Abstract
Key message
We describe transcriptional dynamics at the rice shoot apex by integrating time resolved single nuclei RNA-seq with bulk RNA-seq data.
Abstract
In rice, short days trigger floral transition and the transcriptional reprogramming of the shoot apex to become reproductive. We integrated time-resolved bulk RNA-seq with single nuclei RNA-seq analysis to gain a refined understanding of the transcriptional programs induced at the shoot apex during floral transition. Our analyses highlighted technological and conceptual differences between single nuclei RNA-seq and bulk RNA-seq data and described previously uncharacterized transcriptional programs associated with the early steps of floral induction in rice.
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Acknowledgements
Fundings for this project derive from the “Bando Straordinario per Progetti Interdipartimentali (SEED)” of the University of Milan 2019—Deciphering light stimulated transcriptional reprogramming in plants at single cell resolution- DISENGAGE obtained by Vittoria Brambilla, Lucio Conti and Matteo Chiara. We thank Dr. Claudia Bazzini (Flow cytometry facility—Department of Biosciences, University of Milan) for technical assistance and support with flow cytometric analysis.
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VB, LC, MC designed experiments; GV, PKK, DT performed experiments; DT, GV, PKK, LC, MC, VB wrote manuscript.
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Communicated by Richard G.H. Immink.
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Traversa, D., Vicentini, G., Krukowski, P.K. et al. Integrating single nuclei and bulk RNA sequencing in rice shoot apical meristems uncovers candidate early floral transition gene networks. Plant Reprod 38, 4 (2025). https://doi.org/10.1007/s00497-024-00514-w
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DOI: https://doi.org/10.1007/s00497-024-00514-w