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6.9 years ago
Hi . I ' m looking for the proteome of Harpophora oryzae for my undegraduate research in which i'm interested in comparing the effector proteins in endophytic and pathogeni fungi.So I would like to know whether there are any proteome databases of endophytic fungi that are freely available. If not how can i find the proteomes of endophytic fungi.
It looks like the genome of Harpophora has been sequenced but not been annotated. So your best bet may be get the sequence from NCBI and then try to do the annotation yourself. This may be a hard project for an undergrad.
You can take a look at this post to get some ideas: Eukaryotic Genome Annotation in 2016
NCBI also offers an automated eukaryotic annotation pipeline.
If you are only interested in a subset of proteins, you could try to pull the sequence for just those out using translated blast and the genome sequence.