About Advanced Molecular Detection Clips
Clips are selected weekly from a variety of sources, including PubMed, journal tables of contents, and online media. Special emphasis is given to the use of next-generation genetic sequencing in infectious disease public health surveillance, investigation, and development of new diagnostics and interventions. The collection is not comprehensive but aims to capture highlights, while surveying a wide range of topics. CDC-authored articles are flagged. Items marked I&E address aspects of implementation or evaluation in clinical or public health practice.
Advanced Molecular Detection Clips Content
NEWS
- ECCMID Talks Highlight Promise of Whole-Genome Sequencing for Clinical Infectious Disease Work
Butkus B. GenomeWeb, Apr 12, 2016. - Mouth Microbes and Pancreatic Cancer
Offord C. The Scientist, Apr 20, 2016. - Drugs for your gut bugs are on the horizon
Preston E. STAT news, Apr 15, 2016. - Microbiome-Brain Research to Get $2.8M Boost from NIDA, NCCIH
GenomeWeb, Apr 18, 2016.
EVENTS / TRAINING / WEB RESOURCES
- Articles in Nucleic Acids Research Database 2016 Issue discuss NCBI databases, updates and future plans
(links) NCBI News, Apr 12, 2016.
CONCEPTS / COMMENTS
- Pathogen hide-and-'seq'.
Chewapreecha Claire et al. Nature reviews. Microbiology 2016 May (5) 271 - Not So Simple After All: Bacteria, Their Population Genetics, and Recombination.
Hanage William P et al. Cold Spring Harbor perspectives in biology 2016 Apr - A research roadmap for next-generation sequencing informatics
Altman RB, et al. Sci Transl Med, Apr 20, 2016. - Molecular epidemiology, evolution and phylogeny of Chikungunya virus: An updating review.
Presti Alessandra Lo et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2016 Apr - RNA Recombination Enhances Adaptability and Is Required for Virus Spread and Virulence.
Xiao Yinghong et al. Cell host & microbe 2016 Apr (4) 493-503
METHODS / TOOLS
- Real-time single-molecule electronic DNA sequencing by synthesis using polymer-tagged nucleotides on a nanopore array
Fuller CW, et al. Proc Nat Acad Sci, Apr 19, 2016. - QQ-SNV: single nucleotide variant detection at low frequency by comparing the quality quantiles.
Van der Borght Koen et al. BMC bioinformatics 2015 379 - JBrowse: a dynamic web platform for genome visualization and analysis.
Buels Robert et al. Genome biology 2016 (1) 66
EVOLUTION / ECOLOGY / POPULATIONS
- Frequency, Antimicrobial Resistance and Genetic Diversity of Klebsiella pneumoniae in Food Samples.
Guo Yumei et al. PloS one 2016 (4) e0153561 - From Mosquitos to Humans: Genetic Evolution of Zika Virus
Wang L, et al. Cell Host Microbe, Apr 15, 2016. - Detection of Autochthonous Zika Virus Transmission in Sincelejo, Colombia.
Camacho Erwin et al. Emerging infectious diseases 2016 May (5) 927-9 - Phylogeny of Zika Virus in Western Hemisphere, 2015.
Lanciotti Robert S et al. Emerging infectious diseases 2016 May (5) 933-5
- Phylogeny of Murray Valley encephalitis virus in Australia and Papua New Guinea.
Cella Eleonora et al. Asian Pacific journal of tropical medicine 2016 Apr (4) 385-9 - Molecular Characterization of Canine Rabies Virus, Mali, 2006-2013.
Traoré Abdallah et al. Emerging infectious diseases 2016 May (5) 866-70 - Identification and Genomic Analysis of a Novel Group C Orthobunyavirus Isolated from a Mosquito Captured near Iquitos, Peru.
Treangen Todd J et al. PLoS neglected tropical diseases 2016 Apr (4) e0004440
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
- Differences in Genotype, Clinical Features, and Inflammatory Potential of Borrelia burgdorferi sensu stricto Strains from Europe and the United States.
Cerar Tjasa et al. Emerging infectious diseases 2016 May (5) 818-827 - Distinguishing between resistance, tolerance and persistence to antibiotic treatment.
Brauner Asher et al. Nature reviews. Microbiology 2016 Apr (5) 320-30 - Frequency and Distribution of Tuberculosis Resistance-Associated Mutations between Mumbai, Moldova, and Eastern Cape.
Georghiou S B et al. Antimicrobial agents and chemotherapy 2016 Apr - Genetic Characterization of Archived Bunyaviruses and their Potential for Emergence in Australia.
Huang Bixing et al. Emerging infectious diseases 2016 May (5) 833-40 - Astrovirus MLB2, a New Gastroenteric Virus Associated with Meningitis and Disseminated Infection.
