Publication Date: Apr 30, 2020
Advanced Molecular Detection Clips Content
NEWS
- From the Freezer
GenomeWeb, Apr 29, 2020. - Broad Institute Researchers Develop Viral Detection Platform Based on Microfluidics, CRISPR Tech
Rizk C. GenomeWeb, Apr 29, 2020. - South Korea Experts Say Recovered Coronavirus Patients Retested Positive Because of 'Dead' Virus Parts
Czachor E. Newsweek, Apr 29, 2020. - Testing Sewage to Gauge Spread of Coronavirus
Kam K. WebMD, Apr 28, 2020. - Coronavirus Lingered in the Stool Samples of COVID-19 Patients for 22 Days, Study Shows
Gander K. Newsweek, Apr 24, 2020. - Airborne Coronavirus Detected in Wuhan Hospitals
Chang K. New York Times, Apr 28, 2020. - The race for coronavirus vaccines: a graphical guide
Callaway E. Nature, Apr 29, 2020. - In Race for a Coronavirus Vaccine, an Oxford Group Leaps Ahead
Kirkpatrick DD. New York Times, Apr 27, 2020. - Study of twins reveals genetic effect on Covid-19 symptoms
Davis N. The Guardian, Apr 27, 2020. - COVID-19 and individual risk: the role of genomics
Brice P. PHG Foundation, Apr 14, 2020. - Science Has an Ugly, Complicated Dark Side. And the Coronavirus Is Bringing It Out.
Mogensen JF. Mother Jones, Apr 28, 2020.
CONCEPTS / COMMENTS
- Community perspectives on the benefits and risks of technologically enhanced communicable disease surveillance systems: a report on four community juries.
Degeling Chris et al. BMC medical ethics 2020 Apr (1) 31 - Towards the next phase: evaluation of serological assays for diagnostics and exposure assessment.
GeurtsvanKessel CH, et al. medRxiv, Apr 29, 2020. - mSphere of Influence: Predicting Immune Responses and Susceptibility to Influenza Virus-May the Data Be with You.
Ramos Irene et al. mSphere 2020 Mar (2)
METHODS / TOOLS
- An ultraportable and versatile point-of-care DNA testing platform
Xu H, et al. Sci Adv, Apr 22, 20200. - Chaos game representation dataset of SARS-CoV-2 genome.
Barbosa Raquel de M et al. Data in brief 2020 Apr 105618 - MINERVA: A facile strategy for SARS-CoV-2 whole genome deep sequencing of clinical samples
Chen C, et al. bioRxiv, Apr 25, 2020. - Rapid, sensitive, full genome sequencing of Severe Acute Respiratory Syndrome Virus Coronavirus 2 (SARS-CoV-2)
Paden CR, et al. bioRxiv, Apr 24, 2020.
- Preliminary support for a 'dry swab, extraction free' protocol for SARS-CoV-2 testing via RT-qPCR
Srivatsan S, et al. bioRxiv, Apr 23, 2020. - Poolkeh Finds the Optimal Pooling Strategy for a Population-wide COVID-19 Testing (Israel, UK, and US as Test Cases)
Eliaz Y, et al. medRxiv, Apr 30, 2020.
EVOLUTION / ECOLOGY / POPULATIONS
- Gauging the epidemic potential of a widely circulating non-invasive meningococcal strain in Africa.
Brynildsrud Ola Brønstad et al. Microbial genomics 2019 08 (8) - The phylogenetic landscape and nosocomial spread of the multidrug-resistant opportunist Stenotrophomonas maltophilia.
Gröschel Matthias I et al. Nature communications 2020 Apr (1) 2044 - Intra-host site-specific polymorphisms of SARS-CoV-2 is consistent across multiple samples and methodologies
Rose R, et al. medRxiv, Apr 29, 2020. - Genomic Analysis and Comparative Multiple Sequence of SARS-CoV2.
