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
- White House announces review process for risky virus studies
Kaiser J. Science, Jan 9, 2017. - Mapping the Microorganisms Behind Hospital-Borne Infections
Bond A. Atlantic, Jan 11, 2017. - ID Genomics Launches Consortium to Improve Infectious Disease Diagnostics, Antibiotic Treatment
GenomeWeb, Jan 11, 2017. - Microbiome Therapy for C. diff Clears Phase 2 Clinical Trial
Krisch JA. The Scientist, Jan 6, 2017. - BARDA-supported Zika vaccine candidate enters clinical trial
[press release] OASPR, DHHS. Jan 9, 2017. - NIAID Grants $3M for Proteomics Study of HIV Resistance
Han AP, GenomeWeb, Jan 6, 2017. - Ebola Can Linger, Perhaps Replicate in Lungs
Boyles S. MedPage Today, Jan 7, 2017. - New method accurately detects prions in blood
NIH Research Matters, Jan 10, 2017. - Genome of Deadly 800 Year Old Infection Found in Byzantine Skeleton
Worthington D. New Historian, Jan 11, 2017.
EVENTS / TRAINING / WEB RESOURCES
- The Microbiome & Innovations to Slow Antibiotic Resistance
(web page) CDC, Jan 5, 2017.
POLICY
- Recommended Policy Guidance for Potential Pandemic Pathogen Care and Oversight
White House, Jan 9, 2016.
CONCEPTS / COMMENTS
- Assessing the Risk of Antibiotic Resistance Transmission from the Environment to Humans: Non-Direct Proportionality between Abundance and Risk.
Manaia Célia M et al. Trends in microbiology 2016 Dec - Ancient Hominid "Hanky Panky" Also Influenced Spread of STIs.
Caspermeyer Joseph et al. Molecular biology and evolution 2017 Jan (1) 242
METHODS / TOOLS
- High Interlaboratory Reproducibility and Accuracy of Next-Generation Sequencing-Based Bacterial Genotyping in a Ring-Trial.
Mellmann Alexander et al. Journal of clinical microbiology 2017 Jan
- DNA sequencing technologies: 2006-2016.
Mardis Elaine R et al. Nature protocols 2017 Feb (2) 213-218 - Multiplex PCR method for MinION and Illumina sequencing of Zika and other virus genomes directly from clinical samples
Quick J, et al. bioRxiv, Jan 9, 2017. - Impacts and shortcomings of genetic clustering methods for infectious disease outbreaks.
Poon Art F Y et al. Virus evolution 2016 Jul (2) vew031 - Bacterial whole genome-based phylogeny: construction of a new benchmarking dataset and assessment of some existing methods.
Ahrenfeldt Johanne et al. BMC genomics 2017 Jan (1) 19 - Rapid resistome mapping using nanopore sequencing.
van der Helm Eric et al. Nucleic acids research 2017 Jan - phyloSkeleton: taxon selection, data retrieval and marker identification for phylogenomics.
Guy Lionel et al. Bioinformatics (Oxford, England) 2017 Jan - Fast and accurate phylogeny reconstruction using filtered spaced-word matches.
Leimeister Chris-André et al. Bioinformatics (Oxford, England) 2017 Jan - Improving HIV proteome annotation: new features of BioAfrica HIV Proteomics Resource.
Druce Megan et al. Database : the journal of biological databases and curation 2016 - Phylogenetic Tools for Generalized HIV-1 Epidemics: Findings from the PANGEA-HIV Methods Comparison.
Ratmann Oliver et al. Molecular biology and evolution 2017 Jan (1) 185-203 - Performing Skin Microbiome Research: A Method to the Madness.
Kong Heidi H et al. The Journal of investigative dermatology 2017 Jan - Disentangling Interactions in the Microbiome: A Network Perspective.
Layeghifard Mehdi et al. Trends in microbiology 2016 Dec
EVOLUTION / ECOLOGY / POPULATIONS
- Discovery of Streptococcus pneumoniae serogroup 35 variants in Australian patients.
Staples Megan et al. Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases 2017 Jan - Comparison of sputum microbiome of legionellosis-associated patients and other pneumonia patients: indications for polybacterial infections.
Mizrahi Hila et al. Scientific reports 2017 Jan 40114 - Molecular characterization of Staphylococcus aureus isolates from various healthcare institutions in Nairobi, Kenya: a cross sectional study.
Omuse Geoffrey et al. Annals of clinical microbiology and antimicrobials 2016 Sep (1) 51 - Genesis, Evolution and Prevalence of H5N6 Avian Influenza Viruses in China.
Bi Yuhai et al. Cell host & microbe 2016 Dec (6) 810-821 - Analysis of complete genome sequences of G9P[19] rotavirus strains from human and piglet with diarrhea provides evidence for whole-genome interspecies transmission of nonreassorted porcine rotavirus.
Yodmeeklin Arpaporn et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2017 Jan 99-108 - Whole genome analysis provides evidence for porcine-to-simian interspecies transmission of rotavirus-A.
Navarro Ryan et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2016 Dec 21-31 - Origin and evolution of LX4 genotype infectious bronchitis coronavirus in China.
Zhao Wenjun et al. Veterinary microbiology 2017 Jan 9-16 - Phylogeography of Rift Valley Fever Virus in Africa and the Arabian Peninsula.
Samy Abdallah M et al. PLoS neglected tropical diseases 2017 Jan (1) e0005226
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
- Molecular epidemiology of bla OXA-23 -producing carbapenem-resistant Acinetobacter baumannii in a single institution over a 65-month period in north China.
Ning Nian-Zhi et al. BMC infectious diseases 2017 Jan (1) 14 - Experimental pathogenicity and complete genome characterization of a pig origin Pasteurella multocida serogroup F isolate HN07.
