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
- Genetic methods cannot yet confirm antimicrobial susceptibility
Healio, Dec 16, 2016. - Salmonella oral vaccine developed at UTMB
(press release) Outbreak News Today, December 20, 2016. - Rabies Virus Genetic Diversity, Evolutionary History Spelled Out With Genome Sequence Set
GenomeWeb, Dec 15, 2016. - Broad-Led Study Finds Three New HIV Host Factors, Possible Drug Targets
GenomeWeb,Dec 19, 2016. - NGS Can Aid in Detecting Drug Resistance in Tuberculosis
GenomeWeb, Dec 22, 2016. - Genetic tests on pets could lead to better treatments for Valley Fever
Crandall J. azfamily.com, Dec 16, 2016. - Blood Tests for Prion Disease
Krisch JA. The Scientist, Dec 22, 2016.
POLICY
- World Health Organization rethinks its response to disease outbreaks
Hayden EC. Nature, Dec 20, 2016.
CONCEPTS / COMMENTS
- Hidden Staphylococcus aureus Carriage: Overrated or Underappreciated?
van Belkum Alex et al. mBio 2016 Feb (1) e00079-16 - Removing the bottleneck in whole genome sequencing of M. tuberculosis for rapid drug resistance analysis: a call to action.
McNerney Ruth et al. International journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases 2016 Dec - Epidemic arboviral diseases: priorities for research and public health
Wilder-Smith A, et al. Lancet Infect Dis, Dec 20, 2016. - Current status of genome editing in vector mosquitoes: A review.
Reegan Appadurai Daniel et al. Bioscience trends 2016 Dec
METHODS / TOOLS
- New tools to analyze overlapping coding regions.
Bayegan Amir H et al. BMC bioinformatics 2016 Dec (1) 530 - Microbial phenomics information extractor (MicroPIE): a natural language processing tool for the automated acquisition of prokaryotic phenotypic characters from text sources.
Mao Jin et al. BMC bioinformatics 2016 Dec (1) 528 - Big Data Smart Socket (BDSS): A System that Abstracts Data Transfer Habits from End Users.
Watts Nick A et al. Bioinformatics (Oxford, England) 2016 Oct - Unassigned MS/MS Spectra: Who Am I?
Pathan Mohashin et al. Methods in molecular biology (Clifton, N.J.) 2017 67-74 - Simple reverse genetics systems for Asian and African Zika viruses.
Atieh Thérèse et al. Scientific reports 2016 Dec 39384 - Whole genome sequencing of Plasmodium falciparum from dried blood spots using selective whole genome amplification.
Oyola Samuel O et al. Malaria journal 2016 Dec (1) 597
EVOLUTION / ECOLOGY / POPULATIONS
- Complete Genome Sequences of Enterococcus rotai LMG 26678T and Enterococcus silesiacus LMG 23085T.
Lauer Ana C et al. Genome announcements 2016 Dec (6)
- Diversity of Staphylococcus aureus Isolates in European Wildlife.
Monecke Stefan et al. PloS one 2016 (12) e0168433 - Unravelling the Molecular Epidemiology and Genetic Diversity among Burkholderia pseudomallei Isolates from South India Using Multi-Locus Sequence Typing.
Tellapragada Chaitanya et al. PloS one 2016 (12) e0168331 - Resilient microorganisms in dust samples of the International Space Station-survival of the adaptation specialists.
Mora Maximilian et al. Microbiome 2016 Dec (1) 65 - The molecular epidemiology of Pseudomonas aeruginosa bloodstream infection isolates in a non-outbreak setting.
McCarthy Kate L et al. Journal of medical microbiology 2016 Dec - Within Host Evolution Selects for a Dominant Genotype of Mycobacterium tuberculosis while T Cells Increase Pathogen Genetic Diversity.
Copin Richard et al. PLoS pathogens 2016 Dec (12) e1006111 - Large-Scale Phylogenomic Analysis Reveals the Complex Evolutionary History of Rabies Virus in Multiple Carnivore Hosts.
