Advanced Molecular Detection Clips Content (Published on 04/28/2022)
NEWS
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COVID is spreading in deer. What does that mean for the pandemic?
Mallapaty S. Nature, Apr 26, 2022. -
Experts fear U.S. may default to annual Covid boosters without sufficient data
Branswell H. STAT, Apr 26, 2022. -
China reports first human case of H3N8 bird flu
Patton D. Reuters, Apr 27, 2022. -
Drug-resistant fungus could be spreading from the environment to the clinic
Dall C. CIDRAP, Apr 27, 2022. -
Antibody’s Genetic Sequence Can Help Predict What Pathogens It Will Target
Technology Networks, Apr 27, 2022. -
All 5 building blocks of DNA, RNA found in meteorites from Canada, U.S., Australia
Reuters, Apr 27, 2022.
CONCEPTS / COMMENTS
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Biosecurity in an age of open science.
Smith James Andrew et al. PLoS biology 2022 4 (4) e3001600 -
Dealing with a Pandemic: Emerging Tools, Solutions, and Challenges.
Hart Corey R et al. Health security 2022 1 (2) 109-115
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Sustainability of surveillance systems for SARS-CoV-2
Adlhoch C, Gomes H. Lancet Infect Dis, Apr 22, 2022. -
Accuracy of US CDC COVID-19 Forecasting Models
Chharia A, et al. medRxiv, Apr 21, 2022,
METHODS / TOOLS
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Comparative Analysis of Short- and Long-Read Sequencing of Vancomycin-Resistant Enterococci for Application to Molecular Epidemiology.
Oh Sujin et al. Frontiers in cellular and infection microbiology 2022 4 857801
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MALVIRUS: an integrated application for viral variant analysis.
Ciccolella Simone et al. BMC bioinformatics 2022 4 (Suppl 15) 625 -
AutoCoV: tracking the early spread of COVID-19 in terms of the spatial and temporal patterns from embedding space by K-mer based deep learning.
Sung Inyoung et al. BMC bioinformatics 2022 4 (Suppl 3) 149 -
COVID-19 GPH: tracking the contribution of genomics and precision health to the COVID-19 pandemic response.
Yu Wei et al. BMC infectious diseases 2022 4 (1) 402 -
A Sequence Obfuscation Method for Protecting Personal Genomic Privacy
Wan S, Wang J. Front Genet, Apr 13, 2022. -
A Platform for Data-centric, Continuous Epidemiological Analyses
Coelho FC, et al. medRxiv, Apr 22, 2022.
EVOLUTION / ECOLOGY / POPULATIONS
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Gene evolutionary trajectories in Mycobacterium tuberculosis reveal temporal signs of selection.
Chiner-Oms Álvaro et al. Proceedings of the National Academy of Sciences of the United States of America 2022 4 (17) e2113600119 -
Prophage-mediated genome differentiation of the Salmonella Derby ST71 population.
Yu Jinyan et al. Microbial genomics 2022 4 (4) -
Recent Genetic Changes Affecting Enterohemorrhagic Escherichia coli Causing Recurrent Outbreaks.
Cherry Joshua L et al. Microbiology spectrum 2022 4 e0050122 -
Mycobacterium bovis and M. caprae in Bulgaria: insight into transmission and phylogeography gained through whole-genome sequencing.
Valcheva Violeta et al. BMC veterinary research 2022 4 (1) 148 -
Understanding the Genetic Diversity of Mycobacterium africanum Using Phylogenetics and Population Genomics Approaches www.frontiersin.orgMuthukumar Balamurug
Balamurugan M, et al. Front Genet, Apr 13, 2022. -
Global spatial dynamics and vaccine-induced fitness changes of Bordetella pertussis.
Lefrancq Noémie et al. Science translational medicine 2022 4 (642) eabn3253
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Evidence for local and international spread of Mycobacterium avium subspecies paratuberculosis through whole genome sequencing of isolates from the island of Ireland.
