Advanced Molecular Detection Clips
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
- All donor blood in the U.S. should be screened for Zika, FDA says
Kaplan K. Los Angeles Times, Aug 26, 2016. - As Zika fear spreads, FDA gives Roche test emergency authorization
Blumenthal E. USA Today, Aug 29, 2016. - CDC’s Historic Response to Ebola
JAMA. 2016;316(8):810. - Ebola virus in semen: ‘Virus may persist for a year or longer’
Outbreak News Today, Aug 30, 2016. - CDC releases genetic data on antibiotic resistant Salmonella
Feller S. UPI, Aug 29, 2016. - Comparison of Genotyping-by-Sequencing Pipelines Reveals Differences in Accuracy, SNP Catalogs
Heger M. GenomeWeb, Aug 26, 2016. - First DNA Sequencing in Space a Game Changer
NASA, Aug 29, 2016. - New Virus Breaks The Rules Of Infection
Doucleff M. Aug 25, 2016. - Europe's new hepatitis problem
Kupferschmidt K. Science, Aug 26, 2016. - Your Gut's Gone Viral, And That Might Be Good For Your Health
Doucleff M. NPR, Aug 29, 2016. - Chronic Fatigue Syndrome Shows Distinct Metabolomic Signatures, UCSD Study Says
Han AP. GenomeWeb, Aug 31, 2016. - High-Coverage Genome Offers Peek at Justinian Plague Genetics
GenomeWeb, Aug 31, 2016.
EVENTS / TRAINING / WEB RESOURCES
- Genomes FTP site data organization to change on September 20, 2016
NCBI, Aug 30, 2016.
POLICY
- Academics and scientists: Beware of predatory journal publishers
Lake L. Federal Trade Commission, Aug 26, 2016. - Achieving global targets for antimicrobial resistance
Laxminarayan R, et al. Science, Aug 26, 2016. - WHO issues new STD treatment guidelines as antibiotic resistance looms
Branswell H. STAT, Aug30, 2016.
CONCEPTS / COMMENTS
- Circulating MicroRNAs: Potential and Emerging Biomarkers for Diagnosis of Human Infectious Diseases.
Verma Parmila et al. Frontiers in microbiology 2016 1274 - What Have We Learned about the Microbiomes of Indoor Environments?
Stpehens B. mSystems 2016; 1(4):e00083-16.
METHODS / TOOLS
- Navigating Microbiological Food Safety in the Era of Whole-Genome Sequencing.
Ronholm J et al. Clinical microbiology reviews 2016 Oct (4) 837-57
- Gene name errors are widespread in the scientific literature.
Ziemann Mark et al. Genome biology 2016 (1) 177 - Software-based analysis of bacteriophage genomes, physical ends, and packaging strategies.
Merrill Bryan D et al. BMC genomics 2016 679 - Genome-Wide SNP Calling from Genotyping by Sequencing (GBS) Data: A Comparison of Seven Pipelines and Two Sequencing Technologies.
Torkamaneh Davoud et al. PloS one 2016 (8) e0161333 - Toward Accurate and Quantitative Comparative Metagenomics.
Nayfach Stephen et al. Cell 2016 Aug (5) 1103-16 - Multiplexed Metagenomic Deep Sequencing To Analyze the Composition of High-Priority Pathogen Reagents
Wilson MR, et al. mSystems 2016; 1:e00058-16. - PanTools: representation, storage and exploration of pan-genomic data
Sheikhizadeh S, et al. Bioinformatics 2016; 32(17):i487-i493. - Information-optimal genome assembly via sparse read-overlap graphs
Shomorony I, et al. Bioinformatics 2016; 32(17):i494-i502. - Improve homology search sensitivity of PacBio data by correcting frameshifts
Du N, Sun Y. Bioinformatics 2016; 32(17):i529-i537. - MetaProb: accurate metagenomic reads binning based on probabilistic sequence signatures
Girotto S, et al. Bioinformatics 2016; 32(17):i567-i575.
EVOLUTION / ECOLOGY / POPULATIONS
- Complete Genome Sequences of the Historical Legionella pneumophila Strains OLDA and Pontiac.
Mercante Jeffrey W et al. Genome announcements 2016 (4)
- Emergence of epidemic Neisseria meningitidis serogroup C in Niger, 2015: an analysis of national surveillance data.