Troupin Cécile et al. PLoS pathogens 2016 Dec (12) e1006041 - Fast Dissemination of New HIV-1 CRF02/A1 Recombinants in Pakistan.
Chen Yue et al. PloS one 2016 (12) e0167839 - A Phylogeny-Based Global Nomenclature System and Automated Annotation Tool for H1 Hemagglutinin Genes from Swine Influenza A Viruses.
Anderson Tavis K et al. mSphere (6) - Polyphyletic origin of MERS coronaviruses and isolation of a novel clade A strain from dromedary camels in the United Arab Emirates.
Lau Susanna K P et al. Emerging microbes & infections 2016 Dec (12) e128 - Genetic Characterization of Circulating 2015 A(H1N1)pdm09 Influenza Viruses from Eastern India.
Mukherjee Anupam et al. PloS one 2016 (12) e0168464 - HTLV-1aA introduction into Brazil and its association with the trans-Atlantic slave trade.
Amoussa Adjile Edjide Roukiyath et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2016 Dec - Zika and Flaviviruses Phylogeny Based on the Alignment-Free Natural Vector Method.
Li Yongkun et al. DNA and cell biology 2016 Dec - Simultaneous Emergence of Multidrug-Resistant Candida auris on 3 Continents Confirmed by Whole-Genome Sequencing and Epidemiological Analyses.
Lockhart Shawn R et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2016 Oct - Genetic Evidence of Contemporary Dispersal of the Intermediate Snail Host of Schistosoma japonicum: Movement of an NTD Host Is Facilitated by Land Use and Landscape Connectivity.
Head Jennifer R et al. PLoS neglected tropical diseases 2016 Dec (12) e0005151 - Emerging Infectious Disease Implications of Invasive Mammalian Species: The Greater White-Toothed Shrew (Crocidura russula) Is Associated With a Novel Serovar of Pathogenic Leptospira in Ireland.
Nally Jarlath E et al. PLoS neglected tropical diseases 2016 Dec (12) e0005174
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
- Sequence Analysis of Toxin Gene-Bearing Corynebacterium diphtheriae Strains, Australia.
Doyle Christine J et al. Emerging infectious diseases 2017 Jan (1) 105-107 - Group B Streptococcal Toxic Shock Syndrome and covR/S Mutations Revisited.
Sendi Parham et al. Emerging infectious diseases 2017 Jan (1) 150-152 - Genome Analysis of Streptococcus pyogenes Associated with Pharyngitis and Skin Infections.
Ibrahim Joe et al. PloS one 2016 (12) e0168177 - Notes from the Field: New Delhi Metallo-β-Lactamase-Producing Carbapenem-Resistant Enterobacteriaceae Identified in Patients Without Known Health Care Risk Factors - Colorado, 2014-2016.
Janelle Sarah J et al. MMWR. Morbidity and mortality weekly report 2016 Dec (49) 1414-1415 - Emergence and dissemination of a linezolid-resistant Staphylococcus capitis clone in Europe.
Butin M et al. The Journal of antimicrobial chemotherapy 2016 Dec
DETECTION / DIAGNOSIS
- Detection of ESKAPE bacterial pathogens at the point-of-care using isothermal DNA-based assays in a portable, de-gas microfluidic diagnostic assay platform.
Renner Lars D et al. Applied and environmental microbiology 2016 Dec - The Role of Whole Genome Sequencing (WGS) in Antimicrobial Susceptibility Testing of Bacteria: Report from the EUCAST Subcommittee.
Ellington Matthew J et al. Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases 2016 Nov - Multi-spacer typing as an effective method to distinguish the clonal lineage of Clostridium butyricum strains isolated from stool samples during a series of necrotizing enterocolitis cases.
Benamar S et al. The Journal of hospital infection 2016 Nov - Matrix-assisted laser desorption ionization time of flight mass spectrometry (MALDI-TOF MS) for rapid identification of micro-organisms in the routine clinical microbiology laboratory.
Wattal C et al. European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology 2016 Dec - Evaluation of PCR and high resolution melt curve analysis for differentiation of Salmonella isolates.
