Advanced Molecular Detection Clips Content (Published on 07/15/2021)
NEWS
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The rise of 'ARPA-everything' and what it means for science
Tollefson J. Nature, Jul 8, 2021. -
WHO Updates Recommendations to Improve Access to Rapid MDx Tests for TB, Drug-Resistant TB
360dx, Jul 9, 2021. -
Engineered face masks detect COVID-19
O'Leary K. Nat Med, Jul 8, 2021. -
Why the Most Unusual Covid Cases Matter
Khamsi R. New York Times, Jul 12, 2021. -
The quest to find genes that drive severe COVID
Callaway E. Nature, Jul 8, 2021. -
Gene hunters turn up new clues to help explain why Covid-19 hits some people so hard
Molteni M. STAT, Jul 8, 2021.
CONCEPTS / COMMENTS
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Networks of SARS-CoV-2 transmission.
Cevik Muge et al. Science (New York, N.Y.) 2021 7 (6551) 162-163
METHODS / TOOLS
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The East African Community (EAC) mobile laboratory networks in Kenya, Burundi, Tanzania, Rwanda, Uganda, and South Sudan-from project implementation to outbreak response against Dengue, Ebola, COVID-19, and epidemic-prone diseases.
Affara Muna et al. BMC medicine 2021 7 (1) 160
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Implementation of the Ebola Virus Persistence in Ocular Tissues and Fluids (EVICT) study: Lessons learned for vision health systems strengthening in Sierra Leone.
Shantha Jessica G et al. PloS one 2021 7 (7) e0252905
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Sequencing SARS-CoV-2 Genomes from Saliva.
Alpert Tara et al. medRxiv : the preprint server for health sciences 2021 7 -
Fast, Scalable, and Practical: An Alkaline DNA Extraction Pipeline for Emergency Microbiomics Biosurveillance.
Goudoudaki Stavroula et al. Omics : a journal of integrative biology 2021 7 -
tinselR-an R Shiny Application for Annotating Phylogenetic Trees.
Hamlin Jennafer A P et al. Microbiology resource announcements 2021 7 (27) e0022721 -
Logically Inferred Tuberculosis Transmission (LITT): A Data Integration Algorithm to Rank Potential Source Cases.
Kathryn Winglee et al. Front Public Health 2021 7 667337
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TNet: Transmission Network Inference Using Within-Host Strain Diversity and its Application to Geographical Tracking of COVID-19 Spread.
Dhar Saurav et al. IEEE/ACM transactions on computational biology and bioinformatics 2021 7
EVOLUTION / ECOLOGY / POPULATIONS
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Molecular detection and characterization of pathogenic Leptospira species in bats (Chiroptera) roosting in human habitats in Nigeria, West Africa.
Kamani Joshua et al. Zoonoses and public health 2021 7 -
The variants question: what is the problem?
Zella Davide et al. Journal of medical virology 2021 7
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Inferring the ecological niche of bat viruses closely related to SARS-CoV-2 using phylogeographic analyses of Rhinolophus species.
Hassanin Alexandre et al. Scientific reports 2021 7 (1) 14276 -
Temporal landscape of mutational frequencies in SARS-CoV-2 genomes of Bangladesh: possible implications from the ongoing outbreak in Bangladesh.
Saha Otun et al. Virus genes 2021 7 -
Viral transmission and evolution dynamics of SARS-CoV-2 in shipboard quarantine.
Yeh Ting-Yu et al. Bulletin of the World Health Organization 2021 7 (7) 486-495
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HIV-1 and SARS-CoV-2: Patterns in the evolution of two pandemic pathogens.
Fischer Will et al. Cell host & microbe 2021 7 -
High rate of mutational events in SARS-CoV-2 genomes across Brazilian geographical regions, February 2020 to June 2021
Souza UG, et al. bioRxiv, Jul 12, 2021. -
A selective sweep in the Spike gene has driven SARS-CoV-2 human adaptation
Kang L, et al. Cell, Jul 6, 2021. -
Genome-wide analyses of human noroviruses provide insights on evolutionary dynamics and evidence of coexisting viral populations evolving under recombination constraints.
Tohma Kentaro et al. PLoS pathogens 2021 7 (7) e1009744 -
Coxsackievirus A16 in Southern Vietnam.
Nhu Le Nguyen Truc et al. Frontiers in microbiology 2021 7 689658 -
Genetic diversity of canine parvovirus variants, circulating in Nigeria.
