How to find tRNA sequences in metatranscriptome/metagenome?
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8 weeks ago
kmat • 0

I would like to evaluate the abundance of rRNA and tRNA in metatranscriptomes (consisting mainly of bacteria). I detected rRNA with sormeRNA, but is there a good way to find tRNA? I would like to evaluate the raw reads directly, without assembly.

Thanks.

metagenomics metatranscriptomics • 311 views
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You can use sortmeRNA as well, with tRNA sequences. I assume rRNA depletion was used before sequencing, make sure you're not measuring the success rate of this reaction.

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Thank you for reply! I think I will try sortmeRNA with tRNA sequences from GtRNAdb.

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