Advanced Molecular Detection Clips Content (Published on 05/13/2021)
NEWS
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Coronavirus variants are spreading in India: what scientists know so far
Vaidyanathan G. Nature, May 11, 2021. -
In Britain, concerns grow that variant found in India may be more transmissible than U.K. variant
Washington Post, May 13, 2021. -
How a worrisome coronavirus variant spread unnoticed
Mallapaty S. Nature, May 13, 2021. -
Why some researchers oppose unrestricted sharing of coronavirus genome data
Maxmen A. Nature, May 5, 2021. -
The myriad ways sewage surveillance is helping fight COVID around the world
Kreier F. Nature, May 10, 2021. -
Nasal Vaccines for COVID-19?
Hackethal V. MedPage Today, May 11, 2021. -
Vaccines seem to work well against coronavirus variants. It's also complicated
Joseph A. STAT, May 13, 2021. -
Do coronavirus genes slip into human chromosomes?
Cohen J. Science, May 14, 2021.
EVENTS / TRAINING / WEB RESOURCES
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A public online resource to track COVID-19 misinfodemic.
Marcoux Thomas et al. Social network analysis and mining 2021 5 (1) 45
POLICY
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"A toxic cocktail": Panel delivers harsh verdict on the world's failure to prepare for pandemic
Kupferschmidt K. Science, May 12, 2021.
CONCEPTS / COMMENTS
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Sustainable surveillance of neglected tropical diseases for the post-elimination era.
Hatherell Hollie A et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2021 5 -
Why India must tackle a mutating virus head-on
Agrawal A, Agrawal D. Nature Asia, Apr 28, 2021. -
A paradigm shift to combat indoor respiratory infection
Morawska L, et al. Science, May 14, 2021. -
Precision Medicine for COVID-19: Phenotype Anarchy or Promise Realized?
DeMerle Kimberley et al. JAMA 2021 5 -
Ethically utilising COVID-19 host-genomic data.
Gyngell Christopher et al. NPJ genomic medicine 2021 5 (1) 31 -
The Covid-19 Infodemic - Applying the Epidemiologic Model to Counter Misinformation
Scales D, et al. New Engl J Med, May 12, 2021.
METHODS / TOOLS
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Alignment free sequence comparison methods and reservoir host prediction.
Lee Bill et al. Bioinformatics (Oxford, England) 2021 5 -
Fast Phylogeny Reconstruction from Genomes of Closely Related Microbes.
Haubold Bernhard et al. Methods in molecular biology (Clifton, N.J.) 2021 5 77-89 -
Ultrafast Sample placement on Existing tRees (UShER) enables real-time phylogenetics for the SARS-CoV-2 pandemic.
Turakhia Yatish et al. Nature genetics 2021 5 -
Swarm: A federated cloud framework for large-scale variant analysis.
Bahmani Amir et al. PLoS computational biology 2021 5 (5) e1008977 -
A new SARS-CoV-2 lineage that shares mutations with known Variants of Concern is rejected by automated sequence repository quality control.
Thornlow Bryan et al. bioRxiv : the preprint server for biology 2021 4 -
An enrichment method for capturing mumps virus whole genome sequences directly from clinical specimens.
Frost Jasmine Rae et al. Journal of virological methods 2021 5 114176 -
Development of a New Reverse Genetics System for Ebola Virus.
Gan Tianyu et al. mSphere 2021 5 (3)
EVOLUTION / ECOLOGY / POPULATIONS
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Genome Sequences of Neurotropic Lineage III Listeria monocytogenes Isolates UKVDL9 and 2010L-2198.
Albrecht Taylor M et al. Microbiology resource announcements 2021 5 (18) -
Detection of Genetic Variability in Borrelia miyamotoi (Spirochaetales: Spirochaetaceae) Between and Within the Eastern and Western United States.
Hojgaard Andrias et al. Journal of medical entomology 2021 5
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Molecular characterization and epidemiology of Streptococcus pneumoniae serotype 8 in Denmark.
Hansen Camilla Bülow et al. BMC infectious diseases 2021 5 (1) 421 -
Genomic analyses of Mycobacterium tuberculosis from human lung resections reveal a high frequency of polyclonal infections.