Tion Matthew Terzungwe et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2021 7 104996 -
The epidemiology of Plasmodium vivax among adults in the Democratic Republic of the Congo.
Brazeau Nicholas F et al. Nature communications 2021 7 (1) 4169 -
Existence of genetic lineages within Asian genotype of T.solium- Genetic characterization based on mitochondrial and ribosomal DNA markers.
Jacob Siju Susan et al. Transboundary and emerging diseases 2021 7
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
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Transmission of antimicrobial resistant Yersinia pestis during a pneumonic plague outbreak.
Andrianaivoarimanana Voahangy et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2021 7 -
Epidemiological and genomic characteristics of Acinetobacter baumannii from different infection sites using comparative genomics.
Bian Xingchen et al. BMC genomics 2021 7 (1) 530 -
Outer membrane vesicles derived from Klebsiella pneumoniae are a driving force for horizontal gene transfer
Ell'Annunziata F, et al. bioRxiv, Jul 6, 2021. -
Fecal SARS-CoV-2 RNA is associated with decreased COVID-19 survival.
Das Adhikari Upasana et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2021 7 -
Estimating infectiousness throughout SARS-CoV-2 infection course
Jones TC, et al. Science, Jul 9, 2021. -
Updated SARS-CoV-2 Single Nucleotide Variants and Mortality Association.
Fang Shuyi et al. Journal of medical virology 2021 7 -
Continued Low Efficacy of Artemether-Lumefantrine in Angola in 2019.
Dimbu Pedro Rafael et al. Antimicrobial agents and chemotherapy 2020 11 (2)
DETECTION / DIAGNOSIS
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Mycobacterium tuberculosis complex lineage 5 exhibits high levels of within-lineage genomic diversity and differing gene content compared to the type strain H37Rv.
Sanoussi C N'Dira et al. Microbial genomics 2021 7 (7) -
An evaluation of the species and subspecies of the genus Salmonella with whole genome sequence data: Proposal of type strains and epithets for novel S. enterica subspecies VII, VIII, IX, X and XI.
Pearce Madison E et al. Genomics 2021 7
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Impact of an Urban Sanitation Intervention on Enteric Pathogen Detection in Soils.
Capone Drew et al. Environmental science & technology 2021 7
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A direct capture method for purification and detection of viral nucleic acid enables epidemiological surveillance of SARS-CoV-2.
Mondal Subhanjan et al. The Science of the total environment 2021 7 148834 -
Daily sampling of early SARS-CoV-2 infection reveals substantial heterogeneity in infectiousness
Ke R, et al. medRxiv, Jul 12, 2021. -
Monitoring SARS-CoV-2 variants alterations in Nice neighborhoods by wastewater nanopore sequencing
Rios G, et al. medRxiv, Jul 9, 2021. -
Lack of evidence for infectious SARS-CoV-2 in feces and sewage.
Albert Sandra et al. European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology 2021 7 -
Defining the methodological approach for wastewater-based epidemiological studies-Surveillance of SARS-CoV-2.
Kopperi Harishankar et al. Environmental technology & innovation 2021 7 101696 -
Direct RT-qPCR assay for SARS-CoV-2 variants of concern (Alpha, B.1.1.7 and Beta, B.1.351) detection and quantification in wastewater.
Yaniv Karin et al. Environmental research 2021 7 111653 -
Viral dynamics of acute SARS-CoV-2 infection and applications to diagnostic and public health strategies.
Kissler Stephen M et al. PLoS biology 2021 7 (7) e3001333
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Ct threshold values, a proxy for viral load in community SARS-CoV-2 cases, demonstrate wide variation across populations and over time.
Walker A Sarah et al. eLife 2021 7 -
Characteristics of SARS-CoV-2 testing for rapid diagnosis of COVID-19 during the initial stages of a global pandemic.
Guthrie Jennifer L et al. PloS one 2021 7 (7) e0253941
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Performance and Operational Evaluation of the Access Bio CareStart Rapid Antigen Test in a High-Throughput Drive-Through Community Testing Site in Massachusetts.
Nira R Pollock et al. Open Forum Infect Dis 2021 7 (7) ofab243
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Cattle connection: molecular epidemiology of BVDV outbreaks via rapid nanopore whole-genome sequencing of clinical samples.
King Jacqueline et al. BMC veterinary research 2021 7 (1) 242 -
Nanopore metagenomic sequencing of influenza virus directly from respiratory samples: diagnosis, drug resistance and nosocomial transmission, United Kingdom, 2018/19 influenza season.
