Advanced Molecular Detection Clips Content (Published on 01/19/2023)
NEWS
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New variant XBB.1.5 is ‘most transmissible’ yet, could fuel covid wave
Nirappil F, Weber L. Washington Post, Jan 9, 2023. -
XB what? BQ huh? Do you need to keep up with Omicron’s ever-expanding offspring?
Branswell H. STAT, Jan 12, 2023. -
Coronavirus variant XBB.1.5 rises in the United States — is it a global threat?
Callaway E. Nature, Jan 9, 2023. -
Coronavirus ‘chimera’ made in lab shows what makes omicron seemingly less deadly
Aschenbach J. Washington Post, Jan 12, 2023. -
Airplane lavatories deliver new hope for the CDC’s variant hunt
Mahr K. Politico, Jan 16, 2023. -
Armed with air samplers, rope tricks, and—yes—ants, virus hunters spot threats in new ways
Cohen J. Science, Jan 4, 2023. -
Researchers identify Candida auris in Nevada wastewater
Dall C. CIDRAP, Jan 18, 2023. -
HHS needs better oversight of research that alters pathogens, government watchdog says
Cohrs R. STAT, Jan 18, 2023. -
The next giant step for microbes
Nat Biotechnol, Jan 18, 2023.
EVENTS / TRAINING / WEB RESOURCES
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Global Disease Surveillance and Pathogen Sharing
(report) Covington and Burling, LLP. Jan 2023.
METHODS / TOOLS
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Galaxy Training: A powerful framework for teaching!
Hiltemann Saskia et al. PLoS computational biology 2023 1 (1) e1010752 -
A Python library to check the level of anonymity of a dataset.
Sáinz-Pardo Díaz Judith et al. Scientific data 2022 12 (1) 785 -
A Novel Information-Theory-Based Genetic Distance That Approximates Phenotypic Differences.
Campo David S et al. Journal of computational biology : a journal of computational molecular cell biology 2023 1
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An ISO-certified genomics workflow for identification and surveillance of antimicrobial resistance.
Sherry Norelle L et al. Nature communications 2023 1 (1) 60 -
SARS-CoV-2 Africa dashboard for real-time COVID-19 information.
Xavier Joicymara S et al. Nature microbiology 2022 12 (1) 1-4
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TEMPO: A transformer-based mutation prediction framework for SARS-CoV-2 evolution.
Zhou Binbin et al. Computers in biology and medicine 2022 12 106264 -
A new and efficient enrichment method for metagenomic sequencing of Monkeypox virus.
Aja-Macaya Pablo et al. BMC genomics 2023 1 (1) 29 -
Epidemiologic utility of a framework for partition number selection when dissecting hierarchically clustered genetic data evaluated on the intestinal parasite Cyclospora cayetanensis.
Barratt Joel L N et al. American journal of epidemiology 2023 1
EVOLUTION / ECOLOGY / POPULATIONS
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Genomic Epidemiology and Multilevel Genome Typing of Australian Salmonella enterica Serovar Enteritidis.
Luo Lijuan et al. Microbiology spectrum 2023 1 e0301422 -
Genomic Characterization of Salmonella enterica serovar Weltevreden Associated with Human Diarrhea.
Zhang Jianmin et al. Microbiology spectrum 2023 1 e0354222 -
Rapid transmission and tight bottlenecks constrain the evolution of highly transmissible SARS-CoV-2 variants.
Bendall Emily E et al. Nature communications 2023 1 (1) 272 -
Inverted repeats in the monkeypox virus genome are hot spots for mutation.
Dobrovolná Michaela et al. Journal of medical virology 2022 11 (1) e28322 -
Whole-Genome Sequencing of hMPXV1 in five Italian cases confirms the occurrence of the predominant epidemic lineage.
Forni Diego et al. Journal of medical virology 2023 1 -
Isolation and characterization of mammalian orthoreovirus from bats in the United States.
Wang Liping et al. Journal of medical virology 2023 1
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Co-circulation of all the four Dengue virus serotypes during 2018-2019: first report from Eastern Uttar Pradesh, India.
Behera Sthita Pragnya et al. PeerJ 2023 1 e14504 -
An increase in enterovirus D68 circulation and viral evolution during a period of increased influenza like illness, The Johns Hopkins Health System, USA, 2022.
Fall Amary et al. Journal of clinical virology : the official publication of the Pan American Society for Clinical Virology 2023 1 105379 -
Deep-sequencing of viral genomes from a large and diverse cohort of treatment-naive HIV-infected persons shows associations between intrahost genetic diversity and viral load.
Gabrielaite Migle et al. PLoS computational biology 2023 1 (1) e1010756
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
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Increased Multidrug-Resistant Salmonella enterica I Serotype 4,[5],12:i:- Infections Associated with Pork, United States, 2009–2018
Plumb ID, et al. Emerg Infect Dis, Jan 13, 2023. -
Identification of Multiple Variant Extensively Drug-Resistant Typhoid Infections across Pakistan.
