Advanced Molecular Detection Clips Content (Published on 07/07/2022)
NEWS
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Super contagious, able to reinfect: California faces big coronavirus risk from BA.4, BA.5
Lin II RG, Money L. Los Angeles Times, Jul 4, 2022. -
Omicron-based coronavirus booster shots will roll out this fall
Johnson C. Washington Post, Jun 30, 2022. -
Updated Covid Shots Are Coming. Will They Be Too Late?
Mueller B. New York Times, July 4, 2022. -
Bad news for Paxlovid? Coronavirus can find multiple ways to evade COVID-19 drug
Service RF. Science, Jun 29, 2022. -
Are pockets of Covid in the gut causing long-term symptoms?
Geddes L. Guardian, Jun 28, 2022. -
What polio’s UK presence means for global health
Guglielmi G. Nature, Jul 4, 2022. -
100-year-old pandemic flu viruses yield new genomes
Nelson MI, Ghedin E. Nature, Jul 6, 2022.
CONCEPTS / COMMENTS
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How better pandemic and epidemic intelligence will prepare the world for future threats.
Morgan Oliver W et al. Nature medicine 2022 6 -
Projecting the SARS-CoV-2 transition from pandemicity to endemicity: Epidemiological and immunological considerations.
Cohen Lily E et al. PLoS pathogens 2022 6 (6) e1010591 -
From Prevention to Therapy: A Roadmap of Nanotechnologies to Stay Ahead of Future Pandemics.
Chandra Sutapa et al. ACS nano 2022 7
METHODS / TOOLS
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Rapid PCR-Based Nanopore Adaptive Sequencing Improves Sensitivity and Timeliness of Viral Clinical Detection and Genome Surveillance.
Lin Yanfeng et al. Frontiers in microbiology 2022 7 929241 -
A comprehensive resource for Bordetella genomic epidemiology and biodiversity studies.
Bridel Sébastien et al. Nature communications 2022 7 (1) 3807 -
Identifying SARS-CoV-2 regional introductions and transmission clusters in real time.
McBroome Jakob et al. Virus evolution 2022 6 (1) veac048 -
Proficiency testing for SARS-CoV-2 whole genome sequencing.
Lau Katherine A et al. Pathology 2022 7 -
gofasta: command-line utilities for genomic epidemiology research.
Jackson Ben et al. Bioinformatics (Oxford, England) 2022 7 -
Epidemiological inference from pathogen genomes: A review of phylodynamic models and applications.
Featherstone Leo A et al. Virus evolution 2022 7 (1) veac045 -
An open-access database of infectious disease transmission trees to explore superspreader epidemiology.
Taube Juliana C et al. PLoS biology 2022 6 (6) e3001685
EVOLUTION / ECOLOGY / POPULATIONS
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Coronaviruses in wild animals sampled in and around Wuhan at the beginning of COVID-19 emergence.
Wang Wen et al. Virus evolution 2022 6 (1) veac046 -
Shifting mutational constraints in the SARS-CoV-2 receptor-binding domain during viral evolution.
Starr Tyler N et al. Science (New York, N.Y.) 2022 6 eabo7896 -
The rapid replacement of the Delta variant by Omicron (B.1.1.529) in England.
Paton Robert S et al. Science translational medicine 2022 5 eabo5395 -
Pre-existing population immunity and SARS-CoV-2 variant establishment and dominance dynamics in the United States: An ecological study
Ankomah PO, et al. medRxiv, Jul 2, 2022. -
Evidence of co-infections during Delta and Omicron SARS-CoV-2 variants co-circulation through prospective screening and sequencing.
Combes Patricia et al. Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases 2022 7 -
Changing distribution of rotavirus A genotypes circulating in Japanese children with acute gastroenteritis in outpatient clinic, 2014-2020.
Okitsu Shoko et al. Journal of infection and public health 2022 6 (7) 816-825 -
Genome characterization and mutation analysis of human influenza A virus in Thailand.
Rattanaburi Somruthai et al. Genomics & informatics 2022 7 (2) e21 -
Sympatric Recombination in Zoonotic Cryptosporidium Leads to Emergence of Populations with Modified Host Preference.
Wang Tianpeng et al. Molecular biology and evolution 2022 7
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Population genomics of ancient and modern Trichuris trichiura.
