Advanced Molecular Detection Clips Content (Published on 09/08/2022)
Zimbabwe moves to strengthen genomic surveillance
Mugarisi V. WHO Africa, Sep 8, 2022.
Legionella identified as source of Argentina's deadly pneumonia cluster
Schnirring L. CIDRAP, Sep 6, 2022.
New malaria vaccine is world-changing, say scientists
Gallagher J. BBC, Sep 7, 2022.
EVENTS / TRAINING / WEB RESOURCES
Poor English skills? New AIs help researchers to write better
Katsnelson A. Nature, Aug 29, 2022.
Ten simple rules for teaching yourself R.
Lawlor Jake et al. PLoS computational biology 2022 9 (9) e1010372
CONCEPTS / COMMENTS
The Johns Hopkins University Center for Systems Science and Engineering COVID-19 Dashboard: data collection process, challenges faced, and lessons learned.
Dong Ensheng et al. The Lancet. Infectious diseases 2022 9
Without appropriate metadata, data-sharing mandates are pointless
Musen MA. Nature, Sep 5, 2022.
Editorial: Emerging and re-emerging viral zoonoses.
Kumar Naveen et al. Frontiers in microbiology 2022 9 978259
METHODS / TOOLS
Benchmark datasets for SARS-CoV-2 surveillance bioinformatics
Xiaoli L, et al. PeerJ, Sept 5, 2022.
Application of Statistical Learning to Identify Omicron Mutations in SARS-CoV-2 Viral Genome Sequence Data From Populations in Africa and the United States.
Zhao Lue Ping et al. JAMA network open 2022 9 (9) e2230293
Future COVID-19 surges prediction based on SARS-CoV-2 mutations surveillance
Najar F, et al. bioRxiv, Sep 7, 2022.
EVOLUTION / ECOLOGY / POPULATIONS
Genomic surveillance of SARS-COV-2 reveals diverse circulating variant lineages in Nairobi and Kiambu Counties, Kenya.
Kuja Josiah O et al. BMC genomics 2022 9 (1) 627
White-tailed deer (Odocoileus virginianus) may serve as a wildlife reservoir for nearly extinct SARS-CoV-2 variants of concern
Caserta LC, et al. bioRxiv, Sep 2, 2022.
Vaccination decreases the risk of influenza A virus reassortment but not genetic variation in pigs.
Li Chong et al. eLife 2022 9
Novel Zoonotic Avian Influenza Virus A(H3N8) Virus in Chicken, Hong Kong, China.
Sit Thomas H C et al. Emerging infectious diseases 2022 8 (10)
The whole-genome sequencing of prevalent DENV-1 strains during the largest dengue virus outbreak in Xishuangbanna Dai Autonomous Prefecture in 2019.
Li Daiying et al. Journal of medical virology 2022 9
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
Genomic Characterization of Antimicrobial-Resistant Salmonella enterica in Duck, Chicken, and Pig Farms and Retail Markets in Eastern China.
Tang Biao et al. Microbiology spectrum 2022 9 e0125722
Pyrazinamide Resistance and pncA Mutation Profiles in Multidrug Resistant Mycobacterium Tuberculosis
Shi D, et al. Infect Drug Resist. 2022 Aug 30;15:4985-4994.
Emergence of Delta and Omicron variants carrying resistance-associated mutations in immunocompromised patients undergoing Sotrovimab treatment with long viral excretion.
Andrés Cristina et al. Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases 2022 9
Resistance of SARS-CoV-2 Omicron Subvariant BA.4.6 to Antibody Neutralization
Wang Q, et al. bioRxiv, Sep 6, 2022.
DETECTION / DIAGNOSIS
Metagenomic next-generation sequencing to characterize etiologies of non-malarial fever in a cohort living in a high malaria burden area of Ugand
Mwakibete L, et al. medRxiv, Sep 4, 2022.
Detection of Higher Cycle Threshold Values in Culturable SARS-CoV-2 Omicron BA.1 Sublineage Compared with Pre-Omicron Variant Specimens — San Francisco Bay Area, California, July 2021—March 2022
Tassetto M, et al. MMWR, Sep 9, 2022.
