Advanced Molecular Detection Clips Database|AMD Clips|PHGKB

Advanced Molecular Detection Clips Database|AMD Clips|PHGKB

Publication Date: Jun 21, 2018

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. View Data Selection Criteria

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Advanced Molecular Detection Clips Content

• News
• Events / Training / Web Resources
• Concepts / Comments
• Methods / Tools
• Evolution / Ecology / Populations
• Pathogenicity / Antimicrobial Resistance
• Detection / Diagnosis
• Epidemiology / Outbreaks / Transmission
• Antimicrobials / Vaccines / Interventions
• Host-Microbe Interactions

NEWS

• UC Berkeley Team Develops Enzymatic DNA Synthesis Method  
  Karow J. GenomeWeb, Jun 19, 2018.
• Novel Method Could Accelerate DNA Synthesis  
  Charuchandra S. The Scientist, Jun 19, 2018.
• As suspected Ebola cases probed, new treatment shows promise  
  Schnirring L. CIDRAP, Jun 19, 2018.
• A molecular warning system for invasive pneumococcus  
  Langelier C. Sci Transl Med, Jun 20, 2018.
• UK Researchers Develop Rapid POC Test for Antibiotic-Related Hearing Loss  
  Gilmore J. GenomeWeb, Jun 19, 2018.
• Common Ingredient in Toothpaste Is Accelerating Antibiotic Resistance Problem Worldwide  
  Georgiou A. Newsweek, Jun 20, 2018.

EVENTS / TRAINING / WEB RESOURCES

• Important dbSNP updates: New JSON data files, RefSNP report, API  
  (announcement) NCBI, Jun 15, 2018.
• Biodefense in the Age of Synthetic Biology  
  (report) NASEM, Jun 2018.

CONCEPTS / COMMENTS

• Why Bats Make Such Good Viral Hosts  
  Zimmer K. The Scientist, Jun 1, 2018.
• Did Zika Virus Mutate to Cause Severe Outbreaks?  
  Rossi Shannan L et al. Trends in microbiology 2018 Jun
• Experimental infection of human volunteers.  
  Roestenberg Meta et al. The Lancet. Infectious diseases 2018 Jun

METHODS / TOOLS

• Taxonomy-aware feature engineering for microbiome classification.  
  Oudah Mai et al. BMC bioinformatics 2018 Jun (1) 227
• SciApps: A cloud-based platform for reproducible bioinformatics workflows.  
  Wang Liya et al. Bioinformatics (Oxford, England) 2018 Jun
• Variant site strain typer (VaST): efficient strain typing using a minimal number of variant genomic sites.  
  Furstenau Tara N et al. BMC bioinformatics 2018 Jun (1) 222
• Cloud computing applications for biomedical science: A perspective.  
  Navale Vivek et al. PLoS computational biology 2018 Jun (6) e1006144
• GenomeTrakr proficiency testing for foodborne pathogen surveillance: an exercise from 2015.  
  Timme Ruth E et al. Microbial genomics 2018 Jun 
• Inferring demographic parameters in bacterial genomic data using Bayesian and hybrid phylogenetic methods.  
  Duchene Sebastian et al. BMC evolutionary biology 2018 Jun (1) 95
• The Microbial Genomes Atlas (MiGA) webserver: taxonomic and gene diversity analysis of Archaea and Bacteria at the whole genome level.  
  Rodriguez-R Luis M et al. Nucleic acids research 2018 Jun
• De novo DNA synthesis using polymerase-nucleotide conjugates.  
  Palluk Sebastian et al. Nature biotechnology 2018 Jun

EVOLUTION / ECOLOGY / POPULATIONS

• Genome variation and molecular epidemiology of Salmonella Typhimurium pathovariants.  
  Branchu Priscilla et al. Infection and immunity 2018 May
• Microevolution and Patterns of Transmission of Shigella sonnei within Cyclic Outbreaks Shigellosis, Israel.  
  Behar Adi et al. Emerging infectious diseases 2018 Jul (7) 1335-1339
• Long-read whole genome sequencing and comparative analysis of six strains of the human pathogen Orientia tsutsugamushi.  
  Batty Elizabeth M et al. PLoS neglected tropical diseases 2018 Jun (6) e0006566
• Reemergence of Reston ebolavirus in Cynomolgus Monkeys, the Philippines, 2015.  
  Demetria Catalino et al. Emerging infectious diseases 2018 Jul (7) 1285-1291
• Evolutionary analysis of rabies virus isolates from Guangxi Province of southern China.  
  Wei Xian-Kai et al. BMC veterinary research 2018 Jun (1) 188
• Diversity of rotavirus strains circulating in children under five years of age who presented with acute gastroenteritis before and after rotavirus vaccine introduction, University Teaching Hospital, Lusaka, Zambia, 2008-2015.  
  Simwaka J C et al. Vaccine 2018 Jun
• Single-virion sequencing of lamivudine-treated HBV populations reveal population evolution dynamics and demographic history.  
  Zhu Yuan O et al. BMC genomics 2017 Oct (1) 829
• Comparative Genomic Analysis of Re-emergent Human Adenovirus Type 55 Pathogens Associated With Adult Severe Community-Acquired Pneumonia Reveals Conserved Genomes and Capsid Proteins.  
  Cheng Zetao et al. Frontiers in microbiology 2018 1180
• Phylogeny of Yellow Fever Virus, Uganda, 2016.  
  Hughes Holly R et al. Emerging infectious diseases 2018 Aug (8) 
• Highly Pathogenic Avian Influenza A(H5N8) Virus, Cameroon, 2017.  
  Wade Abel et al. Emerging infectious diseases 2018 Jul (7) 1367-1370

