Advanced Molecular Detection Clips Content (Published on 03/31/2022)
NEWS
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We Study Virus Evolution. Here's Where We Think the Coronavirus Is Going
Cobey S, et al. New York Times, Mar 28, 2022. -
Dozens of unidentified bat species likely live in Asia--and could host new viruses
Mallapaty S. Nature, Mar 29, 2022. -
Into the Wild: Animals the Latest Frontier in COVID Fight
Ungar L. AP News, Mar 30, 2022. -
Global SARS-CoV-2 Surveillance, Sequence Reporting Varies Between Countries, Study Finds
GenomeWeb, Mar 28, 2022. -
A C.D.C. airport surveillance program found the earliest known U.S. cases of Omicron subvariants.
Anthes E. New York Times, Mar 24, 2022. -
Genome data gaps could stymie search for next COVID variant
Mallapaty S. Nature, Mar 29, 2022. -
COVID vaccines: head-to-head comparison reveals how they stack up
Waltz E. Nature, Mar 29, 2022. -
A new wave and a new booster?
(blog post) Topol E. Ground Truths, Mar 29, 2022. -
The quest to prevent MS--and understand other post-viral diseases
Mullard A. Nature, Mar 30, 2022. -
Sequencing Leads to Diagnoses in Significant Subset of Immune Conditions in NIAID Program
Anderson A. GenomeWeb, Mar 28, 2022.
EVENTS / TRAINING / WEB RESOURCES
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GPAS: Uniting global data to reach global solutions
(website) Global Pathogen Analysis System, 2022. -
CDC at the Crossroads
(webinar) Harvard Chan School of Public Health, April 5, 12:00-1:00 pm. -
Applied Research in Public Health Genomics at the Centers for Disease Control and Prevention
(webinar) Office of Genomics and Precision Public Health, CDC, May 26, 2022. -
PLOS Pathogens announces a refreshed journal scope statement.
Clancy E. PLoS, Feb 28, 2022.
CONCEPTS / COMMENTS
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Tracing the origins of antibiotic resistance.
Vandenbroucke-Grauls Christina M J E et al. Nature medicine 2022 3 -
A new challenge for data analytics: transposons.
Wellinger Ralf E et al. BioData mining 2022 3 (1) 9 -
Effective surveillance of variants.
Kucharski Adam J et al. Science (New York, N.Y.) 2022 3 (6587) 1349-1350
METHODS / TOOLS
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Computational Tools for the Analysis of Uncultivated Phage Genomes.
Andrade-Martínez Juan Sebastián et al. Microbiology and molecular biology reviews : MMBR 2022 3 e0000421 -
PowerBacGWAS: a computational pipeline to perform power calculations for bacterial genome-wide association studies.
Coll Francesc et al. Communications biology 2022 3 (1) 266 -
Ten simple rules for making a software tool workflow-ready.
Brack Paul et al. PLoS computational biology 2022 3 (3) e1009823 -
Ten simple rules for finding and selecting R packages.
Wendt Caroline J et al. PLoS computational biology 2022 3 (3) e1009884 -
Recombination patterns in coronaviruses.
Müller Nicola F et al. bioRxiv : the preprint server for biology 2021 5 -
Reverse genetics systems for SARS-CoV-2.
Wang Wenhao et al. Journal of medical virology 2022 3 -
Long-Read Sequencing and Hybrid Assembly for Genomic Analysis of Clinical Brucella melitensis Isolates.
Craddock Hillary A et al. Microorganisms 2022 3 (3)
EVOLUTION / ECOLOGY / POPULATIONS
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Genome Sequence of Escherichia coli Isolated from an Adult in Kibera, an Urban Informal Settlement in Nairobi, Kenya.
Kikwai Gilbert K et al. Microbiology resource announcements 2022 3 e0124121 -
Whole genome sequence analysis of Salmonella Typhi in Papua New Guinea reveals an established population of genotype 2.1.7 sensitive to antimicrobials.
Dyson Zoe Anne et al. PLoS neglected tropical diseases 2022 3 (3) e0010306 -
Rapid and parallel adaptive mutations in spike S1 drive clade success in SARS-CoV-2
Kistler KE, et al. Cell Host Microbe, Mar 22, 2022. -
Monitoring of the SARS-CoV-2 Omicron BA.1/BA.2 variant transition in the Swedish population reveals higher viral quantity in BA.2 cases
Lentini A, et al. medRxiv, Mar 27, 2022. -
The dynamics of circulating SARS-CoV-2 lineages in Bogor and surrounding areas reflect variant shifting during the first and second waves of COVID-19 in Indonesia.
