Publication Date: Aug 31, 2017
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
- Influenza Vaccine Response Expression Signature Identified in Young Adults
GenomeWeb, Aug 25, 2017. - Portable ICU equipment is a potential vector for spreading pathogens
Healio, Aug 15, 2017. - Mass Spec Analysis Detects Protein Signature Suggestive of Zika Exposure
360dx, Aug 22, 2017. - NIH Commits $2.6M to Fund Development of Self-Testing HIV Assay
GenomeWeb, Aug 28, 2017. - FDA approves first U.S. treatment for Chagas disease
FDA, Aug 29, 2017. - Unknown bugs dominate the human microbiome
(blog post) Collins N. SCOPE (Stanford Univ), Aug 24, 2017.
POLICY
- Options for Synthetic DNA Order Screening, Revisited
DiEuliis D, et al. mSphere 2017; 2:e00319-17.
CONCEPTS / COMMENTS
- Towards a universal molecular microbiological test.
Allcock Richard J N et al. Journal of clinical microbiology 2017 Aug - Spontaneous mutation rate is a plastic trait associated with population density across domains of life.
Krašovec Rok et al. PLoS biology 2017 Aug (8) e2002731 - Evolutionary computation: the next major transition of artificial intelligence?
Sipper Moshe et al. BioData mining 2017 26 - Stress and stability: applying the Anna Karenina principle to animal microbiomes.
Zaneveld Jesse R et al. Nature microbiology 2017 Aug 17121 - Innovative tools and approaches to end the transmission of Mycobacterium leprae.
Steinmann Peter et al. The Lancet. Infectious diseases 2017 Sep (9) e298-e305 - Understanding and overcoming antibiotic resistance.
Richardson Lauren A et al. PLoS biology 2017 Aug (8) e2003775 - Parasite Microbiome Project: Systematic Investigation of Microbiome Dynamics within and across Parasite-Host Interactions.
Dheilly Nolwenn M et al. mSystems (4)
METHODS / TOOLS
- A tandem simulation framework for predicting mapping quality.
Langmead Ben et al. Genome biology 2017 Aug (1) 152 - Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information.
Barberán Albert et al. mSphere (4) - SMRT Gate: A method for validation of synthetic constructs on Pacific Biosciences sequencing platforms.
D'Amore Rosalinda et al. BioTechniques 2017 Jul (1) 13-20 - Separation and assembly of deep sequencing data into discrete sub-population genomes
Karagiannis K, et al. Nucl Acids Res, Aug 28, 2017. - The Global Polio Laboratory Network as a Platform for the Viral Vaccine-Preventable and Emerging Diseases Laboratory Networks.
Diop Ousmane M et al. The Journal of infectious diseases 2017 Jul (suppl_1) S299-S307
EVOLUTION / ECOLOGY / POPULATIONS
- Whole Genome Sequencing of Danish Staphylococcus argenteus Reveals a Genetically Diverse Collection with Clear Separation from Staphylococcus aureus.
Hansen Thomas A et al. Frontiers in microbiology 2017 1512 - Leptospira species molecular epidemiology in the genomic era.
Caimi K et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2017 Aug 478-485 - Genomic insights into the ancient spread of Lyme disease across North America
Walter KS, et al. Nat Ecol Evol, Aug 28, 2017. - Occurrence of norovirus infection in an asymptomatic population in Indonesia.
Utsumi Takako et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2017 Aug 1-7 - Heterogeneous recombination among Hepatitis B virus genotypes.
Castelhano Nadine et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2017 Aug 486-490 - Complete Genome Sequencing of Influenza A Viruses within Swine Farrow-to-Wean Farms Reveals the Emergence, Persistence, and Subsidence of Diverse Viral Genotypes.
Diaz Andres et al. Journal of virology 2017 Sep (18) - Evolutionary dynamics of recent peste des petits ruminants virus epidemic in China during 2013-2014.
Bao Jingyue et al. Virology 2017 Oct 156-164 - Highly conserved intragenic HSV-2 sequences: Results from next-generation sequencing of HSV-2 UL and US regions from genital swabs collected from 3 continents.
Johnston Christine et al. Virology 2017 Oct 90-98 - Subtype analysis of zoonotic pathogen Cryptosporidium skunk genotype.
Yan Wenchao et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2017 Aug - Host specificity, pathogen exposure, and superinfections impact the distribution of Anaplasma phagocytophilum genotypes in ticks, roe deer, and livestock in a fragmented agricultural landscape.
