Publication Date: Jul 26, 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
Advanced Molecular Detection Clips Content
NEWS
- ARMADA seeks to create 'criminal database' of drug-resistant pathogens
Dall C. CIDRAP, Jul 20, 2018. - Genomic Study Points to Stability in Enteric Fever-Causing Salmonella Lineage
GenomeWeb, Jul 19, 2018. - Staphylococcus Genome Set Reveals Bug's Host Switching History
GenomeWeb, Jul 24, 2018. - Antimicrobial Resistance Genes in Pigs, Chickens Differ Between European Countries
GenomeWeb, Jul 23, 2018. - Genomes Confirm Food Industry Yeast Belongs to Same Species as Opportunistic Pathogen
GenomeWeb, Jul 19, 2018. - Potential $20 HBV Test Gleaned from Study of Large Datasets in Africa
Johnson M. 360dx, Jul 12, 2018. - ‘Frightening’ typhoid fever outbreak spreads in Pakistan
Cohen J. Science, Jul 20, 2018. - Antibiotic-resistant infections appeared after surgery. Were they transmitted by leeches?
Boodman E. STAT, Jul 24, 2018. - Study suggests smaller window for Zika sexual transmission
Soucheray S. CIDRAP, Jul 24, 2018. - What the Mystery of the Tick-Borne Meat Allergy Could Reveal
Velasquez-Manoff M. New York Times, Jul 24, 2018.
EVENTS / TRAINING / WEB RESOURCES
- Open Science by Design: Realizing a Vision for 21st Century Research
(report) NASEM, Jul 2018. - A beginner’s guide to avoiding ‘predatory’ journals (using your critical thinking skills)
(blog post) Nobes A. AuthorAID, Jul 24, 2018.
CONCEPTS / COMMENTS
- Laboratory medicine in Africa since 2008: then, now, and the future.
Nkengasong John N et al. The Lancet. Infectious diseases 2018 Jul
- Tickborne Diseases - Confronting a Growing Threat.
Paules Catharine I et al. The New England journal of medicine 2018 Jul - Drug candidate and target for leishmaniasis
Carolina M. C. Catta-Preta & Catta-Preta CM, Mottram JC. Nature, Jul 25, 2018.
METHODS / TOOLS
- Evaluation of Oxford Nanopore's MinION Sequencing Device for Microbial Whole Genome Sequencing Applications.
Tyler Andrea D et al. Scientific reports 2018 Jul (1) 10931 - Illuminating pathogen-host intimacy through optogenetics.
Arroyo-Olarte Ruben Dario et al. PLoS pathogens 2018 Jul (7) e1007046 - The challenges of designing a benchmark strategy for bioinformatics pipelines in the identification of antimicrobial resistance determinants using next generation sequencing technologies.
Angers-Loustau Alexandre et al. F1000Research 2018 459 - MetaVW: Large-Scale Machine Learning for Metagenomics Sequence Classification.
Vervier Kévin et al. Methods in molecular biology (Clifton, N.J.) 2018 9-20 - Using average nucleotide identity to improve taxonomic assignments in prokaryotic genomes at the NCBI.
Ciufo Stacy et al. International journal of systematic and evolutionary microbiology 2018 Jul (7) 2386-2392 - Virus classification - where do you draw the line?
Simmonds Peter et al. Archives of virology 2018 Jul - Large and finite sample properties of a maximum-likelihood estimator for multiplicity of infection.
Schneider Kristan Alexander et al. PloS one 2018 (4) e0194148 - Responsible sharing of biomedical data and biospecimens via the “Automatable Discovery and Access Matrix” (ADA-M)
Woolley JP, et al. Genomic Med, Jul 23, 2018. - Highlighting Clinical Metagenomics for Enhanced Diagnostic Decision-making: A Step Towards Wider Implementation.
Forbes Jessica D et al. Computational and structural biotechnology journal 2018 108-120
EVOLUTION / ECOLOGY / POPULATIONS
- Pan-genome Analysis of Ancient and Modern Salmonella enterica Demonstrates Genomic Stability of the Invasive Para C Lineage for Millennia
Zhou Z, et al. Current Biol, Jul 19, 2018. - Detection of mcr-1 Plasmids in Enterobacteriaceae Isolates From Human Specimens: Comparison With Those in Escherichia coli Isolates From Livestock in Korea.
Yoon Eun Jeong et al. Annals of laboratory medicine 2018 Nov (6) 555-562 - The draft genomes of Elizabethkingia anophelis of equine origin are genetically similar to three isolates from human clinical specimens.
