Advanced Molecular Detection Clips Content (Published on 02/25/2021)
NEWS
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How Deadly Is the U.K. Variant?
Walker M. MedPage Today, Feb 14, 2021. -
California's coronavirus strain looks increasingly dangerous: 'The devil is already here'
Healy M. Los Angeles Times, Feb 23, 2021. -
California coronavirus strain may be more infectious--and lethal
Wadman M. Science, Feb 23, 2021. -
Report Outlines Strategy for Surveillance of Emerging Coronavirus Variants
Stephenson J. JAMA Network, Feb 23, 2021. -
A New Coronavirus Variant Is Spreading in New York, Researchers Report
Mandavilli A. New York Times, Feb 24, 2021. -
Global 'Force' to Track Viral Variants
GenomeWeb, Feb 23, 2021. -
Superspreading drives the COVID pandemic--and could help to tame it
Lewis D. Nature, Feb 23, 2021. -
FDA says Covid vaccines that target new variants won't need large clinical trials to win approval
Lovelace Jr B. CNBC, Feb 22, 2021. -
Moderna ready to test version of Covid-19 vaccine aimed at worrisome variant
Garde D, Herper M. STAT, Feb 24, 2021.
POLICY
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COVID-19 Update: USDA, FDA Underscore Current Epidemiologic and Scientific Information Indicating No Transmission of COVID-19 Through Food or Food Packaging
USDA and FDA, Feb 18, 2021. -
Staying Ahead of the Variants: Policy Recommendations to Identify and Manage Current and Future Variants of Concern
(report) Johns Hopkins Center for Health Security. Feb 2021.
CONCEPTS / COMMENTS
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Emerging infections and the integrative environment-health sciences: the road ahead.
Fisher Matthew C et al. Nature reviews. Microbiology 2021 Jan -
A universal coronavirus vaccine.
Koff Wayne C et al. Science (New York, N.Y.) 2021 Feb (6531) 759 -
Insights from SARS-CoV-2 sequences.
Martin Michael A et al. Science (New York, N.Y.) 2021 01 (6528) 466-467 -
The Recombination Potential between SARS-CoV-2 and MERS-CoV from Cross-Species Spill-over Infections.
Sajini Abdulrahim A et al. Journal of epidemiology and global health 2021 2 -
Ten simple rules for getting started with command-line bioinformatics.
Brandies Parice A et al. PLoS computational biology 2021 2 (2) e1008645
METHODS / TOOLS
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Whole-genome Sequencing of SARS-CoV-2: Using Phylogeny and Structural Modeling to Contextualize Local Viral Evolution.
Nazario-Toole Ashley E et al. Military medicine 2021 Feb
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SARS-CoV-2 lineage B.1.526 emerging in the New York region detected by software utility created to query the spike mutational landscape
West Jr AP, et al. bioRxiv, Feb 23, 2021. -
Detecting SARS-CoV-2 variants with SNP genotyping.
Harper Helen et al. PloS one 2021 2 (2) e0243185 -
Data Analysis Strategies for Microbiome Studies in Human Populations-a Systematic Review of Current Practice.
Kleine Bardenhorst Sven et al. mSystems 2021 2 (1)
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Microbiome Metadata Standards: Report of the National Microbiome Data Collaborative's Workshop and Follow-On Activities
Vangay P, et al. mSystems, Feb 23, 2021.
EVOLUTION / ECOLOGY / POPULATIONS
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Molecular characterization of invasive serogroup B Neisseria meningitidis isolates from Spain during 2015-2018: evolution of the vaccine antigen factor H binding protein (FHbp).
Abad Raquel et al. The Journal of infection 2021 Feb -
Evolution and circulation of Yersinia pestis in the Northern Caspian and Northern Aral Sea regions in the 20th-21st centuries.
Eroshenko Galina A et al. PloS one 2021 2 (2) e0244615 -
Genomic diversity of Salmonella enterica - The UoWUCC 10K genomes project
Achtman Mark et al. Wellcome open research 2021 2 223 -
Population Biology and Comparative Genomics of Campylobacter Species.
