Publication Date: Sep 10, 2020
Advanced Molecular Detection Clips Content
NEWS
- The coronavirus is mutating - does it matter?
Callaway E. Nature, Sep 8, 2020. - Coronavirus reinfections: three questions scientists are asking
Ledford H. Nature, Sep 4, 2020. - As Flu Season Nears, Dx Companies Shift Attention to Multiplex Tests for SARS-CoV-2, Influenza
O'Connor L. GenomeWeb, Sep 8, 2020. - COVID-19 and mRNA Vaccines - First Large Test for a New Approach
Abbasi J. JAMA, Sep 3, 2020.
CONCEPTS / COMMENTS
- A molecular trap against COVID-19.
DeKosky Brandon J et al. Science (New York, N.Y.) 2020 Sep (6508) 1167-1168 - Covid-19 Molecular Diagnostic Testing - Lessons Learned.
Shuren Jeffrey et al. The New England journal of medicine 2020 Sep
METHODS / TOOLS
- Impact of DNA extraction on whole genome sequencing analysis for characterization and relatedness of Shiga toxin-producing Escherichia coli isolates.
Nouws Stéphanie et al. Scientific reports 2020 Sep (1) 14649
- A blueprint for academic labs to produce SARS-CoV-2 RT-qPCR test kits
Masuch SJ, et al. medRxiv, Sep 1, 2020. - Improvements to the ARTIC multiplex PCR method for SARS-CoV-2 genome sequencing using nanopore
Tyson JR, et al. bioRxiv, Sep 4, 2020. - Rapid isolation and profiling of a diverse panel of human monoclonal antibodies targeting the SARS-CoV-2 spike protein.
Zost Seth J et al. Nature medicine 2020 Jul - The coding capacity of SARS-CoV-2.
Finkel Yaara et al. Nature 2020 Sep - Ultra-sensitive Serial Profiling of SARS-CoV-2 Antigens and Antibodies in Plasma to Understand Disease Progression in COVID-19 Patients with Severe Disease.
Ogata Alana F et al. Clinical chemistry 2020 Sep - Inferring transmission heterogeneity using virus genealogies: Estimation and targeted prevention.
Zhang Yunjun et al. PLoS computational biology 2020 Sep (9) e1008122 - Integrating genotypes and phenotypes improves long-term forecasts of seasonal influenza A/H3N2 evolution.
Huddleston John et al. eLife 2020 Sep
EVOLUTION / ECOLOGY / POPULATIONS
- Yersinia pestis strains from Latvia show depletion of the pla virulence gene at the end of the second plague pandemic.
Susat Julian et al. Scientific reports 2020 Sep (1) 14628 - Draft Genome Sequences of 81 Salmonella enterica Strains from Informal Markets in Cambodia.
Schwan Carla L et al. Microbiology resource announcements 2020 Sep (36) - Mutational Analysis of SARS-CoV-2 Genome in African Population
Omotoso OE, et al. bioRxiv, Sep 7, 2020. - Genomic diversity and evolution of coronavirus (SARS-CoV-2) in France from 309 COVID-19-infected patients
Levasseur A, et al. bioRxiv, Sep 4, 2020. - Possibility for reverse zoonotic transmission of SARS-CoV-2 to free-ranging wildlife: A case study of bats.
Olival Kevin J et al. PLoS pathogens 2020 09 (9) e1008758 - Quantitative phylogenomic evidence reveals a spatially structured SARS-CoV-2 diversity.
Jones Leandro R et al. Virology 2020 Aug 70-77 - Excavating new facts from ancient Hepatitis B virus sequences.
Datta Sibnarayan et al. Virology 2020 Aug 89-99 - Phlebovirus sequences detected in ticks collected in Russia: Novel phleboviruses, distinguish criteria and high tick specificity.
Klimentov Alexander S et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2020 Sep 104524
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
- Emergence of Resistance to Fluoroquinolones and Third-Generation Cephalosporins in Salmonella Typhi in Lahore, Pakistan.
Rasheed Farhan et al. Microorganisms 2020 Sep (9) - Mobile colistin resistance gene mcr-1 is detected on an IncI1 plasmid in E. coli from meat.
Brouwer Michael S M et al. Journal of global antimicrobial resistance 2020 Sep - Bacterial and host determinants of cough aerosol culture positivity in patients with drug-resistant versus drug-susceptible tuberculosis.
Theron Grant et al. Nature medicine 2020 Jun - Profile and generation of reduced neuraminidase inhibitor susceptibility in highly pathogenic avian influenza H7N9 virus from human cases in Mainland of China, 2016-2019.
