Advanced Molecular Detection Clips Content (Published on 04/06/2017)
Cross-Sample Sequencing Contamination Galore
Williams R. The Scientist, Apr 5, 2017.
New Zika Genome Assembly Method Could Decrease Overall Sequencing Costs
ClinicalOmics, Mar 24, 2017.
US Government Moves Forward with Tests of Novel Zika Vaccine
Mullin E. MIT Tech Review, Apr 3, 2017.
MERS-Related Coronavirus Characterized From Ugandan Bat Samples
GenomeWeb, Apr 4, 2017.
Meningitis Bacteria Adapting to STI Niche, Genetic Analysis Shows
Infection Control Today, Apr 4, 2017.
CONCEPTS / COMMENTS
Crisis in Infectious Diseases: 2 Decades Later
Casadevall A. Clin Infect Dis 2017;64(7):823-828.
Leading Antibacterial Laboratory Research by Integrating Conventional and Innovative Approaches: The Laboratory Center of the Antibacterial Resistance Leadership Group.
Manca Claudia et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2017 Mar (suppl_1) S13-S17
Biomarker tests for bacterial infection-a costly wait for the holy grail.
Lubell Yoel et al. The Lancet. Infectious diseases 2017 Apr (4) 369-370
METHODS / TOOLS
Sequence analysis of pooled bacterial samples enables identification of strain variation in group A streptococcus.
Weldatsadik Rigbe G et al. Scientific reports 2017 Mar 45771
Impact of Contaminating DNA in Whole Genome Amplification Kits Used for Metagenomic Shotgun Sequencing for Infection Diagnosis.
Thoendel Matthew et al. Journal of clinical microbiology 2017 Mar
UNBIAS: An attempt to correct abundance bias in 16S sequencing, with limited success
Edgar RC. bioRxiv, Apr 4, 2017.
The use of Oxford Nanopore native barcoding for complete genome assembly
Bayliss SC, et al. GigaScience, Mar 2017.
CIDR: Ultrafast and accurate clustering through imputation for single-cell RNA-seq data.
Lin Peijie et al. Genome biology 2017 Mar (1) 59
VivaxGEN: An open access platform for comparative analysis of short tandem repeat genotyping data in Plasmodium vivax Populations.
Trimarsanto Hidayat et al. PLoS neglected tropical diseases 2017 Mar (3) e0005465
EVOLUTION / ECOLOGY / POPULATIONS
Five decades of genome evolution in the globally distributed, extensively antibiotic-resistant Acinetobacter baumannii global clone 1.
Holt Kathryn et al. Microbial genomics 2016 Feb (2) e000052
Genetic Diversity of Brucella Reference and Non-reference Phages and Its Impact on Brucella-Typing.
Hammerl Jens A et al. Frontiers in microbiology 2017 408
The Influence of HIV on The Evolution of Mycobacterium tuberculosis.
Koch Anastasia et al. Molecular biology and evolution 2017 Mar
Further Evidence for Bats as the Evolutionary Source of Middle East Respiratory Syndrome Coronavirus
Anthony SJ, et al. mBio, Apr 4, 2017.
Changing epidemiology of candidaemia in Australia.
Chapman Belinda et al. The Journal of antimicrobial chemotherapy 2017 Apr (4) 1103-1108
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
Emergence of a new Neisseria meningitidis clonal complex 11 lineage 11.2 clade as an effective urogenital pathogen.
Tzeng Yih-Ling et al. Proceedings of the National Academy of Sciences of the United States of America 2017 Apr
Molecular epidemiology in relation to azithromycin resistance in Neisseria gonorrhoeae isolates from Amsterdam, the Netherlands, between 2008 and 2015-a case-control study.
Wind Carolien M et al. Antimicrobial agents and chemotherapy 2017 Apr
Clinical Implications of Genomic Adaptation and Evolution of Carbapenem-Resistant Klebsiella pneumoniae.
Gomez-Simmonds Angela et al. The Journal of infectious diseases 2017 Feb (suppl_1) S18-S27
Epidemiological and molecular characterization of an invasive Group A Streptococcus emm32.2 outbreak.
Cornick Jennifer E et al. Journal of clinical microbiology 2017 Mar
Evidence for Contemporary Switching of the O-Antigen Gene Cluster between Shiga Toxin-Producing Escherichia coli Strains Colonizing Cattle.
