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Advanced Molecular Detection Clips Database|AMD Clips|Public Health Genomics and Precision Health Knowledge Base (PHGKB) PHGKB Horizon Scan > Advanced Molecular Detection Clips


Update Date: Apr 18, 2024

NEWS

White House releases new global health security strategy
Schnirring L. CIDRAP, Apr 17, 2024.

Novel Chlamydia Vaccine Shows Promise in Early Trial
Haelle T. MedPage Today, Apr 16, 2024.

Race for the next generation of Covid-19 vaccines: What’s in the pipeline?
(blog post) Jetelina K, Amayo A. Your Local Epidemiologist, Apr 16, 2024.

Only One Harm From mRNA COVID Vaccines, Report Determines
Lou N. MedPage Today, Apr 16, 2024.

The Checkup With Dr. Wen: How covid-19 might have improved public health infrastructure
Wen LS. Washington Post, Apr 11, 2024.

New mpox clade 1 lineage identified in DR Congo outbreak
Schnirring L. CIDRAP, Apr 17, 2024.

Viruses Finally Reveal Their Complex Social Life
Zimmer C. Quanta, Apr 11, 2024.



POLICY

US Government Global Health Security Strategy
(report) White House, Apr 2024.



METHODS / TOOLS

Deep learning methods in metagenomics: a review.
Gaspar Roy et al. Microb Genom 2024 4 (4)

Benchmarking bioinformatic virus identification tools using real-world metagenomic data across biomes.
Ling-Yi Wu et al. Genome Biol 2024 4 (1) 97 Brand

Optimisation and evaluation of viral genomic sequencing of SARS-CoV-2 rapid diagnostic tests: a laboratory and cohort-based study.
Jillian S Paull et al. Lancet Microbe 2024 4

Computational methods in the analysis of SARS-CoV-2 in mammals: A systematic review of the literature.
Paula Vitória Silva et al. Comput Biol Med 2024 4 108264 Brand

An Efficient Extraction Method Allowing the Genetic Evaluation of Host DNA from Samples Collected for Virus Infection Diagnosis in Viral Transport Medium.
Renan C Sbruzzi et al. Biopreserv Biobank 2023 8 (2) 166-173


EVOLUTION / ECOLOGY / POPULATIONS

Positive selection underlies repeated knockout of ORF8 in SARS-CoV-2 evolution.
Cassia Wagner et al. Nat Commun 2024 4 (1) 3207

Lineage frequency time series reveal elevated levels of genetic drift in SARS-CoV-2 transmission in England.
QinQin Yu et al. PLoS Pathog 2024 4 (4) e1012090

Recombination analysis on the receptor switching event of MERS-CoV and its close relatives: implications for the emergence of MERS-CoV.
Jarel Elgin Tolentino et al. Virol J 2024 4 (1) 84

Co-Circulating Monkeypox and Swinepox Viruses, Democratic Republic of the Congo, 2022.
Thierry Kalonji et al. Emerg Infect Dis 2024 3 (4) 761-765 Brand

Crimean-Congo Hemorrhagic Fever Virus Diversity and Reassortment, Pakistan, 2017-2020.
Massab Umair et al. Emerg Infect Dis 2024 3 (4) 654-664 Brand

Water-Based Epidemiological Investigation of Hepatitis E Virus in South Africa.
Karabo Salemane et al. Food Environ Virol 2024 4

Patterns recovered in phylogenomic analysis of Candida auris and close relatives implicate broad environmental flexibility in Candida/Clavispora clade yeasts.
Kyle Schutz et al. Microb Genom 2024 4 (4)


PATHOGENICITY / ANTIMICROBIAL RESISTANCE

Recombinational exchange of M-fibril and T-pilus genes generates extensive cell surface diversity in the global group A Streptococcus population.
Debra E Bessen et al. mBio 2024 4 e0069324 Brand

Genomic characterization of ST38 NDM-5-producing Escherichia coli isolates from an outbreak in the Czech Republic.
Katerina Chudejova et al. Antimicrob Agents Chemother 2024 4 e0013324

Antimicrobial-resistant Neisseria gonorrhoeae in Europe in 2020 compared with in 2013 and 2018: a retrospective genomic surveillance study.
Daniel Golparian et al. Lancet Microbe 2024 4 Brand

Epidemiology, resistance genomics and susceptibility of Acinetobacter species: results from the 2020 Spanish nationwide surveillance study.
Cristina Lasarte-Monterrubio et al. Euro Surveill 2024 4 (15) Brand

Klebsiella pneumoniae sequence type 147: a high-risk clone increasingly associated with plasmids carrying both resistance and virulence elements.
Jane F Turton et al. J Med Microbiol 2024 4 (4) Brand

Acute Hepatitis due to Primary Human Immunodeficiency Virus Infection.
Eric I Elliott et al. Open Forum Infect Dis 2024 4 (4) ofae170 Brand

Plasmodium falciparum pfhrp2 and pfhrp3 gene deletions among patients enrolled at 100 health facilities throughout Tanzania: February to July 2021.
Eric Rogier et al. Sci Rep 2024 4 (1) 8158 Brand

