Publication Date: Jan 23, 2020
Advanced Molecular Detection Clips Content
NEWS
- How quickly does the Wuhan virus spread?
Phillips N, et al. Nature, Jan 21, 2020. - Snakes could be the source of the Wuhan coronavirus outbreak
Guo H, et al. The Conversation, Jan 23, 2020. - New China virus: Five questions scientists are asking
Callaway E, Cyranoski D. Nature, Jan 22, 2020. - Technologies to watch in 2020
Nature, Jan 21, 2020. - The Decade In Proteomics: Most Significant New Applications
Bonislawski A. GenomeWeb, Jan 10, 2020.
CONCEPTS / COMMENTS
- Rapid outbreak response requires trust
(editorial) Nat Microbiol, Jan 22, 2020. - The Epidemiology, Virology, and Pathogenicity of Human Infections with Avian Influenza Viruses.
Wang Dayan et al. Cold Spring Harbor perspectives in medicine 2020 Jan
METHODS / TOOLS
- ElectroPen: An ultra-low-cost, electricity-free, portable electroporator.
Byagathvalli Gaurav et al. PLoS biology 2020 Jan (1) e3000589 - A Bayesian Multi-Task Approach for Detecting Global Microbiome Associations
Hatami F, et al. bioRxiv, Jan 20, 2020. - Systematic review of human gut resistome studies revealed variable definitions and approaches.
Ho Jeffery et al. Gut microbes 2020 Jan 1-12
EVOLUTION / ECOLOGY / POPULATIONS
- 'Community evolution' - laboratory strains and pedigrees in the age of genomics.
Dorman Matthew J et al. Microbiology (Reading, England) 2020 Jan - High Genomic Diversity and Heterogenous Origins of Pathogenic and Antibiotic-Resistant Escherichia coli in Household Settings Represent a Challenge to Reducing Transmission in Low-Income Settings.
Montealegre Maria Camila et al. mSphere 2020 Jan (1) - A sister lineage of the Mycobacterium tuberculosis complex discovered in the African Great Lakes region
Ngabonziza JC, et al. bioRxiv, Jan 21, 2020. - Advances in the molecular detection of tuberculosis in pre-contact Andean South America.
Nelson Elizabeth A et al. International journal of paleopathology 2020 Jan - Comparative genomic analysis reveals an "open" pan-genome of African swine fever virus.
Wang Liang et al. Transboundary and emerging diseases 2020 Jan - Homologous recombination within the spike glycoprotein of the newly identified coronavirus may boost cross-species transmission from snake to human.
Ji Wei et al. Journal of medical virology 2020 Jan - Global Expansion of Pacific Northwest Vibrio parahaemolyticus Sequence Type 36.
Abanto Michel et al. Emerging infectious diseases 2020 Feb (2) 323-326 - Human Norovirus Infection in Dogs, Thailand.
Charoenkul Kamonpan et al. Emerging infectious diseases 2020 Feb (2) 350-353 - Quantifying within-host diversity of H5N1 influenza viruses in humans and poultry in Cambodia.
Moncla Louise H et al. PLoS pathogens 2020 Jan (1) e1008191 - HIV-1 Unique Recombinant Forms Identified in Slovenia and Their Characterization by Near Full-Length Genome Sequencing.
Lunar Maja M et al. Viruses 2020 Jan (1) - Whole genome sequencing and genetic variations in several dengue virus type 1 strains from unusual dengue epidemic of 2017 in Vietnam.
Dang Thuy Thi et al. Virology journal 2020 Jan (1) 7 - Characterisation of the sewage virome: comparison of NGS tools and occurrence of significant pathogens.
Martínez-Puchol Sandra et al. The Science of the total environment 2020 Jan 136604 - Genetic characterization of influenza A(H3N2) viruses circulating in coastal Kenya, 2009-2017.
Owuor D Collins et al. Influenza and other respiratory viruses 2020 Jan
- Co-circulation of multiple enterovirus D68 subclades, including a novel B3 cluster, across Europe in a season of expected low prevalence, 2019/20.
