Advanced Molecular Detection Clips Content (Published on 06/02/2022)
NEWS
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Why call it BA.2.12.1? A guide to the tangled Omicron family
Maxmen A. Nature, May 27, 2022. -
Dominant coronavirus mutant contains ghost of pandemic past
Ungar L. AP, May 26, 2022. -
South Africa was hit by a wave of coronavirus infections, despite most people having antibodies.
Albeck-Ripka L. New York Times, Jun 1, 2022. -
Coronavirus hasn’t developed resistance to Paxlovid. How long can that last?
Mast J. STAT, May 27, 2022. -
Covid-19 and mRNA technology are helping Africa fix its vaccine problems
Bryce E. BMJ 2022; 377. -
Challenges of Deciding Whether and How to Update COVID-19 Vaccines to Protect Against Variants
Rubin R. JAMA, Jun 1, 2022. -
There’s still no HIV vaccine. The science behind coronavirus shots may help.
Johnson CY. Washington Post, Jun 1, 2022. -
Disease spread: heating and stirring the global viral soup
Baker RE, Metcalf JE. Nature, May 31, 2022. -
Why unprecedented bird flu outbreaks sweeping the world are concerning scientists
Miller BJ. Nature, May 26, 2022. -
Experts: Monkeypox highlights animal-human interface threats
Soucheray S. CIDRAP, Jun 1, 2022. -
On the lookout for monkeypox, CDC considers expanding test capacity
Joseph A. STAT, May 27, 2022.
CONCEPTS / COMMENTS
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A bottom-up view of antimicrobial resistance transmission in developing countries.
Ikhimiukor Odion O et al. Nature microbiology 2022 5 (6) 757-765 -
The Successes and Challenges of SARS-CoV-2 Molecular Testing in the United States.
Dien Bard Jennifer et al. Clinics in laboratory medicine 2022 5 (2) 147-160 -
COVID-19 in 2022-The Beginning of the End or the End of the Beginning?
Del Rio C, Malani PM. JAMA, May 27, 2022. -
Monkeypox outbreaks outside endemic regions: scientific and social priorities.
Zumla Alimuddin et al. The Lancet. Infectious diseases 2022 5
METHODS / TOOLS
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Target-enrichment sequencing yields valuable genomic data for challenging-to-culture bacteria of public health importance.
Dennis Tristan P W et al. Microbial genomics 2022 5 (5) -
Simple and Economical Extraction of Viral RNA and Storage at Ambient Temperature.
Hernandez Sarah et al. Microbiology spectrum 2022 6 e0085922 -
A random priming amplification method for whole genome sequencing of SARS-CoV-2 virus
Chrzastek K, et al. BMC Genomics, May 30, 2022. -
HIV HGM biobank as a research platform for paediatric infectious diseases and COVID-19 pandemic.
Irene Consuegra et al. AIDS research and therapy 2022 5 (1) 22
EVOLUTION / ECOLOGY / POPULATIONS
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The characterization of Moraxella catarrhalis carried in the general population.
Morris Denise E et al. Microbial genomics 2022 5 (5) -
Whole-Genome Sequencing Reveals Multiple Subpopulations of Dominant and Persistent Lineage I Isolates of Listeria monocytogenes in Two Meat Processing Facilities during 2011-2015.
Burnett Elton et al. Microorganisms 2022 5 (5) -
Comparative genomics of the Western Hemisphere soft tick-borne relapsing fever borreliae highlights extensive plasmid diversity.
Kneubehl Alexander R et al. BMC genomics 2022 6 (1) 410 -
Deep phylogenetic-based clustering analysis uncovers new and shared mutations in SARS-CoV-2 variants as a result of directional and convergent evolution.
Nunes Danilo Rosa et al. PloS one 2022 5 (5) e0268389 -
Generation of novel SARS-CoV-2 variants on B.1.1.7 lineage in three patients with advanced HIV disease.
Riddell Anna C et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2022 5 -
SARS-CoV-2 Lineage A.27: New Data from African Countries and Dynamics in the Context of the COVID-19 Pandemic.
Chouikha Anissa et al. Viruses 2022 5 (5) -
Dating the Emergence of Human Endemic Coronaviruses.
Forni Diego et al. Viruses 2022 5 (5) -
GENOMIC SURVEILLANCE OF LAMBDA SARS-COV-2 VARIANT IN A GLOBAL PHYLOGENETIC CONTEXT.
Mestanza Orson et al. Journal of medical virology 2022 6 -
Analyzing and Modeling the Spread of SARS-CoV-2 Omicron Lineages BA.1 and BA.2, France, September 2021-February 2022.
Sofonea Mircea T et al. Emerging infectious diseases 2022 6 (7) -
Evolution, geographic spreading, and demographic distribution of Enterovirus D68.
Hodcroft Emma B et al. PLoS pathogens 2022 5 (5) e1010515 -
Updating the Phylodynamics of Yellow Fever Virus 2016-2019 Brazilian Outbreak With New 2018 and 2019 São Paulo Genomes.
