Advanced Molecular Detection Clips Content (Published on 07/21/2021)
NEWS
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CDC Commits $90M to Create Public Health Pathogen Genomics Research Centers
GenomeWeb, Jul 15, 2021. -
New Data Leads To Rethinking (Once More) Where The Pandemic Actually Began
Doucleff M. NPR, Jul 19, 2021. -
Not Ready for Tracking
GenomeWeb, Jul 21, 2021. -
People with COVID Often Infect Their Pets
Schubert F. Sci Am, Jul 20, 2021. -
This 'super antibody' for COVID fights off multiple coronaviruses
Kwon D. Nature, Jul 14, 2021. -
Are Patients Spreading SARS-CoV-2 to Their Hospital Roommates?
Karan A, et al. MedPage Today, Jul 17, 2021. -
WHO Releases First Guidelines on Hepatitis C Self-Testing
360dx, Jul 16, 2021. -
Drug Resistance in People on PrEP Who Acquire HIV
Susman E. MedPage Today, Jul 20, 2021. -
Massive DNA ?Borg? structures perplex scientists
Dance A. Nature, Jul 16, 2021. -
DNA pulled from thin air identifies nearby animals
Stokstad E. Science, Jul 20, 2021.
CONCEPTS / COMMENTS
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Will COVID-19 change science? Past pandemics offer clues
Couzin-Frankel J. Science, Jul 16, 2021. -
Global variation in sequencing impedes SARS-CoV-2 surveillance.
Crawford Dana C et al. PLoS genetics 2021 7 (7) e1009620 -
Deep learning of HIV field-based rapid tests
Turbe V, et al. Nat Med, Jun 17, 2021.
METHODS / TOOLS
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Harmonization of whole-genome sequencing for outbreak surveillance of Enterobacteriaceae and Enterococci.
Jamin Casper et al. Microbial genomics 2021 7 (7) -
HAVoC, a bioinformatic pipeline for reference-based consensus assembly and lineage assignment for SARS-CoV-2 sequences.
Truong Nguyen Phuoc Thien et al. BMC bioinformatics 2021 7 (1) 373 -
AmpliCoV: Rapid Whole-Genome Sequencing Using Multiplex PCR Amplification and Real-Time Oxford Nanopore MinION Sequencing Enables Rapid Variant Identification of SARS-CoV-2.
Brinkmann Annika et al. Frontiers in microbiology 2021 7 651151 -
Mining Public Metagenomes for Environmental Surveillance of Parasites: A Proof of Principle.
Franssen Frits F J et al. Frontiers in microbiology 2021 7 622356 -
Performance and scaling behavior of bioinformatic applications in virtualization environments to create awareness for the efficient use of compute resources.
Hanussek Maximilian et al. PLoS computational biology 2021 7 (7) e1009244
EVOLUTION / ECOLOGY / POPULATIONS
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Genomic surveillance reveals international circulation and local transmission of Salmonella enterica serovars Typhi and Paratyphi A in Taiwan.
Feng Ye et al. Journal of microbiology, immunology, and infection = Wei mian yu gan ran za zhi 2021 7 -
Molecular Epidemiology of Contemporary Invasive Haemophilus influenzae Isolates in Texas Children.
McNeil J Chase et al. The Pediatric infectious disease journal 2021 7 -
Accessory Genomic Epidemiology of Cocirculating Acinetobacter baumannii Clones.
Mateo-Estrada Valeria et al. mSystems 2021 7 e0062621 -
Genomic analysis of group B Streptococcus from milk demonstrates the need for improved biosecurity: a cross-sectional study of pastoralist camels in Kenya.
Seligsohn Dinah et al. BMC microbiology 2021 7 (1) 217 -
Genetic and evolutionary analysis of SARS-CoV-2 circulating in the region surrounding Islamabad, Pakistan.
Tamim Sana et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2021 7 105003 -
Whole genome sequencing and phylogenetic analysis of six SARS-CoV-2 strains isolated during COVID-19 pandemic in Tunisia, North Africa.
Fares Wasfi et al. BMC genomics 2021 7 (1) 540 -
Phylogenetic and evolutionary analysis of foot-and-mouth disease virus A/ASIA/Sea-97 lineage.
Bae Soyeon et al. Virus genes 2021 7 -
Genetic lineage characterization and spatiotemporal dynamics of classical insect-specific flaviviruses: outcomes and limitations.
Morais Paulo et al. Virus research 2021 7 198507 -
Genomic Detection of Schmallenberg Virus, Israel
Emerg Infect Dis, Aug 2021. -
Natural Human Infections with Plasmodium cynomolgi, P. inui, and 4 other Simian Malaria Parasites, Malaysia
Yap NJ, et al. Emerg Infect Dis, Aug 2021. -
Spatial distribution and molecular epidemiology of Babesia vogeli in household dogs from municipalities with different altitude gradients in the state of Rio de Janeiro, Brazil.
