Advanced Molecular Detection Clips Database|AMD Clips|PHGKB

Advanced Molecular Detection Clips Database|AMD Clips|PHGKB

Publication Date: Apr 12, 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

• Genomics: an aid to diagnosis not a replacement  
  Torjesen,I. BMJ, 2018;360:k1267.
• Tuberculosis: New blood test can predict onset 2-years in advance  
  Outbreak News Today, Apr 6, 2018.
• Synthetic polymers show promise against multidrug-resistant microbes  
  Dall C. CIDRAP, Apr 9, 2018.

EVENTS / TRAINING / WEB RESOURCES

• BLAST is transitioning to accession.version-based databases  
  (announcement) NLM, Apr 11, 2018.
• Making Slides  
  (blog post) Kieran Healy, Mar 24, 2018.

CONCEPTS / COMMENTS

• The long view on sequencing.  
  et al. Nature biotechnology 2018 Apr (4) 287
• Responding to Emerging and Zoonotic Infectious Disease Threats in 2017
  (blog post) Khabbaz RF. CDC, Apr 9, 2018.
• Breaking the code of antibiotic resistance  
  Lo SW, et al. Nat Rev Microbiol, Mar 26, 2018.
• Virus in Semen and the Risk of Sexual Transmission.  
  Feldmann Heinz et al. The New England journal of medicine 2018 Apr (15) 1440-1441
• Metabolomics: Eavesdropping on silent conversations between hosts and their unwelcome guests.  
  Newsom Sydney N et al. PLoS pathogens 2018 Apr (4) e1006926

METHODS / TOOLS

• Ten quick tips for teaching programming.  
  Brown Neil C C et al. PLoS computational biology 2018 Apr (4) e1006023
• Research: A comprehensive and quantitative exploration of thousands of viral genomes.  
  Mahmoudabadi Gita et al. eLife 2018 Apr

EVOLUTION / ECOLOGY / POPULATIONS

• A genomic overview of the population structure of Salmonella.  
  Alikhan Nabil-Fareed et al. PLoS genetics 2018 Apr (4) e1007261
• Two Distinct Patterns of Clostridium Difficile Diversity Across Europe Indicates Contrasting Routes of Spread  
  Eyre DW, et al. Clin Infect Dis, Apr 5, 2018.

PATHOGENICITY / ANTIMICROBIAL RESISTANCE

• Differential expression of hemoglobin receptor, HmbR, between carriage and invasive isolates of Neisseria meningitidis contributes to virulence: lessons from a clonal outbreak.  
  Sevestre Julien et al. Virulence 2018 Apr 1-18
• Whole-genome sequencing of a large collection of Myroides odoratimimus and Myroides odoratus isolates and antimicrobial susceptibility studies.  
  Gunzer Florian et al. Emerging microbes & infections 2018 Apr (1) 61
• Mutations in the pantothenate kinase of Plasmodium falciparum confer diverse sensitivity profiles to antiplasmodial pantothenate analogues.  
  Tjhin Erick T et al. PLoS pathogens 2018 Apr (4) e1006918

DETECTION / DIAGNOSIS

• Are commercial providers a viable option for clinical bacterial sequencing?  
  Raven Kathy et al. Microbial genomics 2018 Apr 
• Defining and Evaluating a Core Genome Multilocus Sequence Typing Scheme for Genome-Wide Typing of Clostridium difficile .  
  Bletz Stefan et al. Journal of clinical microbiology 2018 Apr
• Molecular-based diagnosis of Clostridium difficile infection is associated with reduced mortality.  
  Avni Tomer et al. European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology 2018 Apr 
• Use of genomics to design a diagnostic assay to discriminate between Streptococcus pneumoniae and Streptococcus pseudopneumoniae.  
  Croxen Matthew A et al. Microbial genomics 2018 Apr
• Quantification of pathogenic Leptospira in the soils of a Brazilian urban slum.  
  Schneider Andrew G et al. PLoS neglected tropical diseases 2018 Apr (4) e0006415
• A Brief History of Evolving Diagnostics and Therapy for Gonorrhea: Lessons Learned  
  Hook EW III, Kircaldy RW. Clin Infect Dis, Apr 5, 2018. 
• Four-gene Pan-African Blood Signature Predicts Progression to Tuberculosis  
  Suliman S, et al. Am J Resp Crit Care Med, Apr 6, 2018.
• Longitudinal Trends in the Prevalence of Detectable HIV Viremia: Population-Based Evidence From Rural KwaZulu-Natal, South Africa.  
  Vandormael Alain et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2018 Apr (8) 1254-1260
• Zika Virus Shedding in Semen of Symptomatic Infected Men.  
  Mead Paul S et al. The New England journal of medicine 2018 Apr (15) 1377-1385 
• Implementation and new insights in molecular diagnostics for HIV infection.  
  Tsang Hin-Fung et al. Expert review of molecular diagnostics 2018 Apr
• Surveillance to Track Progress Toward Polio Eradication — Worldwide, 2016–2017
  Gardner TJ, et al. MMWR, April 13, 2018 / 67(14);418?423.
• Development of a Trypanosoma cruzi strain typing assay using MS2 peptide spectral libraries (Tc-STAMS2).  
  de Oliveira Gilberto Santos et al. PLoS neglected tropical diseases 2018 Apr (4) e0006351
• A real-time PCR tool for the surveillance of zoonotic Onchocerca lupi in dogs, cats and potential vectors.  
  Latrofa Maria Stefania et al. PLoS neglected tropical diseases 2018 Apr (4) e0006402

EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION

• Retrospective genome-wide comparisons of Salmonella enterica serovar Enteritidis from suspected outbreaks in Singapore.  
  Octavia Sophie et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2018 Apr
• Dynamics of cholera epidemics from Benin to Mauritania.  
  Moore Sandra et al. PLoS neglected tropical diseases 2018 Apr (4) e0006379
• Seven Salmonella Typhimurium Outbreaks in Australia Linked by Trace-Back and Whole Genome Sequencing.  
  Ford Laura et al. Foodborne pathogens and disease 2018 Mar
• Molecular epidemiology of tuberculosis in Tasmania and genomic characterisation of its first known multi-drug resistant case.  
  Gautam Sanjay S et al. PloS one 2018 (2) e0192351
• Cross-border transmission of Ebola virus was the cause of a resurgent outbreak in Liberia in April 2016  
  Mate SE, et al. Clin Infect Dis, Apr 5, 2018. 
• Genotype-Specific Measles Transmissibility: A Branching Process Analysis.  
  Ackley Sarah F et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2018 Apr (8) 1270-1275
• Frequency of occurrence of HIV-1 dual infection in a Belgian MSM population.  
  Hebberecht Laura et al. PloS one 2018 (4) e0195679
• Molecular Epidemiology and the Transformation of HIV Prevention.  
  Oster Alexandra M et al. JAMA 2018 Apr  
• Mapping malaria by combining parasite genomic and epidemiologic data  
  Wesolowski A, et al. bioRxiv, Mar 28, 2018.

ANTIMICROBIALS / VACCINES / INTERVENTIONS

• The impact of serotype-specific vaccination on phylodynamic parameters of Streptococcus pneumoniae and the pneumococcal pan-genome.  
  Azarian Taj et al. PLoS pathogens 2018 Apr (4) e1006966 
• Discovery of genetic variants of the kinases that activate tenofovir among individuals in the United States, Thailand, and South Africa: HPTN067.  
  Figueroa Dominique B et al. PloS one 2018 (4) e0195764 
• Next-generation sequencing provides an added value in determining drug resistance and viral tropism in Cameroonian HIV-1 vertically infected children.  
  Fokam Joseph et al. Medicine 2018 Mar (13) e0176
• Genetic modification of Anopheles stephensi for resistance to multiple Plasmodium falciparum strains does not influence susceptibility to o'nyong'nyong virus or insecticides, or Wolbachia-mediated resistance to the malaria parasite.  
  Pike Andrew et al. PloS one 2018 (4) e0195720

HOST-MICROBE INTERACTIONS

• Current understanding of the human microbiome  
  Gilbert JA, et al. Nature Medicine, Apr 10, 2018.
• Impact of Fecal Microbiota Transplantation for Decolonization of Multidrug-Resistant Organisms May Vary According to Donor Microbiota.  
  Davido Benjamin et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2018 Apr (8) 1316-1317
• The role of human host genetics in tuberculosis resistance.  
  Kinnear Craig et al. Expert review of respiratory medicine 2017 Sep (9) 721-737
• Infection history of the blood-meal host dictates pathogenic potential of the Lyme disease spirochete within the feeding tick vector.  
  Bhatia Bharti et al. PLoS pathogens 2018 Apr (4) e1006959

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.

Advanced Molecular Detection Clips Database|AMD Clips|PHGKB