Epping Lennard et al. Current topics in microbiology and immunology 2021 2 59-78 -
SARS-CoV-2 variant evolution in the United States: High accumulation of viral mutations over time likely through serial Founder Events and mutational bursts
Tasakis RN, et al. bioRxiv, Feb 19, 2021. -
Predicting the zoonotic capacity of mammal species for SARS-CoV-2.
Fischhoff Ilya R et al. bioRxiv : the preprint server for biology 2021 2 -
Acquisition of the L452R mutation in the ACE2-binding interface of Spike protein triggers recent massive expansion of SARS-Cov-2 variants
Tchesnokova V, et al. bioRxiv, Feb 22, 2021. -
One Year of SARS-CoV-2 Evolution
Wu A, et al. Cell Host Microbe, Feb 19, 2021. -
Characterizing SARS-CoV-2 genome diversity circulating in South American countries: signatures of potentially emergent lineages?
Munoz M, et al. Int J Infect Dis, Feb 20, 2021. -
Comparative genomics reveals early emergence and biased spatio-temporal distribution of SARS-CoV-2.
Chiara Matteo et al. Molecular biology and evolution 2021 2 -
Role of mutational reversions and fitness restoration in Zika virus spread to the Americas.
Liu Jianying et al. Nature communications 2021 1 (1) 595 -
Population bottlenecks and founder effects: implications for mosquito-borne arboviral emergence.
Weaver Scott C et al. Nature reviews. Microbiology 2021 1 (3) 184-195 -
A machine-learning approach to map landscape connectivity in Aedes aegypti with genetic and environmental data
Pless E, et al. PNAS March 2, 2021 118 (9) e2003201118
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
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Genomic analysis of the diversity, antimicrobial resistance and virulence potential of clinical Campylobacter jejuni and Campylobacter coli strains from Chile.
Bravo Veronica et al. PLoS neglected tropical diseases 2021 Feb (2) e0009207 -
Phylogeny, recombination, and invasiveness of group B Streptococcus revealed by genomic comparisons of its global strains.
Lin Enze et al. European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology 2020 10 (3) 581-590 -
Genomic Evidence of SARS-CoV-2 Reinfection Involving E484K Spike Mutation, Brazil
Nonaka CK, et al. Emerg Infect Dis, Feb 19, 2021. -
Genomic Evidence of SARS-CoV-2 Reinfection Involving E484K Spike Mutation, Brazil.
Nonaka Carolina K V et al. Emerging infectious diseases 2021 2 (5) -
Evidence that a naturally occurring single nucleotide polymorphism in the RagC gene of Leishmania donovani contributes to reduced virulence.
Lypaczewski Patrick et al. PLoS neglected tropical diseases 2021 2 (2) e0009079
DETECTION / DIAGNOSIS
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Machine learning for microbial identification and antimicrobial susceptibility testing on MALDI-TOF mass spectra: a systematic review.
Weis C V et al. Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases 2020 Oct (10) 1310-1317
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Progress Report: Next-Generation Sequencing (NGS), Multiplex Polymerase Chain Reaction (PCR), and Broad-Range Molecular Assays as Diagnostic Tools for Fever of Unknown Origin (FUO) Investigations in Adults.
Wright William F et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2021 Feb -
A real-time multiplex PCR assay for detection of the causative agents of rat bite fever, Streptobacillus moniliformis and zoonoticStreptobacillus species.
Kelly Aubree J et al. Diagnostic microbiology and infectious disease 2021 2 (2) 115335
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Could mutations of SARS-CoV-2 suppress diagnostic detection?
Ascoli Carl A et al. Nature biotechnology 2021 2 -
Next-generation diagnostics: virus capture facilitates a sensitive viral diagnosis for epizootic and zoonotic pathogens including SARS-CoV-2.
Wylezich Claudia et al. Microbiome 2021 2 (1) 51 -
Clinical and Laboratory Findings in Patients with Potential SARS-CoV-2 Reinfection, May-July 2020.