Moreira Salles Ana Paula et al. Frontiers in microbiology 2022 5 811318 -
Off-season RSV epidemics in Australia after easing of COVID-19 restrictions
Eden JS, et al. Nat Commun, May 24, 2022. -
Wolbachia 16S rRNA haplotypes detected in wild Anopheles stephensi in eastern Ethiopia.
Waymire Elizabeth et al. Parasites & vectors 2022 5 (1) 178
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
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Genomic dissection of Klebsiella pneumoniae infections in hospital patients reveals insights into an opportunistic pathogen.
Gorrie Claire L et al. Nature communications 2022 5 (1) 3017 -
Genomic characterization of ESBL/AmpC-producing and high-risk clonal lineages of Escherichia coli and Klebsiella pneumoniae in imported dogs with shelter and stray background.
Johansson Venla et al. Journal of global antimicrobial resistance 2022 5 -
Molecular Epidemiology of Carbapenem-Resistant Acinetobacter baumannii in the United States, 2013-2017.
McKay Susannah L et al. Microbial drug resistance (Larchmont, N.Y.) 2022 5 -
Genomic Surveillance of Clinical Pseudomonas aeruginosa Isolates Reveals an Additive Effect of Carbapenemase Production on Carbapenem Resistance.
Diorio-Toth Luke et al. Microbiology spectrum 2022 5 e0076622 -
Molecular characterization of drug-resistant Mycobacterium tuberculosis among Filipino patients derived from the national tuberculosis prevalence survey Philippines 2016.
Montoya Jaime C et al. Tuberculosis (Edinburgh, Scotland) 2022 5 102211 -
Antimicrobial Resistance and Virulence Characteristics of Klebsiella pneumoniae Isolates in Kenya by Whole-Genome Sequencing.
Muraya Angela et al. Pathogens (Basel, Switzerland) 2022 5 (5) -
Origin, Phylogeny, and Transmission of the Epidemic Clone ST208 of Carbapenem-Resistant Acinetobacter baumannii on a Global Scale.
Gao Yue et al. Microbiology spectrum 2022 5 e0260421 -
Monitoring AMR in Campylobacter jejuni from Italy in the last 10 years (2011-2021): Microbiological and WGS data risk assessment.
Conesa A et al. EFSA journal. European Food Safety Authority 2022 5 (Suppl 1) e200406 -
Emergence of multi-drug-resistant Mycobacterium tuberculosis in Niger: A snapshot based on whole-genome sequencing.
Harouna Hamidou Zelika et al. PLoS neglected tropical diseases 2022 5 (5) e0010443 -
Genomic and In Vitro Phenotypic Comparisons of Epidemic and Non-Epidemic Getah Virus Strains.
Mohamed-Romai-Noor Noor-Adila et al. Viruses 2022 5 (5) -
Polymorphic Molecular Signatures in Variable Regions of the Plasmodium falciparum var2csa DBL3x Domain Are Associated with Virulence in Placental Malaria.
Talundzic Eldin et al. Pathogens (Basel, Switzerland) 2022 5 (5)
DETECTION / DIAGNOSIS
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ROCker Models for Reliable Detection and Typing of Short-Read Sequences Carrying β-Lactamase Genes.
Zhang Si-Yu et al. mSystems 2022 5 e0128121 -
Genetic typing of isolates of Rickettsia typhi.
Kato Cecilia Y et al. PLoS neglected tropical diseases 2022 5 (5) e0010354 -
Tracking of SARS-CoV-2 Alpha variant (B.1.1.7) in Palestine.
Nasereddin Abedelmajeed et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2022 4 105279 -
Platform for isolation and characterization of SARS-CoV-2 variants enables rapid characterization of Omicron in Australia.
Aggarwal Anupriya et al. Nature microbiology 2022 5 (6) 896-908 -
Precision health diagnostic and surveillance network uses S gene target failure (SGTF) combined with sequencing technologies to track emerging SARS-CoV-2 variants.
Guerrero-Preston Rafael et al. Immunity, inflammation and disease 2022 5 (6) e634 -
A robust, highly multiplexed mass spectrometry assay to identify SARS-CoV-2 variants
Hernandez MM, et al. medRxiv, May 29, 2022. -
An early warning system for emerging SARS-CoV-2 variants
Subissi L, et al. Nat Med, May 30, 2022. -
Evolving strategy for an evolving virus: development of real-time PCR assays for detecting all SARS-CoV-2 variants of concern.
Pabbaraju Kanti et al. Journal of virological methods 2022 6 114553 -
Analytic and Clinical Performance of Major Commercial Severe Acute Respiratory Syndrome Coronavirus 2 Molecular Assays in the United States.
Campbell Michelle R et al. Clinics in laboratory medicine 2022 5 (2) 129-145 -
Simplified Cas13-based assays for the fast identification of SARS-CoV-2 and its variants.
Arizti-Sanz Jon et al. Nature biomedical engineering 2022 5 -
Laboratory Validation of a Real-Time RT-PCR Assay for the Detection of Jamestown Canyon Virus.