Camilo Tays Araujo et al. Ticks and tick-borne diseases 2021 7 (5) 101785 -
Evolution, systematics and historical biogeography of sand flies of the subgenus Paraphlebotomus (Diptera, Psychodidae, Phlebotomus) inferred using restriction-site associated DNA markers.
Cruaud Astrid et al. PLoS neglected tropical diseases 2021 7 (7) e0009479
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
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Genomic Diversity of Haemophilus influenzae Serotype a in an Outbreak Community-Alaska, 2018.
Leisha D Nolen et al. J Infect Dis 2021 7 (3) 520-524 -
The role of interspecies recombinations in the evolution of antibiotic resistant pneumococci.
D'Aeth Joshua Charles et al. eLife 2021 7 -
Antimicrobial resistance mechanisms, MLST and NG-STAR sequence types of diverse Neisseria gonorrhoeae isolates in KwaZulu-Natal, South Africa.
Mitchev Nireshni et al. Antimicrobial agents and chemotherapy 2021 7 AAC0075921 -
Monitoring of Antimicrobial Resistance to Aminoglycosides and Macrolides in Campylobacter coli and Campylobacter jejuni From Healthy Livestock in Spain (2002-2018).
Lopez-Chavarrias Vicente et al. Frontiers in microbiology 2021 7 689262 -
Heteroresistance to beta-lactam antibiotics may often be a stage in the progression to antibiotic resistance.
Band Victor I et al. PLoS biology 2021 7 (7) e3001346 -
SARS-CoV-2 Infections in mRNA Vaccinated Individuals are Biased for Viruses Encoding Spike E484K and Associated with Reduced Infectious Virus Loads that Correlate with Respiratory Antiviral IgG levels.
Mostafa Heba H et al. medRxiv : the preprint server for health sciences 2021 7 -
Monitoring emerging HIV drug resistance in sub-Saharan Africa in the era of dolutegravir.
da Silva Juliana et al. The Journal of infectious diseases 2021 7 -
Surveillance of molecular markers of Plasmodium falciparum artemisinin resistance (kelch13 mutations) in Papua New Guinea between 2016 and 2018.
Lautu-Gumal Dulcie et al. International journal for parasitology. Drugs and drug resistance 2021 7 188-193 -
Identification of Single-Nucleotide Polymorphisms in the Mitochondrial Genome and Kelch 13 Gene of Plasmodium falciparum in Different Geographical Populations.
Nydahl Tine Kliim et al. The American journal of tropical medicine and hygiene 2021 7
DETECTION / DIAGNOSIS
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Surveillance of Borrelia miyamotoi-carrying ticks and genomic analysis of isolates in Inner Mongolia, China.
Gaowa et al. Parasites & vectors 2021 7 (1) 368 -
Hospital transmission of borderline oxacillin-resistant Staphylococcus aureus evaluated by whole-genome sequencing.
Konstantinovski Maria M et al. Journal of medical microbiology 2021 7 (7) -
Genomic surveillance of antimicrobial resistant bacterial colonisation and infection in intensive care patients.
Wyres Kelly L et al. BMC infectious diseases 2021 7 (1) 683 -
Molecular Detection and Characterization of Rickettsia asembonensis in Human Blood, Zambia
Moonga LC, et al. Emerg Infect Dis, Aug 2021. -
Predicting Infectivity: Comparing Four PCR-based Assays to Detect Culturable SARS-CoV-2 in Clinical Samples
Bruce EA, et al. medRxiv, Jul 18, 2021. -
A Comparison of Less Invasive Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Diagnostic Specimens in Nursing Home Residents-Arkansas, June-August 2020.
Paige Gable et al. Clin Infect Dis 2021 4 (Suppl 1) S58-S64 -
Autonomous lab-on-paper for multiplexed, CRISPR-based diagnostics of SARS-CoV-2.
Yin Kun et al. Lab on a chip 2021 6 (14) 2730-2737 -
First detection of SARS-CoV-2 A.23.1 sub-lineage in migrants arriving to Italy via the Mediterranean Sea and public health implications.
Massimo Maida Carmelo et al. Travel medicine and infectious disease 2021 7 102142 -
Sequencing SARS-CoV-2 from Antigen Tests
Nazario-Toole A, et al. medRxiv, Jul 18, 2021. -
Traces of SARS-CoV-2 RNA in Peripheral Blood Cells of Patients with COVID-19.
Moustafa Ahmed et al. Omics : a journal of integrative biology 2021 7 -
Short Report: Early genomic detection of SARS-CoV-2 P.1 variant in Northeast Brazil.
Tosta Stephane et al. PLoS neglected tropical diseases 2021 7 (7) e0009591 -
SARS-CoV-2 Variants in Rhode Island.
Rami Kantor et al. R I Med J (2013) 2021 7 (7) 16-20 -
Rapid SARS-CoV-2 variant monitoring using PCR confirmed by whole genome sequencing in a high-volume diagnostic laboratory.
