NCBI Datasets now provides access to data for viruses and prokaryotes, including Pseudomonas aeruginosa.

While our Genomes page is limited to a maximum of 1,000 genomes for a single download, you can use the datasets command-line tool to download 15,365 Pseudomonas aeruginosa genomes.

Since this is such a large dataset, at about 30 GB compressed for genome sequence and metadata, I recommend you try this simple three-step approach:

1. Download a dehydrated data package for all Pseudomonas aeruginosa genomes, including genome sequence and metadata. This only includes metadata.

   datasets download genome taxon "pseudomonas aeruginosa" --exclude-genomic-cds --exclude-protein --exclude-gff3 --filename aeruginosa.zip --dehydrated

2. Extract the downloaded package.

   unzip aeruginosa.zip -d aeruginosa

3. Rehydrate the extracted package to get the genomic sequences.

   datasets rehydrate --directory aeruginosa/