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Architecture of gene regulatory networks controlling flower development in Arabidopsis thaliana
Floral homeotic transcription factors (TFs) act in a combinatorial manner to specify the organ identities in the flower. However, the architecture and the function of the gene regulatory network (GRN) controlling floral organ specification is still poorly understood. In particular, the interconnecti...
Autores principales: | , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group UK
2018
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6208445/ https://www.ncbi.nlm.nih.gov/pubmed/30382087 http://dx.doi.org/10.1038/s41467-018-06772-3 |
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author | Chen, Dijun Yan, Wenhao Fu, Liang-Yu Kaufmann, Kerstin |
author_facet | Chen, Dijun Yan, Wenhao Fu, Liang-Yu Kaufmann, Kerstin |
author_sort | Chen, Dijun |
collection | PubMed |
description | Floral homeotic transcription factors (TFs) act in a combinatorial manner to specify the organ identities in the flower. However, the architecture and the function of the gene regulatory network (GRN) controlling floral organ specification is still poorly understood. In particular, the interconnections of homeotic TFs, microRNAs (miRNAs) and other factors controlling organ initiation and growth have not been studied systematically so far. Here, using a combination of genome-wide TF binding, mRNA and miRNA expression data, we reconstruct the dynamic GRN controlling floral meristem development and organ differentiation. We identify prevalent feed-forward loops (FFLs) mediated by floral homeotic TFs and miRNAs that regulate common targets. Experimental validation of a coherent FFL shows that petal size is controlled by the SEPALLATA3-regulated miR319/TCP4 module. We further show that combinatorial DNA-binding of homeotic factors and selected other TFs is predictive of organ-specific patterns of gene expression. Our results provide a valuable resource for studying molecular regulatory processes underlying floral organ specification in plants. |
format | Online Article Text |
id | pubmed-6208445 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2018 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-62084452018-10-31 Architecture of gene regulatory networks controlling flower development in Arabidopsis thaliana Chen, Dijun Yan, Wenhao Fu, Liang-Yu Kaufmann, Kerstin Nat Commun Article Floral homeotic transcription factors (TFs) act in a combinatorial manner to specify the organ identities in the flower. However, the architecture and the function of the gene regulatory network (GRN) controlling floral organ specification is still poorly understood. In particular, the interconnections of homeotic TFs, microRNAs (miRNAs) and other factors controlling organ initiation and growth have not been studied systematically so far. Here, using a combination of genome-wide TF binding, mRNA and miRNA expression data, we reconstruct the dynamic GRN controlling floral meristem development and organ differentiation. We identify prevalent feed-forward loops (FFLs) mediated by floral homeotic TFs and miRNAs that regulate common targets. Experimental validation of a coherent FFL shows that petal size is controlled by the SEPALLATA3-regulated miR319/TCP4 module. We further show that combinatorial DNA-binding of homeotic factors and selected other TFs is predictive of organ-specific patterns of gene expression. Our results provide a valuable resource for studying molecular regulatory processes underlying floral organ specification in plants. Nature Publishing Group UK 2018-10-31 /pmc/articles/PMC6208445/ /pubmed/30382087 http://dx.doi.org/10.1038/s41467-018-06772-3 Text en © The Author(s) 2018 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/. |
spellingShingle | Article Chen, Dijun Yan, Wenhao Fu, Liang-Yu Kaufmann, Kerstin Architecture of gene regulatory networks controlling flower development in Arabidopsis thaliana |
title | Architecture of gene regulatory networks controlling flower development in Arabidopsis thaliana |
title_full | Architecture of gene regulatory networks controlling flower development in Arabidopsis thaliana |
title_fullStr | Architecture of gene regulatory networks controlling flower development in Arabidopsis thaliana |
title_full_unstemmed | Architecture of gene regulatory networks controlling flower development in Arabidopsis thaliana |
title_short | Architecture of gene regulatory networks controlling flower development in Arabidopsis thaliana |
title_sort | architecture of gene regulatory networks controlling flower development in arabidopsis thaliana |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6208445/ https://www.ncbi.nlm.nih.gov/pubmed/30382087 http://dx.doi.org/10.1038/s41467-018-06772-3 |
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