Advanced Molecular Detection Clips Content (Published on 10/22/2020)
NEWS
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In new strategy, Wellcome Trust takes on global health concerns
Kupferschmidt K. Science, Oct 23, 2020. -
Hunt on for future Covid mutations that cause treatments to lose potency
Sample I. The Guardian, Oct 20, 2020.
EVENTS / TRAINING / WEB RESOURCES
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Long-read sequencing
(call for papers)Genome Biol, submission deadline May 21, 2020.
CONCEPTS / COMMENTS
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The Problem of Microbial Dark Matter in Neonatal Sepsis
Sinnar SA, Schiff SJ. Emerg Infect Dis, Nov 2020. -
Africa Centres for Disease Control and Prevention Is Closing Gaps in Disease Detection.
Varma Jay et al. Health security 2020 Oct
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Covid-19 Molecular Diagnostic Testing--Lessons Learned
Shuren J, Stenzel T. New Engl J Med, Oct 22, 2020. -
Considerations for diagnostic COVID-19 tests
Vandenberg O, et al. Nat Rev Microbiol, Oct 14, 2020. -
Genetic Risk of Severe Covid-19
Kaser A. New Engl J Med, Oct 15, 2020 -
The COVID-19 response illustrates that traditional academic reward structures and metrics do not reflect crucial contributions to modern science.
Kucharski Adam J et al. PLoS biology 2020 Oct (10) e3000913
METHODS / TOOLS
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Predicting antimicrobial resistance using conserved genes.
Nguyen Marcus et al. PLoS computational biology 2020 Oct (10) e1008319 -
Ten simple rules to colorize biological data visualization.
Hattab Georges et al. PLoS computational biology 2020 Oct (10) e1008259 -
Biobanking for COVID-19 research.
Rovere-Querini Patrizia et al. Panminerva medica 2020 Oct
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Postlicensure Evaluation of COVID-19 Vaccines.
Patel Manish M et al. JAMA 2020 Oct
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Patch dynamics modeling framework from pathogens' perspective: Unified and standardized approach for complicated epidemic systems.
Chen Shi et al. PloS one 2020 (10) e0238186
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Bayesian reconstruction of transmission trees from genetic sequences and uncertain infection times.
Montazeri Hesam et al. Statistical applications in genetics and molecular biology 2020 Oct -
MetaLAFFA: a flexible, end-to-end, distributed computing-compatible metagenomic functional annotation pipeline.
Eng A, et al. BMC Bioinformatics, Oct 21, 2020.
EVOLUTION / ECOLOGY / POPULATIONS
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Borrelia miyamotoi strain LB-2001 retains plasmids and infectious phenotype throughout continuous culture passages as evaluated by multiplex PCR.
Gilmore Robert D et al. Ticks and tick-borne diseases 2020 Oct (1) 101587
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Gallbladder carriage generates genetic variation and genome degradation in Salmonella Typhi.
Thanh Duy Pham et al. PLoS pathogens 2020 Oct (10) e1008998 -
Global epidemiology and evolutionary history of Staphylococcus aureus ST45
Effelsberg N, et al. J Clin Microbiol, Oct 21, 2020. -
Specific re-distribution of SARS-CoV-2 variants in the respiratory system and intestinal tract.
Du Pengcheng et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2020 Oct -
Prolonged SARS-CoV-2 replication in an immunocompromised patient.
Baang JH, et al. J Infect Dis, Oct 22, 2020. -
Global molecular epidemiology of RSV from the 2017-2018 INFORM-RSV study
Tabor DE, et al. J Clin Microbiol, Oct 21, 2020. -
The origin and spread of CRF85_BC, driven by heterosexual transmission among older people in Sichuan, China.
Su Ling et al. BMC infectious diseases 2020 Oct (1) 772 -
An Outbreak of a Respiratory Disorder at a Russian Swine Farm Associated with the Co-Circulation of PRRSV1 and PRRSV2 .
Raev Sergei et al. Viruses 2020 Oct (10) -
Whole Genome Sequencing of Dengue Virus Serotype 2 from Two Clinical Isolates and Serological Profile of Dengue in the 2015-2016 Nepal Outbreak.
