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Advanced Molecular Detection Clips
Spotlight
Sabin vaccine reversion in the field: a comprehensive analysis of Sabin-like poliovirus isolates in Nigeria. The global polio eradication effort has completed its twenty-sixth year. Despite success in eliminating wild poliovirus from most of the world, polio persists in populations where logistical, social, and political factors have not allowed for vaccination programs of sustained high quality. One issue of critical importance is eliminating circulating vaccine-derived poliovirus (cVDPV) that have properties indistinguishable from wild poliovirus and can cause paralytic disease. cVDPV emerges due to the genetic instability of the Sabin viruses used in oral polio vaccine (OPV) in populations that have low immunity to poliovirus. However, the dynamics responsible are incompletely understood because it has historically been difficult to gather and interpret data about OPV evolution in regions where cVDPV has occurred. This study is the first to combine whole-genome sequencing of poliovirus isolates collected during routine surveillance with knowledge about polio intra-host dynamics to provide quantitative insight into polio vaccine evolution in the field.
Advanced Molecular Detection Clips Content
NEWS
- UK-Funded Effort Aims to Offer Researchers Free Microbial Genome Analysis Resources
Thomas UG. GenomeWeb, Oct 15, 2015. - Genetic fingerprint links illnesses in Alberta outbreak mystery
McClure M. Calgary Herald, Oct 16, 2015. - Nanopore User Consortium Publishes Analysis of MinIon Performance Reproducibility
GenomeWeb, Oct 15, 2015. - Study Suggests High TB Rate in Inuit Populations Not Due to Enhanced Virulence
Anderson A. GenomeWeb, Oct 20, 2015. - HHS to Fund Development of Diagnostics for Health Emergency Threats
GenomeWeb, Oct 20, 2015. - Molecular Technology Poised to Change Point-of-Care Dx Setting
Fong T. GenomeWeb, Oct 20, 2015. - Handheld DNA reader revolutionary and democratising, say scientists
Sample I. Guardian, Oct 15, 2015.
EVENTS / TRAINING / WEB RESOURCES
- Rapid Medical Countermeasure Response to Infectious Diseases: Enabling Sustainable Capabilities Through Ongoing Public- and Private-Sector Partnerships
(pre-publication workshop report) National Academies Press, 2015.
CONCEPTS / COMMENTS
- Evaluating Ebola vaccine trials: insights from simulation.
Pulliam Juliet R C et al. The Lancet. Infectious diseases 2015 Oct (10) 1134 (CDC Author) - MERS, SARS, and Ebola: The Role of Super-Spreaders in Infectious Disease.
Wong Gary et al. Cell host & microbe 2015 Oct (4) 398-401 - Immunology: Chronic effects of acute infections
Harris N. Nature, Oct 22, 2015. - Whole-genome sequencing analysis, an essential tool for shedding light on the obscure evolution of Staphylococcus aureus USA300.
van der Mee-Marquet Nathalie L et al. The Journal of infectious diseases 2015 Oct - True Blood: dengue virus evolution
Wash R, Soria CD. Nat Rev Microbiol, Nov 2015. - Genetic code flexibility in microorganisms: novel mechanisms and impact on physiology.
Ling Jiqiang et al. Nature reviews. Microbiology 2015 Nov (11) 707-21
METHODS / TOOLS
- ITS2 Database V: Twice as Much.
Ankenbrand Markus J et al. Molecular biology and evolution 2015 Nov (11) 3030-2 - ISQuest: finding insertion sequences in prokaryotic sequence fragment data.
Biswas Abhishek et al. Bioinformatics (Oxford, England) 2015 Nov (21) 3406-12 - Karect: accurate correction of substitution, insertion and deletion errors for next-generation sequencing data.
Allam Amin et al. Bioinformatics (Oxford, England) 2015 Nov (21) 3421-8 - Error filtering, pair assembly and error correction for next-generation sequencing reads.
Edgar Robert C et al. Bioinformatics (Oxford, England) 2015 Nov (21) 3476-82 - LayerCake: a tool for the visual comparison of viral deep sequencing data.
