Advanced Molecular Detection Clips Content (Published on 10/06/2022)
NEWS
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Team Presents Strategy for Speedy Species Detection in Metagenomic Sequence Data
GenomeWeb, Oct 3, 2022. -
Will there be a COVID winter wave? What scientists say
Callaway E. Nature, Oct 3, 2022. -
SARS-CoV-2 mimics a host protein to bypass defences
Thomann L, Thiel V. Nature, Oct 5, 2022. -
Rice University, UConn Researchers Adapt CRISPR Enzyme to Create Ultra-Sensitive COVID-19 Test
Ketchum K. 360dx, Sep 26, 2022. -
100,000 coronavirus genomes reveal COVID’s evolution in Africa
Kwon D. Nature, Oct 3, 2022. -
Can Nasal Vaccines Change the Course of the Pandemic?
D'Ambrosio A. MedPage Today, Sep 29, 2022. -
From BQ.1.1 to XBB and beyond: How the splintering of Omicron variants could shape Covid’s next phase
Joseph A. STAT, Oct 6, 2022. -
Why scientists fear monkeypox spreading in wild animals
Rodriguez Mega E. Nature, Sep 30, 2022. -
The monkeypox virus is mutating. Are scientists worried?
Kozlov M. Nature, Oct 5, 2022. -
Taking the pain out of data sharing
Hutson M. Nature, Oct 3, 2022.
CONCEPTS / COMMENTS
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Lessons from the pandemic: Responding to emerging zoonotic viral diseases-a Keystone Symposia report.
Cable Jennifer et al. Annals of the New York Academy of Sciences 2022 10 -
Pathogen evolution during vaccination campaigns.
Day Troy et al. PLoS biology 2022 9 (9) e3001804 -
Unraveling the viral dark matter through viral metagenomics.
Santiago-Rodriguez Tasha M et al. Frontiers in immunology 2022 10 1005107 -
Ten simple rules for getting and giving credit for data.
Wood-Charlson Elisha M et al. PLoS computational biology 2022 9 (9) e1010476
METHODS / TOOLS
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Metagenome analysis using the Kraken software suite.
Lu Jennifer et al. Nature protocols 2022 9 -
dRNASb: a systems biology approach to decipher dynamics of host-pathogen interactions using temporal dual RNA-seq data.
Dinarvand Mojdeh et al. Microbial genomics 2022 9 (9) -
Optimizing laboratory-based surveillance networks for monitoring multi-genotype or multi-serotype infections.
Cheng Qu et al. PLoS computational biology 2022 9 (9) e1010575 -
HAYSTAC: A Bayesian framework for robust and rapid species identification in high-throughput sequencing data.
Dimopoulos Evangelos A et al. PLoS computational biology 2022 9 (9) e1010493 -
A robust, low-cost instrument for real-time colorimetric isothermal nucleic acid amplification.
Myers Frank B et al. PloS one 2022 9 (9) e0256789 -
An integrated platform for Brucella with knowledge graph technology: From genomic analysis to epidemiological projection.
Ma Fubo et al. Frontiers in genetics 2022 10 981633 -
NanoCoV19: An analytical pipeline for rapid detection of severe acute respiratory syndrome coronavirus 2.
Lang Jidong et al. Frontiers in genetics 2022 10 1008792
EVOLUTION / ECOLOGY / POPULATIONS
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Population genomics of emerging Elizabethkingia anophelis pathogens reveals potential outbreak and rapid global dissemination.
Hu Shaohua et al. Emerging microbes & infections 2022 10 1-75 -
SARS-CoV-2 variants and spike mutations involved in second wave of COVID-19 pandemic in India.
Muttineni Radhakrishna et al. Transboundary and emerging diseases 2022 3 (5) e1721-e1733 -
Three highly variable genome regions of the four dengue virus serotypes can accurately recapitulate the CDS phylogeny.