Chang Tai-Jay et al. Journal of the Chinese Medical Association : JCMA 2020 Apr - Distinct Viral Clades of SARS-CoV-2: Implications for Modeling of Viral Spread.
Brufsky Adam et al. Journal of medical virology 2020 Apr - A Genomic Perspective on the Origin and Emergence of SARS-CoV-2.
Zhang Yong-Zhen et al. Cell 2020 Apr (2) 223-227 - Characterization of intra-host SARS-CoV-2 variants improves phylogenomic reconstruction and may reveal functionally convergent mutations
Ramazzotti D, et al. bioRxiv, Apr 26, 2020. - Introductions and early spread of SARS-CoV-2 in France
Gambaro F, et al. bioRxiv, Apr 24, 2020. - Evolution and molecular characteristics of SARS-CoV-2 genome
Bai Y, et al. bioRxiv, Apr 24, 2020. - Emerging SARS-CoV-2 mutation hot spots include a novel RNA-dependent-RNA polymerase variant.
Pachetti Maria et al. Journal of translational medicine 2020 04 (1) 179 - Genomics of Indian SARS-CoV-2: Implications in genetic diversity, possible origin and spread of virus
Somasundaram K, et al. medRxiv, Apr 29, 2020. - Tracing the Evolutionary History and Global Expansion of Candida auris Using Population Genomic Analyses.
Chow Nancy A et al. mBio 2020 Apr (2)
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
- Two multi-fragment recombination events resulted in the β-lactam-resistant serotype 11A-ST6521 related to Spain9V-ST156 pneumococcal clone spreading in south-western Europe, 2008 to 2016.
González-Díaz Aida et al. Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin 2020 Apr (16)
- Niche specialization and spread of Staphylococcus capitis involved in neonatal sepsis.
Wirth Thierry et al. Nature microbiology 2020 May (5) 735-745 - The Architecture of SARS-CoV-2 Transcriptome.
Kim Dongwan et al. Cell 2020 Apr - Functional and Genetic Analysis of Viral Receptor ACE2 Orthologs Reveals Broad Potential Host Range of SARS-CoV-2
Liu Y, et al. bioRxiv, Apr 27, 2020. - Viral load dynamics and disease severity in patients infected with SARS-CoV-2 in Zhejiang province, China, January-March 2020: retrospective cohort study.
Zheng Shufa et al. BMJ (Clinical research ed.) 2020 04 m1443 - Phenotypic effects of substitutions within the receptor binding site of highly pathogenic avian influenza H5N1 observed during human infection.
Eggink Dirk et al. Journal of virology 2020 Apr
DETECTION / DIAGNOSIS
- Comprehensive Laboratory Evaluation of a Specific Lateral Flow Assay for the Presumptive Identification of Francisella tularensis in Suspicious White Powders and Aerosol Samples.
Pillai Segaran P et al. Health security (2) 83-95 - Conserved CRISPR arrays in Salmonella enterica serovar Infantis can serve as qPCR targets to detect Infantis in mixed serovar populations.
Richards Amber K et al. Letters in applied microbiology 2020 Apr - Systematic Evaluation of Whole Genome Sequence-Based Predictions of Salmonella Serotype and Antimicrobial Resistance.
Cooper Ashley L et al. Frontiers in microbiology 2020 549 - Massively multiplexed nucleic acid detection using Cas13
Ackerman CM, et al. Nature, Apr 29, 2020. - Antimicrobial Peptides as Probes in Biosensors Detecting Whole Bacteria: A Review.
Pardoux Éric et al. Molecules (Basel, Switzerland) 2020 Apr (8) - Novel biosensor platforms for the detection of coronavirus infection and SARS-CoV-2.
Liang Kung-Hao et al. Journal of the Chinese Medical Association : JCMA 2020 Apr - Machine learning using intrinsic genomic signatures for rapid classification of novel pathogens: COVID-19 case study.
Randhawa Gurjit S et al. PloS one 2020 (4) e0232391 - Comparison of Four Molecular In Vitro Diagnostic Assays for the Detection of SARS-CoV-2 in Nasopharyngeal Specimens.
