Advanced Molecular Detection Clips Content (Published on 12/03/2020)
NEWS
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Why scientists are turning to Rust
Perkel JM. Nature, Dec 1, 2020. -
Simulating the pandemic: What COVID forecasters can learn from climate models
Adam D. Nature, Nov 13, 2020. -
Coronavirus Was In U.S. Weeks Earlier Than Previously Known, Study Says
Diaz J. NPR, Dec 1, 2020. -
Coronaviruses closely related to the pandemic virus discovered in Japan and Cambodia
Mallapaty S. Nature, Nov 29, 2020. -
China testing blunders stemmed from secret deals with firms
Kang D. AP, Dec 3, 2020. -
How Iceland hammered COVID with science
Scudellari M. Nature, Nov 25, 2020. -
Lab Directors Discuss Unprecedented Challenges and Scrambling for Solutions During COVID-19 Pandemic
Johnson M. 360dx, Nov 18, 2020. -
HHS Instructs FDA to Resume Review of EUA Submissions for SARS-CoV-2 LDTs
Bonislawski A. 360dx, Nov 17, 2020. -
Stanford Researchers Combine CRISPR, Microfluidics, Electric Fields for SARS-CoV-2 Dx
Rizk C. 360dx, Nov 18, 2020. -
How nanotechnology helps mRNA Covid-19 vaccines work
Cooney E. STAT, Dec 1, 2020. -
What the data say about asymptomatic COVID infections
Nogrady B. Nature, Nov 23, 2020. -
Meet the Microbes Living on Da Vinci's Iconic Sketches
Simon M. WIRED, Nov 25, 2020.
CONCEPTS / COMMENTS
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Virus genomics as a clinical and epidemiological tool.
Petrone Mary et al. EBioMedicine 2020 Nov 103141 -
Computational Immune Proteomics Approach to Target COVID-19.
Tilocca Bruno et al. Journal of proteome research 2020 11 (11) 4233-4241 -
Modeling, post COVID-19
(editorial) Science, Nov 27, 2020.
METHODS / TOOLS
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A Bioinformatic Pipeline for Improved Genome Analysis and Clustering of Isolates during Outbreaks of Legionnaires' Disease.
Wolfgang Haas et al. J Clin Microbiol 2020 11 (2) -
MAGUS: Multiple Sequence Alignment using Graph Clustering.
Smirnov Vladimir et al. Bioinformatics (Oxford, England) 2020 Nov -
PAGER-CoV: a comprehensive collection of pathways, annotated gene-lists and gene signatures for coronavirus disease studies.
Yue Zongliang et al. Nucleic acids research 2020 Nov -
Temporal signal and the phylodynamic threshold of SARS-CoV-2.
Duchene Sebastian et al. Virus evolution 2020 Jul (2) veaa061 -
VirPreNet: a weighted ensemble convolutional neural network for the virulence prediction of influenza A virus using all eight segments.
Yin Rui et al. Bioinformatics (Oxford, England) 2020 Oct
EVOLUTION / ECOLOGY / POPULATIONS
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Phylogenetic Analysis Revealed the Dissemination of Closely Related Epidemic Vibrio cholerae O1 Isolates in Laos, Thailand, and Vietnam.
Morita Masatomo et al. Open forum infectious diseases 2020 Nov (11) ofaa492 -
Genomic rearrangements uncovered by genome-wide co-evolution analysis of a major nosocomial pathogen, Enterococcus faecium .
Top Janetta et al. Microbial genomics 2020 Nov -
Case Study: Prolonged Infectious SARS-CoV-2 Shedding from an Asymptomatic Immunocompromised Individual with Cancer.
Avanzato Victoria A et al. Cell 2020 Nov -
No evidence for increased transmissibility from recurrent mutations in SARS-CoV-2.
van Dorp Lucy et al. Nature communications 2020 11 (1) 5986 -
Change of dominant strain during dual SARS-CoV-2 infection
Samoilov AE, et al. medRxiv, Nov 30, 2020. -
Beta- and Novel Delta-Coronaviruses Are Identified from Wild Animals in the Qinghai-Tibetan Plateau, China.