Rodríguez-Aguilar Eduardo D et al. MethodsX 2022 10 101859
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
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Emerging patterns of fluoroquinolone resistance in Campylobacter jejuni in the UK [1998-2018].
Veltcheva Dessislava et al. Microbial genomics 2022 9 (9) -
Molecular Epidemiology of Staphylococcus aureus in China Reveals the Key Gene Features Involved in Epidemic Transmission and Adaptive Evolution.
Xu Zhen et al. Microbiology spectrum 2022 10 e0156422 -
Whole-genome sequencing for surveillance of fluoroquinolone resistance in rifampicin-susceptible tuberculosis in a rural district of Shanghai: A 10-year retrospective study.
Zhang Yangyi et al. Frontiers in public health 2022 10 990894 -
Clinical severity of SARS-CoV-2 Omicron BA.4 and BA.5 lineages compared to BA.1 and Delta in South Africa.
Wolter Nicole et al. Nature communications 2022 10 (1) 5860 -
SARS-CoV-2 3CL mutations selected in a VSV-based system confer resistance to nirmatrelvir, ensitrelvir, and GC376.
Heilmann Emmanuel et al. Science translational medicine 2022 10 eabq7360 -
Host immunological responses facilitate development of SARS-CoV-2 mutations in patients receiving monoclonal antibody treatments
Gupta A, et al. medRxiv, Oct 5, 2022. -
Rapid selection of sotrovimab escape variants in SARS-CoV-2 Omicron infected immunocompromised patients.
Gliga Smaranda et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2022 10 -
Remdesivir resistance in transplant recipients with persistent COVID-19.
Hogan John I et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2022 9 -
Vaccine associated paralytic poliomyelitis in a child: fast transformation from Sabin-like virus to VDPV triggered epidemiological response in two countries of European region.
Ivanova Olga E et al. International journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases 2022 9 -
Phylogenetic and drug- and vaccine-resistance profiles of Hepatitis B Virus among children with HIV co-infection in Pakistan.
Farooqui Nida et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2022 9 105371
DETECTION / DIAGNOSIS
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Naturally occurring Neisseria gonorrhoeae can have large deletions in housekeeping gene abcZ, making them untypable with multilocus sequence typing.
Vollan Hilde Synnøve et al. Microbial genomics 2022 9 (9) -
Comprehensive Assessment of Subtyping Methods for Improved Surveillance of Foodborne Salmonella.
Pan Hang et al. Microbiology spectrum 2022 10 e0247922 -
An isothermal lab-on-phone test for easy molecular diagnosis of SARS-CoV-2 near patients and in less than 1 hour.
Doria Gonçalo et al. International journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases 2022 7 1-8 -
When Case Reporting Becomes Untenable: Can Sewer Networks Tell Us Where COVID-19 Transmission Occurs?
Wang Y, et al. medRxiv, Sep 30, 2022. -
Shedding of infectious SARS-CoV-2 despite vaccination.
Kasen K Riemersma et al. PLoS Pathog 2022 9 (9) e1010876 -
SARS-CoV-2 reinfections with BA.1 (Omicron) variant among fully vaccinated individuals in northeastern Brazil.
Freire-Neto Francisco P et al. PLoS neglected tropical diseases 2022 10 (10) e0010337 -
Delta SARS-CoV-2 variant is entirely substituted by the omicron variant during the fifth COVID-19 wave in Attica region.
Galani Aikaterini et al. The Science of the total environment 2022 10 159062 -
Validation of reduced S-gene target performance and failure for rapid surveillance of SARS-CoV-2 variants.
Clark Cyndi et al. PloS one 2022 10 (10) e0275150 -
Impact of antigen test target failure and testing strategies on the transmission of SARS-CoV-2 variants.
Del Vecchio Claudia et al. Nature communications 2022 10 (1) 5870 -
Optimization and Validation of Candida auris Short Tandem Repeat Analysis.
de Groot Theun et al. Microbiology spectrum 2022 10 e0264522 -
Molecular Detection of Histoplasma capsulatum in Antarctica.
