Transcriptome dynamics revealed by a gene expression atlas of the early Arabidopsis embryo
- Author
- Joakim Palovaara, Shunsuke Saiga, Jos Wendrich (UGent) , Nicole van 't Hofland, J Paul van Schayck, Friederike Hater, Sumanth Mutte, Jouke Sjollema, Mark Boekschoten, Guido J Hooiveld and Dolf Weijers
- Organization
- Abstract
- During early plant embryogenesis, precursors for all major tissues and stem cells are formed. While several components of the regulatory framework are known, how cell fates are instructed by genome-wide transcriptional activity remains unanswered-in part because of difficulties in capturing transcriptome changes at cellular resolution. Here, we have adapted a two-component transgenic labelling system to purify cell-type-specific nuclear RNA and generate a transcriptome atlas of early Arabidopsis embryo development, with a focus on root stem cell niche formation. We validated the dataset through gene expression analysis, and show that gene activity shifts in a spatio-temporal manner, probably signifying transcriptional reprogramming, to induce developmental processes reflecting cell states and state transitions. This atlas provides the most comprehensive tissue-and cell-specific description of genome-wide gene activity in the early plant embryo, and serves as a valuable resource for understanding the genetic control of early plant development.
- Keywords
- LASER CAPTURE MICRODISSECTION, LIGATION-INDEPENDENT CLONING, GENOME-WIDE ANALYSIS, EARLY EMBRYOGENESIS, GLOBAL ANALYSIS, ROOT-MERISTEM, INTACT METHOD, CELL-TYPES, THALIANA, NUCLEI
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Citation
Please use this url to cite or link to this publication: http://hdl.handle.net/1854/LU-8549440
- MLA
- Palovaara, Joakim, et al. “Transcriptome Dynamics Revealed by a Gene Expression Atlas of the Early Arabidopsis Embryo.” NATURE PLANTS, vol. 3, no. 11, 2017, pp. 894–904, doi:10.1038/s41477-017-0035-3.
- APA
- Palovaara, J., Saiga, S., Wendrich, J., van ’t Hofland, N., van Schayck, J. P., Hater, F., … Weijers, D. (2017). Transcriptome dynamics revealed by a gene expression atlas of the early Arabidopsis embryo. NATURE PLANTS, 3(11), 894–904. https://doi.org/10.1038/s41477-017-0035-3
- Chicago author-date
- Palovaara, Joakim, Shunsuke Saiga, Jos Wendrich, Nicole van ’t Hofland, J Paul van Schayck, Friederike Hater, Sumanth Mutte, et al. 2017. “Transcriptome Dynamics Revealed by a Gene Expression Atlas of the Early Arabidopsis Embryo.” NATURE PLANTS 3 (11): 894–904. https://doi.org/10.1038/s41477-017-0035-3.
- Chicago author-date (all authors)
- Palovaara, Joakim, Shunsuke Saiga, Jos Wendrich, Nicole van ’t Hofland, J Paul van Schayck, Friederike Hater, Sumanth Mutte, Jouke Sjollema, Mark Boekschoten, Guido J Hooiveld, and Dolf Weijers. 2017. “Transcriptome Dynamics Revealed by a Gene Expression Atlas of the Early Arabidopsis Embryo.” NATURE PLANTS 3 (11): 894–904. doi:10.1038/s41477-017-0035-3.
- Vancouver
- 1.Palovaara J, Saiga S, Wendrich J, van ’t Hofland N, van Schayck JP, Hater F, et al. Transcriptome dynamics revealed by a gene expression atlas of the early Arabidopsis embryo. NATURE PLANTS. 2017;3(11):894–904.
- IEEE
- [1]J. Palovaara et al., “Transcriptome dynamics revealed by a gene expression atlas of the early Arabidopsis embryo,” NATURE PLANTS, vol. 3, no. 11, pp. 894–904, 2017.
@article{8549440, abstract = {{During early plant embryogenesis, precursors for all major tissues and stem cells are formed. While several components of the regulatory framework are known, how cell fates are instructed by genome-wide transcriptional activity remains unanswered-in part because of difficulties in capturing transcriptome changes at cellular resolution. Here, we have adapted a two-component transgenic labelling system to purify cell-type-specific nuclear RNA and generate a transcriptome atlas of early Arabidopsis embryo development, with a focus on root stem cell niche formation. We validated the dataset through gene expression analysis, and show that gene activity shifts in a spatio-temporal manner, probably signifying transcriptional reprogramming, to induce developmental processes reflecting cell states and state transitions. This atlas provides the most comprehensive tissue-and cell-specific description of genome-wide gene activity in the early plant embryo, and serves as a valuable resource for understanding the genetic control of early plant development.}}, author = {{Palovaara, Joakim and Saiga, Shunsuke and Wendrich, Jos and van 't Hofland, Nicole and van Schayck, J Paul and Hater, Friederike and Mutte, Sumanth and Sjollema, Jouke and Boekschoten, Mark and Hooiveld, Guido J and Weijers, Dolf}}, issn = {{2055-0278}}, journal = {{NATURE PLANTS}}, keywords = {{LASER CAPTURE MICRODISSECTION,LIGATION-INDEPENDENT CLONING,GENOME-WIDE ANALYSIS,EARLY EMBRYOGENESIS,GLOBAL ANALYSIS,ROOT-MERISTEM,INTACT METHOD,CELL-TYPES,THALIANA,NUCLEI}}, language = {{eng}}, number = {{11}}, pages = {{894--904}}, title = {{Transcriptome dynamics revealed by a gene expression atlas of the early Arabidopsis embryo}}, url = {{http://doi.org/10.1038/s41477-017-0035-3}}, volume = {{3}}, year = {{2017}}, }
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