Advanced Molecular Detection Clips Content (Published on 12/17/2015)
NEWS
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Meet the Necrobiome: The Waves of Microbes That Will Eat Your Corpse
Yong E. Atlantic, Dec 10, 2015. -
Synthetic Long Reads Identify Diverse Bacterial Species in Human Gut Microbiome
GenomeWeb, Dec 14, 2015. -
UK Team Develops Fast, Cost-Effective NGS-Based Tuberculosis Test
Heger M. GenomeWeb, Dec 15, 2015. -
Citizen Sequencers: Taking Oxford Nanopore's MinION to the Classroom and Beyond
Krol A. Bio-IT World, Dec 9, 2015. -
Congress Reaches Agreement on Budget to Boost NIH Funding by $2B
GenomeWeb, Dec 16, 2015. -
Researchers Assess Variant Calling Pipelines Using Genome in a Bottle 'Gold Standard'
Heger M. GenomeWeb, Dec 15, 2015. -
Sequencing Study Tracks Roots of TB Emergence to East Africa
GenomeWeb, dec 10, 2015. -
German Group Develops On-Chip RPA Arrays for Isothermal Detection of Viruses, Bacteria
Johnson M. GenomeWeb, Dec 16, 2015.
EVENTS / TRAINING / WEB RESOURCES
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SRA Toolkit: the SRA database at your fingertips
(blog post) NCBI, Dec 11, 2015. -
Fine-tune your web-based search results with SRA Run Selector
(blog post) NCBI, Dec 11, 2015. -
List of Community Software Tools for Next Generation Sequencing
(web page) NCBI-Hackathons, updated Dec 9, 2015. -
NCBI Learn
(website) Webinars, tutorials, documentation. -
New Educational Module from the Bioethics Commission on Privacy in Ethics and Ebola Now Available
(blog post) Pike E. blog.Bioethics.gov, Dec 11, 2015.
CONCEPTS / COMMENTS
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Whole-genome sequencing of Mycobacterium tuberculosis for rapid diagnostics and beyond
Colijn C, Cohen T. Lancet, Dec 3, 2015. -
Principle of proportionality in genomic data sharing.
Wright Caroline F et al. Nature reviews. Genetics 2016 Jan (1) 1-2 -
Antiviral Innate Immunity through the lens of Systems Biology.
Tripathi Shashank et al. Virus research 2015 Dec
METHODS / TOOLS
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Systematic comparison of variant calling pipelines using gold standard personal exome variants.
Hwang Sohyun et al. Scientific reports 2015 17875 -
Sequence database versioning for command line and Galaxy bioinformatics servers.
Dooley Damion et al. Bioinformatics (Oxford, England) 2015 Dec -
markophylo: Markov chain analysis on phylogenetic trees.
Dang Utkarsh J et al. Bioinformatics (Oxford, England) 2015 Sep -
BamHash: a checksum program for verifying the integrity of sequence data.
Óskarsdóttir Arna et al. Bioinformatics (Oxford, England) 2015 Sep -
Building a genomic framework for prospective MRSA surveillance in the United Kingdom and the Republic of Ireland.
Reuter Sandra et al. Genome research 2015 Dec
EVOLUTION / ECOLOGY / POPULATIONS
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Genomic Variability of Serial Human Isolates of Salmonella enterica Serovar Typhimurium Associated with Prolonged Carriage.
Octavia Sophie et al. Journal of clinical microbiology 2015 Nov (11) 3507-14 -
Complete Genome Sequences for Two Strains of a Novel Fastidious, Partially Acid-Fast, Gram-Positive Corynebacterineae Bacterium, Derived from Human Clinical Samples.
Nicholson Ainsley C et al. Genome announcements 2015 (6) -
Clonal spread and interspecies transmission of clinically relevant ESBL-producing Escherichia coli of ST410 - another successful pandemic clone?
Schaufler Katharina et al. FEMS microbiology ecology 2015 Dec -
Molecular characterisation of extended-spectrum β-lactamase (ESBL)-producing Escherichia coli isolates from hospital and ambulatory patients in Germany.
Pietsch Michael et al. Veterinary microbiology 2015 Nov -
An Epizootiological Report of the Re-emergence and Spread of a Lineage of Virulent Newcastle Disease Virus into Eastern Europe.
Fuller C et al. Transboundary and emerging diseases 2015 Dec -
Importation and Recombination Are Responsible for the Latest Emergence of Highly Pathogenic Porcine Reproductive and Respiratory Syndrome Virus in China.
Zhao Kuan et al. Journal of virology 2015 Oct (20) 10712-6 -
Population genomics of intrapatient HIV-1 evolution.