Zhu Wentao et al. Virologica Sinica 2020 Dec -
The phylogenetic relationship within SARS-CoV-2s: an expanding basal clade.
Shen Libing et al. Molecular phylogenetics and evolution 2020 Nov 107017 -
Conserved Genomic Terminals of SARS-CoV-2 as Coevolving Functional Elements and Potential Therapeutic Targets.
Chan Agnes P et al. mSphere 2020 11 (6) -
Dynamically evolving novel overlapping gene as a factor in the SARS-CoV-2 pandemic.
Nelson Chase W et al. eLife 2020 10 -
Multiple Introductions and Predominance of Rotavirus Group A Genotype G3P[8] in Kilifi, Coastal Kenya, 4 Years after Nationwide Vaccine Introduction.
Mwanga Mike J et al. Pathogens (Basel, Switzerland) 2020 Nov (12) -
Identification of a novel lineage of Crimean-Congo haemorrhagic fever virus in dromedary camels, United Arab Emirates.
Khalafalla Abdelmalik I et al. The Journal of general virology 2020 Nov -
Epidemiology and Sequence-Based Evolutionary Analysis of Circulating Non-Polio Enteroviruses.
Brown David M et al. Microorganisms 2020 Nov (12) -
Co-Circulation of Two Independent Clades and Persistence of CHIKV-ECSA Genotype during Epidemic Waves in Rio de Janeiro, Southeast Brazil.
Fabri Allison Araújo et al. Pathogens (Basel, Switzerland) 2020 Nov (12) -
First report on the phylogenetic relationship, genetic variation of Echinococcus shiquicus isolates in Tibet Autonomous Region, China.
Zhu Guo-Qiang et al. Parasites & vectors 2020 Nov (1) 590 -
Genomic surveillance of Plasmodium falciparum and Plasmodium vivax cases at the University Hospital in Tegucigalpa, Honduras.
Valdivia Hugo O et al. Scientific reports 2020 Dec (1) 20975 -
Ecological divergence and hybridization of Neotropical Leishmania parasites.
Van den Broeck Frederik et al. Proceedings of the National Academy of Sciences of the United States of America 2020 10 (40) 25159-25168 -
Population genomic evidence that human and animal infections in Africa come from the same populations of Dracunculus medinensis.
Durrant Caroline et al. PLoS neglected tropical diseases 2020 11 (11) e0008623
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
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Genomic and Resistance Epidemiology of Gram-Negative Bacteria in Africa: a Systematic Review and Phylogenomic Analyses from a One Health Perspective.
Osei Sekyere John et al. mSystems 2020 Nov (6) -
A Multidrug-Resistant Salmonella Infantis Clone Is Spreading and Recombining in the United States.
Tyson Gregory H et al. Microbial drug resistance (Larchmont, N.Y.) 2020 Nov -
MDR M. tuberculosis outbreak clone in Eswatini missed by Xpert has elevated bedaquiline resistance dated to the pre-treatment era.
Beckert Patrick et al. Genome medicine 2020 Nov (1) 104 -
Antimicrobial resistance and related gene analysis of Salmonella from egg and chicken sources by whole-genome sequencing.
Hu Lijun et al. Poultry science 2020 Dec (12) 7076-7083 -
Diverse lineages of multidrug resistant clinical Salmonella enterica and a cryptic outbreak in New Hampshire, USA revealed from a year-long genomic surveillance.
Cooper J Park et al. Infect Genet Evol 2020 11 104645 -
Genetic Variation in Neisseria meningitidis Does Not Influence Disease Severity in Meningococcal Meningitis.
Kremer Philip H C et al. Frontiers in medicine 2020 594769 -
Co-infection With Chromosomally-Located bla CTX-M-14 and Plasmid-Encoding bla CTX-M-15 in Pathogenic Escherichia coli in the Republic of Korea.
Park Jungsun et al. Frontiers in microbiology 2020 545591 -
Mutations in PB1, NP, HA, and NA Contribute to Increased Virus Fitness of H5N2 Highly Pathogenic Avian Influenza Virus Clade 2.3.4.4 in Chickens
Youk SS, et al. J Virol, Dec 2, 2020. -
Molecular surveillance of anti-malarial resistance Pfdhfr and Pfdhps polymorphisms in African and Southeast Asia Plasmodium falciparum imported parasites to Wuhan, China.