Johnson William L et al. PloS one 2018 (7) e0200731 - Molecular characterization of invasive meningococcal isolates in Burkina Faso as the relative importance of serogroups X and W increases, 2008-2012.
Retchless Adam C et al. BMC infectious diseases 2018 Jul (1) 337 - Beware Biofilm! Dry biofilms containing bacterial pathogens on multiple healthcare surfaces; a multicentre study.
Ledwoch K et al. The Journal of hospital infection 2018 Jul - Global Scale Dissemination of ST93: A Divergent Staphylococcus aureus Epidemic Lineage That Has Recently Emerged From Remote Northern Australia.
van Hal Sebastiaan J et al. Frontiers in microbiology 2018 1453 - Gene exchange drives the ecological success of a multi-host bacterial pathogen.
Richardson Emily J et al. Nature ecology & evolution 2018 Jul - Comparative pan-genomic analyses of Orientia tsutsugamushi reveal an exceptional model of bacterial evolution driving genomic diversity.
Fleshman Amy et al. Microbial genomics 2018 Jul - The transmission dynamics and diversity of human metapneumovirus in Peru.
Pollett Simon et al. Influenza and other respiratory viruses 2018 Jul (4) 508-513 - Discovery and Sequence Analysis of Four Deltacoronaviruses from Birds in the Middle East Reveal Interspecies Jumping with Recombination as a Potential Mechanism for Avian-to-Avian and Avian-to-Mammalian Transmission.
Lau Susanna K P et al. Journal of virology 2018 08 (15) - Emergence of norovirus GII.P16-GII.2 strains in patients with acute gastroenteritis in Huzhou, China, 2016-2017.
Han Jiankang et al. BMC infectious diseases 2018 Jul (1) 342 - Population genomics shows no distinction between pathogenic Candida krusei and environmental Pichia kudriavzevii: One species, four names.
Douglass Alexander P et al. PLoS pathogens 2018 Jul (7) e1007138 - Genome-Wide Comparative Analysis of Aspergillus fumigatus Strains: The Reference Genome as a Matter of Concern.
Garcia-Rubio Rocio et al. Genes 2018 Jul (7) - Co-Infection Patterns in Individual Ixodes scapularis Ticks Reveal Associations between Viral, Eukaryotic and Bacterial Microorganisms.
Cross Shaun T et al. Viruses 2018 Jul (7)
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
- Escherichia coli Sequence Type 410 Is Causing New International High-Risk Clones.
Roer Louise et al. mSphere 2018 Jul (4) - Extended-spectrum β-lactamase-producing and carbapenemase-producing Enterobacteriaceae.
Wilson Hayley et al. Microbial genomics 2018 Jul - Transposon Insertion Sequencing Elucidates Novel Gene Involvement in Susceptibility and Resistance to Phages T4 and T7 in Escherichia coli O157.
Cowley Lauren A et al. mBio 2018 Jul (4) - Transmissible silver resistance readily evolves in high-risk clone isolates of Klebsiella pneumoniae.
Hanczvikkel Adrienn et al. Acta microbiologica et immunologica Hungarica 2018 Jul 1-17 - Genomic Comparison of Highly Virulent, Moderately Virulent, and Avirulent Strains From a Genetically Closely-Related MRSA ST239 Sub-lineage Provides Insights Into Pathogenesis.
McClure Jo-Ann M et al. Frontiers in microbiology 2018 1531 - Multidrug-resistant Stenotrophomonas maltophilia: description of new MLST profiles, resistance and virulence genes using whole genome sequencing.
Rizek Camila Fonseca et al. Journal of global antimicrobial resistance 2018 Jul - Abundance and diversity of the faecal resistome in slaughter pigs and broilers in nine European countries.
Munk Patrick et al. Nature microbiology 2018 Jul - Global Survey of Antibiotic Resistance Genes in Air.
Li Jing et al. Environmental science & technology 2018 Jul - Mutations associated with in vitro resistance to bedaquiline in Mycobacterium tuberculosis isolates in Australia.
Martinez Elena et al. Tuberculosis (Edinburgh, Scotland) 2018 Jul 31-34 - Whole genome SNP analysis suggests unique virulence factor differences of the Beijing and Manila families of Mycobacterium tuberculosis found in Hawaii.
Koster Kent et al. PloS one 2018 (7) e0201146 - Candida auris: An emerging drug resistant yeast - A mini-review.