Zhen Wei et al. Journal of clinical microbiology 2020 Apr - Improved Molecular Diagnosis of COVID-19 by the Novel, Highly Sensitive and Specific COVID-19-RdRp/Hel Real-Time Reverse Transcription-PCR Assay Validated In Vitro and with Clinical Specimens.
Chan Jasper Fuk-Woo et al. Journal of clinical microbiology 2020 04 (5) - Metropolitan Wastewater Analysis for COVID-19 Epidemiological Surveillance
Randazzo W, et al. medRxiv, Apr 27, 2020. - SARS-CoV-2 On-the-Spot Virus Detection Directly From Patients
Ben-Assa N, et al. medRxiv, Apr 27. 2020. - A rapid, low cost, and highly sensitive SARS-CoV-2 diagnostic based on whole genome sequencing
St. Hilaire BG, et al. bioRxiv, Apr 25, 2020. - Rapid SARS-CoV-2 whole genome sequencing for informed public health decision making in the Netherlands
Munnink BB, et al. bioRxiv, Apr 25, 2020. - Aerodynamic analysis of SARS-CoV-2 in two Wuhan hospitals.
Liu Yuan et al. Nature 2020 Apr - Development of a Novel, Genome Subtraction-Derived, SARS-CoV-2-Specific COVID-19-nsp2 Real-Time RT-PCR Assay and Its Evaluation Using Clinical Specimens.
Yip Cyril Chik-Yan et al. International journal of molecular sciences 2020 Apr (7) - Real-time polymerase chain reaction based algorithm for differential diagnosis of Kinetoplastidean species of zoonotic relevance.
Muñoz-Calderón Arturo et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2020 Apr 104328
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
- Presymptomatic SARS-CoV-2 Infections and Transmission in a Skilled Nursing Facility.
Arons Melissa M et al. The New England journal of medicine 2020 Apr - Outbreaks of adenovirus-associated respiratory illness on five college campuses in the United States.
Kujawski Stephanie A et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2020 Apr
ANTIMICROBIALS / VACCINES / INTERVENTIONS
- Self-amplifying RNA SARS-CoV-2 lipid nanoparticle vaccine induces equivalent preclinical antibody titers and viral neutralization to recovered COVID-19 patients
McKay PF, et al. bioRxiv, Apr 25, 2020. - Theoretical risk of genetic reassortment should not impede development of live, attenuated Rift Valley fever (RVF) vaccines commentary on the draft WHO RVF Target Product Profile.
Monath Thomas P et al. Vaccine: X 2020 Aug 100060
HOST-MICROBE INTERACTIONS
- Longitudinal changes in the nasopharyngeal resistome of South African infants using shotgun metagenomic sequencing.
Manenzhe Rendani I et al. PloS one 2020 (4) e0231887 - A large population-based investigation into the genetics of susceptibility to gastrointestinal infections and the link between gastrointestinal infections and mental illness.
Nudel Ron et al. Human genetics 2020 May (5) 593-604 - Complementing 16S rRNA Gene Amplicon Sequencing with Total Bacterial Load To Infer Absolute Species Concentrations in the Vaginal Microbiome.
Tettamanti Boshier Florencia A et al. mSystems 2020 Apr (2) - Gut microbiota features on nursing home admission are associated with subsequent acquisition of antibiotic resistant organism colonization
Wang J, et al. medRxiv, Apr 29, 2020. - Gut microbiota may underlie the predisposition of healthy individuals to COVID-19
Gou W, et al. medRxiv, Apr 25, 2020. - ACE2 polymorphisms and individual susceptibility to SARS-CoV-2 infection: insights from an in silico study
Calcagnile M, et al. bioRxiv, Apr 24, 2020. - Genetic analysis of the novel SARS-CoV-2 host receptor TMPRSS2 in different populations.
Russo R, et al. bioRxiv, Apr 24, 2020.
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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