Baargin annotation and analysis of draft genomes of six Methicillin-Resistant Staphylococcus aureus in a Philippine tertiary hospital

This dataset contains the annotation (using Prokka v.1.14.5 [1]) and antimicrobial resistance genes analysis files (using the AMRFinderPlus v.2024-05-02.2 [2] database) generated from the baargin pipeline [3] genome analysis of six Methicillin-Resistant Staphylococcus aureus (TMCC-SA1, -SA3, -SA5, -SA6, -SA8, and -SA18) isolated from a tertiary hospital in the Philippines. The baargin pipeline was used as an extended analysis of the assembled genomes, complementing the preliminary Prokaryotic Genome Annotation Pipeline (PGAP). The genome assemblies and preliminary PGAP annotation are available at NCBI GenBank (https://www.ncbi.nlm.nih.gov/genbank/) under the BioProject number PRJNA1157534.

This dataset is part of the study: Carascal MB, Gonzales JE, Tañedo MMJ, Papa DM, Destura RV, and Henson KE. Draft genomes of six Methicillin-Resistant Staphylococcus aureus in a Philippine tertiary hospital with insights on antimicrobial and phage resistance mechanisms [submitted for publication at the Microbiology Resource Announcements].

References:

[1] Seemann T. 2014. Prokka: rapid prokaryotic genome annotation. Bioinforma Oxf Engl 30:2068–2069.

[2] Feldgarden M, Brover V, Gonzalez-Escalona N, Frye J, Haendiges J, Haft D, et al. 2021. AMRFinderPlus and the Reference Gene Catalog facilitate examination of the genomic links among antimicrobial resistance, stress response, and virulence. Nat Sci Rep 11:12728.

[3] Hayer J, Dainat J, Marcy E, Bañuls AL. Baargin: a Nextflow workflow for the automatic analysis of bacterial genomics data with a focus on Antimicrobial Resistance. Journal of Open Source Software 2023;8(90): 5397.