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CARD 2020: antibiotic resistome surveillance with the comprehensive antibiotic resistance database
A new Resistomes & Variants module provides analysis and statistical summary of in silico predicted resistance variants from 82 pathogens and over 100 000 genomes, able to summarize predicted resistance using the information included in CARD, identify trends in AMR mobility and determine previously undescribed and novel resistance variants.
Enhanced annotations and features for comparing thousands of Pseudomonas genomes in the Pseudomonas genome database
- G. Winsor, E. Griffiths, Raymond Lo, Bhavjinder K. Dhillon, Julie A. Shay, F. Brinkman
- BiologyNucleic Acids Res.
- 17 November 2015
To aid analysis of potentially thousands of complete and draft genome assemblies, this database and analysis platform was upgraded to integrate curated genome annotations and isolate metadata with enhanced tools for larger scale comparative analysis and visualization.
FoodOn: a harmonized food ontology to increase global food traceability, quality control and data integration
A group of international scientists give a detailed description of FoodOn, a-consortium-driven project to build a comprehensive food ontology that covers vocabulary from farm to fork, and addresses current gaps in food terminology and focuses on human and domesticated animal food description.
Rifamycin antibiotic resistance by ADP-ribosylation: Structure and diversity of Arr
- J. Baysarowich, K. Koteva, Gerard D. Wright
- Biology, ChemistryProceedings of the National Academy of Sciences
- 25 March 2008
The extent of the rifamycin resistome in microbial genera with the potential to negatively impact the expanded use of this class of antibiotic is highlighted.
Signature sequences in diverse proteins provide evidence for the late divergence of the Order Aquificales.
- E. Griffiths, Radhey S. Gupta
- Biology, Environmental ScienceInternational microbiology : the official journal…
- 1 March 2004
The results provide strong and consistent evidence that the Aquificales diverged after the branching of Firmicutes, Actinob bacteria, Thermotoga, Deinococcus-Thermus, green nonsulfur bacteria, Cyanobacteria, Spirochetes, Chlamydiae, and CFBG group, but before the emergence of the Proteobacteria.
Cross-species discovery of syncretic drug combinations that potentiate the antifungal fluconazole
The systematic repurposing of approved drugs against a spectrum of pathogens thus identifies network vulnerabilities that may be exploited to increase the activity and repertoire of antifungal agents.
Complete and Draft Genome Sequences of Six Members of the Aquificales
Six new members of the Aquificales are reported, providing insights into their ecological niche adaptations and significant differences among the different species exist that include nitrogen metabolism, hydrogen utilization, chemotaxis, and signal transduction.
Identification of signature proteins that are distinctive of the Deinococcus-Thermus phylum.
- E. Griffiths, Radhey S. Gupta
- BiologyInternational microbiology : the official journal…
- 1 September 2007
To identify genes/proteins that are exclusive of this group of species, systematic protein basic local alignment tool (Blastp) searches were carried out on each open reading frame (ORF) in the genome of Deinococcus radiodurans and identified 65 proteins that were only found in all three sequenced DeInococcus-Thermus genomes.
Expanding the soil antibiotic resistome: exploring environmental diversity.
Expanding fungal pathogenesis: Cryptococcus breaks out of the opportunistic box
Cryptococcus neoformans is generally considered to be an opportunistic fungal pathogen because of its tendency to infect immunocompromised individuals, particularly those infected with HIV. However,…