Transcriptome size

[JMIT]

Hello to all,

It is my first mail to this community..

I have a query regarding the calculation of whole transcriptome size of different species. Is there are any rule to calculate the transcriptome size from the whole genome...

We know the genome size of different animals, human, bacteria and others. Like Arabidopsis is having 157 MB, human ~3 GB and many more. Some school of thoughts calculate the transcriptome size of the same as just ~2% of the whole genome.

Is it same or equally calculated for all species like bacteria, fungi, equine and others !!! I am wondering for any database which might be consist of the sizes of the transcriptomes.

thanks,

[arvid]

I haven't seen a method of calculating the transcriptome size from the genome size which works well. Take Arabidopsis for example, it has an extremely compact genome (the intergenic regions are a few hundred to a few thousand bases), and thus has more or less the same number of mRNA transcripts as human...

I would always look at a closely related, sequenced and well annotated species to get an idea instead, combined with evolutionary information (e.g. known recent whole genome duplications) - then you won't be far off. And you need a clear definition of "transcriptome" (mRNAs only, or ncRNAs as well?).

[ZoeG]

Here is a reference from University of Minnesota. In this ppt (page 27), they listed the detailed transcriptome size for human, mouse, drosophila...

https://www.msi.umn.edu/sites/default/files/RNA_seq_Mod3_v1.pdf

Not sure how these sizes were measured or calculated, may contact the authors.