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
- U.S. researchers find new bacteria that causes Lyme disease
Beasley D. Reuters, Feb 8, 2016. - Wake Forest Team Demos Nanopore Sensor for Sequence-Specific Detection of RNA, DNA
Heger M. GenomeWeb, Feb 5, 2016. - Computer helps researchers tackle multiple flu strains at once
Shultz D. Science, Feb 4, 2016. - Tick Genome Provides Resource for Understanding Bloodsucker's Biology, Disease Transmission
GenomeWeb, Feb 9, 2016. - NCBI to assist Louisiana State University in South and Southeast regional genomics hackathon
NCBI, Feb 8, 2016.
EVENTS / TRAINING / WEB RESOURCES
- Five ways to submit next-gen sequencing data to NCBI's Sequence Read Archive (SRA)
(webinar) NCBI, Feb 17, 2016. - Behind the paper: Real time, portable sequencing for Ebola surveillance
(blog post) Loman N. Feb 3, 2016. - Nature Microbiology Community
(website) "A forum for the sharing and discussion of ideas and opinions about microbiology." - Genetic Data Warehousing
(free ebook) Scherer A. Golden Helix, Feb 10, 2016. - Zika Virus
(web page) New Engl J Med.
POLICY
- European academies advise on Gain of Function studies in influenza virus research.
Fears Robin et al. Journal of virology 2015 Dec - Statement on Data Sharing in Public Health Emergencies
Science, Feb 10, 2016. - Benefits of sharing
Nature, Feb 10, 2016.
CONCEPTS / COMMENTS
- Detection of a novel Lyme borreliosis pathogen.
Wilhelmsson Peter et al. The Lancet. Infectious diseases 2016 Feb - Achieving universal testing for malaria
Ochodo E, et al. BMJ, Feb 4, 2016.
METHODS / TOOLS
- Comparison of Sample Preparation Methods Used for the Next-Generation Sequencing of Mycobacterium tuberculosis.
Tyler Andrea D et al. PloS one (2) e0148676 - Antimicrobial Resistance (AR) Dashboard Application for Mapping Environmental Occurrence and Resistant Pathogens.
Stedtfeld Robert D et al. FEMS microbiology ecology 2016 Feb - SPARTA: Simple Program for Automated reference-based bacterial RNA-seq Transcriptome Analysis.
Johnson Benjamin K et al. BMC bioinformatics 2016 (1) 66
EVOLUTION / ECOLOGY / POPULATIONS
- Complete Closed Genome Sequences of Salmonella enterica subsp. enterica Serotypes Anatum, Montevideo, Typhimurium, and Newport, Isolated from Beef, Cattle, and Humans.
Harhay Dayna M et al. Genome announcements 2016 (1)
- High Degree of HIV-1 group M Genetic Diversity within Circulating Recombinant Forms: Insight into the Early Events of HIV-1M Evolution.
Tongo Marcel et al. Journal of virology 2015 Dec - ORF8-Related Genetic Evidence for Chinese Horseshoe Bats as the Source of Human Severe Acute Respiratory Syndrome Coronavirus.
Wu Zhiqiang et al. The Journal of infectious diseases 2016 Feb (4) 579-83 - Phylogenetic Analysis of Chikungunya Virus Strains Circulating in the Western Hemisphere.
Lanciotti Robert S et al. The American journal of tropical medicine and hygiene 2016 Feb - Influenza virus surveillance in Argentina during the 2012 season: antigenic characterization, genetic analysis and antiviral susceptibility.
Benedetti E et al. Epidemiology and infection 2016 Mar (4) 751-67 - Evidence of two distinct phylogenetic lineages of dog rabies virus circulating in Cambodia.
Mey Channa et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2016 Mar 55-61 - Genetic characterization of highly pathogenic H5 influenza viruses from poultry in Taiwan, 2015.
Huang Pei-Yu et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2016 Mar 96-100 - Complete nucleotide sequence analysis of the norovirus GII.17: A newly emerging and dominant variant in China, 2015.