SARS-CoV-2 reinfections during the Delta and Omicron waves.
Morris C Paul et al. JCI insight 2022 9
Genomic Surveillance for SARS-CoV-2 Variants of Concern from Imported COVID-19 Cases - the Mainland of China, 2021.
Feng Yenan et al. China CDC weekly 2022 9 (31) 680-684
Genomic surveillance of SARS-CoV-2 Omicron variants on a university campus.
Weil Ana A et al. Nature communications 2022 9 (1) 5240
Wastewater to clinical case (WC) ratio of COVID-19 identifies insufficient clinical testing, onset of new variants of concern and population immunity in urban communities.
D'Aoust Patrick M et al. The Science of the total environment 2022 9 158547
Surveillance of SARS-CoV-2 in nine neighborhood sewersheds in Detroit Tri-County area, United States: Assessing per capita SARS-CoV-2 estimations and COVID-19 incidence.
Li Yabing et al. The Science of the total environment 2022 8 (Pt 2) 158350
Second round of an interlaboratory comparison of SARS-CoV2 molecular detection assays used by 45 veterinary diagnostic laboratories in the United States.
Deng Kaiping et al. Journal of veterinary diagnostic investigation : official publication of the American Association of Veterinary Laboratory Diagnosticians, Inc 2022 8 (5) 825-834
First detection of the Monkeypox virus using wastewater-based surveillance in Miami-Dade County
Sharkey ME, et al. Research Square, Sep 1, 2022.
Orthopoxvirus Testing Challenges for Persons in Populations at Low Risk or Without Known Epidemiologic Link to Monkeypox — United States, 2022
Minhaj FS, et al. MMWR, Sep 9, 2022.
Dried blood spot is the feasible matrix for detection of some but not all hepatitis B virus markers of infection
Kikuchi M, et al. BMC Res Notes. 2022 Sep 5;15(1):287.
Detection of a Highly Divergent Type 3 Vaccine-Derived Poliovirus in a Child with a Severe Primary Immunodeficiency Disorder — Chongqing, China, 2022
Yao N, et al. MMWR, Sep 9, 2022.
Clinical, microbiological, and genomic characteristics of clade-III Candida auris colonization and infection in southern California, 2019-2022.
de St Maurice Annabelle et al. Infection control and hospital epidemiology 2022 9 1-9
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
Outbreak of SARS-CoV-2 in a teenage discotheque in Northern Ireland-November 2021.
McAleavey P et al. Public health 2022 9 81-84
ANTIMICROBIALS / VACCINES / INTERVENTIONS
SARS-CoV-2 Vaccine Breakthrough by Omicron and Delta Variants, New York, USA.
Keyel Alexander C et al. Emerging infectious diseases 2022 9 (10)
Vaccine effectiveness against SARS-CoV-2 infection or COVID-19 hospitalization with the Alpha, Delta, or Omicron SARS-CoV-2 variant: A nationwide Danish cohort study.
Gram Mie Agermose et al. PLoS medicine 2022 9 (9) e1003992
Viral subpopulation variability in different batches of Infectious bronchitis virus (IBV) vaccines based on GI-23 lineage: Implications for the field.
Legnardi Matteo et al. Virus research 2022 7 198877
Dissecting the role of the human microbiome in COVID-19 via metagenome-assembled genomes.
Ke Shanlin et al. Nature communications 2022 9 (1) 5235
A translational genomics approach identifies IL10RB as the top candidate gene target for COVID-19 susceptibility.
Voloudakis Georgios et al. NPJ genomic medicine 2022 9 (1) 52
Pre-exposure to mRNA-LNP inhibits adaptive immune responses and alters innate immune fitness in an inheritable fashion.
Qin Zhen et al. PLoS pathogens 2022 9 (9) e1010830
Disclaimer: Articles listed in the Advanced Molecular Detection Clips are selected by the CDC Office of Genomics and Precision Public Health 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.