Advanced Molecular Detection Clips Content (Published on 06/16/2022)
NEWS
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We're Not Out of the Pandemic Woods Yet
Gandhi M, Daignault M. MedPage Today, Jun 14, 2022. -
Four areas of health innovation boosted by the pandemic
Hou CY. Nat Med, Jun 13, 2022. -
Newest Omicron Covid-19 lineages gaining ground in United States
Joseph A. STAT, Jun 14, 2022. -
How months-long COVID infections could seed dangerous new variants
Callaway E. Nature, Jun 15, 2022. -
When Covid Came for Provincetown
McKenna M. Wired, Jun 14, 2022. -
A new study is the first to document likely cat-to-human virus transmission, but risks are low overall, experts say.
Anthes E. New York Times, Jun 10, 2022. -
WHO will rename monkeypox virus to combat racism and stigma
Chen S. Axios, Jun 14, 2022. -
Monkeypox DNA found in semen in handful of cases researchers say
Grover N, Parodi E. Reuters, Jun 13, 2022. -
Ancient DNA traces origin of Black Death
Callaway E. Nature, Jun 15, 2022.
EVENTS / TRAINING / WEB RESOURCES
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Monkeypox Workflow
Parker M. EPI2ME, Jun 1, 2022. -
EPI2ME Labs 22.06.01 Release
(software) Rudd S. EPI2ME, Jun 1, 2022. -
Preliminary Report for the Scientific Advisory Group for the Origins of Novel Pathogens (SAGO)
(report) WHO, Jun 9, 2022.
POLICY
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WHO covid origins report says ‘lab leak’ theory needs further investigation
Taylor A. Washington Post, Jun 9, 2022.
CONCEPTS / COMMENTS
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Why does viral RNA sometimes persist after recovery from acute infections?
Griffin Diane E et al. PLoS biology 2022 6 (6) e3001687 -
Immuno-epidemiology and the predictability of viral evolution.
Saad-Roy Chadi M et al. Science (New York, N.Y.) 2022 6 (6598) 1161-1162
METHODS / TOOLS
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SPEAR: Systematic ProtEin AnnotatoR.
Crown Matthew et al. Bioinformatics (Oxford, England) 2022 6 -
Datasets for benchmarking antimicrobial resistance genes in bacterial metagenomic and whole genome sequencing.
Raphenya Amogelang R et al. Scientific data 2022 6 (1) 341
EVOLUTION / ECOLOGY / POPULATIONS
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The impact of genetic recombination on pathogenic Leptospira.
Mejía Lorena et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2022 6 105313 -
The microbial diversity in industrial effluents makes high-throughput sequencing-based source tracking of the effluents possible.
Wei Yan et al. Environmental research 2022 6 (Pt E) 113640 -
Whole genome sequences of Treponema pallidum subsp. endemicum isolated from Cuban patients: The non-clonal character of isolates suggests a persistent human infection rather than a single outbreak.
Vrbová Eliška et al. PLoS neglected tropical diseases 2022 6 (6) e0009900 -
Frozen Vegetable Processing Plants Can Harbour Diverse Listeria monocytogenes Populations: Identification of Critical Operations by WGS.
Truchado Pilar et al. Foods (Basel, Switzerland) 2022 6 (11) -
The source of the Black Death in fourteenth-century central Eurasia.
Spyrou Maria A et al. Nature 2022 6 -
Genetic Diversity and Evolutionary Convergence of Cryptic SARS-CoV-2 Lineages Detected Via Wastewater Sequencing.
Gregory Devon A et al. medRxiv : the preprint server for health sciences 2022 6 -
Comparative phylodynamics reveals the evolutionary history of SARS-CoV-2 emerging variants in the Arabian Peninsula.
Alkhamis Moh A et al. Virus evolution 2022 6 (1) veac040 -
Divergent Rabies Virus Variant of Probable Bat Origin in 2 Gray Foxes, New Mexico, USA.
Condori Rene E et al. Emerging infectious diseases 2022 5 (6) 1137-1145
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Prevalence and genetic characterization of Enterocytozoon bieneusi in children in Northeast Egypt.
