Publication Date: May 28, 2020
Advanced Molecular Detection Clips Content
NEWS
- Case clustering emerges as key pandemic puzzle
Kupferschmidt K. Science, May 22, 2020. - Close Genetic Relative of SARS-CoV-2 Found in Bats Offers More Evidence It Evolved Naturally
Cell Press, SciTechDaily, May 25, 2020. - Study tells "remarkable story?" about COVID-19's deadly rampage through a South African hospital
Nordling L. Science, May 25, 2020. - New research rewrites history of when Covid-19 took off in the US--and points to missed chances to stop it
Branswell H. STAT, May 26, 2020. - Wastewater testing gains traction as a Covid-19 early warning system
Begley S. STAT, May 28, 2020.
EVENTS / TRAINING / WEB RESOURCES
- COVID-19
(research projects) DARPA, May 22, 2020. - Ten simple rules for making training materials FAIR.
Garcia Leyla et al. PLoS computational biology 2020 May (5) e1007854 - TeSS: a platform for discovering life-science training opportunities.
Beard Niall et al. Bioinformatics (Oxford, England) 2020 May (10) 3290-3291 - Wastewater Monitoring for COVID-19 Disease Surveillance
(recorded panel discussion) NASEM, May 27, 2020.
POLICY
- Ten reasons why immunity passports are a bad idea.
Kofler Natalie et al. Nature 2020 May (7809) 379-381 - An ethical investigation into the microbiome: the intersection of agriculture, genetics, and the obesity epidemic.
Smith Hunter Jackson et al. Gut microbes 2020 May 1-13
CONCEPTS / COMMENTS
- What Is the Role for Algorithmics and Computational Biology in Responding to the COVID-19 Pandemic?
et al. Cell systems 2020 05 (5) 379-380 - SARS-CoV-2: Combating Coronavirus Emergence.
Graham Rachel L et al. Immunity 2020 05 (5) 734-736 - Antimicrobial resistance in the age of COVID-19
(editorial) Nat Microbiol, May 20, 2020. - Asymptomatic Transmission, the Achilles Heel of Current Strategies to Control Covid-19
Gandhi M, et al. New Engl J Med, May 28, 2020. - Balancing Expediency and Scientific Rigor in SARS-CoV-2 Vaccine Development.
Graepel Kevin W et al. The Journal of infectious diseases 2020 May - Host genetics may provide some answers to COVID-19, but only with the right questions
(blog post) Duggal P, Wojcik G. Medium.com, May 26, 2020. - Preprinting a pandemic: the role of preprints in the COVID-19 pandemic
Fraser N, et al. bioRxiv, May 23, 2020.
METHODS / TOOLS
- New solutions to capture and enrich bacteria from complex samples.
Sande Maria G et al. Medical microbiology and immunology 2020 Jun (3) 335-341 - VADR: validation and annotation of virus sequence submissions to GenBank.
Schäffer Alejandro A et al. BMC bioinformatics 2020 May (1) 211 - A ten-year China-US laboratory collaboration: improving response to influenza threats in China and the world, 2004-2014.
Shu Yuelong et al. BMC public health 2019 May (Suppl 3) 520
- BBMRI-ERIC's contributions to research and knowledge exchange on COVID-19.
Holub Petr et al. European journal of human genetics : EJHG 2020 May
EVOLUTION / ECOLOGY / POPULATIONS
- Extended ORF8 Gene Region Is Valuable in the Epidemiological Investigation of SARS-similar Coronavirus.
Chen Shuaiyin et al. The Journal of infectious diseases 2020 May - Spread dynamics of SARS-CoV-2 epidemic in China: a phylogenetic analysis
Guohu H, et al. medRxiv, May 25, 2020. - Genomic surveillance of SARS-CoV-2 in Thailand reveals mixed imported populations, a local lineage expansion and a virus with truncated ORF7a
Batty EM, et al. medRxiv, May 25, 2020. - Isolation and Full-Length Genome Characterization of SARS-CoV-2 from COVID-19 Cases in Northern Italy.
Licastro Danilo et al. Journal of virology 2020 05 (11) - No evidence for increased transmissibility from recurrent mutations in SARS-CoV-2
van Dorp L, et al. bioRxiv, May 21, 2020. - SARS-CoV-2 Phylogenetic Analysis, Lazio Region, Italy, February-March 2020
Bartolini B, et al. Emerg Infect Dis, 2020; 26(8). - Controlling the SARS-CoV-2 outbreak, insights from large scale whole genome sequences generated across the world
Phelan J, et al. bioRxiv, May 26, 2020. - SARS-CoV-2 genome evolution exposes early human adaptations
Wright ES, et al. bioRxiv, May 26, 2020. - An outbreak of Japanese encephalitis caused by genotype Ib Japanese encephalitis virus in China, 2018: A laboratory and field investigation.
