Abstract
Pseudomonas species were targeted early for genomic studies since they were noted for their diverse metabolic capacity, ability to inhabit a wide range of environments and hosts, and include notable human and agriculturally relevant pathogens. As more genomes are sequenced, the power of genome-scale analyses are increasing and a wide range of analyses are now possible. The Pseudomonas Genome database has contributed to this effort by providing peer-reviewed, continually updated annotations of the Pseudomonas aeruginosa PAO1 reference strain genome plus integrated data and analyses of related Pseudomonas species. Analyses are now available via multiple resources to facilitate identification and characterization of drug targets, virulence factors, regulatory elements, genomic islands, genome rearrangements, orthologs, single nucleotide polymorphisms, and multiple other gene/protein-based analyses from gene expression to protein structure. We describe here how the Pseudomonas Genome Database and other bioinformatics resources can be leveraged to help Pseudomonas researchers “mine” Pseudomonas genomes, and associated genome-scale data, to facilitate new discovery.
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Acknowledgment
We wish to acknowledge the efforts of the many genome sequencing projects and Pseudomonas researchers that have made our analysis possible. FSLB is a Michael Smith Foundation for Health Research (MSFHR) Senior Scholar. Critical funding was provided by Cystic Fibrosis Foundation Therapeutics.
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Winsor, G.L., Brinkman, F.S.L. (2014). Mining the Pseudomonas Genome. In: Filloux, A., Ramos, JL. (eds) Pseudomonas Methods and Protocols. Methods in Molecular Biology, vol 1149. Humana, New York, NY. https://doi.org/10.1007/978-1-4939-0473-0_33
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DOI: https://doi.org/10.1007/978-1-4939-0473-0_33
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