Naguib Doaa et al. Parasitology research 2022 5 (7) 2087-2092
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
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Detection of highly macrolide-resistant Legionella pneumophila strains from a hotel water network using systematic whole-genome sequencing.
Ginevra Christophe et al. The Journal of antimicrobial chemotherapy 2022 6 -
Continued Increase of Erythromycin- and Clindamycin-Nonsusceptibility among Invasive Group A Streptococci Driven by Genomic Clusters, USA, 2018-2019.
Li Yuan et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2022 6
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The MtZ Strain: Molecular Characteristics and Outbreak Investigation of the Most Successful Mycobacterium tuberculosis Strain in Aragon Using Whole-Genome Sequencing.
Comín Jessica et al. Frontiers in cellular and infection microbiology 2022 6 887134 -
Uncovering Beta-Lactam Susceptibility Patterns in Clinical Isolates of Mycobacterium tuberculosis through Whole-Genome Sequencing.
Olivença Francisco et al. Microbiology spectrum 2022 6 e0067422 -
Molecular Characterization of the pol Gene of Vertically Transmitted HIV-1 Strains in Children with Virological Failure.
Karunaianantham Ramesh et al. AIDS research and human retroviruses 2022 3 (6) 491-496 -
De Novo Assembly of Plasmodium knowlesi Genomes From Clinical Samples Explains the Counterintuitive Intrachromosomal Organization of Variant SICAvar and kir Multiple Gene Family Members.
Oresegun Damilola R et al. Frontiers in genetics 2022 6 855052
DETECTION / DIAGNOSIS
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Genomic Diversity of Hospital-Acquired Infections Revealed through Prospective Whole-Genome Sequencing-Based Surveillance.
Mustapha Mustapha M et al. mSystems 2022 6 e0138421
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A dual barcoding approach to bacterial strain nomenclature: Genomic taxonomy of Klebsiella pneumoniae strains.
Hennart Melanie et al. Molecular biology and evolution 2022 6 -
Tuberculosis reinfection and relapse in eastern China: A prospective study using whole-genome sequencing.
Liu Qiao et al. Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases 2022 6 -
Pathogens detected using a syndromic molecular diagnostic platform in patients hospitalized with severe respiratory illness in South Africa in 2017.
Moleleki Malefu et al. International journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases 2022 6
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Prediction of Pasteurella multocida serotypes based on whole genomic sequences
Christensen H, et al. Vet Microbiol, Jun 11, 2022. -
Mitigation of SARS-CoV-2 transmission at a large public university.
Ranoa Diana Rose E et al. Nature communications 2022 6 (1) 3207 -
SARS-CoV-2 Continuous Genetic Divergence and Changes in Multiplex RT-PCR Detection Pattern on Positive Retesting Median 150 Days after Initial Infection.
Liu Dakai et al. International journal of molecular sciences 2022 6 (11) -
Rapid, adaptable and sensitive Cas13-based COVID-19 diagnostics using ADESSO.
Casati Beatrice et al. Nature communications 2022 6 (1) 3308 -
Real-time allelic assays of SARS-CoV-2 variants to enhance sewage surveillance.
Xu Xiaoqing et al. Water research 2022 6 118686 -
Early detection and improved genomic surveillance of SARS-CoV-2 variants from deep sequencing data.
Ramazzotti Daniele et al. iScience 2022 6 (6) 104487 -
Identifying New COVID-19 Variants from Spike Proteins Using Novelty Detection.
Basu Sayantani et al. Studies in health technology and informatics 2022 6 694-698 -
Rapid, scalable assessment of SARS-CoV-2 cellular immunity by whole-blood PCR.
Schwarz Megan et al. Nature biotechnology 2022 6 -
SARS-CoV-2 RNA levels in Scotland’s wastewater
Scorza LC, et al. medRxiv, Jun 13, 2022. -
Early detection of SARS-CoV-2 variants using traveler-based genomic surveillance at four US airports, September 2021- January 2022.
Wegrzyn Renee D et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2022 6
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Identification of SARS-CoV-2 Omicron variant using spike gene target failure and genotyping assays, Gauteng, South Africa, 2021.