Perets Viktor et al. Veterinary microbiology 2022 4 109416 -
Phylogenetic and phylodynamic approaches to understanding and combating the early SARS-CoV-2 pandemic.
Attwood Stephen W et al. Nature reviews. Genetics 2022 4 1-16
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Importation of SARS-CoV-2 omicron variant in beijing, china.
Li Fu et al. Biosafety and health 2022 4 -
SARS-CoV-2 epidemic in Brazil: how variants displacement have driven distinct epidemic waves.
Alcantara Luiz Carlos Junior et al. Virus research 2022 4 198785 -
High vaccination coverage slows down genetic diversity of SARS-CoV-2.
Liu Yuqi et al. The Journal of infection 2022 4 -
Epidemiology and Genomic Characterization of Two Novel SARS-Related Coronaviruses in Horseshoe Bats from Guangdong, China.
Li Linmiao et al. mBio 2022 4 e0046322 -
Genetics of Japanese H5N8 high pathogenicity avian influenza viruses isolated in winter 2020-2021 and their genetic relationship with avian influenza viruses in Siberia.
Mine Junki et al. Transboundary and emerging diseases 2022 4 -
Prevalence and persistence of HPV-16 molecular variants in the anal canal of men: The HIM study.
Gonçalves Milena Giulia et al. Journal of clinical virology : the official publication of the Pan American Society for Clinical Virology 2022 3 105128
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
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Transmission, distribution and drug resistance-conferring mutations of extensively drug-resistant tuberculosis in the Western Cape Province, South Africa.
Oostvogels Selien et al. Microbial genomics 2022 4 (4) -
Persistent Hepatitis B Viraemia with Polymerase Mutations among HIV/HBV Co-Infected Patients on HBV-Active ART in KwaZulu-Natal, South Africa.
Msomi Nokukhanya et al. Viruses 2022 4 (4) -
Epidemiologic, Clinical, and Genetic Characteristics of Human Infections with Influenza A(H5N6) Viruses, China
Zhu W, et al. Emerg Infect Dis, Apr 27, 2022. -
Population genomics confirms acquisition of drug-resistant Aspergillus fumigatus infection by humans from the environment.
Rhodes Johanna et al. Nature microbiology 2022 4
DETECTION / DIAGNOSIS
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A Novel Loop-Mediated Isothermal Amplification Assay for Rapid Detection of Yersinia pestis.
Bai Ying et al. Frontiers in microbiology 2022 4 863142
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Multi-site implementation of whole genome sequencing for hospital infection control: A prospective genomic epidemiological analysis.
Sherry Norelle L et al. The Lancet regional health. Western Pacific 2022 4 100446
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Amplicon-Based Next-Generation Sequencing as a Diagnostic Tool for the Detection of Phylotypes of Cutibacterium acnes in Orthopedic Implant-Associated Infections.
Ponraj Diana Salomi et al. Frontiers in microbiology 2022 4 866893 -
Molecular Surveillance and Prediction of Antimicrobial Resistance of Neisseria gonorrhoeae in Northern Alberta, Canada, 2015 to 2018.
Pilkie Daralynn et al. Sexually transmitted diseases 2022 1 (5) 377-382
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Systems biology approach to functionally assess the Clostridioides difficile pangenome reveals genetic diversity with discriminatory power.
Norsigian Charles J et al. Proceedings of the National Academy of Sciences of the United States of America 2022 4 (18) e2119396119 -
Toward smart diagnosis of pandemic infectious diseases using wastewater-based epidemiology.
Mahmoudi Tohid et al. Trends in analytical chemistry : TRAC 2022 4 116635 -
Comparison of performance of MALDI-TOF MS and MLST for biotyping carbapenemase-producing Klebsiella pneumoniae sequence types ST11 and ST101 isolates.
Pena Irene et al. Enfermedades infecciosas y microbiologia clinica (English ed.) 2022 4 (4) 172-178 -
Detection of SARS-CoV-2 B.1.351 (Beta) Variant through Wastewater Surveillance before Case Detection in a Community, Oregon, USA
Sutton M, et al. Emerg Infect Dis, Apr 22, 2022. -
Genome Profiling of SARS-CoV-2 in Indonesia, ASEAN and the Neighbouring East Asian Countries: Features, Challenges and Achievements.
