Advanced Molecular Detection Clips Content (Published on 07/11/2019)
NEWS
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CDC made a synthetic Ebola virus to test treatments. It worked
Branswell H. STAT, Jul 9, 2019. -
Machine-learning-assisted selection of antibiotic prescription
Didelot X, Pouwels KB. Nature, Jul 4, 2019. -
Gut microbes prevent marathoners from pooping out
Sowalsky AG. Sci Transl Med, Jul 10, 2019.
EVENTS / TRAINING / WEB RESOURCES
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Try our new SRA data management tools!
(announcement) NCBI, Jul 8, 2019.
POLICY
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Regulating genetic biohacking.
Zettler Patricia J et al. Science (New York, N.Y.) 2019 Jul (6448) 34-36
CONCEPTS / COMMENTS
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Usutu virus: a new threat?
Cle M, et al. Epidemiol Infect, Jul 4, 2019. -
Design of vaccine efficacy trials during public health emergencies.
Dean Natalie E et al. Science translational medicine 2019 Jul (499) -
Trust and the ethical challenges in the use of whole genome sequencing for tuberculosis surveillance: a qualitative study of stakeholder perspectives.
Jackson Carly et al. BMC medical ethics 2019 Jul (1) 43 -
The Next Generation of Diagnostic Tests for Primary Immunodeficiency Disorders.
French Martyn A et al. The Journal of infectious diseases 2019 Jul
METHODS / TOOLS
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High-Performance Computing in Bayesian Phylogenetics and Phylodynamics Using BEAGLE.
Baele Guy et al. Methods in molecular biology (Clifton, N.J.) 2019 691-722 -
DeepMicrobes: taxonomic classification for metagenomics with deep learning
Liang Q, et al. bioRxiv, Jul 9, 2019. -
genBaRcode - a comprehensive R package for genetic barcode analysis
Thielecke L, et al. bioRxiv, Jul 9, 2019. -
Influenza passaging annotations: what they tell us and why we should listen.
DuPai Cory D et al. Virus evolution 2019 Jan (1) vez016
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A Review and Tutorial of Machine Learning Methods for Microbiome Host Trait Prediction
Zhou YH, Gallins P. Front Genet, Jun 25, 2019.
EVOLUTION / ECOLOGY / POPULATIONS
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Paleomicrobiology: Diagnosis and Evolution of Ancient Pathogens.
Bos Kirsten I et al. Annual review of microbiology 2019 Jul -
Genomic Delineation of Zoonotic Origins of Clostridium difficile .
Knight Daniel R et al. Frontiers in public health 2019 164 -
Deterministic processes structure bacterial genetic communities across an urban landscape.
Hassell J M et al. Nature communications 2019 06 (1) 2643 -
HIV-1 DNA sequence diversity and evolution during acute subtype C infection.
Lee Guinevere Q et al. Nature communications 2019 06 (1) 2737 -
Parallel evolution of HIV-1 in a long-term experiment.
Bertels Frederic et al. Molecular biology and evolution 2019 Jun -
Genetic Characterization of Measles and Rubella Viruses Detected Through Global Measles and Rubella Elimination Surveillance, 2016-2018.
Brown Kevin E et al. MMWR. Morbidity and mortality weekly report 2019 Jul (26) 587-591
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Molecular Analysis of the Complete Genome of a Simian Foamy Virus Infecting Hylobates pileatus (pileated gibbon) Reveals Ancient Co-Evolution with Lesser Apes.
Shankar Anupama et al. Viruses 2019 Jul (7)
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Phylodynamic and transmission pattern of rabies virus in China and its neighboring countries.
Wang Lina et al. Archives of virology 2019 Aug (8) 2119-2129 -
On the Origins of a Species: What Might Explain the Rise of Candida auris ?
Jackson Brendan R et al. Journal of fungi (Basel, Switzerland) 2019 Jul (3)
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High genetic diversity of Plasmodium falciparum in the low transmission setting of the Kingdom of Eswatini.
Roh Michelle E et al. The Journal of infectious diseases 2019 Jun -
Theileria orientalis Ikeda Genotype in Cattle, Virginia, USA.
Oakes Vanessa J et al. Emerging infectious diseases 2019 Sep (9)
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
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Pathogenomics of Emerging Campylobacter Species.
Costa Daniela et al. Clinical microbiology reviews 2019 Sep (4) -
Increase in Invasive Group A Streptococcal Disease and Emergence of Mucoid Strains in a Pediatric Population: February-June 2017.
Walker Lorne W et al. Open forum infectious diseases 2019 Jul (7) ofz275
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Clonal transmission and new mechanism of resistance to trimethoprim-sulfamethoxazole in Stenotrophomonas maltophilia strains isolated in a neonatology unit at Antananarivo, Madagascar, deciphered by whole genome sequence analysis
Rabenandrasana MA et al., bioRxiv, Jul 10, 2019. -
PB2 mutations arising during H9N2 influenza evolution in the Middle East confer enhanced replication and growth in mammals.
Arai Yasuha et al. PLoS pathogens 2019 Jul (7) e1007919 -
Using targeted next-generation sequencing to characterize genetic differences associated with insecticide resistance in Culex quinquefasciatus populations from the southern U.S.