Wang Hai-Bo et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2016 Mar 47-53 - Complete genome analyses of the first porcine rotavirus group H identified from a South African pig does not provide evidence for recent interspecies transmission events.
Nyaga Martin M et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2016 Mar 1-7 - Multilocus analysis indicates that Trypanosoma cruzi I genetic substructure associated with sylvatic and domestic cycles is not an attribute conserved throughout Colombia.
Gómez-Palacio Andrés et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2016 Mar 35-43 - Genomic insights into the Ixodes scapularis tick vector of Lyme disease
Gullia-Nuss M, et al. Nat Commun, Feb 9, 2016.
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
- Genome-based characterization of hospital-adapted Enterococcus faecalis lineages
Raven KE, et al. Nat Microbiol, Feb 8, 2016. - Association of novel nonsynonymous single nucleotide polymorphisms in ampD with cephalosporin resistance and phylogenetic variations in ampC, ampR, ompF and ompC in Enterobacter cloacae that are highly resistant to carbapenems.
Babouee Flury Baharak et al. Antimicrobial agents and chemotherapy 2016 Feb - Carbapenem-resistant and colistin-resistant Escherichia coli co-producing NDM-9 and MCR-1.
Yao Xu et al. The Lancet. Infectious diseases 2016 Jan - Antibiotic resistance in Enterobacteriaceae: mechanisms and clinical implications.
Iredell Jon et al. BMJ (Clinical research ed.) 2016 h6420 - Whole genome analysis of an MDR Beijing/W strain of Mycobacterium tuberculosis with large genomic deletions associated with resistance to isoniazid.
Zhang Qiufen et al. Gene 2016 Feb - Zika Virus Associated with Microcephaly.
Mlakar Jernej et al. The New England journal of medicine 2016 Feb - Zika Virus and Microcephaly.
Rubin Eric J et al. The New England journal of medicine 2016 Feb - Comprehensive screening for naturally-occurring Hepatitis C virus resistance to direct-acting antivirals in the NS3, NS5A and NS5B genes in worldwide isolates from viral genotypes 1-6.
Patiño-Galindo Juan Ángel et al. Antimicrobial agents and chemotherapy 2016 Feb - Genetic diversity of Aspergillus species isolated from onychomycosis and Aspergillus hongkongensis sp. nov., with implications to antifungal susceptibility testing.
Tsang Chi-Ching et al. Diagnostic microbiology and infectious disease 2016 Feb (2) 125-34 - The Distribution of Prion Protein Allotypes Differs Between Sporadic and Iatrogenic Creutzfeldt-Jakob Disease Patients.
Moore Roger A et al. PLoS pathogens 2016 Feb (2) e1005416
DETECTION / DIAGNOSIS
- Multidisciplinary molecular diagnostics: the 9(th) European Meeting on Molecular Diagnostics.
Loonen Anne Jm et al. Expert review of molecular diagnostics 2016 Feb - Clostridium botulinum Group II Isolate Phylogenomic Profiling Using Whole-Genome Sequence Data.
Weedmark K A et al. Applied and environmental microbiology 2015 Sep (17) 5938-48 - MALDI-TOF MS based carbapenemase detection from culture isolates and from positive blood culture vials.
Ghebremedhin B et al. Annals of clinical microbiology and antimicrobials 2016 (1) 5 - Identification of a novel pathogenic Borrelia species causing Lyme borreliosis with unusually high spirochaetaemia: a descriptive study.
Pritt Bobbi S et al. The Lancet. Infectious diseases 2016 Feb - A population-based study of aerococcal bacteraemia in the MALDI-TOF MS-era.
Senneby E et al. European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology 2016 Feb - Laboratory Evaluation of a Dual-Path Platform Assay for Rapid Point-of-Care HIV and Syphilis Testing.