Liu Wenjing et al. PLoS neglected tropical diseases 2020 May (5) e0008312 - Analysis of the reiteration regions (R1 to R5) of varicella-zoster virus.
Jensen Nancy J et al. Virology 2020 Jul 38-50 - Origin of 3 Rabid Terrestrial Animals in Raccoon Rabies Virus-Free Zone, Long Island, New York, USA, 2016-2017.
Brunt Scott et al. Emerging infectious diseases 2020 Jun (6) 1315-1319 - Multiple arboviral infections during a DENV-2 outbreak in Solomon Islands.
Darcy Andrew Waleluma et al. Tropical medicine and health 2020 33 - Lineage-specific expansion of Plasmodium falciparum parasites with pfhrp2 deletion in the Greater Mekong Subregion.
Gibbons Justin et al. The Journal of infectious diseases 2020 May
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
- Molecular epidemiology of imipenem resistance in invasive Haemophilus influenzae infections in Germany in 2016.
Lâm Thiên-Trí et al. The Journal of antimicrobial chemotherapy 2020 May - Cross-border spread of bla NDM-1 - and bla OXA-48 -positive Klebsiella pneumoniae : a European collaborative analysis of whole genome sequencing and epidemiological data, 2014 to 2019.
Ludden Catherine et al. Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin 2020 May (20) - SARS-CoV-2 Reverse Genetics Reveals a Variable Infection Gradient in the Respiratory Tract
Hou YJ, et al. Cell, May 26, 2020. - Investigating the genomic landscape of novel coronavirus (2019-nCoV) to identify non-synonymous mutations for use in diagnosis and drug design.
Tiwari Manish et al. Journal of clinical virology : the official publication of the Pan American Society for Clinical Virology 2020 May 104441 - Stability of RNA sequences derived from the coronavirus genome in human cells.
Wakida Hiroyasu et al. Biochemical and biophysical research communications 2020 May - Increased Pathogenicity and Virulence of Virus in Middle East Respiratory Syndrome Coronavirus Clade B in Vitro and in Vivo .
Wang Yanqun et al. Journal of virology 2020 May - Recreation of in-host acquired single nucleotide polymorphisms by CRISPR-Cas9 reveals an uncharacterised gene playing a role in Aspergillus fumigatus azole resistance via a non-cyp51A mediated resistance mechanism.
Ballard Eloise et al. Fungal genetics and biology : FG & B 2019 09 98-106
DETECTION / DIAGNOSIS
- Comprehensive Laboratory Evaluation of a Lateral Flow Assay for the Detection of Yersinia pestis .
Prentice Kristin W et al. Health security (6) 439-453 - Multilevel genome typing: genomics-guided scalable resolution typing of microbial pathogens.
Payne Michael et al. Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin 2020 May (20) - RISK6, a 6-gene transcriptomic signature of TB disease risk, diagnosis and treatment response.
Penn-Nicholson Adam et al. Scientific reports 2020 May (1) 8629 - Novel PCR exclusion assay to detect spotted fever group rickettsiae in the lone star tick (Amblyomma americanum).
Lydy Shari L et al. Ticks and tick-borne diseases 2020 Apr 101453 - Light Forge: A Microfluidic DNA Melting-based Tuberculosis Test.
Mbano Ian M et al. The journal of applied laboratory medicine 2020 May (3) 440-453 - Predicting infectious SARS-CoV-2 from diagnostic samples.
Bullard Jared et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2020 May - To Interpret the SARS-CoV-2 Test, Consider the Cycle Threshold Value.
Tom Michael R et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2020 May - Molecular and serological assays for SARS-CoV-2: insights from genome and clinical characteristics.
Shi Jiping et al. Clinical chemistry 2020 May - Predictive molecular pathology in the time of COVID-19.
Malapelle Umberto et al. Journal of clinical pathology 2020 May - Ion torrent-based nasopharyngeal swab metatranscriptomics in COVID-19.
Campos Gubio S et al. Journal of virological methods 2020 May 113888 - A Reverse-Transcription Recombinase-Aided Amplification Assay for Rapid Detection of the 2019 Novel Coronavirus (SARS-CoV-2).
Xue Guanhua et al. Analytical chemistry 2020 May - Real-time PCR-based SARS-CoV-2 detection in Canadian laboratories.