Kothera Linda et al. PloS one 2019 (7) e0218397
DETECTION / DIAGNOSIS
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Development of multiplex PCR for neglected infectious diseases.
Sea-Liang Nutchanart et al. PLoS neglected tropical diseases 2019 Jul (7) e0007440 -
Effect of antimicrobial stewardship with rapid MALDI-TOF identification and Vitek 2 antimicrobial susceptibility testing on hospitalization outcome.
Cavalieri Stephen J et al. Diagnostic microbiology and infectious disease 2019 Jun
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Detection of carbapenemase producers by matrix-assisted laser desorption-ionization time-of-flight mass spectrometry (MALDI-TOF MS).
Neonakis Ioannis K et al. European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology 2019 Jun
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Whole genome sequencing provides additional insights into recurrent tuberculosis classified as endogenous reactivation by IS6110 DNA fingerprinting.
Dippenaar Anzaan et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2019 Jul 103948 -
Usutu virus infection in Dutch blood donors.
Zaaijer Hans L et al. Transfusion 2019 Jul -
Performance of cepheid GeneXpert HIV-1 viral load plasma assay to accurately detect treatment failure: a clinical meta-analysis.
Sacks Jilian A et al. AIDS (London, England) 2019 Jul
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Assessing performance of HRP2 antigen detection for malaria diagnosis in Mozambique.
Plucinski Mateusz M et al. Journal of clinical microbiology 2019 Jul
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Detection of low-density Plasmodium falciparum infections using amplicon deep sequencing.
Early Angela M et al. Malaria journal 2019 Jul (1) 219 -
Anopheles mosquito surveillance in Madagascar reveals multiple blood feeding behavior and Plasmodium infection.
Tedrow Riley E et al. PLoS neglected tropical diseases 2019 Jul (7) e0007176
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
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Real-time whole genome sequencing to control a Streptococcus pyogenes outbreak at a national orthopaedic hospital.
Sharma H et al. The Journal of hospital infection 2019 Jul
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Emergence and transmission of drug/multidrug-resistant Mycobacterium leprae in a former leprosy colony in the Brazilian Amazon.
Rosa Patrícia S et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2019 Jul -
NS5A Gene Analysis by Next Generation Sequencing in HCV Nosocomial Transmission Clusters of HCV Genotype 1b Infected Patients.
Bellocchi Maria Concetta et al. Cells 2019 Jul (7) -
Investigation of an outbreak of acute respiratory disease in an indigenous village in Brazil: Contribution of Influenza A(H1N1)pdm09 and human respiratory syncytial viruses.
Cardoso Andrey Moreira et al. PloS one 2019 (7) e0218925 -
New genotype invasion of dengue virus serotype 1 drove massive outbreak in Guangzhou, China
Jing Q, et al. bioRxiv, Jul 9, 2019.
ANTIMICROBIALS / VACCINES / INTERVENTIONS
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Characterisation of infectious Ebola virus from the ongoing outbreak to guide response activities in the Democratic Republic of the Congo: a phylogenetic and in vitro analysis.
McMullan Laura K et al. The Lancet. Infectious diseases 2019 7 (9) 1023-1032
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Chikungunya virus vaccine candidates with decreased mutational robustness are attenuated in vivo and have compromised transmissibility.
Carrau Lucía et al. Journal of virology 2019 Jul -
Viral dynamics among HCV infected patients with different genotypes treated with genotypic specific or pan-genotypic direct-acting antiviral agent combinations
Paolucci S, et al. Infect Drug Resist 2019;12:1975?1984
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Reference genome and comparative genome analysis for the WHO reference strain for Mycobacterium bovis BCG Danish, the present tuberculosis vaccine.
Borgers Katlyn et al. BMC genomics 2019 Jul (1) 561
HOST-MICROBE INTERACTIONS
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RIPK2 polymorphisms and susceptibility to tuberculosis in a Western Chinese Han population.
Song Jiajia et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2019 Jul 103950 -
Single nucleotide polymorphisms in HLA alleles are associated with HIV-1 viral load in demographically diverse, ART-naïve participants from the START trial.
Ekenberg Christina et al. The Journal of infectious diseases 2019 Jun -
Whole Exome Sequencing reveals new candidate genes in host genomic susceptibility to Respiratory Syncytial Virus Disease.
Salas Antonio et al. Scientific reports 2017 Nov (1) 15888 -
Differential Effects of Influenza Virus NA, HA Head, and HA Stalk Antibodies on Peripheral Blood Leukocyte Gene Expression during Human Infection.
Walters Kathie-Anne et al. mBio 2019 05 (3) -
A Genome-Wide Functional Genomics Approach Identifies Susceptibility Pathways to Fungal Bloodstream Infection in Humans.
Jaeger Martin et al. The Journal of infectious diseases 2019 Apr -
High-throughput sequencing-based investigation of viruses in human cancers by multi-enrichment approach.
Mollerup Sarah et al. The Journal of infectious diseases 2019 Jun -
Surveying Gut Microbiome Research in Africans: Toward Improved Diversity and Representation.
Brewster Ryan et al. Trends in microbiology 2019 Jun
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 Public Health Genomics Branch 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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