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
- ‘Superbug’ MRSA may be spreading through tainted poultry
Sun LH. Washington Post,Sep 21, 2016. - Lille Researchers Use MALDI Mass Spec for Early Detection of Fungal Infections
Stanislawski A. GenomeWeb, Sep 20, 2016. - UPenn Engineers Develop Instrument-Free Zika MDx, Immunoassay
Johnson M. GenomeWeb, Sep 20, 2016. - New York State Department of Health Wadsworth Center Using Whole-Genome Sequencing to Combat Spread and Improve Treatment of Tuberculosis
(news release) New York State Department of Health, Sep 16, 2016. - Mosquito Preference for Human Versus Animal Biting Has Genetic Basis
Kerlin K. UC Davis, Sep 15, 2016. - NIH to Fund Genomic Research Into HIV/AIDS Drug Response
GenomeWeb, Sep 19, 2016. - Microbiome Companies Attract Big Investments
Gormley B. Wall Street Journal, Sep 18, 2016.
POLICY
- A missed opportunity for U.S. biotechnology regulation
Kuzma J. Science, Sep 16, 2016. - Senate HELP Committee Holds Hearing to Discuss Best Path Forward for Lab Test Regulation
Ray T. GenomeWeb, Sep 20, 2016.
CONCEPTS / COMMENTS
- One Health: Addressing Global Challenges at the Nexus of Human, Animal, and Environmental Health.
Mwangi Waithaka et al. PLoS pathogens 2016 Sep (9) e1005731 - Antibiotic-Resistant Bacteria and the World's Peril
(blog post) Garrett L. Scientific American, Sep 19, 2016. - Antimicrobial Resistance
Marston HD, et al. JAMA, Sep 20, 2016. - Next Generation Epidemiology: Using Real-Time cgMLST to Support Infection Control Policy.
Dekker John P et al. Journal of clinical microbiology 2016 Sep - Gathering lots of data on a small budget
Greenville AC, Emery NJ. Science, Sep 23, 2016.
METHODS / TOOLS
- Nanocall: An Open Source Basecaller for Oxford Nanopore Sequencing Data.
David Matei et al. Bioinformatics (Oxford, England) 2016 Sep - Sequence element enrichment analysis to determine the genetic basis of bacterial phenotypes.
Lees John A et al. Nature communications 2016 12797 - Pathogen metadata platform: software for accessing and analyzing pathogen strain information.
Chang Wenling E et al. BMC bioinformatics 2016 (1) 379 - TreeScaper: visualizing and extracting phylogenetic signal from sets of trees.
Huang Wen et al. Molecular biology and evolution 2016 Sep - SnpFilt: A pipeline for reference-free assembly-based identification of SNPs in bacterial genomes.
Chan Carmen H S et al. Computational biology and chemistry 2016 Sep - Replication of human noroviruses in stem cell-derived human enteroids.
Ettayebi Khalil et al. Science (New York, N.Y.) 2016 Aug
EVOLUTION / ECOLOGY / POPULATIONS
- Complete Genome Sequences of Bordetella pertussis Vaccine Reference Strains 134 and 10536.
Weigand Michael R et al. Genome announcements 2016 (5) - Dynamics of genome change among Legionella species.
Joseph Sandeep J et al. Scientific reports 2016 33442
- Combined Analysis of Variation in Core, Accessory and Regulatory Genome Regions Provides a Super-Resolution View into the Evolution of Bacterial Populations.
McNally Alan et al. PLoS genetics 2016 Sep (9) e1006280 - Molecular history of plague.
Drancourt M et al. Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases 2016 Sep - Recurrent evolution of host and vector association in bacteria of the Borrelia burgdorferi sensu lato species complex.
Becker Noémie S et al. BMC genomics 2016 (1) 734 - Exceptional Heterogeneity in Viral Evolutionary Dynamics Characterises Chronic Hepatitis C Virus Infection.