Lee James T et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2021 2 -
High throughput detection and genetic epidemiology of SARS-CoV-2 using COVIDSeq next-generation sequencing.
Bhoyar Rahul C et al. PloS one 2021 2 (2) e0247115 -
Wastewater Monitoring of SARS-CoV-2 from Acute Care Hospitals Identifies Nosocomial Transmission and Outbreaks
Acosta N, et al. medRxiv, Feb 23, 2021. -
Methodological Approach for Wastewater Based Epidemiological Studies for SARS-CoV-2
Kopperi H, et al. medRxiv, Feb 22, 2021. -
An allele-specific primer extension assay to quantify the proportion of B.1.1.7-specific SARS-CoV-2 RNA in wastewater
Graber TE, et al. medRxiv, Feb 23, 2021. -
Rapid SARS-CoV-2 variants spread detected in France using specific RT-PCR testing
Haim-Boukobza S, et al. medRxiv, Feb 23, 2021. -
Endemic chikungunya fever in Kenyan children: a prospective cohort study.
Nyamwaya Doris K et al. BMC infectious diseases 2021 2 (1) 186 -
Human infection with Seoul orthohantavirus in Korea, 2019.
Kang Changmin et al. PLoS neglected tropical diseases 2021 2 (2) e0009168
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Genomic investigation of atypical malaria cases in Kanel, northern Senegal.
Sy Mouhamad et al. Malaria journal 2021 2 (1) 103
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From 18S to 28S rRNA Gene: An Improved Targeted Sarcocystidae PCR Amplification, Species Identification with Long DNA Sequences.
Lee Florence C H et al. The American journal of tropical medicine and hygiene 2021 2 -
Molecular diagnosis of scabies using a novel probe-based polymerase chain reaction assay targeting high-copy number repetitive sequences in the Sarcoptes scabiei genome.
Chng Lena et al. PLoS neglected tropical diseases 2021 2 (2) e0009149
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
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An outbreak investigation of Legionella non- pneumophila Legionnaires' disease in Sweden, April to August 2018: Gardening and use of commercial bagged soil associated with infections.
Löf Emma et al. Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin 2021 Feb (7)
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Genomic surveillance, characterization and intervention of a polymicrobial multidrug-resistant outbreak in critical care.
Roberts Leah W et al. Microbial genomics 2021 Feb
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Estimating the spreading and dominance of SARS-CoV-2 VOC 202012/01 (lineage B.1.1.7) across Europe
Gozzi N, et al. medRxiv, Feb 23, 2021. -
Early pandemic molecular diversity of SARS-CoV-2 in children.
Moustafa Ahmed M et al. medRxiv : the preprint server for health sciences 2021 2 -
Early introductions and community transmission of SARS-CoV-2 variant B.1.1.7 in the United States.
Tara Alpert et al. medRxiv 2021 2 -
Viral genetic sequencing identifies staff transmission of COVID-19 is important in a community hospital outbreak
Masoli J, et al. medRxiv, Feb 19, 2021. -
Characterization of acute HCV infection and transmission networks in people who currently inject drugs in Catalonia: usefulness of dried blood spots.
Antuori A et al. Hepatology (Baltimore, Md.) 2021 2
ANTIMICROBIALS / VACCINES / INTERVENTIONS
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Extensive drug resistance during low-level HIV viraemia while taking NNRTI-based ART supports lowering the viral load threshold for regimen switch in resource-limited settings: a pre-planned analysis from the SESOTHO trial.
Brown Jennifer Anne et al. The Journal of antimicrobial chemotherapy 2021 Feb
HOST-MICROBE INTERACTIONS
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Molecular features similarities between SARS-CoV-2, SARS, MERS and key human genes could favour the viral infections and trigger collateral effects.
Maldonado Lucas L et al. Scientific reports 2021 Feb (1) 4108 -
A genomic region associated with protection against severe COVID-19 is inherited from Neandertals.
Zeberg Hugo et al. Proceedings of the National Academy of Sciences of the United States of America 2021 2 (9)
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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- Page last updated:Jan 16, 2025