Transcriptomic analysis of Anopheles gambiae from Benin reveals overexpression of salivary and cuticular proteins associated with cross-resistance to pyrethroids and organophosphates.
Helga Saizonou et al. BMC Genomics 2024 4 (1) 348 Brand

Signatures of adaptation at key insecticide resistance loci in Anopheles gambiae in Southern Ghana revealed by reduced-coverage WGS.
Tristan P W Dennis et al. Sci Rep 2024 4 (1) 8650


DETECTION / DIAGNOSIS

Rescue of Mycobacterium bovis DNA Obtained from Cultured Samples during Official Surveillance of Animal TB: Key Steps for Robust Whole Genome Sequence Data Generation.
Daniela Pinto et al. Int J Mol Sci 2024 4 (7)

National genomic epidemiology investigation revealed the spread of carbapenem-resistant Escherichia coli in healthy populations and the impact on public health.
Yan Li et al. Genome Med 2024 4 (1) 57 Brand

Small-scale wastewater-based epidemiology (WBE) for infectious diseases and antibiotic resistance: A scoping review.
Dennis Schmiege et al. Int J Hyg Environ Health 2024 4 114379 Brand

Highly Multiplexed Reverse-Transcription Loop-Mediated Isothermal Amplification and Nanopore Sequencing (LAMPore) for Wastewater-Based Surveillance.
Seju Kang et al. ACS ES T Water 2024 4 (4) 1629-1636

Antimicrobial Resistance Analysis and Whole-Genome Sequencing of Salmonella Isolates from Environmental Sewage - Guangzhou City, Guangdong Province, China, 2022-2023.
Bihui Su et al. China CDC Wkly 2024 4 (13) 254-260 Brand

Surveillance To Track Progress Toward Polio Eradication - Worldwide, 2022-2023.
Nishant Kishore et al. MMWR Morb Mortal Wkly Rep 2024 4 (13) 278-285 Brand Brand

Rapid detection of monkeypox virus and differentiation of West African and Congo Basin strains using endonuclease restriction-mediated real-time PCR-based testing.
Juan Zhou et al. Anal Methods 2024 4

Detection of clade 2.3.4.4b highly pathogenic H5N1 influenza virus in New York City.
Philip S Meade et al. bioRxiv 2024 4 Brand

A Validated In-House Assay for HIV Drug Resistance Mutation Surveillance from Dried Blood Spot Specimens.
Bronwyn Neufeld et al. J Virol Methods 2024 4 114939

Ticks - public health risks in urban green spaces.
Thérese Janzén et al. BMC Public Health 2024 4 (1) 1031


EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION

Outbreak of Invasive Serratia marcescens among Persons Incarcerated in a State Prison, California, USA, March 2020-December 2022.
Amanda Kamali et al. Emerg Infect Dis 2024 4 (13) S41-S48 Brand Brand

Health Department: California

Evaluating the impact of genomic epidemiology of methicillin-resistant Staphylococcus aureus (MRSA) on hospital infection prevention and control decisions.
Beth Blane et al. Microb Genom 2024 4 (4) Brand

Concurrent Outbreaks of Hepatitis A, Invasive Meningococcal Disease, and Mpox, Florida, USA, 2021-2022.
Timothy J Doyle et al. Emerg Infect Dis 2024 3 (4) 633-43 Brand Brand

Health Department: Florida

Case of Human Orthohantavirus Infection, Michigan, USA, 2021.
Samuel M Goodfellow et al. Emerg Infect Dis 2024 3 (4) 817-821 Brand Brand

Health Department: Michigan

Real-time investigation of an influenza A(H3N2) virus outbreak in a refugee community, November 2022.
C Galli et al. Public Health 2024 3 157-162 Brand


ANTIMICROBIALS / VACCINES / INTERVENTIONS

Self-amplifying RNA COVID-19 vaccine.
Christopher J Wayne et al. Cell 2024 4 (8) 1822-1822.e1



Note: Brand indicates that at least one CDC-affiliated author; Brand indicates that the article addresses aspects of implementation or evaluation in clinical or public health practice.

Content Index

References

About AMD Clips

Clips are selected from a variety of sources, including PubMed, journal tables of contents, and online media. Special emphasis is given to the use of next-generation genetic sequencing in infectious disease public health surveillance, investigation, and development of new diagnostics and interventions. The collection is not comprehensive but aims to capture highlights, while surveying a wide range of topics.

Note:

  • Brand indicates that at least one CDC-affiliated author.
  • Brand indicates that the article addresses aspects of implementation or evaluation in clinical or public health practice.
  • Health Department: identifies articles having authors affiliated with U.S. public health departments, either at the indicated state or its sub-jurisdictions (city, county); health departments in U.S. territories are labeled Other.

Disclaimer: Articles listed in the Public Health Knowledge Base are selected by the CDC Office of Public Health Genomics to provide current awareness of the literature and news. Inclusion in the update 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 update, 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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