CARD 2020: antibiotic resistome surveillance with the comprehensive antibiotic resistance database
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Cites methods from "CARD 2020: antibiotic resistome sur..."
...Among other proteins with AMR potential identified using the CARD15 database there is an isoform of the Aminoglycoside N(6’)-acetyltransferase of Enterococcus hirae....
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...In order to identify the whole bacterial proteome, the obtained MS datasets were analyzed using different databases: UniProt KB/Swiss-Prot restricted to all reviewed Bacteria protein sequences (UniProt KB) and the Comprehensive Antibiotic Resistance Database (CARD) [14]....
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...Figure 3 shows the Venn diagram of the proteins identified in the two extractions using the CARD 15 database....
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...The same raw MS dataset was then searched against the CARD 15 database....
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...The qualitative identification of proteins was obtained by searching two different databases: (i) bacteria (UniProt KB/Swiss-Prot Protein Knowledgebase restricted to all Bacteria taxonomy) and (ii) The Comprehensive AMR Database (CARD, https://card.mcmaster.ca/) as FASTA files [13,14]....
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References
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Additional excerpts
...Additional statistics are generated with Biopython (44)....
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"CARD 2020: antibiotic resistome sur..." refers background in this paper
...In total, CARD Resistomes & Variants includes in silico surveillance of 82 pathogens of public health and AMR relevance, including each pathogen from the World Health Organization’s (WHO) Global Priority List of AntibioticResistant Bacteria (9)....
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"CARD 2020: antibiotic resistome sur..." refers methods in this paper
...The biocuration team additionally annotates each ARO term with supplemental information from external references, including relevant publications (via NCBI PubMed (22)), chemical structures (for antibiotics in particular, via NCBI PubChem (25)) or protein structure via the Protein DataBank (rcsb....
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...The biocuration team additionally annotates each ARO term with supplemental information from external references, including relevant publications (via NCBI PubMed (22)), chemical structures (for antibiotics in particular, via NCBI PubChem (25)) or protein structure via the Protein DataBank (rcsb.org; 26))....
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