Advanced Molecular Detection Clips Content (Published on 12/29/2020)
NEWS
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The science events to watch for in 2021
Else H. Nature, Dec 22, 2020. -
How will labs use expanded molecular testing capacities post-COVID-19?
Bonislawski A. Modern Healthcare, Dec 21, 2020. -
U.S. ranks 43rd worldwide in sequencing to check for coronavirus variants like the one found in the U.K.
Stevens H, Berger M. Washington Post, Dec 23, 2020. -
Virtual Agents of Change: How Computers Are Mapping Covid-19's Future
Holmes B. Medscape, Dec 16, 2020. -
HHS Diagnostic Design Competition for COVID-19 Announces Winners
360dx, Dec 18, 2020. -
Flushing out the coronavirus: Universities, cities and states are testing wastewater for the virus
Wiggins O. Washington Post, Dec 25, 2020. -
Mutant coronavirus in the United Kingdom sets off alarms, but its importance remains unclear
Kupferschmidt K. Science, Dec 20, 2020. -
Coronavirus Variant Is Indeed More Transmissible, New Study Suggests
Zimmer C, Carey B. New York Times, Dec 23, 2020. -
Multiple countries report UK SARS-CoV-2 variant cases
Schnirring L. CIDRAP, Dec 28, 2020. -
FDA Encourages Off-Label Use of Authorized COVID-19 Tests for Asymptomatic Results
Johnson M. 360dx, Dec 16, 2020. -
NIH devising study on rare allergic reactions to coronavirus vaccine
Achenbach J. Washington Post, Dec 21, 2020. -
The lightning-fast quest for COVID vaccines -- and what it means for other diseases
Ball P.b Nature, Dec 18, 2020. -
Neanderthal gene found in many people may open cells to coronavirus and increase COVID-19 severity
Gibbons A. Science, Dec 18, 2020.
EVENTS / TRAINING / WEB RESOURCES
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Microbiology Spectrum
(new journal announcement) ASM, Spring 2021. -
Analyzing the vast coronavirus literature with CoronaCentral
Lever J, Altman RB. bioRxiv, Dec 22, 2020.
CONCEPTS / COMMENTS
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A Crisp(r) New Perspective on SARS-CoV-2 Biology.
Bailey Adam L et al. Cell 2020 Dec -
mRNA's next challenge: Will it work as a drug?
Servick Kelly et al. Science (New York, N.Y.) 2020 Dec (6523) 1388-1389 -
Reinfection with SARS-CoV-2: Implications for Vaccines.
Cohen Jeffrey I et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2020 Dec -
The Importance and Challenges of Identifying SARS-CoV-2 Reinfections.
Babiker Ahmed et al. Journal of clinical microbiology 2020 Dec
METHODS / TOOLS
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HAPHPIPE: Haplotype Reconstruction and Phylodynamics for Deep Sequencing of Intra-Host Viral Populations.
Bendall Matthew L et al. Molecular biology and evolution 2020 Dec -
Read trimming has minimal effect on bacterial SNP-calling accuracy.
Bush Stephen J et al. Microbial genomics 2020 Dec (12) -
Direct RNA nanopore sequencing of SARS-CoV-2 extracted from critical material from swabs
Vacca D, et al. medRxiv, Dec 23, 2020. -
Coronavirus GenBrowser for monitoring adaptive evolution and transmission of SARS-CoV-2
Yu D, et al. medRxiv, Dec 24, 2020.
EVOLUTION / ECOLOGY / POPULATIONS
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Salmonella enterica serovar Typhi H58 clone has been endemic in Zimbabwe from 2012 to 2019.
Mashe Tapfumanei et al. The Journal of antimicrobial chemotherapy 2020 Dec -
Stepwise evolution of Salmonella Typhimurium ST313 causing bloodstream infection in Africa.
Pulford Caisey V et al. Nature microbiology 2020 Dec -
Molecular insights into meningococcal carriage isolates from Burkina Faso 7 years after introduction of a serogroup A meningococcal conjugate vaccine.
Topaz Nadav et al. Microbial genomics 2020 Dec (12) -
Genomic recombination events may reveal the evolution of coronavirus and the origin of SARS-CoV-2.
