Pathogen Advanced Molecular Detection Database|Archive|PHGKB

CONCEPTS / COMMENTS

Diagnostic Molecular Microbiology: A 2018 Snapshot.
Fairfax Marilynn Ransom et al. Clinics in laboratory medicine 2018 Jun (2) 253-276
Prions, prionoids and protein misfolding disorders.
Scheckel Claudia et al. Nature reviews. Genetics 2018 Apr

METHODS / TOOLS

Whats in a name?
(editorial) Scientific Data, May 22, 2018.
Collection and Extraction of Occupational Air Samples for Analysis of Fungal DNA.
Lemons Angela R et al. Journal of visualized experiments : JoVE 2018 05 (135)
Evaluation of phylogenetic reconstruction methods using bacterial whole genomes: a simulation based study.
Lees John A et al. Wellcome open research 2018 33
Multiple sequence alignment averaging improves phylogeny reconstruction.
Ashkenazy Haim et al. Systematic biology 2018 May
NGSPanPipe: A Pipeline for Pan-genome Identification in Microbial Strains from Experimental Reads.
Kulsum Umay et al. Advances in experimental medicine and biology 2018 39-49
Establishment of the European meningococcal strain collection genome library (EMSC-GL) for the 2011 to 2012 epidemiological year.
Bratcher Holly B et al. Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin 2018 May (20)
Next-generation biocontainment systems for engineered organisms.
Lee Jeong Wook et al. Nature chemical biology 2018 May

EVOLUTION / ECOLOGY / POPULATIONS

Draft Genome Sequences for a Diverse Set of Isolates from 10 Neisseria Species.

Nichols Megan et al. Genome announcements 2018 May (20)
Bordetella pertussis population dynamics and phylogeny in Japan after adoption of acellular pertussis vaccines.

Zomer Aldert et al. Microbial genomics 2018 May
Novel Parvovirus Related to Primate Bufaviruses in Dogs.

Martella Vito et al. Emerging infectious diseases 2018 Jun (6) 1061-1068
Bat Caliciviruses and Human Noroviruses Are Antigenically Similar and Have Overlapping Histo-Blood Group Antigen Binding Profiles.

Kocher Jacob F et al. mBio 2018 May (3)
Genomes of all known members of a Plasmodium subgenus reveal paths to virulent human malaria

Otto TD, et al. Nat Microbiol, May 21, 2018.
Global phylogeography and genetic diversity of the zoonotic tapeworm Echinococcus granulosus sensu stricto genotype G11.

Kinkar Liina et al. International journal for parasitology 2018 May

PATHOGENICITY / ANTIMICROBIAL RESISTANCE

Genomic Epidemiology of Global Carbapenemase-Producing Enterobacter spp., 2008-2014.
Peirano Gisele et al. Emerging infectious diseases 2018 Jun (6) 1010-1019
Genomic insights into the emergence and spread of antimicrobial-resistant bacterial pathogens.
Baker Stephen et al. Science (New York, N.Y.) 2018 May (6390) 733-738
Pseudomonas aeruginosa transcriptome during human infection.
Cornforth Daniel M et al. Proceedings of the National Academy of Sciences of the United States of America 2018 May
The Contribution of Genetic Variation of Streptococcus Pneumoniae to the Clinical Manifestation of Invasive Pneumococcal Disease.
Cremers Amelieke J H et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2018 May
Whole genome sequencing data of 1110 Mycobacterium tuberculosis isolates identifies insertions and deletions associated with drug resistance.
Zeng Xi et al. BMC genomics 2018 May (1) 365
From low to high pathogenicity-Characterization of H7N7 avian influenza viruses in two epidemiologically linked outbreaks.
Dietze Klaas et al. Transboundary and emerging diseases 2018 May
Molecular epidemiology of Candida auris in Colombia reveals a highly-related, country-wide colonization with regional patterns in Amphotericin B resistance.
Escandón Patricia et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2018 May
Associated patterns of insecticide resistance in field populations of malaria vectors across Africa.
Hancock Penelope A et al. Proceedings of the National Academy of Sciences of the United States of America 2018 May

DETECTION / DIAGNOSIS

Public health surveillance of multidrug-resistant clones of Neisseria gonorrhoeae in Europe: a genomic survey.
Harris Simon R et al. The Lancet. Infectious diseases 2018 May
Canadian Public Health Laboratory Network position statement: Non-culture based diagnostics for gastroenteritis and implications for public health investigations.
Berenger B et al. Canada communicable disease report = Releve des maladies transmissibles au Canada 2017 Dec (12) 279-281
Genomic Sequencing of Bordetella pertussis for Epidemiology and Global Surveillance of Whooping Cough.
Bouchez Valérie et al. Emerging infectious diseases 2018 Jun (6) 988-994
Diagnosis of bloodstream infections from positive blood cultures and directly from blood samples: recent developments in molecular approaches.
Peker Nilay et al. Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases 2018 May
The Present and Future of Whole Genome Sequencing (WGS) and Whole Metagenome Sequencing (WMS) for Surveillance of Antimicrobial Resistant Microorganisms and Antimicrobial Resistance Genes across the Food Chain.
Oniciuc Elena A et al. Genes 2018 May (5)
A review of novel technologies and techniques associated with identification of bloodstream infection aetiologies and rapid antimicrobial genotypic and quantitative phenotypic determination.
Poole Stephen et al. Expert review of molecular diagnostics 2018 May
Identification of Mycobacterium chimaera in heater-cooler units in China.
Zhang Xiaoxia et al. Scientific reports 2018 May (1) 7843
Mapping of the US Domestic Influenza Virologic Surveillance Landscape.
Jester Barbara et al. Emerging infectious diseases 2018 Jul (7)
Molecular Characterization of the 2016 New World Screwworm (Diptera: Calliphoridae) Outbreak in the Florida Keys.
Dupuis Julian R et al. Journal of medical entomology 2018 May

EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION

Salmonella Thompson outbreak associated with consumption of chicken shawarma and the usefulness of genome sequencing in the investigation.
Gaulin C et al. Canada communicable disease report = Releve des maladies transmissibles au Canada 2017 Sep (9) 186-192
An outbreak of a rare Shiga-toxin-producing Escherichia coli serotype (O117:H7) among men who have sex with men.
Baker Kate S et al. Microbial genomics 2018 May
A prolonged and large outbreak of invasive group A streptococcal disease within a nursing home: repeated intra-facility transmission of a single strain.
Nanduri S A et al. Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases 2018 May
Canada-Wide Epidemic of emm74 Group A Streptococcus Invasive Disease.
Teatero Sarah et al. Open forum infectious diseases 2018 May (5) ofy085
Cross-border outbreak of extensively drug-resistant tuberculosis linked to a university in Romania.
Popovici O et al. Epidemiology and infection 2018 May (7) 824-831

HOST-MICROBE INTERACTIONS

Temporal and long-term gut microbiota variation in allergic disease: A prospective study from infancy to school age.
Simonyté Sjödin Kotryna et al. Allergy 2018 May
Enrichment of clinically relevant organisms in spontaneous preterm delivered placenta and reagent contamination across all clinical groups in a large UK pregnancy cohort.
Leon Lydia J et al. Applied and environmental microbiology 2018 May
Emerging Viral Infections and Their Impact on the Global Burden of Neurological Disease.
Muñoz Laura S et al. Seminars in neurology 2018 Apr (2) 163-175
Biodiversity of the Human Oral Mycobiome in Health and Disease.
Bandara H M H N et al. Oral diseases 2018 May

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 Genomics and Precision Public Health 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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Advanced Molecular Detection Clips Content (Published on 05/24/2018)

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