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I have one fasta file of a bacteria. Can i use to create a phylogenetic tree?

I am new to bioinformatics. I have identified an organism of klebsiella. So i was wondering if i can make a tree from it?

wgs
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updated by Ram Ram • written by Mustafa • Mustafa

1 answer

If the fasta file contains the genome sequence you can use the following:

  1. GToTree (see example here)
  2. GTDB-tk de novo workflow
  3. TYGS. Just upload the genome and wait until the analysis finish

GOToTree and GTDB-tk are not user-friendly but allow you to build a phylogenetic tree using all the type-strain (representative strains) of your genus.

The TYGS server instead is much easier to use but the phylogenetic tree is built using the top 10 type-strains that are more closely related to your strain

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written by andres.firrincieli andres.firrincieli

Thank you so much ! will try them all !

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written by Mustafa • Mustafa

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