Hughes Holly R et al. Pathogens (Basel, Switzerland) 2022 5 (5) -
Development and implementation of a simple and rapid extraction-free saliva SARS-CoV-2 RT-LAMP workflow for workplace surveillance.
Li Zhiru et al. PloS one 2022 5 (5) e0268692 -
Monitoring of Enterovirus D68 Outbreak in Israel by a Parallel Clinical and Wastewater Based Surveillance.
Erster Oran et al. Viruses 2022 5 (5)
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
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Clinical and Genomic Investigation of an International Ceftriaxone- and Azithromycin-Resistant Shigella sonnei Cluster among Men Who Have Sex with Men, Montréal, Canada 2017-2019.
Gaudreau Christiane et al. Microbiology spectrum 2022 6 e0233721 -
The role of prisons in disseminating tuberculosis in Brazil: A genomic epidemiology study.
Walter Katharine S et al. Lancet Regional Health. Americas 2022 6 -
Multistate Outbreak of Listeria monocytogenes Infections Linked to Fresh, Soft Hispanic-Style Cheese - United States, 2021.
Palacios Alexandra et al. MMWR. Morbidity and mortality weekly report 2022 5 (21) 709-712 -
Whole genome sequencing reveals hidden transmission of carbapenemase-producing Enterobacterales.
Marimuthu Kalisvar et al. Nature communications 2022 6 (1) 3052 -
Human-to-human transmission of Chlamydia psittaci in China, 2020: an epidemiological and aetiological investigation.
Zhang Zhenjie et al. The Lancet. Microbe 2022 5 -
Early introduction and rise of the Omicron SARS-CoV-2 variant in highly vaccinated university populations.
Petros Brittany A et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2022 5 -
Epidemiological and genomic findings of the first documented Italian outbreak of SARS-CoV-2 Alpha variant of concern.
Amato Laura et al. Epidemics 2022 5 100578 -
Descriptive Epidemiology of SARS-CoV-2 Gamma (P.1/501Y.V3) variant cases in England, August 2021
Aziz NA, et al. medRxiv, May 31, 2022. -
SARS-CoV-2 genomic surveillance in Rwanda: Introductions and local transmission of the B.1.617.2 (Delta) variant of concern
Butera Y, et al. medRxiv, May 31, 2022. -
Investigation of a SARS-CoV-2 outbreak in a Texas summer camp resulting from a single introduction
Swetnam DM, et al. medRxiv, May 30, 2022. -
Twin peaks: The Omicron SARS-CoV-2 BA.1 and BA.2 epidemics in England.
Elliott Paul et al. Science (New York, N.Y.) 2022 5 eabq4411 -
Confirmed Severe Acute Respiratory Syndrome Coronavirus 2 Reinfections After a Second Wave With Predominance of Lambda in Lima and Callao, Peru.
Pampa-Espinoza Luis et al. Open forum infectious diseases 2022 5 (6) ofac134 -
SARS-CoV-2 transmission, persistence of immunity, and estimates of Omicron's impact in South African population cohorts.
Sun Kaiyuan et al. Science translational medicine 2022 5 eabo7081 -
Investigation of a COVID-19 outbreak on the Charles de Gaulle aircraft carrier, March to April 2020: a retrospective cohort study.
de Laval Franck et al. Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin 2022 5 (21)
ANTIMICROBIALS / VACCINES / INTERVENTIONS
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CRISPRi chemical genetics and comparative genomics identify genes mediating drug potency in Mycobacterium tuberculosis.
Li Shuqi et al. Nature microbiology 2022 5 (6) 766-779 -
Rapid Hypermutation B Cell Trajectory Recruits Previously Primed B Cells Upon Third SARS-Cov-2 mRNA Vaccination.
Paschold Lisa et al. Frontiers in immunology 2022 5 876306 -
Effect of antiviral treatment on hepatitis B virus integration and hepatocyte clonal expansion.
Chow Ning et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2022 5
HOST-MICROBE INTERACTIONS
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Phage display of environmental protein toxins and virulence factors reveals the prevalence, persistence, and genetics of antibody responses.
Angkeow Julia W et al. Immunity 2022 6 -
Associations and Disease-Disease Interactions of COVID-19 with Congenital and Genetic Disorders: A Comprehensive Review.
Hromic-Jahjefendic Altijana et al. Viruses 2022 5 (5) -
Transmission of SARS-CoV-2 from humans to animals and potential host adaptation.
Tan Cedric C S et al. Nature communications 2022 5 (1) 2988 -
Host genetic basis of COVID-19: from methodologies to genes.
Zguro Kristina et al. European journal of human genetics : EJHG 2022 5 -
Risk Factors for Ebola Virus Persistence in Semen of Survivors - Liberia.
Dyal Jonathan et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2022 5 -
Molecular Identification of Cervical Microbes in HIV-Negative and HIV-Positive Women in an African Setting Using a Customized Bacterial Vaginosis Microbial DNA Quantitative PCR (qPCR) Array.
Taku Ongeziwe et al. Microbiology spectrum 2022 6 e0222921
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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