Zhu Zhenglin et al. Scientific reports 2020 12 (1) 21617 -
Early empirical assessment of the N501Y mutant strains of SARS-CoV-2 in the United Kingdom, October to November 2020
Leung K, et al. medRxiv, Dec 23, 2020. -
Phylogenetic supertree reveals detailed evolution of SARS-CoV-2
Li T, et al. Sci Rep, Dec 22, 2020. -
Potentially adaptive SARS-CoV-2 mutations discovered with novel spatiotemporal and explainable AI models
Jacobson D, et al. Genome Biol, 2020 Dec 23;21(1):304. -
Genomic diversity of SARS-CoV-2 can be accelerated by a mutation in the nsp14 gene
Takada K, et al. bioRxiv, Dec 26, 2020. -
An investig-ation into the epidemiology of chikungunya virus across neglected regions of Indonesia.
Stubbs Samuel C B et al. PLoS neglected tropical diseases 2020 Dec (12) e0008934 -
A novel circulating tamiami mammarenavirus shows potential for zoonotic spillover.
Moreno Hector et al. PLoS neglected tropical diseases 2020 Dec (12) e0009004 -
Comparative genomics revealed adaptive admixture in Cryptosporidium hominis in Africa.
Tichkule Swapnil et al. Microbial genomics 2020 Dec -
Genetic diversity of Trypanosoma cruzi parasites infecting dogs in southern Louisiana sheds light on parasite transmission cycles and serological diagnostic performance.
Eric Dumonteil et al. PLoS Negl Trop Dis 2020 12 (12) e0008932 -
Molecular confirmation of Dicrocoelium dendriticum in the Himalayan ranges of Pakistan.
Khan Muhammad Asim et al. Parasitology international 2020 Dec 102276
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
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A Systematic Review of Mutations Associated with Isoniazid Resistance Points to Continuing Evolution and Subsequent Evasion of Molecular Detection, and Potential for Emergence of Multidrug Resistance in Clinical Strains of Mycobacterium tuberculosis .
Valafar Siavash J et al. Antimicrobial agents and chemotherapy 2020 Dec -
Emergence and dissemination of three mild outbreaks of Neisseria gonorrhoeae with high-level resistance to azithromycin in Barcelona, 2016-18.
Salmerón P et al. The Journal of antimicrobial chemotherapy 2020 Dec -
Carriage and Gene Content Variability of the pESI-Like Plasmid Associated with Salmonella Infantis Recently Established in United States Poultry Production.
McMillan Elizabeth A et al. Genes 2020 Dec (12) -
Convergent evolution of diverse Bacillus anthracis outbreak strains toward altered surface oligosaccharides that modulate anthrax pathogenesis.
Norris Michael H et al. PLoS biology 2020 Dec (12) e3001052 -
Genome-based characterization of Escherichia coli causing bloodstream infection through next-generation sequencing.
Paramita Rafika Indah et al. PloS one 2020 (12) e0244358 -
Cross-border emergence of Escherichia coli producing the carbapenemase NDM-5 in Switzerland and Germany.
Chakraborty Trinad et al. Journal of clinical microbiology 2020 Dec -
Daptomycin treatment impacts resistance in off-target populations of vancomycin-resistant Enterococcus faecium.
Kinnear Clare L et al. PLoS biology 2020 Dec (12) e3000987 -
Estimated transmissibility and severity of novel SARS-CoV-2 Variant of Concern 202012/01 in England
Davies NG, et al. medRxiv, Dec 26, 2020. -
Distinct polymorphisms in a single herpesvirus gene are capable of enhancing virulence and mediating vaccinal resistance.
Conradie Andelé M et al. PLoS pathogens 2020 Dec (12) e1009104
DETECTION / DIAGNOSIS
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A global proficiency testing programme for Xpert® MTB/RIF using dried tube specimens, 2013-2015.
Klein Katherine et al. African journal of laboratory medicine 2020 (1) 1167 -
Determining the serotype composition of mixed samples of pneumococcus using whole-genome sequencing.
Knight James R et al. Microbial genomics 2020 Dec -
Engineered CRISPR/Cas12a Enables Rapid SARS-CoV-2 Detection
Nguyen LT, et al. medRxiv, Dec 24, 2020. -
Assessment of multiplex digital droplet RT-PCR as a diagnostic tool for SARS-CoV-2 detection in nasopharyngeal swabs and saliva samples.
Cassinari Kévin et al. Clinical chemistry 2020 Dec -
Human Calicivirus Typing tool: A web-based tool for genotyping human norovirus and sapovirus sequences.
Tatusov Roman L et al. Journal of clinical virology : the official publication of the Pan American Society for Clinical Virology 2020 Dec 104718 -
Multiple SNPs detection for antimalarial pyrimethamine resistance via allele-specific PCR coupled with gold nanoparticles-based lateral flow biosensor.