Correll Michael et al. Bioinformatics (Oxford, England) 2015 Nov (21) 3522-8 - MinION Analysis and Reference Consortium: Phase 1 data release and analysis
Ip CL, et al. F1000 Research, Oct 15, 2015. - Harnessing the landscape of microbial culture media to predict new organism-media pairings.
Oberhardt Matthew A et al. Nature communications 2015 8493 - Clinical utilization of genomics data produced by the international Pseudomonas aeruginosa consortium.
Freschi Luca et al. Frontiers in microbiology 2015 1036
EVOLUTION / ECOLOGY / POPULATIONS
- Genome Sequence of a Urease-Positive Campylobacter lari Strain.
Meinersmann Richard J et al. Genome announcements 2015 (5) (CDC Author) - Genetic diversity of Mycoplasma arginini isolates based on multilocus sequence typing.
Olaogun Olusola M et al. Veterinary microbiology 2015 Oct (1-2) 123-8 - Rabies Cases in the West of China Have Two Distinct Origins.
Tao Xiao-Yan et al. PLoS neglected tropical diseases 2015 Oct (10) e0004140 - Molecular and epidemiological study of enterovirus D68 in Taiwan.
Huang Yuan-Pin et al. Journal of microbiology, immunology, and infection = Wei mian yu gan ran za zhi 2015 Sep - Whole-Genome Sequence Analysis Reveals the Enterovirus D68 Isolates during the United States 2014 Outbreak Mainly Belong to a Novel Clade.
Huang Weihua et al. Scientific reports 2015 15223 - Single-Cell Analysis of RNA Virus Infection Identifies Multiple Genetically Diverse Viral Genomes within Single Infectious Units.
Combe Marine et al. Cell host & microbe 2015 Oct (4) 424-32 - Genetic Characterization of Highly Pathogenic Avian Influenza A(H5N6) Virus, Guangdong, China
Mok CK, et al. Emerg Infect Dis, Dec 2015. - Molecular characterization of pig epidemic diarrhoea viruses isolated in Japan from 2013 to 2014.
Suzuki Tohru et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2015 Oct - Genetic variability and population structure of Plasmodium falciparum parasite populations from different malaria ecological regions of Kenya.
Ingasia Luicer A et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2015 Oct (CDC Author)
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
- First nationwide study regarding ceftriaxone resistance and molecular epidemiology of Neisseria gonorrhoeae in China.
Chen Shao-Chun et al. The Journal of antimicrobial chemotherapy 2015 Oct - Prevalence and molecular characterization of carbapenemase-producing gram-negative bacteria from a university hospital in China.
Sun Yao et al. Infectious diseases (London, England) 2015 Oct 1-9 - Antimicrobial resistance and population structure of Staphylococcus aureus recovered from pigs farms.
Peeters Laura E J et al. Veterinary microbiology 2015 Oct (1-2) 151-6 - MALDI-TOF mass spectrometry and blakpc gene phylogenetic analysis of an outbreak of carbapenem-resistant K. pneumoniae strains.
Angeletti Silvia et al. The new microbiologica 2015 Oct (4)
DETECTION / DIAGNOSIS
- Responses to Bacteria, Virus and Malaria Distinguish the Etiology of Pediatric Clinical Pneumonia.
Valim Clarissa et al. American journal of respiratory and critical care medicine 2015 Oct - The use of loop-mediated isothermal amplification improves Toxoplasma gondii detection in wildlife.
Trisciuoglio Anna et al. Journal of veterinary diagnostic investigation : official publication of the American Association of Veterinary Laboratory Diagnosticians, Inc 2015 Oct - The development and application of a molecular community profiling strategy to identify polymicrobial bacterial DNA in the whole blood of septic patients.
Faria Mmp et al. BMC microbiology 2015 (1) 215 - Diagnosing inflammation and infection in the urinary system via proteomics.
Yu Yanbao et al. Journal of translational medicine 2015 111 - Identification of a Novel Mycoplasma Species in a Patient with Septic Arthritis of the Hip and Seal Finger.
Westley Benjamin P et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2015 Oct - Early, Real-Time Medical Diagnosis of Botulism by Endopeptidase-Mass Spectrometry.
Rosen Osnat et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2015 Sep
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
- Whole Genome Sequence Analysis of Salmonella Enteritidis PT4 Outbreaks from a National Reference Laboratory's Viewpoint.
