Advanced Molecular Detection Clips Content (Published on 05/12/2022)
NEWS
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Are COVID surges becoming more predictable? New Omicron variants offer a hint
Callaway E. Nature, May 6, 2022. -
WHO: Subvariants fueling COVID rises in more than 50 countries
Schnirring L. CIDRAP, May 11, 2022. -
Some people with COVID shed nearly 60 times as much virus as others
Nature, May 4, 2022. -
The lucky few to never get coronavirus could teach us more about it
Shepherd K, Heim J. Washington Post, May 8, 2022. -
Studies show promise for 2 new COVID vaccine platforms
Soucheray S. CIDRAP, May 5, 2022. -
Archival 1918 Pandemic Flu Samples Give Glimpse Into Viral Genetic Diversity
GenomeWeb, May 10, 2022.
EVENTS / TRAINING / WEB RESOURCES
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Evaluating COVID-19-Related Surveillance Measures for Decision-Making
(report) Currie J, et al. NASEM, May 2022 -
An applied genomic epidemiological handbook.
(online book) A, Dudas G. May 9, 2022. -
Next generation sequencing for viral haemorrhagic fevers
de Villiers CB, et al. PHG Foundation, Nov 3, 2020. -
Sequencing for antimicrobial resistance surveillance
de Villiers CB, et al. PHG Foundation, Feb 11, 2022.
CONCEPTS / COMMENTS
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Rapid response modeling of SARS-CoV-2 transmission.
Zelner Jon et al. Science (New York, N.Y.) 2022 5 (6593) 579-580 -
The clinical progress of mRNA vaccines and immunotherapies.
Barbier Ann J et al. Nature biotechnology 2022 5 -
Community and Provider Perspectives on Molecular HIV Surveillance and Cluster Detection and Response for HIV Prevention: Qualitative Findings From King County, Washington.
Shook Alic G et al. The Journal of the Association of Nurses in AIDS Care : JANAC 2022 5 (3) 270-282
METHODS / TOOLS
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LmTraceMap: A Listeria monocytogenes fast-tracing platform for global surveillance.
Liu Yen-Yi et al. PloS one 2022 5 (5) e0267972
EVOLUTION / ECOLOGY / POPULATIONS
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Air dispersal of meticillin-resistant Staphylococcus aureus in residential care homes for the elderly: implications for transmission during the COVID-19 pandemic.
Wong S-C et al. The Journal of hospital infection 2022 2 52-60
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Pertactin-Deficient Bordetella pertussis with Unusual Mechanism of Pertactin Disruption, Spain, 1986-2018.
Mir-Cros Alba et al. Emerging infectious diseases 2022 4 (5) 967-976 -
SARS-CoV-2 Delta–Omicron Recombinant Viruses, United States
Lacek KA, et al. Emerg Infect Dis, May 12, 2022.
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Persistent SARS-CoV-2 Alpha Variant Infection in Immunosuppressed Patient, France, February 2022.
Fourati Slim et al. Emerging infectious diseases 2022 5 (7) -
SARS-CoV-2 outbreak in Iran: The dynamics of the epidemic and evidence on two independent introductions.
Fattahi Zohreh et al. Transboundary and emerging diseases 2021 4 (3) 1375-1386 -
Persistent SARS-CoV-2 Alpha Variant Infection in Immunosuppressed Patient, France, February 2022
Fourati S, et al. Emerg Infect Dis, May 5, 2022. -
Genetic diversity of SARS-CoV-2 infections in Ghana from 2020-2021.
Morang'a Collins M et al. Nature communications 2022 5 (1) 2494 -
Whole genome sequencing of SARS-CoV2 strains circulating in Iran during five waves of pandemic.
Yavarian Jila et al. PloS one 2022 5 (5) e0267847 -
Archival influenza virus genomes from Europe reveal genomic variability during the 1918 pandemic.
Patrono Livia V et al. Nature communications 2022 5 (1) 2314 -
Epidemiologic, Clinical, and Genetic Characteristics of Human Infections with Influenza A(H5N6) Viruses, China.
Zhu Wenfei et al. Emerging infectious diseases 2022 4 (7) -
Histoplasmosis acquired in Alberta, Canada: an epidemiological and genomic study.
Dingle Tanis C et al. The Lancet. Microbe 2022 5 (5) e191-e197
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
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Genomic Epidemiology of Global Carbapenemase-Producing Escherichia coli, 2015-2017.
Peirano Gisele et al. Emerging infectious diseases 2022 4 (5) 924-31 -
Resistome and virulome accretion in an NDM-1-producing ST147 sublineage of Klebsiella pneumoniae associated with an outbreak in Tuscany, Italy: a genotypic and phenotypic characterisation.