Jiang Tingting et al. Antimicrobial agents and chemotherapy 2020 Dec
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
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Outbreak of Pseudomonas aeruginosa Infections from a Contaminated Gastroscope Detected by Whole Genome Sequencing Surveillance.
Sundermann Alexander J et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2020 Dec -
Handwashing Sink Contamination and Carbapenem-resistant Klebsiella Infection in the Intensive Care Unit: A Prospective Multicenter Study.
Qiao Fu et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2020 Dec (Supplement_4) S379-S385 -
Unexpected Mycoplasma hominis infection in two renal transplant recipients traced back to the same donor by whole-genome sequencing.
Hinic V et al. European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology 2020 Dec -
Molecular epidemiology of COVID-19 in Oman: a molecular and surveillance study for the early transmission of COVID-19 in the country.
Al-Mahruqi Samira et al. International journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases 2020 Dec -
Genomic Epidemiology of the First Wave of SARS-CoV-2 in Italy.
Di Giallonardo Francesca et al. Viruses 2020 12 (12) -
Recurrent emergence and transmission of a SARS-CoV-2 Spike deletion delta-H69/V70
Kemp S, et al. bioRxiv, Dec 21, 2020. -
Genomic epidemiology reveals multiple introductions of SARS-CoV-2 from mainland Europe into Scotland.
da Silva Filipe Ana et al. Nature microbiology 2021 Jan (1) 112-122 -
Using longitudinally sampled viral nucleotide sequences to characterize the drivers of HIV-1 transmission.
Reichmuth M L et al. HIV medicine 2020 Dec -
Sorting by Race/Ethnicity Across HIV Genetic Transmission Networks in Three Major Metropolitan Areas in the United States.
Manon Ragonnet-Cronin et al. AIDS Res Hum Retroviruses 2020 12 (10) 784-792 -
Transmitted HIV-1 drug resistance in a large international cohort using next-generation sequencing: results from the Strategic Timing of Antiretroviral Treatment (START) study.
Baxter J D et al. HIV medicine 2020 Dec
ANTIMICROBIALS / VACCINES / INTERVENTIONS
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A comprehensive screening of the whole proteome of hantavirus and designing a multi-epitope subunit vaccine for cross-protection against hantavirus: Structural vaccinology and immunoinformatics study.
Abdulla Faruq et al. Microbial pathogenesis 2020 Dec 104705
HOST-MICROBE INTERACTIONS
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These Are the Genes You're Looking For: Finding Host Resistance Genes.
Bourgeois Jeffrey S et al. Trends in microbiology 2020 Sep -
Common variants at 21q22.3 locus influence MX1 gene expression and
susceptibility to severe COVID-19
Andolfo I, et al. medRxiv, Dec 20, 2020. -
HLA-C* 04:01 is a Genetic Risk Allele for Severe Course of COVID-19
Weiner J. medRxiv, Dec 24, 2020. -
Ethnic and age-specific acute lung injury/acute respiratory distress syndrome risk associated with angiotensin-converting enzyme insertion/deletion polymorphisms, implications for COVID-19: A meta-analysis.
Pabalan Noel et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2020 Dec 104682 -
Patterns of within-host genetic diversity in SARS-CoV-2
Tonkin-Hill G, et al. bioRxiv, Dec 25, 2020. -
Mutational signatures and heterogeneous host response revealed via large-scale characterization of SARS-CoV-2 genomic diversity
Graudenzi A, et al. bioRxiv, Dec 28, 2020. -
Genetic Association of Interleukin-6 Polymorphism (rs1800796) with Chronic Hepatitis B Virus Infection in Chinese Han Population.
Li Mengmeng et al. Viral immunology 2020 Dec -
Genetic association study of interferon lambda 3, CD27, and human leukocyte antigen-DPB1 with dengue severity in Thailand.
Arayasongsak Unchana et al. BMC infectious diseases 2020 Dec (1) 948 -
Association of variants in IL1B, TLR9, TREM1, IL10RA, and CD3G and Native American ancestry on malaria susceptibility in Colombian populations.
Mario-Vásquez Jorge Eliécer et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2020 Dec 104675 -
Flexibility of Gut Microbiota in Ageing Individuals during Dietary Fiber Long-chain Inulin Intake.
Kiewiet M B G et al. Molecular nutrition & food research 2020 Dec e2000390
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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