Advanced Molecular Detection Clips Content (Published on 02/07/2019)
The Problem With Big DNA
Zhang S. Atlantic, Feb 4, 2019.
Gut Microbe Studies Expand Bacterial Culture Collections, Reference Genomes
GenomeWeb, Feb 4, 2019.
Malaria Breathalyzer Project Wins NIH Funding
Johnson M. GenomeWeb, Jan 31, 2019.
How machine learning could keep dangerous DNA out of terrorists' hands
Reardon S. Nature, Jan 31, 2019.
Evidence mounts that gut bacteria can influence mood, prevent depression
Pennisi E. Science, Feb 4, 2019.
Antimicrobial Candidate Found in Insect Microbiome Analysis
GenomeWeb, Feb 1, 2019.
EVENTS / TRAINING / WEB RESOURCES
Announcing the first ever RNA-Seq in the Cloud hackathon!
NCBI, Jan 31, 2019. Applications due Feb 15.
NCBI to correct existing taxonomic information on public GenBank records with average nucleotide identity analysis
(announcement) NCBI, Feb 6, 2019.
Ending the HIV Epidemic: A Plan for America
Azar A. DHHS, Feb 5, 2019.
CONCEPTS / COMMENTS
METHODS / TOOLS
Simultaneous extraction of mRNA and microRNA from whole blood stabilized in tempus tubes.
Richards Jendai et al. BMC research notes 2019 Jan (1) 39
Evaluation of rapid and sensitive DNA extraction methods for detection of cytomegalovirus in dried blood spots.
Koontz D et al. Journal of virological methods 2019 Mar 117-120
Capturing sequence diversity in metagenomes with comprehensive and scalable probe design.
Metsky Hayden C et al. Nature biotechnology 2019 Feb (2) 160-168
Ultrafast search of all deposited bacterial and viral genomic data.
Bradley Phelim et al. Nature biotechnology 2019 Feb (2) 152-159
EVOLUTION / ECOLOGY / POPULATIONS
Draft Genome Sequences for Dual-Toxin-Producing Clostridium botulinum Strains.
Halpin Jessica L et al. Microbiology resource announcements 2019 Jan (4)
Integrative approach using Yersinia pestis genomes to revisit the historical landscape of plague during the Medieval Period.
Namouchi Amine et al. Proceedings of the National Academy of Sciences of the United States of America 2018 12 (50) E11790-E11797
Zika virus outbreak in Rajasthan, India in 2018 was caused by a virus endemic to Asia.
Yadav Pragya D et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2019 Jan 199-202
Crimean-Congo hemorrhagic fever and expansion from endemic regions.
Spengler Jessica R et al. Current opinion in virology 2019 Jan 70-78
Genetic variability of Plasmodium falciparum histidine-rich proteins 2 and 3 in Central America.
Fontecha Gustavo et al. Malaria journal 2019 Jan (1) 31
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
Distinct evolutionary origins of common multi-drug resistance phenotypes in Salmonella typhimurium DT104: a convergent process for adaptation under stress.
Tang Le et al. Molecular genetics and genomics : MGG 2019 Feb
Using genomics to understand antimicrobial resistance and transmission in Neisseria gonorrhoeae.
Sánchez-Busó Leonor et al. Microbial genomics 2019 Jan
Clinical and laboratory-induced colistin-resistance mechanisms in Acinetobacter baumannii.
Boinett Christine J et al. Microbial genomics 2019 Feb
Whole genome sequencing for drug resistance profile prediction in Mycobacterium tuberculosis .
Gygli Sebastian M et al. Antimicrobial agents and chemotherapy 2019 Feb
Antibiotic collateral sensitivity is contingent on the repeatability of evolution.
Nichol Daniel et al. Nature communications 2019 01 (1) 334
DETECTION / DIAGNOSIS
PCR-based method for S. flexneri serotyping: International Multicenter Validation.
Brengi Silvina P et al. Journal of clinical microbiology 2019 Jan
A multisite implementation of a real-time polymerase chain reaction assay to predict ciprofloxacin susceptibility in Neisseria gonorrhoeae.
