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COMPARATIVE TRANSCIPTOMICS ACROSS THE PROKARYOTES TREE OF LIFE

Ofir Cohen, Shany Doron, Omri Wurtzel, Daniel Dar, Sarit Edelheit, Iris Karunker, Eran Mick, and Rotem Sorek

Whole-transcriptome sequencing studies from recent years revealed unexpected complexity in the transcriptomes of bacteria and archaea, including abundant non-coding RNAs, cis-antisense transcription and regulatory untranslated regions (UTRs). Understanding the functional relevance of the plethora of non-coding RNAs in a given organism is challenging, especially since many such RNAs were attributed to "transcriptional noise".

To understand evolutionary conservation and innovations in non-coding RNA regulation strategies in prokaryotes, we performed comparative transcriptomics analyses across the microbial tree of life. For this, the transcriptomes of 18 model organisms spanning 10 phyla/sub-phyla of bacteria and archaea were sequenced using a standardized RNA-seq method combined with transcription start site determination.

Here we developed a unique comparative transcriptomics browser that allows parallel comparison of the transcript structure for any given gene family across all species. This study provides a standardized reference transcriptome for the major clinically and environmentally important microbial phyla, and sets a framework for comparative studies of the microbial non-coding genome.

Start by choosing an organism of interest (Organisms list)

Start with your sequence (BLAST)


View an example of the comparative viewer (TPP Riboswitch)