Leon S R et al. Journal of clinical microbiology 2016 Feb (2) 492-4 - Evaluation of Xpert MTB/RIF to identify pulmonary tuberculosis in tuberculosis suspects from low and higher prevalence settings compared to acid fast smear and culture.
Firnhaber Cynthia et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2016 Feb - Use of Xpert MTB/RIF in Decentralized Public Health Settings and Its Effect on Pulmonary TB and DR-TB Case Finding in India.
Sachdeva Kuldeep Singh et al. PloS one 2015 (5) e0126065 - Economic Impact of a New Rapid PCR Assay for Detecting Influenza Virus in an Emergency Department and Hospitalized Patients.
Soto Marcelo et al. PloS one 2016 (1) e0146620 - Real-time, portable genome sequencing for Ebola surveillance.
Quick Joshua et al. Nature 2016 Feb - Current laboratory approaches to diagnosis of CNS fungal infections.
Lyons Jennifer L et al. Future microbiology 2016 Feb - An Anti-proteome Nanobody Library Approach Yields a Specific Immunoassay for Trypanosoma congolense Diagnosis Targeting Glycosomal Aldolase.
Odongo Steven et al. PLoS neglected tropical diseases 2016 Feb (2) e0004420 - Transdermal Diagnosis of Malaria Using Vapor Nanobubbles.
Lukianova-Hleb Ekaterina et al. Emerging infectious diseases 2016 Feb (2) 344
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
- The Prevalence and Molecular Epidemiology of Multidrug-Resistant Enterobacteriaceae Colonization in a Pediatric Intensive Care Unit.
Suwantarat Nuntra et al. Infection control and hospital epidemiology 2016 Feb 1-9 - Heated birthing pools as a source of Legionnaires' disease.
Collins S L et al. Epidemiology and infection 2016 Mar (4) 796-802 - Whole genome sequencing reveals extensive community-level transmission of group A Streptococcus in remote communities.
Bowen A C et al. Epidemiology and infection 2016 Feb 1-8 - Probable Hospital Cluster of H7N9 Influenza Infection.
Farooqui Amber et al. The New England journal of medicine 2016 Feb (6) 596-598 - Molecular and mathematical modeling analyses of inter-island transmission of rabies into a previously rabies-free island in the Philippines.
Tohma Kentaro et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2016 Mar 22-8 - Distribution and time trends of HIV-1 variants in Poland: Characteristics of non-B clades and recombinant viruses.
Parczewski Milosz et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2016 Feb - Evaluation of Polymorphic Locus Sequence Typing for Candida glabrata Epidemiology.
Katiyar Santosh et al. Journal of clinical microbiology 2016 Feb
ANTIMICROBIALS / VACCINES / INTERVENTIONS
- A Computationally Designed Hemagglutinin Stem-Binding Protein Provides In Vivo Protection from Influenza Independent of a Host Immune Response.
Koday Merika Treants et al. PLoS pathogens 2016 Feb (2) e1005409 - Characterization of parasite-specific indels and their proposed relevance for selective anthelminthic drug targeting.
Wang Qi et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2016 Jan 201-211
HOST-MICROBE INTERACTIONS
- A Missense LRRK2 Variant Is a Risk Factor for Excessive Inflammatory Responses in Leprosy.
Fava Vinicius M et al. PLoS neglected tropical diseases 2016 Feb (2) e0004412 - The GATA3 gene is involved in leprosy susceptibility in Brazilian patients.
Medeiros Priscila et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2016 Jan 194-200 - Composition of the gut microbiota modulates the severity of malaria
Villarino NF, et al. PNAS, Feb 4, 2016. - When the Fight against Fungi Goes Wrong.
Wang Xiaowen et al. PLoS pathogens 2016 Feb (2) e1005400 - Continuous Influx of Genetic Material from Host to Virus Populations.
Gilbert Clément et al. PLoS genetics 2016 Feb (2) e1005838
indicates that at least one CDC-affiliated author; indicates that the article addresses aspects of implementation or evaluation in clinical or public health practice.
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