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
- Researchers Report on Ebola Virus Patterns Detected by Portable Lab Sequencing
Anderson A. GenomeWeb, Feb 3, 2016. - The Mycobiome
Ghannoum M. The Scientist, Feb 1, 2016. - Teams Sequence Bed Bug Genome
GenomeWeb, Feb 2, 2016. - Restoring C-section babies' microbiota
Offord C. The Scientist, Feb 1, 2016. - Novel clonotyping test predicts E. coli susceptibility
Healio, Jan 26, 2016.
CONCEPTS / COMMENTS
- Consolidating and exploring antibiotic resistance gene data resources.
Xavier Basil Britto et al. Journal of clinical microbiology 2016 Jan - Anti-infective vaccination in the 21st century-new horizons for personal and public health.
Scully Ingrid L et al. Current opinion in microbiology 2015 Oct 96-102
METHODS / TOOLS
- CSSSCL: a python package that uses combined sequence similarity scores for accurate taxonomic classification of long and short sequence reads.
Borozan Ivan et al. Bioinformatics (Oxford, England) 2016 Feb (3) 453-5 - ClassTR: Classifying Within-Host Heterogeneity Based on Tandem Repeats with Application to Mycobacterium tuberculosis Infections.
Chindelevitch Leonid et al. PLoS computational biology 2016 Feb (2) e1004475 - Evaluation of A Single-reaction Method for Whole Genome Sequencing of Influenza A Virus using Next Generation Sequencing.
Zou Xiao Hui et al. Biomedical and environmental sciences : BES 2016 Jan (1) 41-6 - Evaluating the Quantitative Capabilities of Metagenomic Analysis Software.
Kerepesi Csaba et al. Current microbiology 2016 Jan - Ebola Virus RNA Stability in Human Blood and Urine in West Africa's Environmental Conditions.
Janvier Frédéric et al. Emerging infectious diseases 2016 Feb (2) 292-4
EVOLUTION / ECOLOGY / POPULATIONS
- Within-host evolution of bacterial pathogens.
Didelot Xavier et al. Nature reviews. Microbiology 2016 Jan - Genomic dissection of Australian Bordetella pertussis isolates from the 2008-2012 epidemic.
Safarchi Azadeh et al. The Journal of infection 2016 Jan - Phylogenetic Analyses of Shigella and Enteroinvasive Escherichia coli for the Identification of Molecular Epidemiological Markers: Whole-Genome Comparative Analysis Does Not Support Distinct Genera Designation.
Pettengill Emily A et al. Frontiers in microbiology 2015 1573 - Genotyping and strain distribution of Mycobacterium avium subspecies hominissuis isolated from humans and pigs in Belgium, 2011-2013.
Vluggen Christelle et al. Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin 2016 Jan (3) - Phylogeny of Zika Virus in Western Hemisphere, 2015
Lanciotti RS, et al. Emerg Infect Dis, May 2016. - Genetic Diversity and Population Structure of Leishmania infantum from Southeastern France: Evaluation Using Multi-Locus Microsatellite Typing.
Pomares Christelle et al. PLoS neglected tropical diseases 2016 Jan (1) e0004303 - Unique features of a global human ectoparasite identified through sequencing of the bed bug genome.
Benoit Joshua B et al. Nature communications 10165
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
- Uncovering Listeria monocytogenes hypervirulence by harnessing its biodiversity.
Maury Mylène M et al. Nature genetics 2016 Feb - Whole genome sequencing revealed host adaptation-focused genomic plasticity of pathogenic Leptospira.
Xu Yinghua et al. Scientific reports 2016 20020 - Global epidemiology of drug resistance after failure of WHO recommended first-line regimens for adult HIV-1 infection: a multicentre retrospective cohort study.
et al. The Lancet. Infectious diseases 2016 Jan
DETECTION / DIAGNOSIS
- Multi-Locus Sequence Typing of Bartonella bacilliformis DNA Performed Directly from Blood of Patients with Oroya's Fever During a Peruvian Outbreak.
