Advanced Molecular Detection Clips Content (Published on 10/28/2021)
NEWS
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CDC Sleuths Find Source Of Deadly Melioidosis Outbreak Is A Room Spray Sold At Walmart
Stone J. Forbes, Oct 24, 2021. -
Bacterial defense islands limit viral attack
Meaden S, Fineran PC. Science, Oct 22, 2021. -
The shifting sands of 'gain-of-function' research
Dance A. Nature, Oct 27, 2021. -
NIH says grantee failed to report experiment in Wuhan that created a bat virus that made mice sicker
Kaiser J. Science, Oct 21, 2021. -
3 takeaways from the emergence of the 'Delta Plus' coronavirus variant
Joseph A. STAT, Oct 27, 2021. -
Biden administration looks to speed authorization of rapid coronavirus tests
Abutaleb Y. Washington Post, Oct 25, 2021. -
Multiomic Study Identifies Drivers of Severe COVID-19 in Patients Under 50 Without Comorbidities
GenomeWeb, Oct 26, 2021. -
Rise in human bird flu cases in China shows risk of fast-changing variants: experts
Patton D. Reuters, Oct 26, 2021.
EVENTS / TRAINING / WEB RESOURCES
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Combating Antimicrobial Resistance and Protecting the Miracle of Modern Medicine
(report) NASEM, Oct 20, 2021. -
SARS-CoV-2 variants of concern and variants under investigation in England: Technical briefing 26
(report) UK Health Security Agency, Oct 22, 2021.
CONCEPTS / COMMENTS
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Metagenomics Approaches for Improving Food Safety.
Billington Craig et al. Journal of food protection 2021 10 -
Tackling the pandemic with (biased) data
Pagel C, Yates CA. Science, Oct 22, 2021.
METHODS / TOOLS
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Bioinformatics in Sudan: Status and challenges case study: The National University-Sudan.
Mohamed Sofia B et al. PLoS computational biology 2021 10 (10) e1009462 -
SARS-CoV-2 sequencing collaboration in west Africa shows best practices.
Onwuamah Chika Kingsley et al. The Lancet. Global health 2021 10 (11) e1499-e1500 -
Data-driven analysis of amino acid change dynamics timely reveals SARS-CoV-2 variant emergence.
Bernasconi Anna et al. Scientific reports 2021 10 (1) 21068 -
Prediction of pandemic risk for animal-origin coronavirus using a deep learning method.
Kou Zheng et al. Infectious diseases of poverty 2021 10 (1) 128 -
Utilizing the VirIdAl Pipeline to Search for Viruses in the Metagenomic Data of Bat Samples.
Budkina Anna Y et al. Viruses 2021 10 (10) -
On-Demand Patient-Specific Phenotype-to-Genotype Ebola Virus Characterization.
Beitzel Brett F et al. Viruses 2021 10 (10) -
Next-Generation Sequencing of Human Respiratory Syncytial Virus Subgroups A and B Genomes.
Wang Lijuan et al. Journal of virological methods 2021 10 114335
EVOLUTION / ECOLOGY / POPULATIONS
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A tale of two STs: molecular and clinical epidemiology of MRSA t304 in Norway 2008-2016.
Enger Hege et al. European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology 2021 10 -
Next-Generation Food Research: Use of Meta-Omic Approaches for Characterizing Microbial Communities Along the Food Chain.
Yap Min et al. Annual review of food science and technology 2021 10 -
SARS-CoV-2 R.1 lineage variants that prevailed in Tokyo in March 2021.
Nagano Katsutoshi et al. Journal of medical virology 2021 7 (12) 6833-6836 -
Understanding the prevalence of SARS-CoV-2 (COVD-19) exposure in companion, captive, wild, and farmed animals.
Murphy Hannah L et al. Virulence 2021 10 -
A Deeper Insight into Evolutionary Patterns and Phylogenetic History of ASFV Epidemics in Sardinia (Italy) through Extensive Genomic Sequencing.
Fiori Mariangela Stefania et al. Viruses 2021 10 (10) -
Real-Time Genomic Surveillance during the 2021 Re-Emergence of the Yellow Fever Virus in Rio Grande do Sul State, Brazil.
Andrade Miguel de S et al. Viruses 2021 10 (10)
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Emergence of dengue virus serotype 2 in Mauritania and molecular characterization of its circulation in West Africa.
Fourié Toscane et al. PLoS neglected tropical diseases 2021 10 (10) e0009829 -
Characterizing the Countrywide Epidemic Spread of Influenza A(H1N1)pdm09 Virus in Kenya between 2009 and 2018.
Owuor D Collins et al. Viruses 2021 10 (10) -
Multi-locus sequence typing reveals genotypic similarity in Nigerian Cryptococcus neoformans AFLP1/VNI of environmental and clinical origin.