Tang Jing et al. Virology 2020 Aug 77-84 - Variation around the dominant viral genome sequence contributes to viral load and outcome in patients with Ebola virus disease.
Dong Xiaofeng et al. Genome biology 2020 Sep (1) 238
DETECTION / DIAGNOSIS
- Targeted metagenomics for clinical detection and discovery of bacterial tickborne pathogens.
Kingry Luke et al. Journal of clinical microbiology 2020 Sep - Respiratory bacterial pathogen spectrum among COVID-19 infected and non-COVID-19 virus infected pneumonia patients
He F, et al. Diagn Microbiol Infect Dis, Sep 3, 2020. - Artificial Intelligence-Assisted Loop Mediated Isothermal Amplification (AI-LAMP) for Rapid Detection of SARS-CoV-2.
Rohaim Mohammed A et al. Viruses 2020 09 (9) - SARS-CoV-2 RNA in plasma is associated with ICU admission and mortality in patients hospitalized with COVID-19.
Prebensen Christian et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2020 Sep - Symptomatic SARS-CoV-2 reinfection by a phylogenetically distinct strain.
Van Elslande Jan et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2020 Sep - Assessing oligonucleotide designs from early lab developed PCR diagnostic tests for SARS-CoV-2 using the PCR_strainer pipeline.
Kuchinski Kevin S et al. Journal of clinical virology : the official publication of the Pan American Society for Clinical Virology 2020 Aug 104581 - De novo virus inference and host prediction from metagenome using CRISPR spacers
Sugimoto R, et al. bioRxiv, Sep 4, 2020.
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
- Phylogenetic relationships investigation of Mycobacterium caprae strains from sympatric wild boar and goats based on whole genome sequencing.
Ciaravino Giovanna et al. Transboundary and emerging diseases 2020 Sep - Large waterborne Campylobacter outbreak: use of multiple approaches to investigate contamination of the drinking water supply system, Norway, June 2019.
Hyllestad Susanne et al. Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin 2020 Sep (35) - Genomic analysis reveals local transmission of SARS-CoV-2 in early pandemic phase in Peru
Padilla-Rojas C, et al. bioRxiv, Sep 6, 2020. - SARS-CoV-2 phylogeny during the early outbreak in the Basel area, Switzerland: import and spread dominated by a single B.1 lineage variant (C15324T)
Stange M, et al. medRxiv, Sep 5, 2020. - An Early Pandemic Analysis of SARS-CoV-2 Population Structure and Dynamics in Arizona.
Ladner Jason T et al. mBio 2020 09 (5) - Jumping back and forth: anthropozoonotic and zoonotic transmission of SARS-CoV-2 on mink farms
Munnink BB, et al. bioRxiv, Sep 1, 2020. - Molecular epidemiology to understand the SARS-COV-2 emergence in the Brazilian Amazon region
dos Santos MC, et al. medRxiv, Sep 7, 2020. - The emergence of SARS-CoV-2 in Europe and North America
Worobey M, et al. Science, Sep 10, 2020. - Cryptic transmission of SARS-CoV-2 in Washington state
Bedford T, et al. Science, Sep 10, 2020. - Fatal multiple outbreaks of equine influenza H3N8 in Nigeria, 2019: The first introduction of Florida clade 1 to West Africa.
Shittu Ismaila et al. Veterinary microbiology 2020 Aug 108820 - Establishing Best Practices in a Response to an HIV Cluster: An Example from a Surge Response in West Virginia.
Quilter Laura et al. Sexually transmitted diseases 2020 Sep - Exportation of Monkeypox virus from the African continent.
Mauldin Matthew R et al. The Journal of infectious diseases 2020 Sep
HOST-MICROBE INTERACTIONS
- Angiotensin-converting enzymes (ACE, ACE2) gene variants and COVID-19 outcome.
Gómez Juan et al. Gene 2020 Aug 145102 - Identification of key genes in SARS-CoV-2 patients on bioinformatics analysis
Gu H, Yuan G. bioRxiv, Sep 6, 2020. - Host genetic factors and susceptibility to SARS-CoV-2 infection.
Schurr Theodore G et al. American journal of human biology : the official journal of the Human Biology Council 2020 Sep e23497 - Global Initiative Seeks to Crack the COVID-19 Genetic Code.
et al. American journal of medical genetics. Part A 2020 Sep (9) 1998-1999 - Association of CD14 rs2569190 G/A genetic polymorphism with the severity of enterovirus 71 infection in Chinese children.
Guo Ya et al. Virology 2020 Sep 25-30
Note:
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 Public Health Genomics 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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