Sidikou Fati et al. The Lancet. Infectious diseases 2016 Aug - Historical Y. pestis Genomes Reveal the European Black Death as the Source of Ancient and Modern Plague Pandemics.
Spyrou Maria A et al. Cell host & microbe 2016 Jun (6) 874-81 - Global phylogeography and evolutionary history of Shigella dysenteriae type 1.
Njamkepo Elisabeth et al. Nature microbiology 2016 16027 - Genome-based characterization of hospital-adapted Enterococcus faecalis lineages.
Raven Kathy E et al. Nature microbiology 2016 15033 - Emergence of host-adapted Salmonella Enteritidis through rapid evolution in an immunocompromised host.
Klemm Elizabeth J et al. Nature microbiology 2016 15023 - A high-coverage Yersinia pestis Genome from a 6th-century Justinianic Plague Victim.
Feldman Michal et al. Molecular biology and evolution 2016 Aug - CRISPR diversity and microevolution in Clostridium difficile.
Andersen Joakim M et al. Genome biology and evolution 2016 Aug - Evidence for Within-Host Genetic Recombination among the Human Pegiviral Strains in HIV Infected Subjects.
Wu Haoming et al. PloS one 2016 (8) e0161880 - Prevailing PA Mutation K356R in Avian Influenza H9N2 Virus Increases Mammalian Replication and Pathogenicity.
Xu Guanlong et al. Journal of virology 2016 Sep (18) 8105-14 - First epidemiological and phylogenetic analysis of hepatitis B virus infection in migrants from Mali.
Cella Eleonora et al. Journal of medical virology 2016 Aug - Time-space analysis of highly pathogenic avian influenza H5N2 outbreak in the US.
Nonthabenjawan Nutthawan et al. Virology journal 2016 (1) 147 - A global map of genetic diversity in Babesia microti reveals strong population structure and identifies variants associated with clinical relapse.
Lemieux Jacob E et al. Nature microbiology 2016 (7) 16079 - Clonal Evolution of Enterocytozoon bieneusi Populations in Swine and Genetic Differentiation in Subpopulations between Isolates from Swine and Humans.
Wan Qiang et al. PLoS neglected tropical diseases 2016 Aug (8) e0004966
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
- Detection of the plasmid-mediated colistin-resistance gene mcr-1 in faecal metagenomes of Dutch travellers.
von Wintersdorff Christian J H et al. The Journal of antimicrobial chemotherapy 2016 Aug - Genomic analyses of Neisseria gonorrhoeae reveal an association of the gonococcal genetic island with antimicrobial resistance.
Harrison Odile B et al. The Journal of infection 2016 Aug - In vivo evolution of tigecycline-non-susceptible Klebsiella pneumoniae strains in patients: relationship between virulence and resistance.
Lin Yi-Tsung et al. International journal of antimicrobial agents 2016 Aug - Genomic Analysis Reveals Multi-Drug Resistance Clusters in Group B Streptococcus CC17 Hypervirulent Isolates Causing Neonatal Invasive Disease in Southern Mainland China.
Campisi Edmondo et al. Frontiers in microbiology 2016 1265 - Co-infection and emergence of rifamycin resistance during a recurrent Clostridium difficile infection.
Stevenson Emma C et al. Journal of clinical microbiology 2016 Aug - Genomic analysis of the evolution of fluoroquinolone resistance in Mycobacterium tuberculosis prior to tuberculosis diagnosis.
Zhang Danfeng et al. Antimicrobial agents and chemotherapy 2016 Aug - Gene sequencing and variable site analyzing of coding region of two enterovirus A71 isolates with different clinical phenotypes.
Xie Bing-Yu et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2016 Aug - The Mutational Robustness of Influenza A Virus.
Visher Elisa et al. PLoS pathogens 2016 Aug (8) e1005856 - Genomic Analyses of Cladophialophora bantiana, a Major Cause of Cerebral Phaeohyphomycosis Provides Insight into Its Lifestyle, Virulence and Adaption in Host.
Kuan Chee Sian et al. PloS one 2016 (8) e0161008
DETECTION / DIAGNOSIS
- Real-Time Genome Sequencing of Resistant Bacteria Provides Precision Infection Control in an Institutional Setting.