Chidebelu Paul E et al. Journal of medical microbiology 2021 10 (10)
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
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The Distribution of Campylobacter jejuni Virulence Genes in Genomes Worldwide Derived from the NCBI Pathogen Detection Database.
Panzenhagen Pedro et al. Genes 2021 10 (10) -
Multidrug Resistance Dynamics in Salmonella in Food Animals in the United States: An Analysis of Genomes from Public Databases.
Pires João et al. Microbiology spectrum 2021 10 e0049521 -
Molecular Epidemiology, Antimicrobial Surveillance, and PK/PD Analysis to Guide the Treatment of Neisseria gonorrhoeae Infections.
Alonso Rodrigo et al. Pharmaceutics 2021 10 (10) -
Carbapenem-resistant Klebsiella pneumoniae colonization and infection is associated with lower overall survival in a cohort of haematopoietic stem-cell transplantation patients: mechanism of resistance and virulence by whole-genome sequencing.
Higashino Hermes Ryoiti et al. Journal of medical microbiology 2021 10 (10) -
Clinical Characteristics of Patients and Whole Genome Sequencing-Based Surveillance of Escherichia coli Community-Onset Bloodstream Infections at a Non-tertiary Hospital in CHINA.
Chen Fenghong et al. Frontiers in microbiology 2021 10 748471 -
Ancestral sequence reconstruction pinpoints adaptations that enable avian influenza virus transmission in pigs.
Su Wen et al. Nature microbiology 2021 10 -
Phylogenomic Analysis of Human Papillomavirus Type 31 and Cervical Carcinogenesis: A Study of 2093 Viral Genomes.
Pinheiro Maisa et al. Viruses 2021 10 (10) -
Cross-Sectional Analysis of the Microbiota of Human Gut and Its Direct Environment in a Household Cohort with High Background of Antibiotic Use.
Vu Thi Ngoc Bich et al. Microorganisms 2021 10 (10)
DETECTION / DIAGNOSIS
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Use of molecular methods to detect Shigella and infer phenotypic resistance in a Shigella treatment study.
Pholwat Suporn et al. Journal of clinical microbiology 2021 10 JCM0177421 -
Whole genome sequencing and protein structure analyses of target genes for the detection of Salmonella.
Hu Lijun et al. Scientific reports 2021 10 (1) 20887 -
Long-read sequencing-based in silico phage typing of vancomycin-resistant Enterococcus faecium.
Lisotto Paola et al. BMC genomics 2021 10 (1) 758 -
Establishment of a Publicly Available Core Genome Multilocus Sequence Typing Scheme for Clostridium perfringens.
Abdel-Glil Mostafa Y et al. Microbiology spectrum 2021 10 e0053321 -
In action-an early warning system for the detection of unexpected or novel pathogens.
Santos Pauline Dianne et al. Virus evolution 2021 10 (2) veab085 -
Viral and Atypical Bacterial Detection in Young Nepalese Children Hospitalized with Severe Pneumonia.
Mathisen Maria et al. Microbiology spectrum 2021 10 e0055121 -
Integrated Point-of-Care Molecular Diagnostic Devices for Infectious Diseases.
Liu Wenpeng et al. Accounts of chemical research 2021 10 -
National surveillance pilot study unveils a multicenter, clonal outbreak of VIM-2-producing Pseudomonas aeruginosa ST111 in the Netherlands between 2015 and 2017.
Pirzadian Jannette et al. Scientific reports 2021 10 (1) 21015 -
High-Throughput Next-Generation Sequencing Respiratory Viral Panel: A Diagnostic and Epidemiologic Tool for SARS-CoV-2 and Other Viruses.
Sahajpal Nikhil S et al. Viruses 2021 10 (10) -
High-throughput sequencing of SARS-CoV-2 in wastewater provides insights into circulating variants.
Fontenele Rafaela S et al. Water research 2021 10 117710 -
Wastewater and surface monitoring to detect COVID-19 in elementary school settings: The Safer at School Early Alert project.
Rebecca Fielding-Miller et al. medRxiv 2021 10 -
Rapid Automated Screening for SARS-CoV-2 B.1.617 Lineage Variants (Delta/Kappa) through a Versatile Toolset of qPCR-Based SNP Detection.
Nörz Dominik et al. Diagnostics (Basel, Switzerland) 2021 10 (10) -
The Rapid Assessment of Aggregated Wastewater Samples for Genomic Surveillance of SARS-CoV-2 on a City-Wide Scale.
Eric C Rouchka et al. Pathogens 2021 10 (10)
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Fast SARS-CoV-2 Variant Detection Using Snapback Primer High-Resolution Melting.
Lownik Joseph C et al. Diagnostics (Basel, Switzerland) 2021 10 (10) -
High throughput sequencing based direct detection of SARS-CoV-2 fragments in wastewater of Pune, West India.
Dharmadhikari Tanmay et al. The Science of the total environment 2021 10 151038 -
Viral culture confirmed SARS-CoV-2 subgenomic RNA value as a good surrogate marker of infectivity.