LeBlanc Jason J et al. Journal of clinical virology : the official publication of the Pan American Society for Clinical Virology 2020 May 104433 - Molecular Detection of SARS-CoV-2 Infection in FFPE Samples and Histopathologic Findings in Fatal SARS-CoV-2 Cases.
Sekulic Miroslav et al. American journal of clinical pathology 2020 May - SARS-CoV-2 RNA detected in blood samples from patients with COVID-19 is not associated with infectious virus
Andersson M, et al. medRxiv, May 26, 2020. - Molecular characterization of non-polio enteroviruses isolated from children with acute flaccid paralysis in IRAN, 2015-2018.
Nejati Ahmad et al. Virus genes 2020 May - Community-acquired viral respiratory infections amongst hospitalized inpatients during a COVID-19 outbreak in Singapore: co-infection and clinical outcomes.
Wee Liang En et al. Journal of clinical virology : the official publication of the Pan American Society for Clinical Virology 2020 May 104436 - External Quality Assessment Program for Next-Generation Sequencing-Based HIV Drug Resistance Testing: Logistical Considerations.
Ji Hezhao et al. Viruses 2020 May (5) - Multi-locus Sequence Typing and Whole Genome Sequence Analysis of Cryptococcus neoformans Isolated from Clinical Specimens in Vajira Hospital, Bangkok, Thailand.
Wongsuk Thanwa et al. Mycopathologia 2020 May
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
- A hospital outbreak of linezolid-resistant and vancomycin-resistant ST80 Enterococcus faecium harbouring an optrA-encoding conjugative plasmid investigated by whole-genome sequencing.
Egan S A et al. The Journal of hospital infection 2020 May - Report into a nosocomial outbreak of coronavirus disease 2019 (COVID-19) at Netcare St. Augustine??s Hospital
Lessells R, et al. krisp (University of Kwazulu-Natal), May 22, 2020 (PDF). - The emergence of SARS-CoV-2 in Europe and the US
Worobey M, et al. bioRxiv, May 23, 2020. - Clinical Utility of SARS-CoV-2 Whole Genome Sequencing in Deciphering Source of Infection
Takenouchi T, et al. medRxiv, May 26, 2020.
ANTIMICROBIALS / VACCINES / INTERVENTIONS
- From SARS-CoV to SARS-CoV-2: safety and broad-spectrum are important for coronavirus vaccine development.
Ma Cuiqing et al. Microbes and infection 2020 May - Anti-PfGARP activates programmed cell death of parasites and reduces severe malaria.
Raj Dipak K et al. Nature 2020 Apr
HOST-MICROBE INTERACTIONS
- Preterm infants harbour diverse Klebsiella populations, including atypical species that encode and produce an array of antimicrobial resistance- and virulence-associated factors.
Chen Yuhao et al. Microbial genomics 2020 May - Association of NOD2 and IFNG single nucleotide polymorphisms with leprosy in the Amazon ethnic admixed population.
Leturiondo André Luiz et al. PLoS neglected tropical diseases 2020 May (5) e0008247 - Trained Immunity: a Tool for Reducing Susceptibility to and the Severity of SARS-CoV-2 Infection.
Netea Mihai G et al. Cell 2020 May - A systems approach to inflammation identifies therapeutic targets in SARS-CoV-2 infection
van de Veerdonk FL, et al. medRxiv, May 24, 2020. - The innate immune system: fighting on the front lines or fanning the flames of COVID-19?
McKechnie JL, Blish CA. Cell Host Microbe, May 20, 2020. - No evidence for allelic association between Covid-19 and ACE2 genetic variants by direct exome sequencing in 99 SARS-CoV-2 positive patients
Novelli A, et al. medRxiv, May 26, 2020. - Microbiome disturbance and resilience dynamics of the upper respiratory tract during influenza A virus infection.
Kaul Drishti et al. Nature communications 2020 May (1) 2537 - Circulating rather than alveolar extracellular DNA levels predict outcomes in influenza.
Zhang Nannan et al. The Journal of infectious diseases 2020 May - Single cell transcriptomics reveals opioid usage evokes widespread suppression of antiviral gene program.
Karagiannis Tanya T et al. Nature communications 2020 May (1) 2611 - Lifestyle and the presence of helminths is associated with gut microbiome composition in Cameroonians.
Rubel Meagan A et al. Genome biology 2020 May (1) 122 - Probing the Mobilome: Discoveries in the Dynamic Microbiome.
Carr Victoria R et al. Trends in microbiology 2020 May
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.
No hay comentarios:
Publicar un comentario