Advanced Molecular Detection Clips Content (Published on 05/21/2020)
NEWS
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CRISPR tool scales up to interrogate a huge line-up of viral suspects
Storch GA. Nature, May 18, 2020. -
Emerging COVID-19 Viral Genome Sequencing Assays Provide Alternative to Existing Diagnostics
Karow J. GenomeWeb, May 15, 2020. -
Host Factors Influence COVID-19 Severity More Than Viral Genetic Variation, Study Finds
GenomeWeb, May 20, 2020. -
Why do some COVID-19 patients infect many others, whereas most don?t spread the virus at all?
Kupferschmidt K. Science, May 19, 2020. -
Dogs caught coronavirus from their owners, genetic analysis suggests
Mallapaty S. Nature, May 14, 2020. -
Case Study Shows Power of SARS-CoV-2 Genome Testing to Track Viral Spread, ID Strains
Rizk C. GenomeWeb, May 15, 2020. -
Coronavirus discoveries can come along faster with adaptive clinical trials
Healy M. Los Angeles Times, May 18, 2020. -
Humans Inoculated with Genetically Modified Malaria Parasites
Williams R. The Scientist, May 20, 2020.
EVENTS / TRAINING / WEB RESOURCES
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Coronavirus Test Tracker: Commercially Available COVID-19 Diagnostic Tests
(website) 360dx, updated Mayb20, 2020
POLICY
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The TRUST Principles for digital repositories.
Lin Dawei et al. Scientific data 2020 May (1) 144
CONCEPTS / COMMENTS
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Identifying and Interrupting Superspreading Events-Implications for Control of Severe Acute Respiratory Syndrome Coronavirus 2.
Frieden Thomas R et al. Emerging infectious diseases 2020 Mar (6) -
COVID-19: Understanding the science of antibody testing and lessons from the HIV epidemic
Weiss SH, Wormser GP. Diagn Microbiol Infect Dis, May 11, 2020. -
Human monkeypox - After 40 years, an unintended consequence of smallpox eradication.
Simpson Karl et al. Vaccine 2020 May
METHODS / TOOLS
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REMBRANDT: A high-throughput barcoded sequencing approach for COVID-19 screening.
Palmieri D, et al. bioRxiv, May 17, 2020. -
SARS-CoV2 (COVID-19) Structural/Evolution Dynamicome: Insights into functional evolution and human genomics.
Gupta R, et al. bioRxiv, May 15, 2020. -
A snapshot of SARS-CoV-2 genome availability up to April 2020 and its implications.
Mavian Carla et al. JMIR public health and surveillance 2020 May -
Whole Genome Sequence Analysis and Population Genomics of Group A Streptococci.
Lacey Jake A et al. Methods in molecular biology (Clifton, N.J.) 2020 81-111 -
Fast and accurate diagnostics from highly multiplexed sequencing assays
Booeshaghi AS, et al. medRxiv, May 16, 2020.
EVOLUTION / ECOLOGY / POPULATIONS
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Draft Genome Sequences of Two Extensively Drug-Resistant Strains of Acinetobacter baumannii Isolated from Clinical Samples in Pakistan.
Lomonaco Sara et al. Microbiology resource announcements 2020 May (20) -
A New Pneumococcal Capsule Type, 10D, is the 100th Serotype and Has a Large cps Fragment from an Oral Streptococcus.
Ganaie Feroze et al. mBio 2020 May (3) -
The impact of super-spreaders in COVID-19: mapping genome variation worldwide
Gomez-Carballa A, et al. bioRxiv, May 19, 2020. -
Emerging phylogenetic structure of the SARS-CoV-2 pandemic
Fountain-Jones NM, et al. May 19, 2020. -
A Novel Bat Coronavirus Closely Related to SARS-CoV-2 Contains Natural Insertions at the S1/S2 Cleavage Site of the Spike Protein.
Zhou Hong et al. Current biology : CB 2020 May -
Evolution and molecular characteristics of SARS-CoV-2 genome
Bai Y, et al. bioRxiv, May 15, 2020. -
Genomic detection of a virus lineage replacement event of dengue virus serotype 2 in Brazil, 2019.
de Jesus Jaqueline Goes et al. Memorias do Instituto Oswaldo Cruz 2020 e190423 -
The Phylogeography of MERS-CoV in Hospital Outbreak-Associated Cases Compared to Sporadic Cases in Saudi Arabia.
Chen Xin et al. Viruses 2020 May (5) -
Tracking echovirus eleven outbreaks in Guangdong, China: a metatranscriptomic, phylogenetic, and epidemiological study.
Lu Jing et al. Virus evolution 2020 Jan (1) veaa029 -
A near full-length HIV-1 genome from 1966 recovered from formalin-fixed paraffin-embedded tissue.
Gryseels Sophie et al. Proceedings of the National Academy of Sciences of the United States of America 2020 May -
High frequency of new recombinant forms in HIV-1 transmission networks demonstrated by full genome sequencing.
Hebberecht Laura et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2020 May 104365
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
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Within-patient plasmid dynamics in Klebsiella pneumoniae during an outbreak of a carbapenemase-producing Klebsiella pneumoniae.
Stohr Joep J J M et al. PloS one 2020 (5) e0233313 -
Extended-Spectrum β-Lactamase- and plasmid AmpC- producing Escherichia coli causing community-onset bloodstream infection: the association of bacterial clones and virulence genes with septic shock, source of infection and recurrencies.