Manandhar Krishna Das et al. The American journal of tropical medicine and hygiene 2020 Oct -
Genome variation and population structure among 1142 mosquitoes of the African malaria vector species Anopheles gambiae and Anopheles coluzzii .
et al. Genome research 2020 Oct (10) 1533-1546
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
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Multiple Introductions of Salmonella enterica Serovar Typhi H58 with Reduced Fluoroquinolone Susceptibility into Chile
Maes M, et al. Emerg Infect Dis, Nov 2020. -
Dynamics of extensive drug resistance evolution of Mycobacterium tuberculosis in a single patient during 9 years of disease and treatment.
Hjort Karin et al. The Journal of infectious diseases 2020 Oct -
A single mutation in Crimean-Congo hemorrhagic fever virus discovered in ticks impairs infectivity in human cells.
Hua Brian L et al. eLife 2020 Oct
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Transcriptome analysis in rhesus macaques infected with hepatitis E virus genotype 1/3 infections and genotype 1 re-infection.
Choi Youkyung H et al. PloS one 2020 (9) e0237618
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Long-Term Temporal Stability of the Resistome in Sewage from Copenhagen.
Brinch Christian et al. mSystems 2020 Oct (5) -
Multiple Introductions of Salmonella enterica Serovar Typhi H58 with Reduced Fluoroquinolone Susceptibility into Chile.
Maes Mailis et al. Emerging infectious diseases 2020 Nov (11) 2736-2740 -
A Nationwide Study about the Dispersal Patterns of the Predominant HIV-1 Subtypes A1 and B in Greece: Inference of the Molecular Transmission Clusters.
Kostaki Evangelia Georgia et al. Viruses 2020 Oct (10)
DETECTION / DIAGNOSIS
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Evaluation of 16S rRNA Hypervariable Regions for Bioweapon Species Detection by Massively Parallel Sequencing.
Dias Victor H G et al. International journal of microbiology 2020 8865520 -
Detection of Beijing strains of MDR M. tuberculosis and their association with drug resistance mutations in katG, rpoB, and embB genes.
Gupta Anamika et al. BMC infectious diseases 2020 Oct (1) 752 -
Population Structure of Listeria monocytogenes in Emilia-Romagna (Italy) and Implications on Whole Genome Sequencing Surveillance of Listeriosis.
Scaltriti Erika et al. Frontiers in public health 2020 519293 -
Two Pandemics, One Challenge-Leveraging Molecular Test Capacity of Tuberculosis Laboratories for Rapid COVID-19 Case-Finding.
Homolka Susanne et al. Emerging infectious diseases 2020 Nov (11) 2549-2554
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Evaluation of pneumococcal serotyping in nasopharyngeal carriage isolates by latex agglutination, whole genome sequencing (PneumoCaT) and DNA microarray in a high pneumococcal carriage prevalence population in Malawi
Swarthout TD, et al. J Clin Microbiol, Oct 21, 2020. -
Implementation and use of whole genome sequencing (WGS) in the surveillance of invasive pneumococcal disease, Czech Republic, 2017-2019
KozaKova J, et al. Epidemiol Mikrobiol Imunol, Summer 2020
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SARS-CoV-2 Virus Culture and Subgenomic RNA for Respiratory Specimens from Patients with Mild Coronavirus Disease
Ranawaka AP, et al. Emerg Infect Dis, Nov 2020. -
Amplicon-Based Detection and Sequencing of SARS-CoV-2 in Nasopharyngeal Swabs from Patients With COVID-19 and Identification of Deletions in the Viral Genome That Encode Proteins Involved in Interferon Antagonism.
Moore Shona C et al. Viruses 2020 Oct (10) -
The wastewater microbiome: A novel insight for COVID-19 surveillance.
Gallardo-Escárate Cristian et al. The Science of the total environment 2020 Oct 142867 -
Metagenomic sequencing to detect respiratory viruses in persons under investigation for COVID-19.
Babiker Ahmed et al. Journal of clinical microbiology 2020 Oct -
Pooling for SARS-CoV-2 control in care institutions.
Cabrera Alvargonzalez Jorge Julio et al. BMC infectious diseases 2020 Oct (1) 745 -
Identification of a polymorphism in the N gene of SARS-CoV-2 that adversely impacts detection by RT-PCR.
