Advanced Molecular Detection Clips Content (Published on 11/16/2017)
Genomes rewrite cholera's global story
Kupferschmidt K. Science, Nov 10, 2017.
Novel tool forecasts severity of coming influenza season
Healio, Nov 15, 2017.
Healthy Gut Microbiome Variation, Disease-Related Declines Described in New Studies
GenomeWeb, Nov 15, 2017.
Research Links Gut Health to Neurodegeneration
Akst J. The Scientist, Nov 13, 2017.
EVENTS / TRAINING / WEB RESOURCES
2019 Theme Issue: Emerging and Reemerging Infectious Diseases
(call for papers) Epidemiologic Reviews
CONCEPTS / COMMENTS
What Recent History Has Taught Us About Responding to Emerging Infectious Disease Threats.
Paules Catharine I et al. Annals of internal medicine 2017 Nov
The poverty-related neglected diseases: Why basic research matters.
Hotez Peter J et al. PLoS biology 2017 Nov (11) e2004186
A Swiss Army Knife to Cut Malaria Transmission.
Gendrin Mathilde et al. Cell host & microbe 2017 Nov (5) 577-579
METHODS / TOOLS
Evaluation of Two Matrices for Long-Term, Ambient Storage of Bacterial DNA.
Miernyk Karen M et al. Biopreservation and biobanking 2017 Nov
A model-based clustering method to detect infectious disease transmission outbreaks from sequence variation.
McCloskey Rosemary M et al. PLoS computational biology 2017 Nov (11) e1005868
Aligner optimization increases accuracy and decreases compute times in multi-species sequence data.
Robinson Kelly M et al. Microbial genomics 2017 Sep (9) e000122
Reference genome assessment from a population scale perspective: an accurate profile of variability and noise.
Carbonell-Caballero José et al. Bioinformatics (Oxford, England) 2017 Nov (22) 3511-3517
A novel multi SNP based method for the identification of subspecies and associated lineages and sub-lineages of the Mycobacterium tuberculosis complex by whole genome sequencing
Lipworth SI, et al. bioRxiv, Nov 6, 2017.
Evolution-informed forecasting of seasonal influenza A (H3N2).
Du Xiangjun et al. Science translational medicine 2017 Oct (413)
A Multicenter Study To Evaluate the Performance of High-Throughput Sequencing for Virus Detection.
Khan Arifa S et al. mSphere (5)
Essential Steps in Characterizing Bacteriophages: Biology, Taxonomy, and Genome Analysis.
Aziz Ramy Karam et al. Methods in molecular biology (Clifton, N.J.) 2018 197-215
Development of amplicon deep sequencing markers and data analysis pipeline for genotyping multi-clonal malaria infections.
Lerch Anita et al. BMC genomics 2017 Nov (1) 864
New reverse genetics and transfection methods to rescue arboviruses in mosquito cells.
Atieh Thérèse et al. Scientific reports 2017 Oct (1) 13983
EVOLUTION / ECOLOGY / POPULATIONS
Integrated view of Vibrio cholerae in the Americas.
Domman Daryl et al. Science (New York, N.Y.) 2017 Nov (6364) 789-793
Genomic history of the seventh pandemic of cholera in Africa.
Weill François-Xavier et al. Science (New York, N.Y.) 2017 Nov (6364) 785-789
Genomic Variation and Evolution of Vibrio parahaemolyticus ST36 over the Course of a Transcontinental Epidemic Expansion.
Martinez-Urtaza Jaime et al. mBio 2017 Nov (6)
Genesis and Spread of Newly Emerged Highly Pathogenic H7N9 Avian Viruses in Mainland China.
Yang Lei et al. Journal of virology 2017 Dec (23)
Fitness cost of reassortment in human influenza.
Villa Mara et al. PLoS pathogens 2017 Nov (11) e1006685
The emergence and evolution of influenza A (H1α) viruses in swine in Canada and the United States.
Nelson Martha I et al. The Journal of general virology 2017 Nov (11) 2663-2675
Molecular characterization of atypical antigenic variants of canine rabies virus reveals its reintroduction by wildlife vectors in southeastern Mexico.
Garcés-Ayala Fabiola et al. Archives of virology 2017 Dec (12) 3629-3637
Characterisation of complete high- and low-risk human papillomavirus genomes isolated from cervical specimens in southern Brazil.
Oliveira Gisele R de et al. Memorias do Instituto Oswaldo Cruz 2017 Oct (10) 728-731
Genomic and epidemiological characterisation of a dengue virus outbreak among blood donors in Brazil.
