Hi,
I want to download all the genomes available in NCBI that are a certain ST (sequence type) for Klebsiella. Does anyone know how to do that? I am using NCBI Sequence Read Archive (https://www.ncbi.nlm.nih.gov/sra) I wrote the ST type I wanted in the search engine, but I don't know how to verify that the sequences that I got are what I was aiming at.
I used: (klebsiella ST258) AND "Klebsiella pneumoniae"[orgn:__txid573]
Thank you in advance,
I'm not sure that ST is a field that NCBI specifically tracks unless it happens to be in the name of the deposit, but I could be wrong.
I think you might be better off going via an ST database like PubMLST or BIGSDB to at least obtain a list of accessions and then feed this to NCBI.