Wuyts Véronique et al. PLoS currents 2015 - Use of Whole-Genome Sequencing to Link Burkholderia pseudomallei from Air Sampling to Mediastinal Melioidosis, Australia
Currie BJ, et al. Emerg Infect Dis, Nov 2015. - Comparative genomics of community-associated methicillin-resistant Staphylococcus aureus shows the emergence of ST8-USA300 clone in Geneva, Switzerland.
Von Dach Elodie et al. The Journal of infectious diseases 2015 Oct - Chikungunya Virus as Cause of Febrile Illness Outbreak, Chiapas, Mexico, 2014.
Kautz Tiffany F et al. Emerging infectious diseases 2015 Nov (11) 2070-2073 - An outbreak of multiple norovirus strains on a cruise ship in China, 2014.
Wang Xuan et al. Journal of applied microbiology 2015 Oct - The Molecular Epidemiological Study of HCV Subtypes among Intravenous Drug Users and Non-Injection Drug Users in China.
Tao Jun et al. PloS one 2015 (10) e0140263 - Single Genome Sequencing of Hepatitis C Virus in Donor-Recipient Pairs Distinguishes Modes and Models of Virus Transmission and Early Diversification.
Li H et al. Journal of virology 2015 Oct
ANTIMICROBIALS / VACCINES / INTERVENTIONS
- Sabin vaccine reversion in the field: a comprehensive analysis of Sabin-like poliovirus isolates in Nigeria.
Famulare Michael et al. Journal of virology 2015 Oct (CDC Author) - Genetic Diversity and Protective Efficacy of the RTS,S/AS01 Malaria Vaccine.
Neafsey Daniel E et al. The New England journal of medicine 2015 Oct
HOST-MICROBE INTERACTIONS
- Evolutionary Transition from Pathogenicity to Commensalism: Global Regulator Mutations Mediate Fitness Gains through Virulence Attenuation.
Jansen Gunther et al. Molecular biology and evolution 2015 Nov (11) 2883-96 - Deep sequencing reveals the viral adaptation process of environment-derived H10N8 in mice.
Mei Kun et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2015 Oct - Filovirus pathogenesis and immune evasion: insights from Ebola virus and Marburg virus.
Messaoudi Ilhem et al. Nature reviews. Microbiology 2015 Nov (11) 663-76 - Primary Immunodeficiency Diseases: an Update on the Classification from the International Union of Immunological Societies Expert Committee for Primary Immunodeficiency 2015.
Picard Capucine et al. Journal of clinical immunology 2015 Oct - Gene expression and TB pathogenesis in rhesus macaques: TR4, CD40, CD40L, FAS (CD95), and TNF are host genetic markers in peripheral blood mononuclear cells that are associated with severity of TB lesions.
Roodgar Morteza et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2015 Oct - Genetic Variation in TLR10, an Inhibitory Toll-Like Receptor, Influences Susceptibility to Complicated Skin and Skin Structure Infections.
Stappers Mark H T et al. The Journal of infectious diseases 2015 Nov (9) 1491-9 - Plasmodium falciparum Protein Microarray Antibody Profiles Correlate With Protection From Symptomatic Malaria in Kenya.
Dent Arlene E et al. The Journal of infectious diseases 2015 Nov (9) 1429-38 - Distinct Viral and Mutational Spectrum of Endemic Burkitt Lymphoma.
Abate Francesco et al. PLoS pathogens 2015 Oct (10) e1005158 - TNFR2 Deficiency Acts in Concert with Gut Microbiota To Precipitate Spontaneous Sex-Biased Central Nervous System Demyelinating Autoimmune Disease.
Miller Patrick G et al. Journal of immunology (Baltimore, Md. : 1950) 2015 Oct - Inflammation, Antibiotics, and Diet as Environmental Stressors of the Gut Microbiome in Pediatric Crohn's Disease.
Lewis James D et al. Cell host & microbe 2015 Oct (4) 489-500 - A Gut Odyssey: The Impact of the Microbiota on Clostridium difficile Spore Formation and Germination.
Shen Aimee et al. PLoS pathogens 2015 Oct (10) e1005157
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