Cordey Samuel et al. Emerging infectious diseases 2016 May (5) 846-53 - Plasmodium falciparum K76T pfcrt Gene Mutations and Parasite Population Structure, Haiti, 2006-2009.
Charles Macarthur et al. Emerging infectious diseases 2016 May (5) 786-93
DETECTION / DIAGNOSIS
- Comparative genomics of Neisseria meningitidis strains: new targets for molecular diagnostics.
Diene Seydina M et al. Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases 2016 Apr - Implementation of Nationwide Real-Time Whole-Genome Sequencing to Enhance Listeriosis Outbreak Detection and Investigation.
Jackson Brendan R et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2016 Apr 
- Rapid and Simultaneous Detection of Major Drug Resistance Mutations in Reverse Transcriptase Gene for HIV-1 CRF01_AE, CRF07_BC and Subtype B in China Using Sequenom MassARRAY® System.
Cheung Ka-Wai et al. PloS one (4) e0153641 - Metataxonomic and Metagenomic Approaches vs. Culture-Based Techniques for Clinical Pathology.
Hilton Sarah K et al. Frontiers in microbiology 2016 484 - Direct Detection and Identification of Enteroviruses from Faeces of Healthy Nigerian Children Using a Cell-Culture Independent RT-Seminested PCR Assay.
Faleye Temitope Oluwasegun Cephas et al. Advances in virology 2016 1412838
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
- Outbreak of blaOXA-72-producing Acinetobacter baumannii in South America.
Nuñez Quezada Tamara et al. Journal of chemotherapy (Florence, Italy) 2016 Apr 1-4 - Possible Interplay Between Hospital and Community Transmission of a Novel Clostridium Difficile Sequence Type 295 Recognized by Next-Generation Sequencing.
Moloney Geraldine et al. Infection control and hospital epidemiology 2016 Apr 1-5 - Fatal Septicemia Linked to Transmission of MRSA Clonal Complex 398 in Hospital and Nursing Home, Denmark.
Nielsen Rikke Thoft et al. Emerging infectious diseases 2016 May (5) 900-902 - Does typing of Chlamydia trachomatis using housekeeping multilocus sequence typing reveal different sexual networks among heterosexuals and men who have sex with men?
Versteeg Bart et al. BMC infectious diseases 2016 (1) 162 - Towards measles elimination: Phylogenetic analysis of measles viruses in Turkey (2012-2013) and identification of genotype D8.
Kalaycioglu Atila T et al. Journal of medical virology 2016 Apr
ANTIMICROBIALS / VACCINES / INTERVENTIONS
- Biological and Epidemiological Features of Antibiotic-Resistant Streptococcus pneumoniae in Pre- and Post-Conjugate Vaccine Eras: a United States Perspective.
Kim Lindsay et al. Clinical microbiology reviews 2016 Jul (3) 525-52 - Antibiotic treatment enhances the genome-wide mutation rate of target cells
Long H, et al. Proc Nat Acad Sci, Apr 19, 2016. - Experimental Treatment of Ebola Virus Disease with TKM-130803: A Single-Arm Phase 2 Clinical Trial.
Dunning Jake et al. PLoS medicine 2016 Apr (4) e1001997 - Importation and outbreak of wild polioviruses from 2000 to 2014 and interruption of transmission in Cameroon.
Endegue-Zanga Marie Claire et al. Journal of clinical virology : the official publication of the Pan American Society for Clinical Virology 2016 Mar 18-24
HOST-MICROBE INTERACTIONS
- Mucosa-attached bacterial community in Crohn's Disease coheres with the Clinical Disease Activity Index.
Schäffler Holger et al. Environmental microbiology reports 2016 Apr - Coxiella burnetii dormancy in a fatal ten-year multisystem dysfunctional illness: case report.
Sukocheva Olga A et al. BMC infectious diseases 2016 (1) 165 - The microbial pharmacists within us: a metagenomic view of xenobiotic metabolism.
Spanogiannopoulos Peter et al. Nature reviews. Microbiology 2016 May (5) 273-87 - The genomic architecture of resistance to Campylobacter jejuni intestinal colonisation in chickens.
Psifidi A et al. BMC genomics 2016 (1) 293 - The polymorphisms of MSH6 gene are associated with AIDS progression in a northern Chinese population.
Wang Chuntao et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2016 Apr - Impact of polymorphisms in the HCP5 and HLA-C, and ZRND1 genes on viral load.
Thørner Lise Wegner et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2016 Apr
indicates that at least one CDC-affiliated author; indicates that the article addresses aspects of implementation or evaluation in clinical or public health practice.
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