Raghwani Jayna et al. PLoS pathogens 2016 Sep (9) e1005894 - Whole-Genome Characterization of Epidemic Neisseria meningitidis Serogroup C and Resurgence of Serogroup W, Niger, 2015.
Kretz Cecilia B et al. Emerging infectious diseases 2016 Oct (10) 1762-1768 - Saliviruses-the first knowledge about a newly discovered human picornavirus.
Reuter Gábor et al. Reviews in medical virology 2016 Sep - Dynamic convergent evolution drives the passage adaptation across 48 years' history of H3N2 influenza evolution.
Chen Hui et al. Molecular biology and evolution 2016 Sep - Genetic Characterisation of Plasmodium falciparum Isolates with Deletion of the pfhrp2 and/or pfhrp3 Genes in Colombia: The Amazon Region, a Challenge for Malaria Diagnosis and Control.
Dorado Erika Jimena et al. PloS one 2016 (9) e0163137 - Development of a multilocus sequence typing tool for high-resolution subtyping and genetic structure characterization of Cryptosporidium ubiquitum.
Tang Ying et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2016 Sep 256-261 - West African Anopheles gambiae mosquitoes harbor a taxonomically diverse virome including new insect-specific flaviviruses, mononegaviruses, and totiviruses.
Fauver Joseph R et al. Virology 2016 Sep 288-299 - A reference gene catalogue of the pig gut microbiome.
Xiao Liang et al. Nature microbiology 2016 16161
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
- Genomic epidemiology of gonococcal resistance to extended spectrum cephalosporins, macrolides, and fluoroquinolones in the US, 2000-2013.
Grad Yonatan H et al. The Journal of infectious diseases 2016 Sep - Clinical Manifestations and Molecular Characterization of Pertactin-deficient and Pertactin-producing Bordetella pertussis in Children, Philadelphia 2007 - 2014.
Vodzak Jennifer et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2016 Sep - Antimicrobial peptide exposure selects for Staphylococcus aureus resistance to human defence peptides.
Kubicek-Sutherland Jessica Z et al. The Journal of antimicrobial chemotherapy 2016 Sep - Understanding bat SARS-like coronaviruses for the preparation of future coronavirus outbreaks - Implications for coronavirus vaccine development.
Ng Oi-Wing et al. Human vaccines & immunotherapeutics 2016 Sep 0 - UDP-galactose and acetyl-CoA transporters as Plasmodium multidrug resistance genes.
Lim Michelle Yi-Xiu et al. Nature microbiology 2016 16166
DETECTION / DIAGNOSIS
- High frequency of occupied attB regions in Norwegian Staphylococcus aureus isolates supports a two-step MRSA screening algorithm.
Tunsjø H S et al. European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology 2016 Sep - Whole genome multilocus sequence typing of extended-spectrum beta-lactamase-producing Enterobacteriaceae.
Kluytmans-van den Bergh Marjolein F Q et al. Journal of clinical microbiology 2016 Sep - Rapid molecular diagnostic test for Zika virus with low demands on sample preparation and instrumentation.
Eboigbodin Kevin E et al. Diagnostic microbiology and infectious disease 2016 Sep - Performance of self-collected penile-meatal swabs compared to clinician-collected urethral swabs for the detection of Chlamydia trachomatis, Neisseria gonorrhoeae, Trichomonas vaginalis, and Mycoplasma genitalium by nucleic acid amplification assays.
Dize Laura et al. Diagnostic microbiology and infectious disease 2016 Oct (2) 131-5 - Mycobacterium tuberculosis and whole genome sequencing: a practical guide and online tools available for the clinical microbiologist.
Satta Giovanni et al. Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases 2016 Sep
- Development and in-use evaluation of a novel Luminex MicroPlex microsphere-based (TRIOL) assay for simultaneous identification of Mycobacterium tuberculosis and detection of first-line and second-line anti-tuberculous drug resistance in China.
Yin Feifei et al. Journal of clinical pathology 2016 Sep - Unmet Needs for a Rapid Diagnosis of Chikungunya Virus Infection.