Xu Yifei et al. Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin 2021 7 (27) -
Deep sequencing to detect diversity of Trypanosoma cruzi infection in patients co-infected with HIV and Chagas disease.
Bowman Natalie M et al. The Journal of infectious diseases 2021 7
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
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Outbreak of Burkholderia contaminans endophthalmitis traced to a clinic ventilation system.
Spilker Theodore et al. Infection control and hospital epidemiology 2021 7 1-3
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Interpretative labor and the bane of non-standardized metadata in public health surveillance and food safety.
Pettengill James B et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2021 7
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Viral infection and transmission in a large well-traced outbreak caused by the Delta SARS-CoV-2 variant
Li B, et al. medRxiv, Jul 12, 2021. -
COVID-19 Outbreak Associated with a SARS-CoV-2 P.1 Lineage in a Long-Term Care Home after Implementation of a Vaccination Program - Ontario, April-May 2021.
Williams Chantal et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2021 7
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Genomics-informed responses in the elimination of COVID-19 in Victoria, Australia: an observational, genomic epidemiological study
Lane CR, et al. Lancet Public Health, Jul 8, 2021. -
SARS-CoV-2 B.1.617.2 (Delta) Variant COVID-19 Outbreak Associated with a Gymnastics Facility -- Oklahoma, April-May 2021
Daugherty K, et al. MMWR, Jul 9, 2021. -
Probable Nipa Palm Wine-Associated Hepatitis A Outbreak after Attending a Funeral Ceremony in Sabah.
Jikal Muhammad et al. The American journal of tropical medicine and hygiene 2021 7
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Genetic evidence substantiates transmission of Trichinella spiralis from one swine farm to another.
Bilska-Zajac Ewa et al. Parasites & vectors 2021 7 (1) 359
ANTIMICROBIALS / VACCINES / INTERVENTIONS
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CRISPR-based antimicrobials to obstruct antibiotic-resistant and pathogenic bacteria.
Palacios Araya Dennise et al. PLoS pathogens 2021 7 (7) e1009672 -
Systems vaccinology of the BNT162b2 mRNA vaccine in humans
Arunachalam PS, et al. Nature, Jul 12, 2021. -
Heterologous ChAdOx1 nCoV-19 and mRNA-1273 Vaccination.
Normark Johan et al. The New England journal of medicine 2021 7 -
Safety, Immunogenicity, and Efficacy of the BNT162b2 Covid-19 Vaccine in Adolescents.
Frenck Robert W et al. The New England journal of medicine 2021 5 (3) 239-250 -
Effectiveness of SARS-CoV-2 mRNA Vaccines for Preventing Covid-19 Hospitalizations in the United States.
Tenforde Mark W et al. medRxiv : the preprint server for health sciences 2021 7
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mRNA-1273 COVID-19 vaccine effectiveness against the B.1.1.7 and B.1.351 variants and severe COVID-19 disease in Qatar.
Chemaitelly Hiam et al. Nature medicine 2021 7
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Evaluation of post-introduction COVID-19 vaccine effectiveness: Summary of interim guidance of the World Health Organization.
Patel Minal K et al. Vaccine 2021 6 (30) 4013-4024
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Mother To Infant Transmission Of Hepatitis B Virus In The Face Of Neonatal Immunisation Is Not Necessarily Primary Vaccine Failure.
Ijaz Samreen et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2021 7
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Should deep-sequenced amplicons become the new gold-standard for analysing malaria drug clinical trials?
Jones Sam et al. Antimicrobial agents and chemotherapy 2021 7 AAC0043721
HOST-MICROBE INTERACTIONS
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Gut-microbiota-targeted diets modulate human immune status
Wastyk HC, et al. Cell, Jul 12, 2021. -
Gut microbiome heritability is nearly universal but environmentally contingent.
Grieneisen Laura et al. Science (New York, N.Y.) 2021 7 (6551) 181-186 -
Toll-like receptor 9 and 4 gene polymorphisms in susceptibility and severity of malaria: a meta-analysis of genetic association studies.
Naing Cho et al. Malaria journal 2021 7 (1) 302
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Blood transcriptional biomarkers of acute viral infection for detection of pre-symptomatic SARS-CoV-2 infection: a nested, case-control diagnostic accuracy study
Gupta RK. Lancet Microbe. 2021 Jul 6.
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.
- Page last reviewed:Feb 1, 2024
- Page last updated:Jan 16, 2025