Cahyani Inswasti et al. Viruses 2022 4 (4) -
A Simple and Universal Nucleic Acid Assay Platform Based on Personal Glucose Meter Using SARS-CoV-2 N Gene as the Model.
Li Tian et al. Biosensors 2022 4 (4) -
The displacement of the SARS-CoV-2 variant Delta with Omicron: An investigation of hospital admissions and upper respiratory viral loads.
Fall Amary et al. EBioMedicine 2022 4 104008 -
Use of wastewater surveillance for early detection of Alpha and Epsilon SARS-CoV-2 variants of concern and estimation of overall COVID-19 infection burden.
Vo Van et al. The Science of the total environment 2022 4 155410 -
Identification of SARS-CoV-2 variants using viral sequencing for the Centers for Disease Control and Prevention genomic surveillance program.
Goswami Chirayu et al. BMC infectious diseases 2022 4 (1) 404 -
Direct Comparison of RT-ddPCR and Targeted Amplicon Sequencing for SARS-CoV-2 Mutation Monitoring in Wastewater
Lou E, et al. SSRN, Apr 25, 2022. -
Regional replacement of SARS-CoV-2 variant BA.1 with BA.2 as observed through wastewater surveillance
Boehm AB, et al. medRxiv, Apr 25, 2022. -
Molecular diagnostics of SARS-CoV-2: Findings of an international survey.
Vacaflores Salinas Aldo et al. Clinica chimica acta; international journal of clinical chemistry 2022 4 237-242 -
A barcoding pipeline for mosquito surveillance in Nepal, a biodiverse dengue-endemic country.
Hartke Juliane et al. Parasites & vectors 2022 4 (1) 145
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
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A fatal outbreak of neonatal sepsis caused by mcr-10 carrying Enterobacter kobei in a tertiary care hospital in Nepal.
Manandhar Sulochana et al. The Journal of hospital infection 2022 4
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Outbreak of MRSA in a Gynecology/Obstetrics Department during the COVID-19 Pandemic: A Cautionary Tale.
Möllers Mareike et al. Microorganisms 2022 4 (4)
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Invasive Group A Streptococcus Outbreaks Associated with Home Healthcare, England, 2018-2019.
Nabarro Laura E et al. Emerging infectious diseases 2022 4 (5)
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An Approach to Quantifying the Interaction between Behavioral and Transmission Clusters.
Salazar-Vizcaya Luisa et al. Viruses 2022 4 (4) -
Characterizing tuberculosis transmission dynamics in high-burden urban and rural settings.
Smith Jonathan P et al. Scientific reports 2022 4 (1) 6780
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Household Transmission and Symptomology of SARS-CoV-2 Alpha Variant Among Children-California and Colorado, 2021.
Waltenburg Michelle A et al. The Journal of pediatrics 2022 4 -
Generation time of the alpha and delta SARS-CoV-2 variants: an epidemiological analysis.
Hart William S et al. The Lancet. Infectious diseases 2022 2 (5) 603-610 -
Beyond HIV outbreaks: protocol, rationale and implementation of a prospective study quantifying the benefit of incorporating viral sequence clustering analysis into routine public health interventions.
Steingrimsson Jon A et al. BMJ open 2022 4 (4) e060184
HOST-MICROBE INTERACTIONS
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Higher-order microbiome interactions and how to find them.
Ludington William B et al. Trends in microbiology 2022 4 -
Multi-omic analysis reveals enriched pathways associated with COVID-19 and COVID-19 severity.
Lipman Danika et al. PloS one 2022 4 (4) e0267047 -
Increased Memory B Cell Potency and Breadth After a SARS-CoV-2 mRNA Boost
Mueksch F, et al. Nature, Apr 21, 2022.
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:Oct 1, 2023
- Page last updated:Nov 16, 2023
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