Moreno-Molina Miguel et al. Nature communications 2021 5 (1) 2716 -
Travel-driven emergence and spread of SARS-CoV-2 lineage B.1.620 with multiple VOC-like mutations and deletions in Europe
Dudas G, et al. medRxiv, May 8, 2021. -
SARS-CoV-2 B.1.617 emergence and sensitivity to vaccine-elicited antibodies
Ferreira I, et al. bioRxiv, May 9, 2021. -
Detection and Genome Sequencing of SARS-CoV-2 Variants Belonging to the B.1.1.7 Lineage in the Philippines.
Tablizo Francis A et al. Microbiology resource announcements 2021 5 (18) -
Accelerated Evolution of H7N9 Subtype Influenza Virus under Vaccination Pressure.
Wu Yifan et al. Virologica Sinica 2021 5
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Ecology and Evolution of Betacoronaviruses.
Rodríguez-Román Eduardo et al. Advances in experimental medicine and biology 2021 5 41-60 -
Epidemiology and genetic diversity of group A rotaviruses in pre-vaccination period in Thailand, 2018-2019.
Jampanil Nutthawadee et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2021 5 104898 -
Earliest case of Candida auris infection imported in 2007 in Europe from India prior to the 2009 description in Japan.
Desnos-Ollivier Marie et al. Journal de mycologie medicale 2021 5 (3) 101139 -
Detection of Rickettsia Species, and Coxiella-Like and Francisella-Like Endosymbionts in Amblyomma americanum and Amblyomma maculatum from a Shared Field Site in Georgia, United States of America.
Hensley Jasmine R et al. Vector borne and zoonotic diseases (Larchmont, N.Y.) 2021 5
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
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bla-like genome architecture among carbapenemase-producing Escherichia coli and Klebsiella pneumoniae in the Netherlands.
Hendrickx Antoni P A et al. Microbial genomics 2021 5 (5) -
Insights into the acquisition of the pks island and production of colibactin in the Escherichia coli population.
Auvray Frédéric et al. Microbial genomics 2021 5 (5) -
Genetic diversity and evolution of the virulence plasmids encoding aerobactin and salmochelin in Klebsiella pneumoniae.
Tian Dongxing et al. Virulence 2021 5 (1) 1323-1333 -
A novel genotype of Hantaan orthohantavirus harbored by Apodemus agrarius chejuensis as a potential etiologic agent of hemorrhagic fever with renal syndrome in Republic of Korea.
Park Kyungmin et al. PLoS neglected tropical diseases 2021 5 (5) e0009400
DETECTION / DIAGNOSIS
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Global population structure and genotyping framework for genomic surveillance of the major dysentery pathogen, Shigella sonnei
Hawkey J, et al. Nat Commun. 2021 May 11;12(1):2684. -
Estimating the false positive rate of highly automated SARS-CoV-2 nucleic acid amplification testing.
Chandler Christopher M et al. Journal of clinical microbiology 2021 5
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A Sanger-based approach for scaling up screening of SARS-CoV-2 variants of interest and concern.
Bezerra Matheus Filgueira et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2021 5 104910 -
Are presymptomatic SARS-CoV-2 infections in nursing home residents unrecognized symptomatic infections? Sequence and metadata from weekly testing in an extensive nursing home outbreak.
van den Besselaar Judith H et al. Age and ageing 2021 5
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Diagnostics for SARS-CoV-2 infections.
Kevadiya Bhavesh D et al. Nature materials 2021 2 (5) 593-605 -
Just 2% of SARS-CoV-2-positive individuals carry 90% of the virus circulating in communities
Yang Q, et al. Proc Natl Acad Sci U S A. 2021 May 25;118(21):e2104547118. -
A prospective diagnostic study to measure the accuracy of detection of SARS-CoV-2 Variants Of Concern (VOC) utilising a novel RT-PCR GENotyping algorithm in an In silico Evaluation (VOC-GENIE)
Borley D, et al. medRxiv, May 9, 2021. -
Multiplex qPCR discriminates variants of concern to enhance global surveillance of SARS-CoV-2.