Kamal Rashid et al. The American journal of tropical medicine and hygiene 2023 1 -
Large-scale genomic analysis of Mycobacterium tuberculosis reveals extent of target and compensatory mutations linked to multi-drug resistant tuberculosis.
Napier Gary et al. Scientific reports 2023 1 (1) 623 -
Spike and nsp6 are key determinants of SARS-CoV-2 Omicron BA.1 attenuation.
Chen Da-Yuan et al. Nature 2023 1 -
Enhanced transmissibility of XBB.1.5 is contributed by both strong ACE2 binding and antibody evasion
Yue C, et al. bioRxiv, Jan 5, 2023.
DETECTION / DIAGNOSIS
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Validation of a New PCR-Based Screening Method for Prevention of Serratia marcescens Outbreaks in the Neonatal Intensive Care Unit.
Sciesielski Lina K et al. Neonatology 2023 1 1-9 -
Rapid Assessment of SARS-CoV-2 Variant-Associated Mutations in Wastewater Using Real-Time RT-PCR.
Farkas Kata et al. Microbiology spectrum 2023 1 e0317722 -
Rapid and Flexible RT-qPCR Surveillance Platforms To Detect SARS-CoV-2 Mutations.
Spiess Katja et al. Microbiology spectrum 2023 1 e0359122 -
SARS-CoV-2 diagnostic testing rates determine the sensitivity of genomic surveillance programs.
Han Alvin X et al. Nature genetics 2023 1 (1) 26-33
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Genomic surveillance of SARS-CoV-2 positive passengers on flights from China to Italy, December 2022
Novazzi F, et al. Eurosurveill, Jan 12, 2023. -
Rapid molecular assays for the detection of the four dengue viruses in infected mosquitoes.
Ahmed Madeeha et al. Gates open research 2023 1 81 -
Evaluation and clinical validation of monkeypox (mpox) virus real-time PCR assays.
Mills Margaret G et al. Journal of clinical virology : the official publication of the Pan American Society for Clinical Virology 2023 1 105373 -
Rapid Identification of Relevant Microbial Strains by Identifying Multiple Marker Single Nucleotide Polymorphisms via Amplicon Sequencing: Epidemic Monkeypox Virus as a Proof of Concept.
Buenestado-Serrano Sergio et al. Microbiology spectrum 2023 1 e0419622 -
Use of Wastewater for Mpox Outbreak Surveillance in California.
Wolfe Marlene K et al. The New England journal of medicine 2023 1
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Candida auris Discovery through Community Wastewater Surveillance during Healthcare Outbreak, Nevada, USA, 2022
Rossi A, et al. Emerg Infect Dis, Jan 16, 2023. -
Evaluation of genome skimming to detect and characterise human and livestock helminths.
Papaiakovou Marina et al. International journal for parasitology 2023 1
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
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Genomic insights of Leclercia adecarboxylata strains linked to an outbreak in public hospitals in Mexico.
Barrios-Villa Edwin et al. Genes & genomics 2023 1
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A pseudo-outbreak of MRSA due to laboratory contamination related to MRSA carriage of a laboratory staff member.
Houkes Karlijn M G et al. Antimicrobial resistance and infection control 2023 1 (1) 1
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Risk of within-hotel transmission of SARS-CoV-2 during on-arrival quarantine in Hong Kong: an epidemiological and phylogenomic investigation.
Adam Dillon C et al. The Lancet regional health. Western Pacific 2023 1 100678
ANTIMICROBIALS / VACCINES / INTERVENTIONS
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Pfizer-BioNTech COVID-19 vaccine effectiveness against SARS-CoV-2 infection among long-term care facility staff with and without prior infection in New York City, January-June 2021.
Peebles Kathryn et al. The Journal of infectious diseases 2023 1
HOST-MICROBE INTERACTIONS
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Tracking immune correlates of protection for emerging SARS-CoV-2 variants.
Nilles Eric J et al. The Lancet. Infectious diseases 2023 1
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Longitudinal proteomic profiling of the inflammatory response in dengue patients.
Garishah Fadel Muhammad et al. PLoS neglected tropical diseases 2023 1 (1) e0011041 -
Understanding respiratory microbiome-immune system interactions in health and disease.
Di Simone Sara K et al. Science translational medicine 2023 1 (678) eabq5126 -
Individual variation in Plasmodium vivax malaria risk: Are repeatedly infected people just unlucky?
Corder Rodrigo M et al. PLoS neglected tropical diseases 2023 1 (1) e0011020 -
Preterm birth is associated with xenobiotics and predicted by the vaginal metabolome.
Kindschuh William F et al. Nature microbiology 2023 1 -
The person-to-person transmission landscape of the gut and oral microbiomes.
Valles-Colomer Mireia et al. Nature 2023 1
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.
- Page last reviewed:Feb 1, 2023
- Page last updated:Sep 21, 2023
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