Ellis Olivia et al. Diagnostic microbiology and infectious disease 2019 Jan
Combining MALDI-TOF and genomics in the study of methicillin resistant and multidrug resistant Staphylococcus pseudintermedius in New Zealand.
Nisa Shahista et al. Scientific reports 2019 Feb (1) 1271
Rapid detection of Mycobacterium ulcerans with isothermal recombinase polymerase amplification assay.
Frimpong Michael et al. PLoS neglected tropical diseases 2019 Feb (2) e0007155
A quantitative approach for measuring the reservoir of latent HIV-1 proviruses.
Bruner Katherine M et al. Nature 2019 Jan
Rapid molecular tests for influenza, respiratory syncytial virus, and other respiratory viruses: a systematic review of diagnostic accuracy and clinical impact studies.
Vos Laura M et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2019 Jan
Coccidioidal Meningitis in New York traced to Texas by Fungal Genomic Analysis.
Barker Bridget M et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2019 Feb
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
Utility of Whole Genome Sequencing To Describe the Persistence and Evolution of Listeria monocytogenes Strains within Crabmeat Processing Environments Linked to Two Outbreaks of Listeriosis.
Elson Richard et al. Journal of food protection 2019 Jan (1) 30-38
Notes from the Field: Outbreak of Listeriosis Likely Associated with Prepackaged Caramel Apples - United States, 2017.
Marus Jessica R et al. MMWR. Morbidity and mortality weekly report 2019 01 (3) 76-77
Group A Streptococcus outbreak among residents and employees of two skilled nursing facilities: North Carolina, 2017.
Palladino Katie J et al. American journal of infection control 2019 Jan
The contribution of whole-genome sequencing to our understanding of the epidemiology and control of methicillin-resistant Staphylococcus aureus.
Humphreys Hilary et al. The Journal of hospital infection 2019 Feb
The global dissemination of bacterial infections necessitates the study of reverse genomic epidemiology.
Ruan Zhi et al. Briefings in bioinformatics 2019 Feb
Hospital-associated Clostridium difficile infection and reservoirs within the hospital environment.
Srinivasa Vatsala R et al. American journal of infection control 2019 Feb
Epidemiological and molecular forensics of cholera recurrence in Haiti.
Rebaudet Stanislas et al. Scientific reports 2019 Feb (1) 1164
A cluster of carbapenemase-producing Enterobacter cloacae complex ST171 at a tertiary care center demonstrating an ongoing regional threat.
Pereira Edwin C et al. American journal of infection control 2019 Jan
Near full-length genomic sequencing and molecular analysis of HIV-infected individuals in a network-based intervention (TRIP) in Athens, Greece: Evidence that transmissions occur more frequently from those with high HIV-RNA.
Kostaki Evangelia-Georgia et al. Current HIV research 2019 Jan
ANTIMICROBIALS / VACCINES / INTERVENTIONS
A genome-wide CRISPR screen identifies N-acetylglucosamine-1-phosphate transferase as a potential antiviral target for Ebola virus.
Flint Mike et al. Nature communications 2019 01 (1) 285
Pathogen diversity drives the evolution of generalist MHC-II alleles in human populations.
Manczinger Máté et al. PLoS biology 2019 Jan (1) e3000131
How genomics can be used to understand host susceptibility to enteric infection, aiding in the development of vaccines and immunotherapeutic interventions.
Mottram Lynda et al. Vaccine 2019 Jan
New insights into malaria susceptibility from the genomes of 17,000 individuals from Africa, Asia, and Oceania
Band G, et al, BIORXIV, February 4, 2019.
SLC39A8 missense variant is associated with Crohn's disease but does not have a major impact on gut microbiome composition in healthy subjects.
Collij Valerie et al. PloS one 2019 (1) e0211328
The neuroactive potential of the human gut microbiota in quality of life and depression.
Valles-Colomer Mireia et al. Nature microbiology 2019 Feb
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