Prasetyoputri Anggia et al. PeerJ 2022 3 e13132 -
Molecular Epidemiology of SARS-CoV-2 in Tunisia (North Africa) through Several Successive Waves of COVID-19.
Chouikha Anissa et al. Viruses 2022 3 (3) -
West Nile Virus Lineage 2 Spreads Westwards in Europe and Overwinters in North-Eastern Spain (2017-2020).
Aguilera-Sepúlveda Pilar et al. Viruses 2022 3 (3) -
Molecular characterization of chikungunya virus from the first cluster of patients during the 2020 outbreak in Chad.
Yonga Martial Gide et al. Archives of virology 2022 3 -
Persistence of an epidemic cluster of Rhodotorula mucilaginosa in multiple geographic regions in China and the emergence of a 5-flucytosine resistant clone.
Huang Jing-Jing et al. Emerging microbes & infections 2022 3 1-37 -
Cryptosporidium felis differs from other Cryptosporidium spp. in codon usage.
Li Jiayu et al. Microbial genomics 2021 12 (12) -
The Phylodynamic and Spread of the Invasive Asian Malaria Vectors, Anopheles stephensi, in Sudan.
Abubakr Mustafa et al. Biology 2022 3 (3)
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
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Global Distribution of mcr Gene Variants in 214K Metagenomic Samples.
Martiny Hannah-Marie et al. mSystems 2022 3 e0010522 -
Genomic Surveillance of Vancomycin-Resistant Enterococcus faecium Reveals Spread of a Linear Plasmid Conferring a Nutrient Utilization Advantage.
Boumasmoud Mathilde et al. mBio 2022 3 e0377121 -
Whole genome sequencing and molecular epidemiology of pediatric Staphylococcus aureus bacteremia.
Campbell Anita J et al. Journal of global antimicrobial resistance 2022 3 -
Genome wide association study of Escherichia coli bloodstream infection isolates identifies genetic determinants for the portal of entry but not fatal outcome.
Denamur Erick et al. PLoS genetics 2022 3 (3) e1010112 -
Genomics of human and chicken Salmonella isolates in Senegal: Broilers as a source of antimicrobial resistance and potentially invasive nontyphoidal salmonellosis infections.
Dieye Yakhya et al. PloS one 2022 3 (3) e0266025 -
Genomic Profiling of Antibiotic-Resistant Escherichia coli Isolates from Surface Water of Agricultural Drainage in North-Western Mexico: Detection of the International High-Risk Lineages ST410 and ST617.
Magaña-Lizárraga José Antonio et al. Microorganisms 2022 3 (3) -
Inconsistent directions of change in case severity across successive SARS-CoV-2 variant waves suggests an unpredictable future
Pascall DJ, et al. medRxiv, Mar 27, 2022. -
Association of Persistent Rubella Virus With Idiopathic Skin Granulomas in Clinically Immunocompetent Adults.
Wanat Karolyn A et al. JAMA dermatology 2022 3 -
Drug Sensitivity of Vaccine-Derived Rubella Viruses and Quasispecies Evolution in Granulomatous Lesions of Two Ataxia-Telangiectasia Patients Treated with Nitazoxanide.
Faisthalab Raeesa et al. Pathogens (Basel, Switzerland) 2022 3 (3) -
Epstein-Barr Virus in Burkitt Lymphoma in Africa Reveals a Limited Set of Whole Genome and LMP-1 Sequence Patterns: Analysis of Archival Datasets and Field Samples From Uganda, Tanzania, and Kenya.
Liao Hsiao-Mei et al. Frontiers in oncology 2022 3 812224
DETECTION / DIAGNOSIS
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Detection of Mixed Populations of Clarithromycin-Susceptible and -Resistant Mycobacterium abscessus Strains.
Shallom Shamira J et al. Journal of clinical microbiology 2022 3 e0169421 -
PulseNet International Survey on the Implementation of Whole Genome Sequencing in Low and Middle-Income Countries for Foodborne Disease Surveillance.
