 (6) -
Cocirculation of two SARS-CoV-2 variant strains within imported pet hamsters in Hong Kong
Kok KH, et al. Emerg Microbes Infect. 2022 Feb 9;1-39. -
Rapid increase in Omicron infections in England during December 2021: REACT-1 study
Elliott P, et al. Science, Feb 8, 2022. -
Genomic epidemiology of SARS-CoV-2 in a UK university identifies dynamics of transmission
Aggarwal D, et al. Nat Commun. 2022 Feb 8;13(1):751. -
Genomic epidemiology of SARS-CoV-2 under an elimination strategy in Hong Kong
Gu H, et al. Nat Commun. 2022 Feb 8;13(1):736. -
Early genomic, epidemiological, and clinical description of the SARS-CoV-2 Omicron variant in Mexico City
Cedro-Tanda A, medRxiv, Feb 7, 2022. -
Post-peak dynamics of a national Omicron SARS-CoV-2 epidemic during January 2022
Elliott P, et al. medRxiv, Feb 6, 2022. -
SARS-CoV-2 Variants Associated with Vaccine Breakthrough in the Delaware Valley through Summer 2021.
Marques Andrew D et al. mBio 2022 2 e0378821 -
SARS-CoV-2 Outbreak on a Spanish Mink Farm: Epidemiological, Molecular, and Pathological Studies.
Badiola Juan José et al. Frontiers in veterinary science 2022 2 805004
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Primary case inference in viral outbreaks through analysis of intra-host variant population.
Gussler J Walker et al. BMC bioinformatics 2022 2 (1) 62
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Outbreak of a Systemic Form of Camelpox in a Dromedary Herd (Camelus dromedarius) in the United Arab Emirates.
Joseph Sunitha et al. Viruses 2021 10 (10)
ANTIMICROBIALS / VACCINES / INTERVENTIONS
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Protection of COVID-19 vaccination and previous infection against Omicron BA.1 and Delta SARS-CoV-2 infections, the Netherlands, 22 November 2021- 19 January 2022
Andeweg SP, et al. medRxiv, Feb 7, 2022.
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Respiratory mucosal delivery of next-generation COVID-19 vaccine provides robust protection against both ancestral and variant strains of SARS-CoV-2
Afkhami S, et al. Cell, Feb 8, 2022. -
An intranasal lentiviral booster broadens immune recognition of SARS-CoV-2 variants and reinforces the waning mRNA vaccine-induced immunity that it targets to lung mucosa
Vesin B, et al. bioRxiv, Jan 31, 2022.
indicates that at least one CDC-affiliated author; indicates that the article addresses aspects of implementation or evaluation in clinical or public health practice. Disclaimer: Articles listed in the Advanced Molecular Detection Clips are selected by Public Health Genomics Branch to provide current awareness of the scientific literature and news. Inclusion in the clips does not necessarily represent the views of the Centers for Disease Control and Prevention nor does it imply endorsement of the article's methods or findings. CDC and DHHS assume no responsibility for the factual accuracy of the items presented. The selection, omission, or content of items does not imply any endorsement or other position taken by CDC or DHHS. Opinion, findings and conclusions expressed by the original authors of items included in the Clips, or persons quoted therein, are strictly their own and are in no way meant to represent the opinion or views of CDC or DHHS. References to publications, news sources, and non-CDC Websites are provided solely for informational purposes and do not imply endorsement by CDC or DHHS.
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- Page last updated:Oct 10, 2024