Comparative analysis of gene regulatory networks identifies conserved regulators in seed plants

Wulf D, Bräutigam A (2024)
in silico Plants 6(2).

Zeitschriftenaufsatz | Veröffentlicht | Englisch
 
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Abstract / Bemerkung
Gene regulatory networks based on transcription factors control development and environmental responses. In this study gene regulatory networks were inferred computationally using random forest decision tree-based regression. Networks were constructed for the grasses barley, maize, wheat, brachypodium, sorghum, and rice. When compared with Arabidopsis thaliana and alga networks, they show substantial conservation. The degree of conservation depends on phylogenetic closeness. The processes are conserved between all species include basic cellular functions while the processes conserved only in the grasses are annotated with more specific gene ontology terms. In the three species with a carbon concentration mechanism, photorespiration is partially dissociated from photosynthetic regulation. In contrast, in the C4 species, the regulation of C4 genes is associated with photosynthetic regulation. The comparative analyses reveal conserved transcription factors that control photosynthesis in seed plants but not in the alga. The analyses resulted in a pipeline for the general transfer of information between the small dicot A. thaliana and the commercially relevant grasses.
Erscheinungsjahr
2024
Zeitschriftentitel
in silico Plants
Band
6
Ausgabe
2
eISSN
2517-5025
Page URI
https://pub.uni-bielefeld.de/record/2992331

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Wulf D, Bräutigam A. Comparative analysis of gene regulatory networks identifies conserved regulators in seed plants. in silico Plants. 2024;6(2).
Wulf, D., & Bräutigam, A. (2024). Comparative analysis of gene regulatory networks identifies conserved regulators in seed plants. in silico Plants, 6(2). https://doi.org/10.1093/insilicoplants/diae013
Wulf, Donat, and Bräutigam, Andrea. 2024. “Comparative analysis of gene regulatory networks identifies conserved regulators in seed plants”. in silico Plants 6 (2).
Wulf, D., and Bräutigam, A. (2024). Comparative analysis of gene regulatory networks identifies conserved regulators in seed plants. in silico Plants 6.
Wulf, D., & Bräutigam, A., 2024. Comparative analysis of gene regulatory networks identifies conserved regulators in seed plants. in silico Plants, 6(2).
D. Wulf and A. Bräutigam, “Comparative analysis of gene regulatory networks identifies conserved regulators in seed plants”, in silico Plants, vol. 6, 2024.
Wulf, D., Bräutigam, A.: Comparative analysis of gene regulatory networks identifies conserved regulators in seed plants. in silico Plants. 6, (2024).
Wulf, Donat, and Bräutigam, Andrea. “Comparative analysis of gene regulatory networks identifies conserved regulators in seed plants”. in silico Plants 6.2 (2024).
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2024-09-09T05:47:48Z
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Preprint: 10.1101/2023.11.20.567877

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