Lind Andreas et al. Journal of clinical virology : the official publication of the Pan American Society for Clinical Virology 2021 7 104906 -
An Update on SARS-CoV-2 Diversity in the United States National Capital Region: Evolution of Novel and Variants of Concern.
Morris C Paul et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2021 7 -
Imported human norovirus in travelers, Shanghai port, China 2018: An epidemiological and whole genome sequencing study.
Zhang Zilong et al. Travel medicine and infectious disease 2021 7 102140 -
Identification and Isolation of Japanese Encephalitis Virus Genotype IV from Culex vishnui Collected in Bali, Indonesia in 2019.
Faizah Astri Nur et al. The American journal of tropical medicine and hygiene 2021 7 -
The importance of enterovirus surveillance in a post-polio world.
Fischer Thea K et al. The Lancet. Infectious diseases 2021 7 -
Detection and identification of Giardia species using real-time PCR and sequencing.
Narayanan Jothikumar et al. Journal of microbiological methods 2021 7 106279
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
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Using viral load to model disease dynamics
Lopman BA, et al. Science, Jul 16, 2021. -
Estimating epidemiologic dynamics from cross-sectional viral load distributions
Hay JA, et al. Science, Jul 16, 2021. -
Outbreak of NDM-1-producing Klebsiella pneumoniae in the intensive care unit during the COVID-19 pandemic: another nightmare.
Amarsy Rishma et al. American journal of infection control 2021 7 -
A Series of Papaya-Associated Salmonella Illness Outbreak Investigations in 2017 and 2019: A Focus on Traceback, Laboratory, and Collaborative Efforts.
Brooke M Whitney et al. J Food Prot 2021 7 (11) 2002-2019 -
The epidemic of Q fever in 2018 to 2019 in Zhuhai city of China determined by metagenomic next-generation sequencing.
Huang Mingxing et al. PLoS neglected tropical diseases 2021 7 (7) e0009520 -
Severe Acute Respiratory Syndrome Coronavirus 2 Transmission in Intercollegiate Athletics Not Fully Mitigated With Daily Antigen Testing.
Gage K Moreno et al. Clin Infect Dis 2021 5 (Suppl 1) S45-S53 -
Whole-Genome Sequencing of SARS-CoV-2 from Quarantine Hotel Outbreak
Leong LE, et al. Emerg Infect Dis, Aug 2021. -
Transmitted drug resistance to Tenofovir/Emtricitabine among persons with newly diagnosed HIV infection in Shenyang city, Northeast China from 2016 to 2018.
Wang Zhen et al. BMC infectious diseases 2021 7 (1) 668 -
Increasing Frequency and Transmission of HIV-1 Non-B Subtypes among Men Who Have Sex with Men in the Swiss HIV Cohort Study.
Duran Ramirez Jessy J et al. The Journal of infectious diseases 2021 7 -
HIV-1 molecular transmission network among sexually transmitted populations in Liaoning Province, China.
Ma Ning et al. Medicine 2021 7 (28) e26640 -
Integrated molecular and affiliation network analysis: Core-periphery social clustering is associated with HIV transmission patterns.
Kayo Fujimoto et al. Soc Networks 2021 7 107-117 -
Dengue virus serotype 2 imported case from Côte d'Ivoire to Senegal, 2017.
Dieng Idrissa et al. Transboundary and emerging diseases 2021 7 -
Using Whole Genome Sequences to Investigate Adenovirus Outbreaks in a Hematopoietic Stem Cell Transplant Unit.
Myers Chloe E et al. Frontiers in microbiology 2021 7 667790
ANTIMICROBIALS / VACCINES / INTERVENTIONS
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A Peptide Vaccine Candidate Tailored to Individuals' Genetics Mimics the Multi-Targeted T Cell Immunity of COVID-19 Convalescent Subjects.
Somogyi Eszter et al. Frontiers in genetics 2021 7 684152 -
Prevention of Coronavirus Disease 2019 (COVID-19) by mRNA-Based Vaccines Within the General Population of California.
Kristin L Andrejko et al. Clin Infect Dis 2021 7 (8) 1382-1389 -
Impact of original, B.1.1.7, and B.1.351/P.1 SARS-CoV-2 lineages on vaccine effectiveness of two doses of COVID-19 mRNA vaccines: Results from a nationwide case-control study in France.
Charmet Tiffany et al. The Lancet regional health. Europe 2021 7 100171 -
Comparison of Neutralizing Antibody Titers Elicited by mRNA and Adenoviral Vector Vaccine against SARS-CoV-2 Variants
Tada T, et al. bioRxiv, Jul 19, 2021.
HOST-MICROBE INTERACTIONS
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The Gut Microbiota of Critically Ill Patients With COVID-19.
Gaibani Paolo et al. Frontiers in cellular and infection microbiology 2021 7 670424 -
Epitope-specific antibody responses differentiate COVID-19 outcomes and variants of concern.
Voss Courtney et al. JCI insight 2021 6 (13)


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