Advanced Molecular Detection Clips Content (Published on 06/08/2023)
NEWS
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Broad Institute Data Sciences Platform Aims to Provide Infrastructure, Tools for Global Genomics
Versel N. GenomeWeb, Jun 5, 2023. -
Post-Pandemic, FDA's In Vitro Dx Office Aims to Become More Agile
Cima G. 360dx, May 31, 2023. -
European groups green-light COVID-19 vaccine strain change
Schnirring L. CIDRAP, Jun 6, 2023. -
Six tips for better coding with ChatGPT
Perkel JM. Nature, Jun 5, 2023.
EVENTS / TRAINING / WEB RESOURCES
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Genomic sequencing: A decade to a day
(blog post) Genomics Education Programme (UK), Jun 2, 2023.
CONCEPTS / COMMENTS
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Have genetic targets for faecal pollution diagnostics and source tracking revolutionised water quality analysis yet?
Katalin Demeter et al. FEMS Microbiol Rev 2023 6 -
The Origins of Covid-19 - Why It Matters (and Why It Doesn't).
Lawrence O Gostin et al. N Engl J Med 2023 6 -
Navigating the AI frontier: ethical considerations and best practices in microbial genomics research.
Andrew J Page et al. Microb Genom 2023 6 (6)
METHODS / TOOLS
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Long-read sequencing for reliably calling the mompS allele in Legionella pneumophila sequence-based typing.
Anne Vatland Krøvel et al. Front Cell Infect Microbiol 2023 5 1176182 -
PfaSTer: a machine learning-powered serotype caller for Streptococcus pneumoniae genomes.
Jonathan T Lee et al. Microb Genom 2023 6 (6) -
Noise reduction strategies in metagenomic chromosome confirmation capture to link antibiotic resistance genes to microbial hosts.
Gregory E McCallum et al. Microb Genom 2023 6 (6) -
PanGraph: scalable bacterial pan-genome graph construction.
Nicholas Noll et al. Microb Genom 2023 6 (6) -
Pathogen genomics in public health laboratories: successes, challenges, and lessons learned from California's SARS-CoV-2 Whole-Genome Sequencing Initiative, California COVIDNet.
Emily A Smith et al. Microb Genom 2023 6 (6) -
LAPIS is a fast web API for massive open virus sequencing data.
Chaoran Chen et al. BMC Bioinformatics 2023 6 (1) 232 -
A resource of human coronavirus protein-coding sequences in a flexible, multipurpose Gateway Entry clone collection.
Benjamin Weller et al. G3 (Bethesda) 2023 6 -
Fine-scale genomic tracking of Ross River virus using nanopore sequencing.
Ellen M de Vries et al. Parasit Vectors 2023 6 (1) 186 -
Fitting stochastic epidemic models to gene genealogies using linear noise approximation.
Mingwei Tang et al. Ann Appl Stat 2023 6 (1) 1-22
EVOLUTION / ECOLOGY / POPULATIONS
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Comparative genomics uncovered differences between clinical and environmental populations of Vibrio parahaemolyticus in New Zealand.
Jack Vasey et al. Microb Genom 2023 6 (6) -
Unraveling the epidemiology of Mycobacterium bovis using whole-genome sequencing combined with environmental and demographic data.
Gianluigi Rossi et al. Front Vet Sci 2023 6 1086001 -
The Global Success of Mycobacterium tuberculosis Modern Beijing Family Is Driven by a Few Recently Emerged Strains.
Chendi Zhu et al. Microbiol Spectr 2023 6 e0333922 -
Population genetics of group B Streptococcus from maternal carriage in an ethnically diverse community in London.
Dorota Jamrozy et al. Front Microbiol 2023 6 1185753 -
SARS-CoV-2 Co-Infections and Recombinations Identified by Long-Read Single-Molecule Real-Time Sequencing.
Pauline Trémeaux et al. Microbiol Spectr 2023 6 e0049323 -
Emergence, spread and characterisation of the SARS-CoV-2 variant B.1.640 circulating in France, October 2021 to February 2022.
Gwenola Picard et al. Euro Surveill 2023 6 (22) -
Molecular transition of SARS-CoV-2 from critical patients during the first year of the COVID-19 pandemic in Mexico City.
Aldo Hugo De La Cruz-Montoya et al. Front Cell Infect Microbiol 2023 6 1155938 -
Generation of SARS-CoV-2 escape mutations by monoclonal antibody therapy.
Manon Ragonnet-Cronin et al. Nat Commun 2023 6 (1) 3334 -
Genomic diversity of mpox virus in Paris area (France) during the 2022 outbreak.
Géraldine Piorkowski et al. J Med Virol 2023 6 (6) e28853 -
Respiratory syncytial virus surge in 2022 caused by lineages already present before the COVID-19 pandemic.
Monika Redlberger-Fritz et al. J Med Virol 2023 6 (6) e28830 -
Population Genomic Evidence of Adaptive Response during the Invasion History of Plasmodium falciparum in the Americas.