Vogels Chantal B F et al. PLoS biology 2021 5 (5) e3001236 -
Precision Health Diagnostic and Surveillance Network uses S Gene Target Failure (SGTF) combined with sequencing technologies to identify emerging SARS-CoV-2 variants
Guerrero-Preston R, et al. medRxiv, May 7, 2021. -
Development of Reverse Transcription Loop-Mediated Isothermal Amplification Assay for Rapid and On-Site Detection of Avian Influenza Virus.
Golabi Mohsen et al. Frontiers in cellular and infection microbiology 2021 5 652048 -
Evaluation of an active and early surveillance methodology for visceral leishmaniasis by molecular detection in road-killed wild fauna.
Caldart Eloiza Teles et al. Revista brasileira de parasitologia veterinaria = Brazilian journal of veterinary parasitology : Orgao Oficial do Colegio Brasileiro de Parasitologia Veterinaria 2021 5 (2) e027920
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
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SARS-CoV-2 infectivity by viral load, S gene variants and demographic factors and the utility of lateral flow devices to prevent transmission.
Lee Lennard Y W et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2021 5 -
Investigation of a severe SARS-CoV-2 outbreak in a long-term care home early in the pandemic.
Murti Michelle et al. CMAJ : Canadian Medical Association journal = journal de l'Association medicale canadienne 2021 5 (19) E681-E688 -
Cross-Sectional Serosurvey of Companion Animals Housed with SARS-CoV-2-Infected Owners, Italy.
Colitti Barbara et al. Emerging infectious diseases 2021 5 (7) -
Genomic elucidation of a COVID-19 resurgence and local transmission of SARS-CoV-2 in Guangzhou, China.
Jia Hong-Ling et al. Journal of clinical microbiology 2021 5 -
SARS-CoV-2 B.1.1.7 variant of concern detected in a pet dog and cat after exposure to a person with COVID-19, USA.
Hamer Sarah A et al. Transboundary and emerging diseases 2021 5
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Methodological synthesis of Bayesian phylodynamics, HIV-TRACE, and GEE: HIV-1 transmission epidemiology in a racially/ethnically diverse Southern U.S. context.
Kayo Fujimoto et al. Sci Rep 2021 2 (1) 3325 -
Epidemiological and molecular characteristics of a measles outbreak in northern Vietnam, 2013-2014.
Do Loan Phuong et al. Journal of clinical virology : the official publication of the Pan American Society for Clinical Virology 2021 5 104840 -
Intersection of Syphilis and Human Immunodeficiency Virus (HIV) Networks to Identify Opportunities to Enhance HIV Prevention.
Ann M Dennis et al. Clin Infect Dis 2021 5 (3) 498-506
ANTIMICROBIALS / VACCINES / INTERVENTIONS
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Neutralizing antibody vaccine for pandemic and pre-emergent coronaviruses.
Saunders Kevin O et al. Nature 2021 5
HOST-MICROBE INTERACTIONS
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Human immunotypes impose selection on viral genotypes through viral epitope specificity.
Gabrielaite Migle et al. The Journal of infectious diseases 2021 5 -
Large-scale analysis of 2,152 Ig-seq datasets reveals key features of B cell biology and the antibody repertoire.
Yang Xiujia et al. Cell reports 2021 5 (6) 109110 -
Reverse-transcribed SARS-CoV-2 RNA can integrate into the genome of cultured human cells and can be expressed in patient-derived tissues.
Zhang Liguo et al. Proceedings of the National Academy of Sciences of the United States of America 2021 5 (21) -
Single-cell RNA sequencing of blood antigen-presenting cells in severe COVID-19 reveals multi-process defects in antiviral immunity.
Saichi Melissa et al. Nature cell biology 2021 5 -
SARS-CoV-2-related MIS-C: A key to the viral and genetic causes of Kawasaki disease?
Sancho-Shimizu Vanessa et al. The Journal of experimental medicine 2021 4 (6) -
Divergent and self-reactive immune responses in the CNS of COVID-19 patients with neurological symptoms
Song E, et al. Cell Rep Med. 2021 May 3;100288. -
Maternal respiratory SARS-CoV-2 infection in pregnancy is associated with a robust inflammatory response at the maternal-fetal interface.
Lu-Culligan A, et al. Med (NY). 2021 Apr 30. -
Immunophenotyping and machine learning identify distinct immunotypes that predict COVID-19 clinical severity
Mueller YM, et al. medRxiv, May 9, 2021.
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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