Zanini Fabio et al. eLife 2015 Dec -
Molecular evolution and intra-clade recombination of Enterovirus D68 during the 2014 outbreak in the United States.
Tan Yi et al. Journal of virology 2015 Dec -
Evolution and Spread of Ebola Virus in Liberia, 2014-2015.
Ladner Jason T et al. Cell host & microbe 2015 Dec (6) 659-69 -
Clonal population expansion in an outbreak of Plasmodium falciparum on the northwest coast of Ecuador.
Sáenz Fabián E et al. Malaria journal (1) 497 -
Comparison of Leishmania killicki (syn. L. tropica) and Leishmania tropica Population Structure in Maghreb by Microsatellite Typing.
Chaara Dhekra et al. PLoS neglected tropical diseases 2015 Dec (12) e0004204 -
Genetic diversity of Plasmodium falciparum parasite by microsatellite markers after scale-up of insecticide-treated bed nets in western Kenya.
Gatei Wangeci et al. Malaria journal (1) 495
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
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Detection of mcr-1 encoding plasmid-mediated colistin-resistant Escherichia coli isolates from human bloodstream infection and imported chicken meat, Denmark 2015
Hasman H, et al. Euro Surveill. 2015;20(49):pii=30085. -
Whole-genome sequence analysis and exploration of the zoonotic potential of a rat-borne Bartonella elizabethae.
Tay S T et al. Acta tropica 2015 Dec -
Decreased susceptibility to chlorhexidine among nosocomial Staphylococcus aureus at Texas Children's Hospital: Clinical and Molecular Features.
McNeil J Chase et al. Antimicrobial agents and chemotherapy 2015 Dec
DETECTION / DIAGNOSIS
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Molecular tests for the detection of antimicrobial resistant Neisseria gonorrhoeae: when, where, and how to use?
Low Nicola et al. Current opinion in infectious diseases 2015 Dec -
On-Chip Isothermal Nucleic Acid Amplification on Flow-Based Chemiluminescence Microarray Analysis Platform for the Detection of Viruses and Bacteria.
Kunze A et al. Analytical chemistry 2015 Dec -
Rapid, comprehensive, and affordable mycobacterial diagnosis with whole-genome sequencing: a prospective study
Pankhurst LJ, et al. Lancet, Dec 3, 2015. -
Detection of rare drug resistance mutations by digital PCR in a human influenza A virus model system and clinical samples.
Whale Alexandra S et al. Journal of clinical microbiology 2015 Dec -
Discovery of a Novel Human Pegivirus in Blood Associated with Hepatitis C Virus Co-Infection.
Berg Michael G et al. PLoS pathogens 2015 Dec (12) e1005325 -
Application of PCR and High-Resolution Melting for Rapid Identification of Yeasts Routinely Isolated in a Clinical Microbiology Laboratory.
Ninghui Guo et al. Annals of clinical and laboratory science 2015 Nov (6) 680-5 -
Clinical metagenomic identification of Balamuthia mandrillaris encephalitis and assembly of the draft genome: the continuing case for reference genome sequencing.
Alexander L Greninger et al. Genome Med 2015 12 113
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
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HIV infection and hepatitis C virus genotype 1a are associated with phylogenetic clustering among people with recently acquired hepatitis C virus infection.
Bartlett Sofia R et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2015 Nov -
Comparison of microarray-predicted closest genomes to sequencing for poliovirus vaccine strain similarity and influenza A phylogeny.
Maurer-Stroh Sebastian et al. Diagnostic microbiology and infectious disease 2015 Nov -
Hospital outbreak of pulmonary and cutaneous zygomycosis due to contaminated linen items from substandard laundry.
Cheng Vincent C C et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2015 Dec
HOST-MICROBE INTERACTIONS
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Epidemiologic, Virologic, and Host Genetic Factors of Norovirus Outbreaks in Long-term Care Facilities.
Veronica P Costantini et al. Clin Infect Dis 2015 10 (1) 1-10 -
Human papillomavirus genotype and oropharynx cancer survival in the United States of America.
Goodman Marc T et al. European journal of cancer (Oxford, England : 1990) 2015 Dec (18) 2759-67 -
Human Papillomavirus 18 Genetic Variation and Cervical Cancer Risk Worldwide.
Chen Alyce A et al. Journal of virology 2015 Oct (20) 10680-7 -
The characterization and manipulation of the bacterial microbiome of the Rocky Mountain wood tick, Dermacentor andersoni.
Clayton Katie A et al. Parasites & vectors (1) 632
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Disclaimer: Articles listed in the Advanced Molecular Detection Clips are selected by Public Health Genomics Branch 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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