Midgley Sofie Elisabeth et al. Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin 2020 Jan (2)
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
- Genomic dynamics of species and mobile genetic elements in a prolonged blaIMP-4-associated carbapenemase outbreak in an Australian hospital.
Kizny Gordon A et al. The Journal of antimicrobial chemotherapy 2020 Jan - Proteogenomic analysis of the Clostridium difficile exoproteome reveals a correlation between phylogenetic distribution and virulence potential.
Quesada-Gómez Carlos et al. Anaerobe 2020 Jan 102151 - KPC-2-producing Klebsiella pneumoniae ST147 in a neonatal unit: Clonal isolates with differences in colistin susceptibility attributed to AcrAB-TolC pump.
Naha Sharmi et al. International journal of antimicrobial agents 2020 Jan 105903 - Detection in two hospitals of transferable ceftazidime-avibactam resistance in Klebsiella pneumoniae due to a novel VEB β-lactamase variant with a Lys234Arg substitution, Greece, 2019.
Voulgari E et al. Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin 2020 Jan (2) - New Delhi Metallo-β-Lactamase-5-Producing Escherichia coli in Companion Animals, United States.
Cole Stephen D et al. Emerging infectious diseases 2020 Feb (2) 381-383 - Commensal Escherichia coli are a reservoir for the transfer of XDR plasmids into epidemic fluoroquinolone-resistant Shigella sonnei.
Thanh Duy Pham et al. Nature microbiology 2020 Jan - Genomic surveillance for hypervirulence and multi-drug resistance in invasive Klebsiella pneumoniae from South and Southeast Asia.
Wyres Kelly L et al. Genome medicine 2020 Jan (1) 11 - Metagenomic analysis of β-lactamase and carbapenemase genes in the wastewater resistome.
Makowska Nicoletta et al. Water research 2020 Mar 115277 - Prevalence and genetic profiles of isoniazid resistance in tuberculosis patients: A multicountry analysis of cross-sectional data.
Dean Anna S et al. PLoS medicine 2020 Jan (1) e1003008 - Evolution of Mycobacterium tuberculosis complex lineages and their role in an emerging threat of multidrug resistant tuberculosis in Bamako, Mali.
Senghore Madikay et al. Scientific reports 2020 Jan (1) 327
DETECTION / DIAGNOSIS
- Next-generation sequencing as a screening tool for foodborne pathogens in fresh produce.
Lewis E et al. Journal of microbiological methods 2020 Jan 105840 - Clinical Impact of Metagenomic Next-Generation Sequencing of Plasma Cell-Free DNA for the Diagnosis of Infectious Diseases: A Multicenter Retrospective Cohort Study.
Hogan Catherine A et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2020 Jan - Multiplex Mediator Displacement Loop-Mediated Isothermal Amplification for Detection of Treponema pallidum and Haemophilus ducreyi.
Becherer Lisa et al. Emerging infectious diseases 2020 Feb (2) 282-288 - Rapid Nanopore Whole-Genome Sequencing for Anthrax Emergency Preparedness.
McLaughlin Heather P et al. Emerging infectious diseases 2020 Feb (2) 358-361 - Concise whole blood transcriptional signatures for incipient tuberculosis: a systematic review and patient-level pooled meta-analysis.
Gupta Rishi K et al. The Lancet. Respiratory medicine 2020 Jan - In-depth serum virome analysis in patients with acute liver failure with indeterminate etiology.
Ren Yi et al. Archives of virology 2020 Jan (1) 127-135 - Characterization and analytical validation of a new antigenic rapid diagnostic test for Ebola virus disease detection.
Couturier Céline et al. PLoS neglected tropical diseases 2020 Jan (1) e0007965 - Using the LN34 Pan-Lyssavirus Real-Time RT-PCR Assay for Rabies Diagnosis and Rapid Genetic Typing from Formalin-Fixed Human Brain Tissue.
Condori Rene Edgar et al. Viruses 2020 Jan (1) - Further Evidence of Inadequate Quality in Lateral Flow Devices Commercially Offered for the Diagnosis of Rabies.