Doyle Stephen R et al. Nature communications 2022 7 (1) 3888
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
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Effect of childhood vaccination and antibiotic use on pneumococcal populations and genome-wide associations with disease among children in Nepal: an observational study.
Kandasamy Rama et al. The Lancet. Microbe 2022 7 (7) e503-e511
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A convolutional neural network highlights mutations relevant to antimicrobial resistance in Mycobacterium tuberculosis.
Green Anna G et al. Nature communications 2022 7 (1) 3817 -
Antibody evasion by SARS-CoV-2 Omicron subvariants BA.2.12.1, BA.4, & BA.5.
Wang Qian et al. Nature 2022 7 -
Candida auris Pan-Drug-Resistant to Four Classes of Antifungal Agents.
Samantha E Jacobs et al. Antimicrob Agents Chemother 2022 6 (7) e0005322 -
Application of multiplex amplicon deep-sequencing (MAD-seq) to screen for putative drug resistance markers in the Necator americanus isotype-1 β-tubulin gene.
George Santosh et al. Scientific reports 2022 7 (1) 11459 -
Identification of a rapidly-spreading triple mutant for high-level metabolic insecticide resistance in Anopheles gambiae provides a real-time molecular diagnostic for anti-malarial intervention deployment.
Njoroge Harun et al. Molecular ecology 2022 7
DETECTION / DIAGNOSIS
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Rapid and accurate identification of SARS-CoV-2 Omicron variants using droplet digital PCR (RT-ddPCR).
Mills Margaret G et al. Journal of clinical virology : the official publication of the Pan American Society for Clinical Virology 2022 7 105218 -
Five-week warning of COVID-19 peaks prior to the Omicron surge in Detroit, Michigan using wastewater surveillance.
Zhao Liang et al. The Science of the total environment 2022 7 157040 -
Infection-competent monkeypox virus contamination identified in domestic settings following an imported case of monkeypox into the UK
Atkinson B, et al. medRxiv, Jun 27, 2022. -
An accurate and rapid Real-time PCR approach for human Monkeypox virus diagnosis
Wawina-Bokalanga T, et al. medRxiv, Jun 23, 2022.
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
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Fine-grain population structure and transmission patterns of Mycobacterium tuberculosis in southern Mozambique, a high TB/HIV burden area.
Saavedra Cervera Belén et al. Microbial genomics 2022 7 (7) -
Understanding drivers of phylogenetic clustering and terminal branch lengths distribution in epidemics of Mycobacterium tuberculosis.
Menardo Fabrizio et al. eLife 2022 6 -
Using Machine Learning Techniques and National Tuberculosis Surveillance Data to Predict Excess Growth in Genotyped Tuberculosis Clusters.
Althomsons Sandy P et al. American journal of epidemiology 2022 7
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A multi-jurisdictional outbreak of Salmonella Typhimurium infections linked to backyard poultry-Australia, 2020.
Laidlow Troy A et al. Zoonoses and public health 2022 7
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Explosive outbreak of SARS-CoV-2 Omicron variant is associated with vertical transmission in high-rise residential buildings in Hong Kong
Cheng VC, et al. Building and Environment, Aug 1, 2022. -
Introduction and Establishment of SARS-CoV-2 Gamma Variant in New York City in Early 2021.
Tetyana I Vasylyeva et al. J Infect Dis 2022 6 (12) 2142-2149 -
Molecular epidemiology of HIV-1 in Oryol Oblast, Russia.
Safina Ksenia R et al. Virus evolution 2022 7 (1) veac044
ANTIMICROBIALS / VACCINES / INTERVENTIONS
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Exosomes decorated with a recombinant SARS-CoV-2 receptor-binding domain as an inhalable COVID-19 vaccine.
Wang Zhenzhen et al. Nature biomedical engineering 2022 7
HOST-MICROBE INTERACTIONS
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Host genomics of SARS-CoV-2 infection
Redin C, et al. Eur J Hum Genet, Jun 30, 2022. -
Competition for dominance within replicating quasispecies during prolonged SARS-CoV-2 infection in an immunocompromised host.
Caccuri Francesca et al. Virus evolution 2022 6 (1) veac042 -
Interplay between demographic, clinical and polygenic risk factors for severe COVID-19.
Crossfield Samantha S R et al. International journal of epidemiology 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 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:Jan 9, 2025