Subramoney Kathleen et al. Journal of medical virology 2022 4 (8) 3676-3684 -
Outbreak of central nervous system infections among children in Thai Binh, Viet Nam.
Phi Duc Long et al. Emerging microbes & infections 2022 6 1-33 -
United States Centers for Disease Control and Prevention support for influenza surveillance, 2013-2021.
McCarron Margaret et al. Bulletin of the World Health Organization 2022 6 (6) 366-374
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Evaluation of Whatman FTA cards for the preservation of yellow fever virus RNA for use in molecular diagnostics.
Davis Emily H et al. PLoS neglected tropical diseases 2022 6 (6) e0010487
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Chapare Hemorrhagic Fever and Virus Detection in Rodents in Bolivia in 2019.
Loayza Mafayle Roxana et al. The New England journal of medicine 2022 6 (24) 2283-2294
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Virus Detection: From State-of-the-Art Laboratories to Smartphone-Based Point-of-Care Testing.
Xiao Meng et al. Advanced science (Weinheim, Baden-Wurttemberg, Germany) 2022 4 (17) e2105904 -
Molecular Tools for Candida auris Identification and Typing.
de Jong Auke W et al. Methods in molecular biology (Clifton, N.J.) 2022 6 33-41
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
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Whole-genome sequencing enhances existing pathogen and antimicrobial-resistance surveillance schemes within a neonatal unit.
Price Vivien et al. Microbial genomics 2022 6 (6) -
M. tuberculosis microvariation is common and is associated with transmission: Analysis of three years prospective universal sequencing in England.
Wyllie David et al. The Journal of infection 2022 5 (1) 31-39 -
Comprehensive genomic analysis of Mycobacterium tuberculosis reveals limited impact of high-fitness genotypes on MDR-TB transmission.
Chen Yiwang et al. The Journal of infection 2022 5 (1) 49-56 -
Contaminated Incubators: Source of a Multispecies Enterobacter Outbreak of Neonatal Sepsis.
Hernandez-Alonso Enrique et al. Microbiology spectrum 2022 6 e0096422
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Investigation of COVID-19 Outbreak among Wildland Firefighters during Wildfire Response, Colorado, USA, 2020.
Metz Amanda Reiff et al. Emerging infectious diseases 2022 6 (8) -
Transmission networks of SARS-CoV-2 in Coastal Kenya during the first two waves: a retrospective genomic study.
Agoti Charles N et al. eLife 2022 6 -
State-wide genomic epidemiology investigations of COVID-19 in healthcare workers in 2020 Victoria, Australia: Qualitative thematic analysis to provide insights for future pandemic preparedness.
Watt Anne E et al. The Lancet regional health. Western Pacific 2022 6 100487
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Genomic Epidemiology of Imported Cases of COVID-19 in Guangdong Province, China, October 2020 - May 2021.
Liang Dan et al. Biomedical and environmental sciences : BES 2022 6 (5) 393-401 -
The phylodynamics of SARS-CoV-2 during 2020 in Finland.
Truong Nguyen Phuoc et al. Communications medicine 2022 6 65
ANTIMICROBIALS / VACCINES / INTERVENTIONS
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Antibody escape of SARS-CoV-2 Omicron BA.4 and BA.5 from vaccine and BA.1 serum
Tuekprakhon A, et al. Cell, Jun 8, 2022.
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Association of E484K Spike Protein Mutation With Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Infection in Vaccinated Persons: Maryland, January-May 2021.
Feder Kenneth A et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2021 9 (11) 2053-2056
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Protection against the Omicron Variant from Previous SARS-CoV-2 Infection.
Altarawneh Heba N et al. The New England journal of medicine 2022 2 (13) 1288-1290
HOST-MICROBE INTERACTIONS
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Multiomic analysis reveals cell-type-specific molecular determinants of COVID-19 severity.
Zhang Sai et al. Cell systems 2022 6 -
Defining resistance & tolerance traits in Covid-19: towards a stratified medicine approach.
Russell Clark D et al. QJM : monthly journal of the Association of Physicians 2022 6
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 the CDC Office of Genomics and Precision Public Health 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:Sep 21, 2023
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