Davedow Taylor et al. Foodborne pathogens and disease 2022 3 -
Enhancing meningococcal genomic surveillance in the meningitis belt using high-resolution culture-free whole genome sequencing.
Itsko Mark et al. The Journal of infectious diseases 2022 3 -
Reliability of Genetic Alterations in Predicting Ceftriaxone Resistance in Neisseria gonorrhoeae Globally.
Lin Eric Yu et al. Microbiology spectrum 2022 3 e0206521 -
Microfluidics-Based Biosensing Platforms: Emerging Frontiers in Point-of-Care Testing SARS-CoV-2 and Seroprevalence.
Flores-Contreras Elda A et al. Biosensors 2022 3 (3) -
An Upgrade on the Surveillance System of SARS-CoV-2: Deployment of New Methods for Genetic Inspection.
Muñoz-Valle José Francisco et al. International journal of molecular sciences 2022 3 (6) -
VALCOR: a protocol for the validation of SARS-corona virus-2 assays.
Arbyn Marc et al. Archives of public health = Archives belges de sante publique 2022 3 (1) 98 -
Global landscape of SARS-CoV-2 genomic surveillance and data sharing.
Chen Zhiyuan et al. Nature genetics 2022 3 -
Estimating Relative Abundance of 2 SARS-CoV-2 Variants through Wastewater Surveillance at 2 Large Metropolitan Sites, United States.
Yu Alexander T et al. Emerging infectious diseases 2022 3 (5) -
Concurrent outbreaks of circulating vaccine-derived poliovirus types 1 and 2 affecting the Republic of the Philippines and Malaysia, 2019-2021.
Snider Cynthia J et al. Vaccine 2022 3
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
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Mycobacterium tuberculosis transmission in Birmingham, UK, 2009-19: An observational study.
Walker Timothy M et al. The Lancet regional health. Europe 2022 3 100361 -
In-Flight Transmission of a SARS-CoV-2 Lineage B.1.617.2 Harbouring the Rare S:E484Q Immune Escape Mutation.
Martinell Mats et al. Viruses 2022 3 (3) -
Genomic epidemiology reveals the impact of national and international restrictions measures on the SARS-CoV-2 epidemic in Brazil
Giovanetti M, et al. medRxiv, Mar 28, 2022. -
On the Origin and Propagation of the COVID-19 Outbreak in the Italian Province of Trento, a Tourist Region of Northern Italy.
Bianco Luca et al. Viruses 2022 3 (3) -
Identification of Genetically Related HCV Infections Among Self-Described Injecting Partnerships.
Tully Damien C et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2021 8 (6) 993-1003 -
Investigation into a Superspreading Event of the German 2020-2021 Avian Influenza Epidemic.
Denzin Nicolai et al. Pathogens (Basel, Switzerland) 2022 3 (3)
ANTIMICROBIALS / VACCINES / INTERVENTIONS
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COVID-19 Vaccine Effectiveness against the Omicron BA.2 variant in England
Kirsebom FC, et al. medRxiv, Mar 24, 2022. -
Relative Effectiveness of Four Doses Compared to Three Dose of the BNT162b2 Vaccine in Israel
Gazit S, et al. medRxiv, Mar 24, 2022. -
BNT162b2 Protection against the Omicron Variant in Children and Adolescents.
Price Ashley M et al. The New England journal of medicine 2022 3
HOST-MICROBE INTERACTIONS
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Coronavirus Host Genetics South Africa (COHG-SA) database-a variant database for gene regions associated with SARS-CoV-2 outcomes
Barmania F, et al. Euro J Hum Genet, Mar 29, 2022. -
RNAseq analysis reveals prominent and distinct expressed variants that are related to disease severity in SARS-CoV-2 infected patients with mild-to-severe disease
Okendo J, Okanda D. medRxiv, Mar 27, 2022. -
COVID-19: impact on Public Health and hypothesis-driven investigations on genetic susceptibility and severity.
David Susana et al. Immunogenetics 2022 3 -
Identification of Genetic Risk Factors of Severe COVID-19 Using Extensive Phenotypic Data: A Proof-of-Concept Study in a Cohort of Russian Patients.
Shcherbak Sergey G et al. Genes 2022 3 (3) -
HIV-1 infections with multiple founders associate with the development of neutralization breadth.
Lewitus Eric et al. PLoS pathogens 2022 3 (3) e1010369
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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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- Page last updated:Sep 5, 2024