Chastagner Amélie et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2017 Aug
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
- Genome Plasticity and Polymorphisms in Critical Genes Correlate with Increased Virulence of Dutch Outbreak-Related Coxiella burnetii Strains.
Kuley Runa et al. Frontiers in microbiology 2017 1526 - Bioinformatics comparisons of RNA-binding proteins of pathogenic and non-pathogenic Escherichia coli strains reveal novel virulence factors.
Ghosh Pritha et al. BMC genomics 2017 Aug (1) 658 - Pseudomonas aeruginosa blood stream infection isolates from patients with recurrent blood stream infection: Is it the same genotype?
McCARTHY K L et al. Epidemiology and infection 2017 Aug 1-7 - Novel plasmid-mediated colistin resistance mcr-4 gene in Salmonella and Escherichia coli, Italy 2013, Spain and Belgium, 2015 to 2016.
Carattoli Alessandra et al. Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin 2017 Aug (31) - Genomic Analysis and Resistance Mechanisms in Shigella flexneri 2a Strain 301.
Zhu Zhen et al. Microbial drug resistance (Larchmont, N.Y.) 2017 Aug - A putative hepatitis B virus splice variant associated with chronic hepatitis and liver cirrhosis.
Lin Yu-Min et al. Virology 2017 Oct 224-233 - Deep Sequencing of RNA from Blood and Oral Swab Samples Reveals the Presence of Nucleic Acid from a Number of Pathogens in Patients with Acute Ebola Virus Disease and Is Consistent with Bacterial Translocation across the Gut
Carroll MW, et al. mSphere 2017; 2:e00325-17.
DETECTION / DIAGNOSIS
- Protein abundances can distinguish between naturally-occurring and laboratory strains of Yersinia pestis, the causative agent of plague.
Merkley Eric D et al. PloS one 2017 (8) e0183478 - Molecular screening of multidrug-resistance tuberculosis by a designated public health laboratory in Taiwan.
Lin H-C et al. European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology 2017 Aug
- Detection of Saffold viruses from children with acute respiratory infections in Yamagata, Japan, between 2008 and 2015.
Itagaki Tsutomu et al. Journal of medical virology 2017 Aug - Variable sensitivity in molecular detection of Zika virus in European expert laboratories; external quality assessment, November 2016.
Charrel Remi et al. Journal of clinical microbiology 2017 Aug
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
- Molecular Epidemiology of Rubella Virus Strains Detected Around the Time of the 2012-2013 Epidemic in Japan.
Mori Yoshio et al. Frontiers in microbiology 2017 1513 - Use of whole genome sequencing to investigate an outbreak of gonorrhoea among females in urban New South Wales, Australia, 2012 to 2014.
Buckley C, et al. bioRxiv, Aug 18, 2017. - Investigation of a Canine Parvovirus Outbreak using Next Generation Sequencing.
Parker Jayme et al. Scientific reports 2017 Aug (1) 9633
HOST-MICROBE INTERACTIONS
- Numerous uncharacterized and highly divergent microbes which colonize humans are revealed by circulating cell-free DNA.
Kowarsky Mark et al. Proceedings of the National Academy of Sciences of the United States of America 2017 Aug - The arms race between man and Mycobacterium tuberculosis: Time to regroup.
Hoal Eileen G et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2017 Aug - Bugs, drugs, and HIV: the role of the vaginal microbiome in HIV risk and antiretroviral efficacy for HIV prevention.
Liebenberg Lenine J P et al. Genome medicine 2017 Aug (1) 74 - Replication and refinement of a vaginal microbial signature of preterm birth in two racially distinct cohorts of US women.
Callahan Benjamin J et al. Proceedings of the National Academy of Sciences of the United States of America 2017 Aug - Microbial Lineages in Sarcoidosis: A Metagenomic Analysis Tailored for Low Microbial Content Samples.
Clarke Erik L et al. American journal of respiratory and critical care medicine 2017 Aug - Genetic influences on the human oral microbiome.
Demmitt Brittany A et al. BMC genomics 2017 Aug (1) 659 - The role of the microbiome in cancer development and therapy.
Bhatt Aadra P et al. CA: a cancer journal for clinicians 2017 Jul (4) 326-344 - The Intestinal Microbiome in Infectious Diseases: The Clinical Relevance of a Rapidly Emerging Field.
Harris Vanessa C et al. Open forum infectious diseases 2017 (3) ofx144 - Multidomain analyses of a longitudinal human microbiome intestinal cleanout perturbation experiment.
Fukuyama Julia et al. PLoS computational biology 2017 Aug (8) e1005706
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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