Peng Zhong et al. Veterinary microbiology 2017 Jan 23-33 - A molecular portrait of maternal sepsis from Byzantine Troy.
Devault Alison M et al. eLife 2017 Jan - MRSA strains carrying the novel mecC gene: full genome sequencing identifies in the genetic background several determinants that modulate the resistant phenotype.
Milheiriço Catarina et al. Antimicrobial agents and chemotherapy 2017 Jan - Monophylogenetic HIV-1C epidemic in Ethiopia is dominated by CCR5-tropic viruses-an analysis of a prospective country-wide cohort.
Kalu Amare Worku et al. BMC infectious diseases 2017 Jan (1) 37 - Detection of Viral RNA in Tissues following Plasma Clearance from an Ebola Virus Infected Patient.
Biava Mirella et al. PLoS pathogens 2017 Jan (1) e1006065 - The molecular epidemiology of Pf k13 mutations in Senegal using targeted amplicon deep sequencing.
Talundzic Eldin et al. Antimicrobial agents and chemotherapy 2017 Jan
DETECTION / DIAGNOSIS
- Evaluation of MLVA for epidemiological typing and outbreak detection of ESBL-producing Escherichia coli in Sweden.
Helldal Lisa et al. BMC microbiology 2017 Jan (1) 8 - Improved Differentiation of Streptococcus pneumoniae and Other S. mitis group Streptococci by MALDI Biotyper Using an Improved MALDI Biotyper Database Content and a Novel Result Interpretation Algorithm.
Harju Inka et al. Journal of clinical microbiology 2017 Jan - Effect of a host-protein based assay on the differentiation of bacterial and viral infections in pre-school children.
Esposito Susanna et al. The Lancet. Infectious diseases 2016 Dec - The variability and reproducibility of whole genome sequencing technology for detecting resistance to anti-tuberculous drugs.
Phelan Jody et al. Genome medicine 2016 Dec (1) 132 - Effect of new tuberculosis diagnostic technologies on community-based intensified case finding: a multicentre randomised controlled trial.
Calligaro Gregory L et al. The Lancet. Infectious diseases 2017 Jan - Neurobrucellosis: Unexpected Answer From Metagenomic Next-Generation Sequencing.
Mongkolrattanothai Kanokporn et al. Journal of the Pediatric Infectious Diseases Society 2017 Jan - Assessing next-generation sequencing and 4 bioinformatics tools for detection of Enterovirus D68 and other respiratory viruses in clinical samples.
Huang Weihua et al. Diagnostic microbiology and infectious disease 2016 May (1) 26-9 - Human and Dromedary Camel Infection with Camelpox Virus in Eastern Sudan.
Khalafalla Abdelmalik I et al. Vector borne and zoonotic diseases (Larchmont, N.Y.) 2017 Jan - Detection of Zika Virus in Desiccated Mosquitoes by Real-Time Reverse Transcription PCR and Plaque Assay.
Burkhalter Kristen L et al. Emerging infectious diseases 2017 Apr (4)
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
- Strain-specific transmission in an outbreak of ESBL-producing Enterobacteriaceae in the hemato-oncology care unit: a cohort study.
Uemura Makiko et al. BMC infectious diseases 2017 Jan (1) 26 - Singleton ST382, an emerging clonal group of Listeria monocytogenes associated with three multistate outbreaks linked to contaminated stone fruit, caramel apples and leafy green salad.
Chen Yi et al. Journal of clinical microbiology 2017 Jan - Multistate outbreak of Listeria monocytogenes infections linked to whole apples used in commercially produced, prepackaged caramel apples: United States, 2014-2015.
Angelo K M et al. Epidemiology and infection 2017 Jan 1-9 - Genomic insights into a sustained national outbreak of Yersinia pseudotuberculosis.
Williamson Deborah A et al. Genome biology and evolution 2017 Jan - Exploring genotype concordance in epidemiologically linked cases of tuberculosis in New York City.
Robbins R S et al. Epidemiology and infection 2017 Feb (3) 503-514 - Social and Genetic Networks of HIV-1 Transmission in New York City.
Wertheim Joel O et al. PLoS pathogens 2017 Jan (1) e1006000
ANTIMICROBIALS / VACCINES / INTERVENTIONS
- Whole Genome Sequence Analysis of Salmonella Typhi Isolated in Thailand before and after the Introduction of a National Immunization Program.
Dyson Zoe A et al. PLoS neglected tropical diseases 2017 Jan (1) e0005274 - The search for novel insecticide targets in the post-genomics era, with a specific focus on G-protein coupled receptors.
Ngai Michelle et al. Memorias do Instituto Oswaldo Cruz 2017 Jan (1) 1-7
HOST-MICROBE INTERACTIONS
- Multiple HPV infections in female sex workers in Western Kenya: implications for prophylactic vaccines within this sub population.
Menon Sonia et al. Infectious agents and cancer 2017 2 - Investigation of the microbiota of the reproductive tract in women undergoing a total hysterectomy and bilateral salpingo-oopherectomy.
Miles Shana M et al. Fertility and sterility 2017 Jan
Note: indicates that at least one CDC-affiliated author; indicates that the article addresses aspects of implementation or evaluation in clinical or public health practice.
Disclaimer: Articles listed in the Advanced Molecular Detection Clips are selected by the CDC Office of Public Health Genomics 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.
indicates that at least one CDC-affiliated author; indicates that the article addresses aspects of implementation or evaluation in clinical or public health practice.Disclaimer: Articles listed in the Advanced Molecular Detection Clips are selected by the CDC Office of Public Health Genomics 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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