Di Pilato Vincenzo et al. The Lancet. Microbe 2022 5 (3) e224-e234 -
Emergence and dissemination of antimicrobial resistance in Escherichia coli causing bloodstream infections in Norway in 2002-17: a nationwide, longitudinal, microbial population genomic study.
Gladstone Rebecca A et al. The Lancet. Microbe 2022 5 (7) e331-e341 -
Characterisation of drug-resistant Mycobacterium tuberculosis mutations and transmission in Pakistan.
Napier Gary et al. Scientific reports 2022 5 (1) 7703 -
atpE Mutation in Mycobacterium tuberculosis Not Always Predictive of Bedaquiline Treatment Failure.
Le Ray Laure Fournier et al. Emerging infectious diseases 2022 4 (5) 1062-1064 -
Evolution and spread of a highly drug resistant strain of Mycobacterium tuberculosis in Papua New Guinea.
Bainomugisa Arnold et al. BMC infectious diseases 2022 5 (1) 437 -
Protease and gag diversity and drug resistance mutations among treatment-naive Mexican people living with HIV.
Climaco-Arvizu Samantha et al. BMC infectious diseases 2022 5 (1) 447 -
The distinguishing NS5-M114V mutation in American Zika virus isolates has negligible impacts on virus replication and transmission potential.
Peng Nias Y G et al. PLoS neglected tropical diseases 2022 5 (5) e0010426 -
Public availability of HIV-1 drug resistance sequence and treatment data: a systematic review.
Rhee Soo-Yon et al. The Lancet. Microbe 2022 5 (5) e392-e398
DETECTION / DIAGNOSIS
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A Case of Burkholderia pseudomallei Mycotic Aneurysm Linked to Exposure in the Caribbean via Whole-Genome Sequencing.
Speiser Lisa J et al. Open forum infectious diseases 2022 5 (5) ofac136
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Annotated Whole-Genome Multilocus Sequence Typing Schema for Scalable High-Resolution Typing of Streptococcus pyogenes.
Friães A et al. Journal of clinical microbiology 2022 5 e0031522 -
Molecular diagnostics and next-generation sequencing reveal real etiological characteristics of invasive Salmonella infection in febrile illness in Freetown, Sierra Leone.
Zhao Jiayong et al. Emerging microbes & infections 2022 5 1-20
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Key parameters for genomics-based real-time detection and tracking of multidrug-resistant bacteria: a systematic analysis.
Gorrie Claire L et al. The Lancet. Microbe 2022 5 (11) e575-e583 -
SARS-CoV-2 virus dynamics in recently infected people - data from a household transmission study.
Mellis Alexandra M et al. The Journal of infectious diseases 2022 5
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A LAMP sequencing approach for high-throughput co-detection of SARS-CoV-2 and influenza virus in human saliva.
Warneford-Thomson Robert et al. eLife 2022 5 -
Detection of SARS-CoV-2 B.1.351 (Beta) Variant through Wastewater Surveillance before Case Detection in a Community, Oregon, USA.
Sutton Melissa et al. Emerging infectious diseases 2022 4 (6) -
First detection of SARS-CoV-2 Omicron BA.4 variant in Western Pennsylvania, United States.
Phan Tung et al. Journal of medical virology 2022 5 -
The rapid spread of SARS-COV-2 Omicron variant in Italy reflected early through wastewater surveillance.
La Rosa G et al. The Science of the total environment 2022 5 155767 -
Increase of diversity of mumps virus genotype G SH variants circulating among a highly immunized population: Spain, 2007-2019.
Gavilán A M et al. The Journal of infectious diseases 2022 5 -
Clinical Validation of a Novel T-cell Receptor Sequencing Assay for Identification of Recent or Prior SARS-CoV-2 Infection.
Dalai Sudeb C et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2022 5 -
Whole-Genome Sequence Approach and Phylogenomic Stratification Improve the Association Analysis of Mutations With Patient Data in Influenza Surveillance.
Van Poelvoorde Laura et al. Frontiers in microbiology 2022 5 809887 -
Metagenomic sequencing characterizes a wide diversity of viruses in field mosquito samples in Nigeria.
Oguzie Judith U et al. Scientific reports 2022 5 (1) 7616 -
A Partially Multiplexed HIV Drug Resistance (HIVDR) Assay for Monitoring HIVDR Mutations of the Protease, Reverse-Transcriptase (PRRT), and Integrase (INT).
DeVos Joshua et al. Microbiology spectrum 2022 5 e0177621
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Dengue Virus Ribonucleic Acid Detection Rates in Blood Donors Correlate With Local Infection Incidences During a Dengue Outbreak in Taiwan.