Bravo Marta Santos et al. Journal of clinical microbiology 2021 10 JCM0160921 -
Optical Biosensor Platforms Display Varying Sensitivity for the Direct Detection of Influenza RNA.
Courtney Samantha J et al. Biosensors 2021 10 (10) -
Development and evaluation of a multiplex qPCR assay for rapid diagnostics of emerging sporotrichosis.
Terra Paula Portella Della et al. Transboundary and emerging diseases 2021 10 -
Multicenter evaluation of attenuated total reflectance Fourier transform infrared (ATR-FTIR) spectroscopy-based method for rapid identification of clinically relevant yeasts.
Lam Lisa M T et al. Journal of clinical microbiology 2021 10 JCM0139821
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So Many Diagnostic Tests, So Little Time: Review and Preview of Candida auris Testing in Clinical and Public Health Laboratories.
Emily K Dennis et al. Front Microbiol 2021 10 757835 -
Development of a novel real-time polymerase chain reaction assay for the sensitive detection of Schistosoma japonicum in human stool.
Halili Sara et al. PLoS neglected tropical diseases 2021 10 (10) e0009877
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
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Pneumococcal pneumonia among shipyard workers: Inside the features of disease onset.
Cassir Nadim et al. Travel medicine and infectious disease 2021 10 102183 -
Investigation of Bacterial Infections Among Patients Treated With Umbilical Cord Blood-Derived Products Marketed as Stem Cell Therapies.
Kathleen P Hartnett et al. JAMA Netw Open 2021 10 (10) e2128615
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Genomic Analysis of a Hospital-Associated Outbreak of Mycobacterium abscessus: Implications on Transmission.
Davidson Rebecca M et al. Journal of clinical microbiology 2021 10 JCM0154721 -
Salmonella Illness Outbreaks linked to Backyard Poultry Purchasing during the COVID-19 Pandemic - United States, 2020.
Nichols Megin et al. Epidemiology and infection 2021 10 1-10
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A small number of early introductions seeded widespread transmission of SARS-CoV-2 in Quebec, Canada
Murall CL, et al. Genome Med, Oct 28, 2021. -
Genomic epidemiology and the role of international and regional travel in the SARS-CoV-2 epidemic in Zimbabwe: a retrospective study of routinely collected surveillance data.
Mashe Tapfumanei et al. The Lancet. Global health 2021 10 -
Genomic Epidemiology of SARS-CoV-2 in Pakistan.
Song Shuhui et al. Genomics, proteomics & bioinformatics 2021 10 -
Detection and Response to an HIV Cluster: People Living Homeless and Using Drugs in Seattle, Washington.
Susan E Buskin et al. Am J Prev Med 2021 10 (5 Suppl 1) S160-S169
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Response to a Large HIV Outbreak, Cabell County, West Virginia, 2018-2019.
R Paul McClung et al. Am J Prev Med 2021 10 (5 Suppl 1) S143-S150
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HIV Cluster and Outbreak Detection and Response: The Science and Experience.
Oster Alexandra M et al. American journal of preventive medicine 2021 10 (5S1) S130-S142
ANTIMICROBIALS / VACCINES / INTERVENTIONS
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Adverse Effects after BNT162b2 Vaccine and SARS-CoV-2 Infection, According to Age and Sex.
Dagan Noa et al. The New England journal of medicine 2021 10
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Waning Immunity after the BNT162b2 Vaccine in Israel.
Goldberg Yair et al. The New England journal of medicine 2021 10
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Effectiveness of Covid-19 Vaccines in the United States Over 9 Months: Surveillance Data from the State of North Carolina
Lin D, et al. medRxiv, Oct 26, 2021. -
Immunogenicity and efficacy of heterologous ChadOx1/BNT162b2 vaccination.
Pozzetto Bruno et al. Nature 2021 10
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Molecular surveillance and genetic divergence of rotavirus A antigenic epitopes in Gabonese children with acute gastroenteritis.
Manouana Gédéon Prince et al. EBioMedicine 2021 10 103648
HOST-MICROBE INTERACTIONS
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A new paradigm for leprosy diagnosis based on host gene expression.
Leal-Calvo Thyago et al. PLoS pathogens 2021 10 (10) e1009972 -
Genome-wide association studies reveal the role of polymorphisms affecting factor H binding protein expression in host invasion by Neisseria meningitidis.
Earle Sarah G et al. PLoS pathogens 2021 10 (10) e1009992 -
Blood Transcriptomes of Anti-SARS-CoV-2 Antibody-Positive Healthy Individuals Who Experienced Asymptomatic Versus Clinical Infection.
Sfikakis Petros P et al. Frontiers in immunology 2021 10 746203 -
Identification of driver genes for critical forms of COVID-19 in a deeply phenotyped young patient cohort
Carapito R, et al. Sci Transl Med, Oct 26, 2021.
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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