Vanaerschot Manu et al. Journal of clinical microbiology 2020 Oct -
A pooled testing strategy for identifying SARS-CoV-2 at low prevalence
Mutesa L, et al. Nature, Oct 21 2020. -
Multiplex rt-Real Time PCR assays for diagnostic testing of SARS-CoV-2 and seasonal influenza viruses. A challenge of the phase 3 pandemic setting.
Mancini Fabiola et al. The Journal of infectious diseases 2020 Oct -
The epidemiology and estimated etiology of pathogens detected from the upper respiratory tract of adults with severe acute respiratory infections in multiple countries, 2014-2015.
Milucky Jennifer et al. PloS one 2020 (10) e0240309
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Detection and discrimination of influenza B Victoria lineage deletion variant viruses by real-time RT-PCR.
Shu Bo et al. Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin 2020 Oct (41)
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Candida parapsilosis Infection: A Multilocus Microsatellite Genotyping-Based Survey Demonstrating an Outbreak in Hospitalized Patients.
Calà Cinzia et al. Annals of clinical and laboratory science 2020 Sep (5) 657-664 -
SNP barcodes provide higher resolution than microsatellite markers to measure Plasmodium vivax population genetics.
Fola Abebe A et al. Malaria journal 2020 Oct (1) 375
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
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An outbreak of USA300 MRSA among people with HIV in Japan.
Ikeuchi Kazuhiko et al. The Journal of infectious diseases 2020 Oct -
Using Genomic Sequencing to Delineate Community Networks of MRSA Transmission Among Men who have Sex with Men.
Popovich Kyle J et al. The Journal of infectious diseases 2020 Oct
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Investigation of Outbreaks of Extended-Spectrum Beta-Lactamase-Producing Klebsiella Pneumoniae in Three Neonatal Intensive Care Units Using Whole Genome Sequencing.
Frenk Sammy et al. Antibiotics (Basel, Switzerland) 2020 Oct (10)
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KPC-3-Producing Serratia marcescens Outbreak between Acute and Long-Term Care Facilities, Florida, USA.
Jimenez Adriana et al. Emerging infectious diseases 2020 Nov (11) 2746-2750
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Superspreading Event of SARS-CoV-2 Infection at a Bar, Ho Chi Minh City, Vietnam
Chau NV, et al. Emerg Infect Dis, Oct 15, 2020.
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Epidemiological and Genomic Analysis of SARS-CoV-2 in 10 Patients From a Mid-Sized City Outside of Hubei, China in the Early Phase of the COVID-19 Outbreak.
Chen Jinkun et al. Frontiers in public health 2020 567621 -
From People to Panthera : Natural SARS-CoV-2 Infection in Tigers and Lions at the Bronx Zoo.
McAloose Denise et al. mBio 2020 10 (5)
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Highly Pathogenic Avian Influenza A(H7N3) Virus in Poultry, United States, 2020.
Youk Sungsu et al. Emerging infectious diseases 2020 Oct (12)
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Dynamics and Dispersal of Local HIV Epidemics Within San Diego and Across The San Diego-Tijuana Border.
Vrancken Bram et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2020 Oct
ANTIMICROBIALS / VACCINES / INTERVENTIONS
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Exploring the out of sight antigens of SARS-CoV-2 to design a candidate multi-epitope vaccine by utilizing immunoinformatics approaches.
Safavi Ashkan et al. Vaccine 2020 Oct
HOST-MICROBE INTERACTIONS
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Associations between genetically predicted protein levels and COVID-19 severity.
Zhu Jingjing et al. The Journal of infectious diseases 2020 Oct -
Quasispecies pattern of hepatitis B virus predicts hepatocellular carcinoma using deep-sequencing and machine learning.
Chen Shipeng et al. The Journal of infectious diseases 2020 Oct -
IL-18 variant increases risk of enhanced HBV DNA replication in chronic hepatitis.
Ben Selma Walid et al. Immunology letters 2020 Oct 70-75 -
Association of the rs562556 PCSK9 Gene Polymorphism with Reduced Mortality in Severe Malaria among Malian Children.
Fedoryak Olesya et al. The Canadian journal of infectious diseases & medical microbiology = Journal canadien des maladies infectieuses et de la microbiologie medicale 2020 9340480
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 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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