Jiang Tingting et al. Malaria journal 2020 Nov (1) 434 -
Plasmodium falciparum multidrug resistance gene-1 polymorphisms in Northern Nigeria: implications for the continued use of artemether-lumefantrine in the region.
Adamu Auwal et al. Malaria journal 2020 Nov (1) 439
DETECTION / DIAGNOSIS
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Direct PCR on tissue samples to detect Mycobacterium tuberculosis complex: an alternative to the bacteriological culture.
Lorente-Leal V et al. Journal of clinical microbiology 2020 Nov -
Whole-genome sequencing as part of national and international surveillance programmes for antimicrobial resistance: a roadmap.
et al. BMJ global health 2020 Nov (11) -
Appendix Q: Recommendations for Developing Molecular Assays for Microbial Pathogen Detection Using Modern In Silico Approaches.
SantaLucia John et al. Journal of AOAC International 2020 Jul (4) 882-899 -
Proficiency Testing of Metagenomics-Based Detection of Food-Borne Pathogens Using a Complex Artificial Sequencing Dataset.
Höper Dirk et al. Frontiers in microbiology 2020 575377 -
BORSA carriage among health care workers at NICU and pediatric ward.
Konstantinovski M M et al. The Journal of hospital infection 2020 Nov -
Neisseria gonorrhoeae clustering to reveal major European whole-genome-sequencing-based genogroups in association with antimicrobial resistance.
Pinto Miguel et al. Microbial genomics 2020 Nov -
MALDI-TOF mass spectrometry for sub-typing of Streptococcus pneumoniae.
Kann Sivkheng et al. BMC microbiology 2020 Dec (1) 367 -
Electric field-driven microfluidics for rapid CRISPR-based diagnostics and its application to detection of SARS-CoV-2.
Ramachandran Ashwin et al. Proceedings of the National Academy of Sciences of the United States of America 2020 11 (47) 29518-29525 -
COVID-19 Genome Surveillance at International Airport Quarantine Stations in Japan.
Sekizuka Tsuyoshi et al. Journal of travel medicine 2020 Nov -
Inference of Active Viral Replication in Cases with Sustained Positive RT-PCRs for SARS-CoV-2.
Rodríguez-Grande Cristina et al. Journal of clinical microbiology 2020 Nov -
Sensitive quantitative detection of SARS-CoV-2 in clinical samples using digital warm-start CRISPR assay
Ding X, et al. medRxiv, Nov 23, 2020. -
Isothermal Amplification and Ambient Visualization in a Single Tube for the Detection of SARS-CoV-2 Using Loop-Mediated Amplification and CRISPR Technology.
Pang Bo et al. Analytical chemistry 2020 Nov -
Surveillance of dengue virus in individual Aedes aegypti mosquitoes collected concurrently with suspected human cases in Tarlac City, Philippines.
Balingit Jean Claude et al. Parasites & vectors 2020 Nov (1) 594 -
Genetic signatures for lineage/sublineage classification of HPV16, 18, 52 and 58 variants.
Ou Zhihua et al. Virology 2020 Nov 62-69 -
Method comparison of targeted influenza A virus typing and whole-genome sequencing from respiratory specimens of companion animals.
Mitchell Patrick K et al. Journal of veterinary diagnostic investigation : official publication of the American Association of Veterinary Laboratory Diagnosticians, Inc 2020 Nov 1040638720933875 -
Perspective on Proteomics for Virus Detection in Clinical Samples.
Grossegesse Marica et al. Journal of proteome research 2020 11 (11) 4380-4388 -
Single-step RT-PCR assay for dual genotyping of GI and GII norovirus strains.
Preeti Chhabra et al. J Clin Virol 2020 12 104689 -
Application of Ribosomal Internal Transcribed Spacer 1, Internal Transcribed Spacer 2, and Large-Subunit D1-D2 Regions as the Genetic Markers to Identify Fungi Isolated from Different Environmental Samples: A Molecular Surveillance Study of Public Health Importance.