Geue Lutz et al. Frontiers in microbiology 2017 424
Mutational correlates of virological failure in individuals receiving a WHO-recommended tenofovir-containing first-line regimen: An international collaboration.
Rhee Soo-Yon et al. EBioMedicine 2017 Mar
The Evolutionary Pathway to Virulence of an RNA Virus.
Stern Adi et al. Cell 2017 Mar (1) 35-46.e19
An association between K65R and HIV-1 subtype C viruses in patients treated with multiple NRTIs.
Smit Erasmus et al. The Journal of antimicrobial chemotherapy 2017 Apr
DETECTION / DIAGNOSIS
Bacterial clonal diagnostics as a tool for evidence-based empiric antibiotic selection.
Tchesnokova Veronika et al. PloS one 2017 (3) e0174132
Rapid detection of cfiA metallo-β-lactamase-producing Bacteroides fragilis by the combination of MALDI-TOF MS and CarbaNP.
Ho Pak-Leung et al. Journal of clinical pathology 2017 Mar
Performance and economic evaluation of the molecular detection of pathogens for patients with severe infections: the EVAMICA open-label, cluster-randomised, interventional crossover trial.
Cambau Emmanuelle et al. Intensive care medicine 2017 Apr
Molecular point-of-care testing for respiratory viruses versus routine clinical care in adults with acute respiratory illness presenting to secondary care: a pragmatic randomised controlled trial protocol (ResPOC).
Brendish Nathan J et al. BMC infectious diseases 2017 Feb (1) 128
Ultra-Deep Sequencing Characterization of HCV Samples with Equivocal Typing Results Determined with a Commercial Assay.
Minosse Claudia et al. International journal of molecular sciences 2016 Oct (10)
Viral Pathogen Detection by Metagenomics and Pan Viral Group PCR in Children with Pneumonia Lacking Identifiable Etiology.
Schlaberg Robert et al. The Journal of infectious diseases 2017 Mar
A Melting Curve-Based Multiplex RT-qPCR Assay for Simultaneous Detection of Four Human Coronaviruses.
Wan Zhenzhou et al. International journal of molecular sciences 2016 Nov (11)
Impact of introduction of rapid diagnostic tests for malaria on antibiotic prescribing: analysis of observational and randomised studies in public and private healthcare settings.
Hopkins Heidi et al. BMJ (Clinical research ed.) 2017 Mar j1054
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
Complex Routes of Nosocomial Vancomycin-Resistant Enterococcus faecium Transmission Revealed by Genome Sequencing.
Raven Kathy E et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2017 Apr (7) 886-893
Evolution and Transmission of Carbapenem-Resistant Klebsiella pneumoniae Expressing the blaOXA-232 Gene During an Institutional Outbreak Associated With Endoscopic Retrograde Cholangiopancreatography.
Yang Shangxin et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2017 Apr (7) 894-901
Rule-Out Outbreak: 24-Hour Metagenomic Next-Generation Sequencing for Characterizing Respiratory Virus Source for Infection Prevention.
Greninger Alexander L et al. Journal of the Pediatric Infectious Diseases Society 2017 Apr
Molecular epidemiology of a Malassezia pachydermatis neonatal unit outbreak.
Ilahi Amin et al. Medical mycology 2017 Mar
ANTIMICROBIALS / VACCINES / INTERVENTIONS
Impact of rapid susceptibility testing and antibiotic selection strategy on the emergence and spread of antibiotic resistance in gonorrhea
Tuite AR, et al. bioRxiv, Apr 2, 2017.
Analysis of the Variability of Epstein-Barr Virus Genes in Infectious Mononucleosis: Investigation of the Potential Correlation with Biochemical Parameters of Hepatic Involvement.
Banko Ana et al. Journal of medical biochemistry 2016 Sep (3) 337-346
NRAMP1 gene polymorphisms and cutaneous leishmaniasis: An evaluation on host susceptibility and treatment outcome.
Fattahi-Dolatabadi Marzieh et al. Journal of vector borne diseases (3) 257-63
The microbiological landscape of anaerobic infections in Hidradenitis Suppurativa: a prospective metagenomic study.
Guet-Revillet Hélène et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2017 Apr
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