Chen Yun-Yuan et al. The Journal of infectious diseases 2022 1 (9) 1504-1512 -
Molecular survey of Babesia parasites in Kenya: first detailed report on occurrence of Babesia bovis in cattle.
Githaka Naftaly W et al. Parasites & vectors 2022 5 (1) 161
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
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Unsuspected clonal spread of Methicillin-resistant Staphylococcus aureus causing bloodstream infections in hospitalized adults detected using whole genome sequencing.
Talbot Brooke M et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2022 5 -
Cluster Transmission Drives Invasive Group A Streptococcus Disease Within the US and is Focused on Communities Experiencing Disadvantage.
Metcalf Benjamin et al. The Journal of infectious diseases 2022 5
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Ongoing diphtheria outbreak in Yemen: a cross-sectional and genomic epidemiology study.
Badell Edgar et al. The Lancet. Microbe 2022 5 (8) e386-e396 -
Uncovering the novel Enterobacter cloacae complex species responsible for septic shock deaths in newborns: a cohort study.
Girlich Delphine et al. The Lancet. Microbe 2022 5 (10) e536-e544
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Frequency of transmission, asymptomatic shedding, and airborne spread of Streptococcus pyogenes in schoolchildren exposed to scarlet fever: a prospective, longitudinal, multicohort, molecular epidemiological, contact-tracing study in England, UK.
Cordery Rebecca et al. The Lancet. Microbe 2022 5 (5) e366-e375 -
Pseudomonas aeruginosa countrywide outbreak in hospitals linked to pre-moistened non-sterile washcloths, Norway, October 2021 to April 2022.
Gravningen Kirsten et al. Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin 2022 5 (18)
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Genomic Evidence of In-Flight SARS-CoV-2 Transmission, India to Australia, April 2021.
Hogarth Freya et al. Emerging infectious diseases 2022 4 (7) -
Using genomic epidemiology of SARS-CoV-2 to support contact tracing and public health surveillance in rural Humboldt County, California.
Gunnar Stoddard et al. BMC Public Health 2022 3 (1) 456 -
Combining genomic and epidemiological data to compare the transmissibility of SARS-CoV-2 variants Alpha and Iota.
Mary E Petrone et al. Commun Biol 2022 5 (1) 439 -
Travel-associated SARS-CoV-2 transmission documented with whole genome sequencing following a long-haul international flight.
Ngeh Sera et al. Journal of travel medicine 2022 5 -
Singing Is a Risk Factor for Severe Acute Respiratory Syndrome Coronavirus 2 Infection: A Case-Control Study of Karaoke-Related Coronavirus Disease 2019 Outbreaks in 2 Cities in Hokkaido, Japan, Linked by Whole Genome Analysis.
Nakashita Manami et al. Open forum infectious diseases 2022 5 (5) ofac158 -
Alpha variant coronavirus outbreak in a nursing home despite high vaccination coverage: molecular, epidemiological and immunological studies.
Zürcher Kathrin et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2022 5 -
Using molecular network analysis to explore the characteristics of HIV-1 transmission in a China-Myanmar border area.
Zhang Yuying et al. PloS one 2022 5 (5) e0268143 -
Enterovirus D68 epidemic, UK, 2018, was caused by subclades B3 and D1, predominantly in children and adults, respectively, with both subclades exhibiting extensive genetic diversity.
Howson-Wells Hannah C et al. Microbial genomics 2022 5 (5) -
Possible bidirectional human-swine and subsequent human-human transmission of influenza virus A(H1N1)/2009 in Japan.
Kuroda Moegi et al. Zoonoses and public health 2022 5 -
Epidemiological and molecular investigations of a point-source outbreak of Dracunculus medinensis infecting humans and dogs in Chad: a cross-sectional study.
Guagliardo Sarah Anne J et al. The Lancet. Microbe 2022 5 (2) e105-e112 -
Uncovering the genetic diversity of Giardia intestinalis in isolates from outbreaks in New Zealand.
Ogbuigwe Paul et al. Infectious diseases of poverty 2022 5 (1) 49
ANTIMICROBIALS / VACCINES / INTERVENTIONS
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Evaluation of mRNA-1273 Covid-19 Vaccine in Children 6 to 11 Years of Age.
Creech C Buddy et al. The New England journal of medicine 2022 5
HOST-MICROBE INTERACTIONS
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Deep learning identified genetic variants associated with COVID-19 related mortality
Liu Z, et al. medRxiv, May 7, 2022. -
Antibodies induced by ancestral SARS-CoV-2 strain that cross-neutralize variants from Alpha to Omicron BA.1
Windsor IW, et al. Sci Immunol, May 10, 2022. -
Effect of antibiotics in the first week of life on faecal microbiota development.
Van Daele Emmy et al. Archives of disease in childhood. Fetal and neonatal edition 2022 5
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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