Pons Maria J et al. PLoS neglected tropical diseases 2016 Jan (1) e0004391 - The evaluation and application of multilocus variable number tandem repeat analysis (MLVA) for the molecular epidemiological study of Salmonella enterica subsp. enterica serovar Enteritidis infection.
Liu Yao et al. Annals of clinical microbiology and antimicrobials 2016 (1) 4 - Detecting Staphylococcus aureus Virulence and Resistance Genes - a Comparison of Whole Genome Sequencing and DNA Microarray Technology.
Strauß Lena et al. Journal of clinical microbiology 2016 Jan - Probable and possible transfusion-transmitted dengue associated with NS1 antigen-negative but RNA confirmed-positive red blood cells.
Matos Desiree et al. Transfusion 2016 Jan (1) 215-22 - Real-time, portable genome sequencing for Ebola surveillance
Quick J, et al. Nature, Feb 3, 2016. - Sequencing Ebola and Marburg viruses genomes using microarrays.
Hardick Justin et al. Journal of medical virology 2016 Jan - Gene expression profiling identifies candidate biomarkers for active and latent tuberculosis.
Lee Shih-Wei et al. BMC bioinformatics 2016 3 - External quality assessment studies for laboratory performance of molecular and serological diagnosis of Chikungunya virus infection.
Jacobsen Sonja et al. Journal of clinical virology : the official publication of the Pan American Society for Clinical Virology 2016 Jan 55-65 - A Novel High-Throughput Method for Molecular Detection of Human Pathogenic Viruses Using a Nanofluidic Real-Time PCR System.
Coudray-Meunier Coralie et al. PloS one 2016 (1) e0147832 - A deep sequencing tool for partitioning clearance rates following antimalarial treatment in polyclonal infections.
Mideo Nicole et al. Evolution, medicine, and public health 2016 Jan - Rapid Point-of-Care Isothermal Amplification Assay for the Detection of Malaria without Nucleic Acid Purification.
Modak Sayli S et al. Infectious diseases 2016 1-9
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
- Genomic Investigation of a Legionellosis Outbreak in a Persistently Colonized Hotel.
Sánchez-Busó Leonor et al. Frontiers in microbiology 2015 1556 - International linkage of two food-borne hepatitis A clusters through traceback of mussels, the Netherlands, 2012.
Boxman Ingeborg L A et al. Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin 2016 Jan (3) - Phylogenetic Investigation of a Statewide HIV-1 Epidemic Reveals Ongoing and Active Transmission Networks Among Men Who Have Sex With Men.
Chan Philip A et al. Journal of acquired immune deficiency syndromes (1999) 2015 Dec (4) 428-35
ANTIMICROBIALS / VACCINES / INTERVENTIONS
- A genomic signature of influenza infection shows potential for presymptomatic detection, guiding early therapy, and monitoring clinical responses
McClain MT, et al. Open Forum Infect Dis, Jan 19, 2016.
HOST-MICROBE INTERACTIONS
- Identification of Symptomatic Fetuses Infected with Cytomegalovirus Using Amniotic Fluid Peptide Biomarkers.
Desveaux Cyrille et al. PLoS pathogens 2016 Jan (1) e1005395 - Persistent HIV-1 replication maintains the tissue reservoir during therapy.
Lorenzo-Redondo Ramon et al. Nature 2016 Jan - Individualized significance of the -251 A/T single nucleotide polymorphism of interleukin-8 in severe infections.
Georgitsi M D et al. European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology 2016 Jan - HLA class II sequence variants influence tuberculosis risk in populations of European ancestry.
Sveinbjornsson Gardar et al. Nature genetics 2016 Feb - Signatures of early frailty in the gut microbiota.
Jackson Matt et al. Genome medicine 2016 (1) 8 - Effect of Advanced HIV Infection on the Respiratory Microbiome.
Twigg Iii Homer L et al. American journal of respiratory and critical care medicine 2016 Feb
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