Sulaiman Irshad M et al. Journal of AOAC International 2020 Jun (3) 843-850 -
AcanR3990 qPCR: a novel, highly sensitive, bioinformatically-informed assay to detect Angiostrongylus cantonensis infections.
Sears William J et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2020 Nov
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
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Multiple distinct outbreaks of Panton-Valentine leukocidin (PVL)-positive community-associated methicillin-resistant Staphylococcus aureus (CA-MRSA) in Ireland investigated by whole-genome sequencing.
Mcmanus B A et al. The Journal of hospital infection 2020 Nov -
Cold-chain transportation in the frozen food industry may have caused a recurrence of COVID-19 cases in destination: Successful isolation of SARS-CoV-2 virus from the imported frozen cod package surface.
Liu Peipei et al. Biosafety and health 2020 Nov -
Does respiratory co-infection facilitate dispersal of SARS-CoV-2? investigation of a super-spreading event in an open-space office
Weissberg D, et al. Antimicrob Resist Infect Control 2020 Dec 2;9(1):191. -
Severe Acute Respiratory Syndrome Coronavirus 2 Outbreak Related to a Nightclub, Germany, 2020.
Muller Nadine et al. Emerging infectious diseases 2020 Dec (2) -
First Phylogenetic Analysis of Malian SARS-CoV-2 Sequences Provides Molecular Insights into the Genomic Diversity of the Sahel Region.
Kouriba Bourema et al. Viruses 2020 11 (11) -
COVID-19 Outbreak Associated with a 10-Day Motorcycle Rally in a Neighboring State - Minnesota, August-September 2020.
Firestone Melanie J et al. MMWR. Morbidity and mortality weekly report 2020 Nov (47) 1771-1776 -
SARS-CoV-2 lineage B.6 was the major contributor to early pandemic transmission in Malaysia.
Chong Yoong Min et al. PLoS neglected tropical diseases 2020 Nov (11) e0008744 -
Evidence of Long-Distance Droplet Transmission of SARS-CoV-2 by Direct Air Flow in a Restaurant in Korea
Kwon KS, et al. J Korean Med Sci, Nov 30, 2020. -
An outbreak of gastroenteritis associated with a novel GII.8 sapovirus variant-transmitted by vomit in Shenzhen, China, 2019.
Yan Yuxiao et al. BMC infectious diseases 2020 Dec (1) 911 -
An influenza A(H3N2) virus outbreak during the COVID-19 pandemic, Kingdom of Cambodia, 2020.
Sovann Ly et al. International journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases 2020 Nov -
Real-Time Investigation of a Large Nosocomial Influenza A Outbreak Informed by Genomic Epidemiology.
Javaid Waleed et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2020 Nov -
"Super-Spreaders" and Person-to-Person Transmission of Andes Virus in Argentina
Martinez VP, et al. New Engl J Med, Dec 3, 2020. -
"Super-Spreaders" and Person-to-Person Transmission of Andes Virus in Argentina.
Martínez Valeria P et al. The New England journal of medicine 2020 Dec (23) 2230-2241 -
Genetic diversity of clinical and environmental Mucorales isolates obtained from an investigation of mucormycosis cases among solid organ transplant recipients.
Nguyen M Hong et al. Microbial genomics 2020 Nov
ANTIMICROBIALS / VACCINES / INTERVENTIONS
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Epidemiology and biology of a herpesvirus in rabies endemic vampire bat populations.
Griffiths Megan E et al. Nature communications 2020 11 (1) 5951
HOST-MICROBE INTERACTIONS
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Novel SARS-CoV-2 encoded small RNAs in the passage to humans
Merino GA, et al. Bioinformatics, Nov 27, 2020. -
Assessing COVID-19 susceptibility through analysis of the genetic and epigenetic diversity of ACE2 mediated SARS-CoV-2 entry.
Ragia Georgia et al. Pharmacogenomics 2020 Nov -
Viral epitope profiling of COVID-19 patients reveals cross-reactivity and correlates of severity
Shrock E, et al. Science, 2020 Nov 27;370(6520):eabd4250. -
Antibody Isotype Switching as a Mechanism to Counter HIV Neutralization Escape.
Scheepers Cathrine et al. Cell reports 2020 Nov (8) 108430
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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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- Page last updated:Jan 16, 2025