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Transcription Factor Networks in Leaves of Cichorium endivia: New Insights into the Relationship between Photosynthesis and Leaf Development
Cichorium endivia is a leafy crop closely related to Lactuca sativa that comprises two major botanical varieties characterized by a high degree of intraspecific morphological variation: var. latifolium with broad leaves (escarole) and var. crispum with narrow crisp curly leaves (endive). To investig...
Autores principales: | , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
MDPI
2019
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6963412/ https://www.ncbi.nlm.nih.gov/pubmed/31766484 http://dx.doi.org/10.3390/plants8120531 |
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author | Testone, Giulio Baldoni, Elena Iannelli, Maria Adelaide Nicolodi, Chiara Di Giacomo, Elisabetta Pietrini, Fabrizio Mele, Giovanni Giannino, Donato Frugis, Giovanna |
author_facet | Testone, Giulio Baldoni, Elena Iannelli, Maria Adelaide Nicolodi, Chiara Di Giacomo, Elisabetta Pietrini, Fabrizio Mele, Giovanni Giannino, Donato Frugis, Giovanna |
author_sort | Testone, Giulio |
collection | PubMed |
description | Cichorium endivia is a leafy crop closely related to Lactuca sativa that comprises two major botanical varieties characterized by a high degree of intraspecific morphological variation: var. latifolium with broad leaves (escarole) and var. crispum with narrow crisp curly leaves (endive). To investigate the relationship between leaf morphology and photosynthetic activity, escaroles and endives were used as a crop model due to the striking morphological diversity of their leaves. We constructed a leaf database for transcription factors (TFs) and photosynthesis-related genes from a refined C. endivia transcriptome and used RNA-seq transcriptomic data from leaves of four commercial endive and escarole cultivars to explore transcription factor regulatory networks. Cluster and gene co-expression network (GCN) analyses identified two main anticorrelated modules that control photosynthesis. Analysis of the GCN network topological properties identified known and novel hub genes controlling photosynthesis, and candidate developmental genes at the boundaries between shape and function. Differential expression analysis between broad and curly leaves suggested three novel TFs putatively involved in leaf shape diversity. Physiological analysis of the photosynthesis properties and gene expression studies on broad and curly leaves provided new insights into the relationship between leaf shape and function. |
format | Online Article Text |
id | pubmed-6963412 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2019 |
publisher | MDPI |
record_format | MEDLINE/PubMed |
spelling | pubmed-69634122020-02-26 Transcription Factor Networks in Leaves of Cichorium endivia: New Insights into the Relationship between Photosynthesis and Leaf Development Testone, Giulio Baldoni, Elena Iannelli, Maria Adelaide Nicolodi, Chiara Di Giacomo, Elisabetta Pietrini, Fabrizio Mele, Giovanni Giannino, Donato Frugis, Giovanna Plants (Basel) Article Cichorium endivia is a leafy crop closely related to Lactuca sativa that comprises two major botanical varieties characterized by a high degree of intraspecific morphological variation: var. latifolium with broad leaves (escarole) and var. crispum with narrow crisp curly leaves (endive). To investigate the relationship between leaf morphology and photosynthetic activity, escaroles and endives were used as a crop model due to the striking morphological diversity of their leaves. We constructed a leaf database for transcription factors (TFs) and photosynthesis-related genes from a refined C. endivia transcriptome and used RNA-seq transcriptomic data from leaves of four commercial endive and escarole cultivars to explore transcription factor regulatory networks. Cluster and gene co-expression network (GCN) analyses identified two main anticorrelated modules that control photosynthesis. Analysis of the GCN network topological properties identified known and novel hub genes controlling photosynthesis, and candidate developmental genes at the boundaries between shape and function. Differential expression analysis between broad and curly leaves suggested three novel TFs putatively involved in leaf shape diversity. Physiological analysis of the photosynthesis properties and gene expression studies on broad and curly leaves provided new insights into the relationship between leaf shape and function. MDPI 2019-11-21 /pmc/articles/PMC6963412/ /pubmed/31766484 http://dx.doi.org/10.3390/plants8120531 Text en © 2019 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/). |
spellingShingle | Article Testone, Giulio Baldoni, Elena Iannelli, Maria Adelaide Nicolodi, Chiara Di Giacomo, Elisabetta Pietrini, Fabrizio Mele, Giovanni Giannino, Donato Frugis, Giovanna Transcription Factor Networks in Leaves of Cichorium endivia: New Insights into the Relationship between Photosynthesis and Leaf Development |
title | Transcription Factor Networks in Leaves of Cichorium endivia: New Insights into the Relationship between Photosynthesis and Leaf Development |
title_full | Transcription Factor Networks in Leaves of Cichorium endivia: New Insights into the Relationship between Photosynthesis and Leaf Development |
title_fullStr | Transcription Factor Networks in Leaves of Cichorium endivia: New Insights into the Relationship between Photosynthesis and Leaf Development |
title_full_unstemmed | Transcription Factor Networks in Leaves of Cichorium endivia: New Insights into the Relationship between Photosynthesis and Leaf Development |
title_short | Transcription Factor Networks in Leaves of Cichorium endivia: New Insights into the Relationship between Photosynthesis and Leaf Development |
title_sort | transcription factor networks in leaves of cichorium endivia: new insights into the relationship between photosynthesis and leaf development |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6963412/ https://www.ncbi.nlm.nih.gov/pubmed/31766484 http://dx.doi.org/10.3390/plants8120531 |
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