Faria Nuno R et al. Scientific reports 2017 Nov (1) 15216
Molecular Evolution of Herpes Simplex Virus 2 Complete Genomes: Comparison between Primary and Recurrent Infections.
Minaya Miguel A et al. Journal of virology 2017 Dec (23)
A Selective Bottleneck Shapes the Evolutionary Mutant Spectra of Enterovirus A71 during Viral Dissemination in Humans.
Huang Sheng-Wen et al. Journal of virology 2017 Dec (23)
The microbiome and resistome of hospital sewage during passage through the community sewer system
Buelow E, et al. bioRxiv, Nov 9, 2017.
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
Ceftriaxone-Resistant Neisseria gonorrhoeae, Canada, 2017.
Lefebvre Brigitte et al. Emerging infectious diseases 2018 Feb (2)
Genomic characterisation of clinical and environmental Pseudomonas putida group strains and determination of their role in the transfer of antimicrobial resistance genes to Pseudomonas aeruginosa.
Peter Silke et al. BMC genomics 2017 Nov (1) 859
Global phylogenetic analysis of Escherichia coli and plasmids carrying the mcr-1 gene indicates bacterial diversity but plasmid restriction.
Matamoros Sébastien et al. Scientific reports 2017 Nov (1) 15364
Remarkable Diversity of Escherichia coli Carrying mcr-1 from Hospital Sewage with the Identification of Two New mcr-1 Variants.
Zhao Feifei et al. Frontiers in microbiology 2017 2094
Genomic analysis of endemic clones of toxigenic and non-toxigenic Corynebacterium diphtheriae in Belarus during and after the major epidemic in 1990s.
Grosse-Kock Steffen et al. BMC genomics 2017 Nov (1) 873
DETECTION / DIAGNOSIS
Towards a genomics-informed, real-time, global pathogen surveillance system.
Gardy Jennifer L et al. Nature reviews. Genetics 2017 Nov
Multicenter Evaluation of the Modified Carbapenem Inactivation Method and the Carba NP for Detection of Carbapenemase-Producing Pseudomonas aeruginosa and Acinetobacter baumannii.
Simner Patricia J et al. Journal of clinical microbiology 2017 Nov
Metagenomics for chronic meningitis: clarifying interpretation and diagnosis
Wilson MR, et al. bioRxiv, Nov 7, 2017.
Detection of Mycobacterium tuberculosis pncA mutations by the NIPRO Genoscholar(™)⋅PZA-TB II as compared to conventional sequencing.
Willby Melisa J et al. Antimicrobial agents and chemotherapy 2017 Oct
What is resistance? Impact of phenotypic versus molecular drug resistance testing on multi- and extensively drug-resistant tuberculosis therapy.
Heyckendorf Jan et al. Antimicrobial agents and chemotherapy 2017 Nov
A new sequencing-based women's health assay combining self-sampling, HPV detection and genotyping, STI detection, and vaginal microbiome analysis
Bik EM, et al. bioRxiv, Nov 13, 2017.
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
Antimicrobial resistant Klebsiella pneumoniae carriage and infection in specialized geriatric care wards linked to acquisition in the referring hospital
Gorrie CL, et al. bioRxiv, Nov 13, 2017.
A large ongoing outbreak of hepatitis A predominantly affecting young males in Lazio, Italy; August 2016 - March 2017.
Lanini Simone et al. PloS one 2017 (11) e0185428
Ryan Una et al. International journal for parasitology 2017 Nov
ANTIMICROBIALS / VACCINES / INTERVENTIONS
HIV-1 persistence following extremely early initiation of antiretroviral therapy (ART) during acute HIV-1 infection: An observational study.
Henrich Timothy J et al. PLoS medicine 2017 Nov (11) e1002417
Comparison of the human gastric microbiota in hypochlorhydric states arising as a result of Helicobacter pylori-induced atrophic gastritis, autoimmune atrophic gastritis and proton pump inhibitor use.
Parsons Bryony N et al. PLoS pathogens 2017 Nov (11) e1006653
Microbial Diversity of Genital Ulcers of HSV-2 Seropositive Women.
Mehta Supriya D et al. Scientific reports 2017 Nov (1) 15475
Host genetics and dengue fever.
de Carvalho Caroline Xavier et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2017 Nov
Discovery of an expansive bacteriophage family that includes the most abundant viruses from the human gut.
Yutin Natalya et al. Nature microbiology 2017 Nov
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