Mellmann Alexander et al. Journal of clinical microbiology 2016 Aug - A signal-amplified electrochemical DNA biosensor incorporated with a colorimetric internal control for Vibrio cholerae detection using shelf-ready reagents.
Low Kim-Fatt et al. Biosensors & bioelectronics 2016 Aug 256-263 - Large protein analysis of Staphylococcus aureus and Escherichia coli by MALDI TOF mass spectrometry using amoxicillin functionalized magnetic nanoparticles.
Hasan Nazim et al. Analytical and bioanalytical chemistry 2016 Aug - 16S rRNA Amplicon Sequencing for Epidemiological Surveys of Bacteria in Wildlife
Galan M, et al. mSystems 2016; 1(4):e00032-16. - Identification of mycobacterium spp. and nocardia spp. from solid and liquid cultures by matrix-assisted laser desorption ionization-time of flight mass spectrometry (MALDI-TOF MS).
Girard Victoria et al. Diagnostic microbiology and infectious disease 2016 Aug - Development and evaluation of tailored specific real-time RT-PCR assays for detection of foot-and-mouth disease virus serotypes circulating in East Africa.
Bachanek-Bankowska Katarzyna et al. Journal of virological methods 2016 Aug - Accurate diagnosis of avian respiratory viruses using multiplex PCR-based Luminex suspension microarray.
Laamiri Nacira et al. Journal of clinical microbiology 2016 Aug
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
- Notes from the Field: Outbreak of Listeriosis Associated with Consumption of Packaged Salad - United States and Canada, 2015-2016.
Self Julie L et al. MMWR. Morbidity and mortality weekly report (33) 879-881 - Rapid spread of Neisseria gonorrhoeae ciprofloxacin resistance due to a newly introduced resistant strain in Nuuk, Greenland, 2012-2015: a community-based prospective cohort study.
Pedersen Michael Lynge et al. BMJ open 2016 (8) e011998 - Transmission of drug-resistant leprosy in Guinea-Conakry detected by molecular epidemiological approaches.
Avanzi Charlotte et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2016 Aug - Molecular evidence for the aerial route of infection of Mycobacterium leprae and the role of asymptomatic carriers in the persistence of leprosy.
Araujo Sergio et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2016 Aug - Comprehensive Characterization of HIV-1 Molecular Epidemiology and Demographic History in the Brazilian Region Most Heavily Affected by AIDS.
Gräf Tiago et al. Journal of virology 2016 Sep (18) 8160-8
ANTIMICROBIALS / VACCINES / INTERVENTIONS
- The Liberia Men's Health Screening Program for Ebola virus: win-win-win for survivor, scientist, and public health
Bausch DG, Crozier I. Lancet Global Health, Aug 30, 2016. - Prevention of sexual transmission of Ebola in Liberia through a national semen testing and counselling programme for survivors: an analysis of Ebola virus RNA results and behavioural data
Soka MJ, et al. Lancet Global Health, Aug 30, 2016.
HOST-MICROBE INTERACTIONS
- A genome-wide association meta-analysis of diarrhoeal disease in young children identifies FUT2 locus and provides plausible biological pathways.
Bustamante Mariona et al. Human molecular genetics 2016 Aug - Integrating Transcriptomic and Proteomic Data Using Predictive Regulatory Network Models of Host Response to Pathogens.
Chasman Deborah et al. PLoS computational biology 2016 Jul (7) e1005013 - The cervico-vaginal microbiota in women notified for Chlamydia trachomatis infection: A case-control study at the STI outpatient clinic in Amsterdam, the Netherlands.
van der Veer C et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2016 Aug - Joint effects of pregnancy, sociocultural, and environmental factors on early life gut microbiome structure and diversity.
Levin Albert M et al. Scientific reports 2016 31775 - Healthy human gut phageome.
Manrique Pilar et al. Proceedings of the National Academy of Sciences of the United States of America 2016 Aug - Genetic and Transcriptional Analysis of Human Host Response to Healthy Gut Microbiota
Richards AL, et al. mSystems 2016; 1:e00067-16. - Gene expression profiling at birth characterizing the preterm infant with early onset infection.
Hilgendorff Anne et al. Journal of molecular medicine (Berlin, Germany) 2016 Aug
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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