Question: Downloading all eucaryote mitochondrial genomes
1
gravatar for Eric Normandeau
6.2 years ago by
Quebec, Canada
Eric Normandeau10k wrote:

I would like to download all the complete sequences of the mitochondrial genomes available for eucaryotes. I thought that would be straight forward, and it probably is, but a GenBank search in Nucleotide using mitochondrion, complete genome for the search terms returns 43720 hits, most of which are not mitochondrion genomes.

Are there mitochondrion specific databases or a better approach to find these mitochondrion sequences?

dna databases mitochondrion • 4.2k views
ADD COMMENTlink modified 14 months ago by Biostar ♦♦ 20 • written 6.2 years ago by Eric Normandeau10k

Hi Eric,

Give this link a try! It is curated by NCBI RefSeq.

ADD REPLYlink modified 14 months ago • written 14 months ago by Sishuo Wang200
2
gravatar for Neilfws
6.2 years ago by
Neilfws49k
Sydney, Australia
Neilfws49k wrote:

I tried searching the NCBI Genome database with the term txid2759[Organism:exp] (eucaryotes). At the top of the results page is a link "See also 4407 organelle- and plasmid-only records matching your search". I guess many of those are mitochondria (some will be chloroplast); not sure of the next step best filter for mitochondria-only.

ADD COMMENTlink written 6.2 years ago by Neilfws49k

Thank you Neil, I'll investigate in this direction.

ADD REPLYlink written 6.2 years ago by Eric Normandeau10k
1
gravatar for fernie.penaloza
5.9 years ago by
Germany
fernie.penaloza10 wrote:

Hi!

You can use their "genomes" site.

http://www.ncbi.nlm.nih.gov/genomes/GenomesGroup.cgi?opt=organelle&taxid=2759

At the right you can download a list of the accession IDs, by now there are ~5065.

ADD COMMENTlink written 5.9 years ago by fernie.penaloza10
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