Margaux J M Lefebvre et al. Mol Biol Evol 2023 4 (5)
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
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Novel emm4 lineage associated with an upsurge in invasive group A streptococcal disease in the Netherlands, 2022.
Boas C L van der Putten et al. Microb Genom 2023 6 (6) -
Genomic analysis of the initial dissemination of carbapenem-resistant Klebsiella pneumoniae clones in a tertiary hospital.
Neris Garcia-Gonzalez et al. Microb Genom 2023 6 (6) -
Escherichia coli ST2797 Is Abundant in Wastewater and Might Be a Novel Emerging Extended-Spectrum Beta-Lactamase E. coli.
Erik Paulshus et al. Microbiol Spectr 2023 6 e0448622 -
Using bacterial pan-genome-based feature selection approach to improve the prediction of minimum inhibitory concentration (MIC)
Yang MR, et al. Front Genet, May 30, 2023. -
Bacterium of one thousand and one variants: genetic diversity of Neisseria gonorrhoeae pathogenicity.
Kacper Kurzyp et al. Microb Genom 2023 (6) -
Particular genomic and virulence traits associated with preterm infant-derived toxigenic Clostridium perfringens strains.
Raymond Kiu et al. Nat Microbiol 2023 5 (6) 1160-1175 -
Prevalence of pretreatment drug resistance in persons initiating and reinitiating antiretroviral therapy in Sri Lanka: results from a national representative survey.
J Elwitigala et al. J Antimicrob Chemother 2023 4 (6) 1476-1479
DETECTION / DIAGNOSIS
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High prevalence of norovirus GII.4 Sydney among children with acute gastroenteritis in Bangladesh, 2018-2021.
Nadim Sharif et al. J Infect Public Health 2023 5 (7) 1015-1022 -
HIV-1 genotypic profiling ensures effective response to third-line antiretroviral therapy in Cameroon.
Pretty Rosereine Mbouyap et al. Medicine (Baltimore) 2023 6 (22) e33897
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Hepatitis A virus monitoring in wastewater: A complementary tool to clinical surveillance.
Anabella Fantilli et al. Water Res 2023 6 120102 -
Optimal capacity sharing for global genomic surveillance.
Zsombor Z Méder et al. Epidemics 2023 6 100690 -
Wastewater-based prediction of COVID-19 cases using a random forest algorithm with strain prevalence data: A case study of five municipalities in Latvia.
Brigita Dejus et al. Sci Total Environ 2023 6 164519 -
Coronavirus sampling and surveillance in bats from 1996-2019: a systematic review and meta-analysis.
Lily E Cohen et al. Nat Microbiol 2023 5 (6) 1176-1186 -
Wastewater early warning system for SARS-CoV-2 outbreaks and variants in a Coruña, Spain.
Noelia Trigo-Tasende et al. Environ Sci Pollut Res Int 2023 6 -
Utility of MF-non coding region for measles molecular surveillance during post-elimination phase, Spain, 2017-2020.
Camille Jacqueline et al. Front Microbiol 2023 6 1143933 -
Performance of SNP barcodes to determine genetic diversity and population structure of Plasmodium falciparum in Africa
Argyropoulos D, et al. Front Genet, Jun 1, 2023.
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
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Serratia marcescens Colonization in a Neonatal Intensive Care Unit Has Multiple Sources, with Sink Drains as a Major Reservoir.
Thibault Bourdin et al. Appl Environ Microbiol 2023 4 (5) e0010523 -
Increased prevalence and stable clustering rate of HIV-1 transmitted drug resistance strains after 'treat-all' in a megacity of China.
Dong Zhang et al. J Antimicrob Chemother 2023 6
ANTIMICROBIALS / VACCINES / INTERVENTIONS
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Safety of COVID-19 mRNA Vaccination Among Young Children in the Vaccine Safety Datalink.
Kristin Goddard et al. Pediatrics 2023 6
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Antiviral activities of two nucleos(t)ide analogs against vaccinia, mpox, and cowpox viruses in primary human fibroblasts.
Lara Dsouza et al. Antiviral Res 2023 6 105651
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Polyvalent immunization elicits a synergistic broadly neutralizing immune response to hypervariable region 1 variants of hepatitis C virus.
Alexander I Mosa et al. Proc Natl Acad Sci U S A 2023 6 (24) e2220294120 -
Advances and perspectives in the development of vaccines against highly pathogenic bunyaviruses.
Tong Chen et al. Front Cell Infect Microbiol 2023 6 1174030
HOST-MICROBE INTERACTIONS
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A Glimpse into the Past: What Ancient Viral Genomes Reveal About Human History.
Axel A Guzmán-Solís et al. Annu Rev Virol 2023 6 -
Non-secretor phenotype is associated with less risk of rotavirus-associated acute gastroenteritis in a vaccinated Nicaraguan birth cohort.
Yaoska Reyes et al. J Infect Dis 2023 6 -
Reconstruction of the personal information from human genome reads in gut metagenome sequencing data.
Yoshihiko Tomofuji et al. Nat Microbiol 2023 5 (6) 1079-1094
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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