LIGR-Nue for the global mapping of the bacterial sRNA targetome in vivo

LIGR-Nue mapping in Synechocystis sp. PCC 6803 shows DsiR1 rises to 58.6% and CsiR1 to 19% of the sRNA transcriptome after shifting from light to darkness.

• Why it matters: sRNA–mRNA pairing is central to bacterial post-transcriptional control, but in vivo, transcriptome-wide targetome maps are still limited.
• What they did: The authors quantified sRNA abundance by RNA-seq under photoautotrophic growth versus darkness, then built LIGR-Nue using aminomethyltrioxsalen UV cross-linking, proximity ligation, crosslink reversal, reverse transcription, and sequencing analyzed by RNANUE.
• The result: LIGR-Nue identifies in vivo RNA–RNA interactions, including PsrR1 linked to carbon assimilation regulation and DsiR1 acting as a global silencing factor for photosynthesis-associated mRNAs in the dark.

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