PATHOGENICITY / ANTIMICROBIAL RESISTANCE

• Molecular characterization of nasal MRSA isolates showing increasing prevalence of mupirocin resistance and associated multi-drug resistance following attempted decolonization.  
  Poovelikunnel Toney T et al. Antimicrobial agents and chemotherapy 2018 Jun 
• Non-antibiotic antimicrobial triclosan induces multiple antibiotic resistance through genetic mutation.  
  Lu Ji et al. Environment international 2018 Jun 257-265

DETECTION / DIAGNOSIS

• Diagnosis of Human Leptospirosis in a Clinical Setting: Real-Time PCR High Resolution Melting Analysis for Detection of Leptospira at the Onset of Disease.  
  Esteves Lisa M et al. Scientific reports 2018 Jun (1) 9213
• Sensitivity of single-molecule array assays to detect Clostridium difficile toxins in comparison to conventional laboratory testing algorithms.  
  Banz Alice et al. Journal of clinical microbiology 2018 Jun
• Travelers' Diarrhea in Thailand: A Quantitative Analysis Using TaqMan® Array Card.  
  Lertsethtakarn Paphavee et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2018 Jun (1) 120-127
• Challenges in the identification of methicillin-resistant Staphylococcus argenteus by routine diagnostics.  
  Tunsjø Hege Smith et al. APMIS : acta pathologica, microbiologica, et immunologica Scandinavica 2018 Jun (6) 533-537
• In situ loop-mediated isothermal amplification (LAMP) for identification of Plasmodium species in wide-range thin blood smears.  
  Hashimoto Muneaki et al. Malaria journal 2018 Jun (1) 235
• Cryptosporidium genotyping in Europe: The current status and processes for a harmonised multi-locus genotyping scheme.  
  Chalmers Rachel M et al. Experimental parasitology 2018 Jun
• Molecular Diagnosis of Visceral Leishmaniasis.  
  Sundar Shyam et al. Molecular diagnosis & therapy 2018 Jun

EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION

• Geographically Diverse Clusters of Nontoxigenic Corynebacterium diphtheriae Infection, Germany, 2016-2017.  
  Dangel Alexandra et al. Emerging infectious diseases 2018 Jul (7) 1239-1245
• Serratia marcescens outbreak in a neonatal intensive care unit (NICU): new insights from next-generation sequencing applications.  
  Martineau Christine et al. Journal of clinical microbiology 2018 Jun
• Molecular characterization of a nosocomial outbreak of influenza B virus in an acute-care hospital setting.  
  Sansone Martina et al. The Journal of hospital infection 2018 Jun
• An unusual outbreak of rotavirus G8P[8] gastroenteritis in adults in an urban community, Singapore, 2016.  
  Chia Gabriel et al. Journal of clinical virology : the official publication of the Pan American Society for Clinical Virology 2018 Jun 57-63
• Multilocus genotype analysis outlines distinct histories for Trichinella britovi in the neighboring Mediterranean islands of Corsica and Sardinia.  
  La Rosa Giuseppe et al. Parasites & vectors 2018 Jun (1) 353

ANTIMICROBIALS / VACCINES / INTERVENTIONS

• Outcomes of resistance-guided sequential treatment of Mycoplasma genitalium infections: a prospective evaluation.  
  Read T R H et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2018 Jun 
• CRISPR-Cas antimicrobials: Challenges and future prospects.  
  Pursey Elizabeth et al. PLoS pathogens 2018 Jun (6) e1006990
• The influence of the intestinal microbiome on vaccine responses.  
  Zimmermann Petra et al. Vaccine 2018 Jun
• Anti-tick vaccines in the omics era.  
  Valle Manuel Rodriguez et al. Frontiers in bioscience (Elite edition) 2018 Jan 122-136
• Strategic Response to an Outbreak of Circulating Vaccine-Derived Poliovirus Type 2 — Syria, 2017–2018
  Mbaeyi C, et al. MMWR, Jun 22, 2018. 

HOST-MICROBE INTERACTIONS

• Probiotic strains detect and suppress cholera in mice.  
  Mao Ning et al. Science translational medicine 2018 Jun (445)
• Clinical implications of systematic phenotyping and exome sequencing in patients with primary antibody deficiency.  
  Abolhassani Hassan et al. Genetics in medicine : official journal of the American College of Medical Genetics 2018 Jun

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.