Burdino Elisa et al. Emerging infectious diseases 2016 Oct (10) 1837-1839 - Application of mass spectrometry technology to the early diagnosis of invasive fungal infections.
Mery Alexandre et al. Journal of clinical microbiology 2016 Sep - A new panfungal real-time PCR assay for the diagnosis of invasive fungal infections (IFIs).
Valero Clara et al. Journal of clinical microbiology 2016 Sep - Detection of mucormycetes and other pathogenic fungi in formalin fixed paraffin embedded and fresh tissues using the extended region of 28S rDNA.
Gade Lalitha et al. Medical mycology 2016 Sep
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
- Resolution of a protracted serogroup B meningococcal outbreak with whole genome sequencing shows inter species genetic transfer.
Mulhall Robert M et al. Journal of clinical microbiology 2016 Sep - Whole genome sequencing of Salmonella Typhimurium illuminates distinct outbreaks caused by an endemic multi-locus variable number tandem repeat analysis type in Australia, 2014.
Phillips Anastasia et al. BMC microbiology 2016 211 - Laboratory diagnosis and genetic analysis of a family clustering outbreak of aseptic meningitis due to echovirus 30.
Zheng Shufa et al. Pathogens and global health 2016 Sep 1-5 - Molecular epidemiology of human enterovirus 71 at the origin of an epidemic of fatal hand, foot and mouth disease cases in Cambodia.
Duong Veasna et al. Emerging microbes & infections (9) e104
ANTIMICROBIALS / VACCINES / INTERVENTIONS
- Combating multidrug-resistant Gram-negative bacteria with structurally nanoengineered antimicrobial peptide polymers.
Lam Shu J et al. Nature microbiology 2016 16162 - Population-Level Effects of Human Papillomavirus Vaccination Programs on Infections with Nonvaccine Genotypes.
Mesher David et al. Emerging infectious diseases 2016 Oct (10) 1732-1740 - Sequence-Specific Targeting of Bacterial Resistance Genes Increases Antibiotic Efficacy.
Ayhan Dilay Hazal et al. PLoS biology 2016 Sep (9) e1002552 - Xpert MTB/RIF - why the lack of morbidity and mortality impact in intervention trials?
Auld Andrew F et al. Transactions of the Royal Society of Tropical Medicine and Hygiene 2016 Sep - Production of recombinant dengue non-structural 1 (NS1) proteins from clinical virus isolates.
Yohan Benediktus et al. Protein expression and purification 2016 Sep
HOST-MICROBE INTERACTIONS
- Zika Virus Infection in Pregnancy, Microcephaly, and Maternal and Fetal Health: What We Think, What We Know, and What We Think We Know.
Alvarado Maria Gabriela et al. Archives of pathology & laboratory medicine 2016 Sep - Molecular signatures associated with ZIKV exposure in human cortical neural progenitors.
Zhang Feiran et al. Nucleic acids research 2016 Aug - The Genetic Basis of Host Preference and Resting Behavior in the Major African Malaria Vector, Anopheles arabiensis.
Main Bradley J et al. PLoS genetics 2016 Sep (9) e1006303 - Meta-transcriptome Profiling of the Human-Leishmania braziliensis Cutaneous Lesion.
Christensen Stephen M et al. PLoS neglected tropical diseases 2016 Sep (9) e0004992 - Therapeutic Manipulation of the Microbiota: Past, Present and Considerations for the Future.
Young Vincent B et al. Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases 2016 Sep - Association of household siblings with nasal and fecal microbiota in infants.
Hasegawa Kohei et al. Pediatrics international : official journal of the Japan Pediatric Society 2016 Sep - The Bacterial Microbiome and Virome Milestones of Infant Development.
Lim Efrem S et al. Trends in microbiology 2016 Jun - How Our Other Genome Controls Our Epi-Genome.
Celluzzi Antonella et al. Trends in microbiology 2016 Jun
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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