Saeidabadi Mohammad Sadegh et al. Avian pathology : journal of the W.V.P.A 2016 Dec 1-27 - An Outbreak of Kingella kingae Infections Complicating a Severe Hand, Foot, And Mouth Disease Outbreak in Nice, France, 2016.
Houmami Nawal El et al. The Pediatric infectious disease journal 2016 Dec - Molecular detection assay of five Salmonella serotypes of public interest: Typhimurium, Enteritidis, Newport, Heidelberg, and Hadar.
Bugarel Marie et al. Journal of microbiological methods 2016 Dec - A host-protein based assay to differentiate between bacterial and viral infections in preschool children (OPPORTUNITY): a double-blind, multicentre, validation study
van Houten CB, et al. Lancet Infect Dis, Dec 21, 2016. - Same-day diagnostic and surveillance data for tuberculosis via whole genome sequencing of direct respiratory samples
Votintseva AA, et al. bioRxiv, Dec 19, 2016. - Novel rapid PCR for the detection of Ile491Phe rpoB mutation of Mycobacterium tuberculosis, a rifampicin resistance-conferring mutation undetected by commercial assays.
Andre Emmanuel et al. Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases 2016 Dec - Universal Human Papillomavirus Typing Assay: Whole Genome Sequencing Following Target Enrichment.
Li Tengguo et al. Journal of clinical microbiology 2016 Dec - Assay optimization for molecular detection of Zika virus.
Corman Victor M et al. Bulletin of the World Health Organization 2016 Dec (12) 880-892 - Retrospective diagnosis of two rabies cases in humans by high throughput sequencing.
Dedkov V G et al. Journal of clinical virology : the official publication of the Pan American Society for Clinical Virology 2016 May 74-81 - Biompha-LAMP: A New Rapid Loop-Mediated Isothermal Amplification Assay for Detecting Schistosoma mansoni in Biomphalaria glabrata Snail Host.
Gandasegui Javier et al. PLoS neglected tropical diseases 2016 Dec (12) e0005225
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
- Nosocomial outbreak of drug resistant Streptococcus pneumoniae serotype 9V in an adult respiratory medicine ward.
Jauneikaite Elita et al. Journal of clinical microbiology 2016 Dec - Detection of Multiple Parallel Transmission Outbreak of Streptococcus suis Human Infection by Use of Genome Epidemiology, China, 2005.
Du Pengcheng et al. Emerging infectious diseases 2017 Feb (2) - Measles re-emergence in Northern Italy: Pathways of measles virus genotype D8, 2013-2014.
Amendola Antonella et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2016 Dec
ANTIMICROBIALS / VACCINES / INTERVENTIONS
- Late Relapse Versus Hepatitis C Virus Reinfection in Patients With Sustained Virologic Response After Sofosbuvir-Based Therapies.
Sarrazin Christoph et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2017 Jan (1) 44-52
HOST-MICROBE INTERACTIONS
- Respiratory viral infections and host responses; insights from genomics.
Troy Niamh M et al. Respiratory research 2016 Nov (1) 156 - Low abundance of colonic butyrate-producing bacteria in HIV infection is associated with microbial translocation and immune activation.
Dillon Stephanie M et al. AIDS (London, England) 2016 Dec - HLA-B*57 and IFNL4-related polymorphisms are associated with protection against HIV-1 disease progression in controllers.
Dominguez-Molina B et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2016 Dec - The gut microbiome composition associates with bipolar disorder and illness severity.
Evans Simon J et al. Journal of psychiatric research 2016 Dec 23-29 - Roles of the gut in the metabolic syndrome: an overview.
Fändriks L et al. Journal of internal medicine 2016 Dec - Complete Microbiota Engraftment Is Not Essential for Recovery from Recurrent Clostridium difficile Infection following Fecal Microbiota Transplantation.
Staley Christopher et al. mBio 2016 Dec (6) - The Human Intestinal Microbiome in Health and Disease.
Lynch Susan V et al. The New England journal of medicine 2016 Dec (24) 2369-2379
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.
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