Klein Antonia et al. Tropical medicine and infectious disease 2020 Jan (1) - Discovery of a novel coronavirus associated with the recent pneumonia outbreak in humans and its potential bat origin
Shi ZL, et al. bioRxiv, Jan 23, 2020. - Oropouche virus cases identified in Ecuador using an optimised qRT-PCR informed by metagenomic sequencing.
Wise Emma L et al. PLoS neglected tropical diseases 2020 Jan (1) e0007897 - Development of a copro-LAMP assay for detection of several species of Echinococcus granulosus sensu lato complex.
Avila Héctor Gabriel et al. Veterinary parasitology 2020 Jan 109017
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
- Whole-Genome-Sequence-Based Characterization of Extensively Drug-Resistant Acinetobacter baumannii Hospital Outbreak.
Makke Ghiwa et al. mSphere 2020 Jan (1) - Genomic and epidemiological evidence of bacterial transmission from probiotic capsule to blood in ICU patients.
Yelin Idan et al. Nature medicine 2019 11 (11) 1728-1732 - Comparative genomics confirms a rare melioidosis human-to-human transmission event and reveals incorrect phylogenomic reconstruction due to polyclonality.
Aziz Ammar et al. Microbial genomics 2020 Jan - Real-time sampling of travelers shows intestinal colonization by multidrug-resistant bacteria to be a dynamic process with multiple transient acquisitions
Kantele A, et al. bioRxiv, Jan 23, 2020. - Agricultural and geographic factors shaped the North American 2015 highly pathogenic avian influenza H5N2 outbreak.
Hicks Joseph T et al. PLoS pathogens 2020 Jan (1) e1007857 - Quantifying HIV transmission flow between high-prevalence hotspots and surrounding communities: a population-based study in Rakai, Uganda.
Ratmann Oliver et al. The lancet. HIV 2020 Jan
ANTIMICROBIALS / VACCINES / INTERVENTIONS
- In vivo rescue of recombinant Zika virus from an infectious cDNA clone and its implications in vaccine development.
Ávila-Pérez Gines et al. Scientific reports 2020 Jan (1) 512 - Low levels of HIV-1 drug resistance mutations in patients who achieved viral re-suppression without regimen switch: a retrospective study.
Onwuamah Chika K et al. BMC microbiology 2020 Jan (1) 17 - Impaired Vaccine-Induced Antibody Response Against Clade 6B H1N1 Viruses in Individuals Before Viral Emergence.
Huang Kuan-Ying A et al. Open forum infectious diseases 2020 Jan (1) ofz513
HOST-MICROBE INTERACTIONS
- Oropharyngeal microbiome of a college population following a meningococcal disease outbreak.
Retchless Adam C et al. Scientific reports 2020 Jan (1) 632 - Development of the Microbiota and Associations With Birth Mode, Diet, and Atopic Disorders in a Longitudinal Analysis of Stool Samples, Collected From Infancy Through Early Childhood.
Galazzo Gianluca et al. Gastroenterology 2020 Jan - Signatures of oral microbiome in HIV-infected individuals with oral Kaposi's sarcoma and cell-associated KSHV DNA.
Gruffaz Marion et al. PLoS pathogens 2020 Jan (1) e1008114 - Gut Resistome After Oral Antibiotics in Preschool Children in Burkina Faso: A Randomized, Controlled Trial.
Oldenburg Catherine E et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2020 Jan (3) 525-527 - Stability and dynamics of the human gut microbiome and its association with systemic immune traits
Byrd AL, et al. bioRxiv, Jan 17, 2020. - Association of CMV genomic mutations with symptomatic infection and hearing loss in congenital CMV infection.
Dobbins G Clement et al. BMC infectious diseases 2019 Dec (1) 1046 - Comparative study between Helicobacter pylori and host human genetics in the Dominican Republic.
Ono Takaaki et al. BMC evolutionary biology 2019 11 (1) 197
Note:
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 the CDC Office of Public Health Genomics 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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