Fröding Inga et al. Antimicrobial agents and chemotherapy 2020 May -
Emergence of Enteroaggregative Escherichia coli within the ST131 Lineage as a Cause of Extraintestinal Infections.
Boll Erik J et al. mBio 2020 May (3) -
Emergence of mcr-9.1 in Extended-Spectrum-β-Lactamase-Producing Clinical Enterobacteriaceae in Pretoria, South Africa: Global Evolutionary Phylogenomics, Resistome, and Mobilome.
Osei Sekyere John et al. mSystems 2020 May (3) -
Molecular Typing, Characterization of Antimicrobial Resistance, Virulence Profiling and Analysis of Whole-Genome Sequence of Clinical Klebsiella pneumoniae Isolates.
Shelenkov Andrey et al. Antibiotics (Basel, Switzerland) 2020 May (5) -
Update on Extensively Drug-Resistant Salmonella Serotype Typhi Infections Among Travelers to or from Pakistan and Report of Ceftriaxone-Resistant Salmonella Serotype Typhi Infections Among Travelers to Iraq - United States, 2018-2019.
François Watkins Louise K et al. MMWR. Morbidity and mortality weekly report 2020 5 (20) 618-622 -
Viral and host factors related to the clinical outcome of COVID-19.
Zhang Xiaonan et al. Nature 2020 May -
Mutations in TAC1B : a Novel Genetic Determinant of Clinical Fluconazole Resistance in Candida auris.
Rybak Jeffrey M et al. mBio 2020 May (3)
DETECTION / DIAGNOSIS
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Staphylococcus aureus whole genome sequence-based susceptibility and resistance prediction using a clinically amenable workflow.
Cunningham Scott A et al. Diagnostic microbiology and infectious disease 2020 Apr (3) 115060 -
Clinical application and evaluation of metagenomic next-generation sequencing in suspected adult central nervous system infection.
Zhang Yi et al. Journal of translational medicine 2020 May (1) 199 -
Highly sensitive and full-genome interrogation of SARS-CoV-2 using multiplexed PCR enrichment followed by next-generation sequencing
Li C, et al. bioRxiv, May 18, 2020. -
Rapid implementation of real-time SARS-CoV-2 sequencing to investigate healthcare-associated COVID-19 infections
Meredith LW, et al. medRxiv, May 14, 2020. -
External Quality Assessment for Next-Generation Sequencing-Based HIV Drug Resistance Testing: Unique Requirements and Challenges.
Lee Emma R et al. Viruses 2020 May (5) -
Viral metagenomics performed in patients with acute febrile syndrome during Toxoplasma gondii outbreak in south Brazil.
Bezerra Rafael Dos Santos et al. The Brazilian journal of infectious diseases : an official publication of the Brazilian Society of Infectious Diseases 2020 May
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
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Genomic Epidemiology of Invasive MRSA Infections among Hospitalized Individuals in Ontario, Canada.
Guthrie Jennifer L et al. The Journal of infectious diseases 2020 May -
Tracking the COVID-19 pandemic in Australia using genomics
Seemann T, et al. medRxiv, May 16, 2020. -
Investigation of a COVID-19 outbreak in Germany resulting from a single travel-associated primary case: a case series.
Böhmer Merle M et al. The Lancet. Infectious diseases 2020 May -
Tracing two causative SNPs reveals SARS-CoV-2 transmission in North America population
Ou X, et al. bioRxiv, May 14, 2020. -
Importation and early local transmission of COVID-19 in Brazil, 2020.
Jesus Jaqueline Goes de et al. Revista do Instituto de Medicina Tropical de Sao Paulo 2020 e30 -
Genomic Epidemiology of 2015-2016 Zika Virus Outbreak in Cape Verde
Faye O, et al. Emerg Infect Dis, June 2020.
ANTIMICROBIALS / VACCINES / INTERVENTIONS
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Development of CRISPR as an Antiviral Strategy to Combat SARS-CoV-2 and Influenza.
Abbott Timothy R et al. Cell 2020 05 (4) 865-876.e12
HOST-MICROBE INTERACTIONS
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Family-based genome-wide association study of leprosy in Vietnam.
Gzara Chaima et al. PLoS pathogens 2020 May (5) e1008565 -
Potent neutralizing antibodies against SARS-CoV-2 identified by high-throughput single-cell sequencing of convalescent patients' B cells.
Cao Yunlong et al. Cell 2020 May -
Upper airway gene expression differentiates COVID-19 from other acute respiratory illnesses and reveals suppression of innate immune responses by SARS-CoV-2
Mick E, et al. medRxiv, May 19, 2020. -
The MUC5B promotor polymorphism associates with severe COVID-19
van Moorsel CH, et al. medRxiv, May 16, 2020. -
A global effort to define the human genetics of protective immunity to SARS-CoV-2 infection.
Casanova Jean-Laurent et al. Cell 2020 May -
A comprehensive germline variant and expression analyses of ACE2, TMPRSS2 and SARS-CoV-2 activator FURIN genes from the Middle East: Combating SARS-CoV-2 with precision medicine
Al-Mulla F, et al. bioRxiv, May 16, 2020. -
Minding the gap in HIV host genetics: opportunities and challenges.
Gingras Shanelle N et al. Human genetics 2020 May -
Adaptation of H9N2 Influenza Viruses to Mammalian Hosts: A Review of Molecular Markers.
Sun Xiangjie et al. Viruses 2020 May (5) -
Screening for primary immunodeficiency diseases by next-generation sequencing in early life.
Sun Jinqiao et al. Clinical & translational immunology 2020 May (5) e1138
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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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