Moreira Lucas Machado et al. Emerging infectious diseases 2022 9 (10) 2100-2104 -
Predicting Plasmodium falciparum infection status in blood using a multiplexed bead-based antigen detection assay and machine learning approaches.
Schmedes Sarah E et al. PloS one 2022 9 (9) e0275096
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
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Molecular concordance of methicillin-resistant Staphylococcus aureus isolates from healthcare workers and patients.
Adediran Timileyin Y et al. Infection control and hospital epidemiology 2022 9 1-11 -
Dynamics of SARS-CoV-2 lineages in French Guiana in 2020-2021: 4 epidemic waves with cross-influences from Europe and South America.
Miliu Alexandra et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2022 10 105370 -
Genomic and evolutionary study from SARS-CoV-2 virus isolates from Bangladesh during the early stage of pandemic strongly correlate with European origin and not with China.
Rabbi Mohammad Fazle Alam et al. Genomics 2022 10 110497 -
Comparison of epidemiological characteristics and transmissibility of different strains of COVID-19 based on the incidence data of all local outbreaks in China as of March 1, 2022.
Niu Yan et al. Frontiers in public health 2022 10 949594 -
Multimodal surveillance of SARS-CoV-2 at a university enables development of a robust outbreak response framework.
Petros Brittany A et al. Med (New York, N.Y.) 2022 10 -
Phylodynamics of a regional SARS-CoV-2 rapid spreading event in Colorado in late 2020.
Wade Kristen J et al. PloS one 2022 10 (10) e0274050 -
A Two-Ward Acute Care Hospital Outbreak of SARS-CoV-2 Delta Variant Including a Point-Source Outbreak Associated with the Use of a Mobile Vital Signs Cart and Sub-Optimal Doffing of Personal Protective Equipment.
O'Grady Heidi M et al. The Journal of hospital infection 2022 10 -
Possible Occupational Infection of Healthcare Workers with Monkeypox Virus, Brazil
Salvato RS, et al. Emerg Infect Dis, Sep 29, 2022. -
Monkeypox Case Investigation — Cook County Jail, Chicago, Illinois, July–August 2022
Hagan LM, et al. MMWR, Sep 30, 2022. -
Importation and Circulation of Vaccine-Derived Poliovirus Serotype 2, Senegal, 2020-2021.
Faye Martin et al. Emerging infectious diseases 2022 9 (10) 2027-2034 -
Phylodynamic analysis of the highly pathogenic avian influenza H5N8 epidemic in France, 2016-2017.
Chakraborty Debapriyo et al. Transboundary and emerging diseases 2022 2 (5) e1574-e1583
ANTIMICROBIALS / VACCINES / INTERVENTIONS
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Effectiveness of an inactivated Covid-19 vaccine with homologous and heterologous boosters against Omicron in Brazil
Ranzani OT, et al. Nat Commun, Oct 6, 2022. -
Egg-adaptive mutations of human influenza H3N2 virus are contingent on natural evolution.
Liang Weiwen et al. PLoS pathogens 2022 9 (9) e1010875
HOST-MICROBE INTERACTIONS
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HLA-A∗03:01 is associated with increased risk of fever, chills, and stronger side effects from Pfizer-BioNTech COVID-19 vaccination.
Bolze Alexandre et al. HGG advances 2022 1 (2) 100084 -
SARS-CoV-2 disrupts host epigenetic regulation via histone mimicry.
Kee John et al. Nature 2022 10 -
High frequency of CD8 escape mutations in elite controllers as new obstacle for HIV cure.
Navarrete-Muñoz María A et al. Virulence 2022 10 (1) 1713-1719 -
Sex-specific relationships of the infant microbiome and early-childhood behavioral outcomes.
Laue Hannah E et al. Pediatric research 2021 11 (2) 580-591 -
Microbiome epidemiology and association studies in human health.
VanEvery Hannah et al. Nature reviews. Genetics 2022 10
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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