Bidaud A L et al. Journal de mycologie medicale 2018 Jul
DETECTION / DIAGNOSIS
- Evaluation of a culture dependent algorithm and a molecular algorithm for identification of Shigella spp. , Escherichia coli , and enteroinvasive E. coli (EIEC).
van den Beld Maaike J C et al. Journal of clinical microbiology 2018 Jul - Improving the Sensitivity of Real-time PCR Detection of Group B Streptococcus Using Consensus Sequence-Derived Oligonucleotides.
Khatami Ameneh et al. Open forum infectious diseases 2018 Jul (7) ofy164 - Surveillance for Antimicrobial Resistance in Gonorrhea: The Alberta Model, 2012⁻2016.
Gratrix Jennifer et al. Antibiotics (Basel, Switzerland) 2018 Jul (3) - New fecal test for non-invasive Helicobacter pylori detection: A diagnostic accuracy study.
Iannone Andrea et al. World journal of gastroenterology 2018 Jul (27) 3021-3029 - Differences in Colistin-resistant Acinetobacter baumannii Clinical Isolates Between Patients With and Without Prior Colistin Treatment.
Park Yu Jin et al. Annals of laboratory medicine 2018 Nov (6) 545-554 - Monitoring viral genetic variation as a tool to improve molecular diagnostics for Mumps virus.
Dilcher Meik et al. Journal of clinical microbiology 2018 Jul - Identification of Malassezia species by MALDI-TOF MS after expansion of database.
Honnavar P et al. Diagnostic microbiology and infectious disease 2018 May
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
- An outpatient clinic as a potential site of transmission for an outbreak of NDM-producing Klebsiella pneumoniae ST716: a study using whole-genome sequencing.
Heinrichs Amélie et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2018 Jul - Intra-Hospital, Inter-Hospital and Intercontinental Spread of ST78 MRSA From Two Neonatal Intensive Care Unit Outbreaks Established Using Whole-Genome Sequencing.
Earls Megan R et al. Frontiers in microbiology 2018 1485 - Outbreak of vancomycin-resistant Enterococcus faecium clone ST796, Switzerland, December 2017 to April 2018.
Wassilew Nasstasja et al. Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin 2018 Jul (29) - A Sporadic Four-Year Hospital Outbreak of a ST97-IVa MRSA With Half of the Patients First Identified in the Community.
Rubin Ingrid M et al. Frontiers in microbiology 2018 1494 - An outbreak of severe invasive meningococcal disease due to a capsular switched Neisseria meningitidis hypervirulent strain B:cc11.
Stefanelli Paola et al. Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases 2018 Jul - Postpartum Group A Streptococcus Case Series: Reach Out to Infection Prevention!
Alexander Andrew J et al. Open forum infectious diseases 2018 Jul (7) ofy159 - Persistence of Ebola virus after the end of widespread transmission in Liberia: an outbreak report
Dokubo EK, et al. Lancet Infect Did, Jul 23, 2018. - Epidemiological significance of dengue virus genetic variation in mosquito infection dynamics.
Fontaine Albin et al. PLoS pathogens 2018 Jul (7) e1007187
ANTIMICROBIALS / VACCINES / INTERVENTIONS
- Demonstration of Near-Elimination of Hepatitis C Virus Among a Prison Population: The Lotus Glen Correctional Centre Hepatitis C Treatment Project.
Bartlett Sofia R et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2018 Jul (3) 460-463 - To accelerate the Zika beat: candidate design for RNA interference-based therapy.
Giulietti M et al. Virus research 2018 Jul - Effect of Dengue Serostatus on Dengue Vaccine Safety and Efficacy.
Sridhar Saranya et al. The New England journal of medicine 2018 Jul (4) 327-340 - First assessment of all-cause acute diarrhoea and rotavirus-confirmed cases following massive vaccination in Argentina.
Degiuseppe J I et al. Epidemiology and infection 2018 Jul 1-7
HOST-MICROBE INTERACTIONS
- Impact of congenital cytomegalovirus infection on transcriptomes from archived dried blood spots in relation to long-term clinical outcome.
Rovito Roberta et al. PloS one 2018 (7) e0200652 - Analysis of CD8 + T cell response during the 2013-2016 Ebola epidemic in West Africa.
Sakabe Saori et al. Proceedings of the National Academy of Sciences of the United States of America 2018 Jul - Human candidate gene polymorphisms and risk of severe malaria in children in Kilifi, Kenya: a case-control association study.
Ndila Carolyne M et al. The Lancet. Haematology 2018 Jul
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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