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Genome-Wide Characterization and Expression Profiling of the AUXIN RESPONSE FACTOR (ARF) Gene Family in Eucalyptus grandis
Auxin is a central hormone involved in a wide range of developmental processes including the specification of vascular stem cells. Auxin Response Factors (ARF) are important actors of the auxin signalling pathway, regulating the transcription of auxin-responsive genes through direct binding to their...
Autores principales: | , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Public Library of Science
2014
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4182523/ https://www.ncbi.nlm.nih.gov/pubmed/25269088 http://dx.doi.org/10.1371/journal.pone.0108906 |
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author | Yu, Hong Soler, Marçal Mila, Isabelle San Clemente, Hélène Savelli, Bruno Dunand, Christophe Paiva, Jorge A. P. Myburg, Alexander A. Bouzayen, Mondher Grima-Pettenati, Jacqueline Cassan-Wang, Hua |
author_facet | Yu, Hong Soler, Marçal Mila, Isabelle San Clemente, Hélène Savelli, Bruno Dunand, Christophe Paiva, Jorge A. P. Myburg, Alexander A. Bouzayen, Mondher Grima-Pettenati, Jacqueline Cassan-Wang, Hua |
author_sort | Yu, Hong |
collection | PubMed |
description | Auxin is a central hormone involved in a wide range of developmental processes including the specification of vascular stem cells. Auxin Response Factors (ARF) are important actors of the auxin signalling pathway, regulating the transcription of auxin-responsive genes through direct binding to their promoters. The recent availability of the Eucalyptus grandis genome sequence allowed us to examine the characteristics and evolutionary history of this gene family in a woody plant of high economic importance. With 17 members, the E. grandis ARF gene family is slightly contracted, as compared to those of most angiosperms studied hitherto, lacking traces of duplication events. In silico analysis of alternative transcripts and gene truncation suggested that these two mechanisms were preeminent in shaping the functional diversity of the ARF family in Eucalyptus. Comparative phylogenetic analyses with genomes of other taxonomic lineages revealed the presence of a new ARF clade found preferentially in woody and/or perennial plants. High-throughput expression profiling among different organs and tissues and in response to environmental cues highlighted genes expressed in vascular cambium and/or developing xylem, responding dynamically to various environmental stimuli. Finally, this study allowed identification of three ARF candidates potentially involved in the auxin-regulated transcriptional program underlying wood formation. |
format | Online Article Text |
id | pubmed-4182523 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2014 |
publisher | Public Library of Science |
record_format | MEDLINE/PubMed |
spelling | pubmed-41825232014-10-07 Genome-Wide Characterization and Expression Profiling of the AUXIN RESPONSE FACTOR (ARF) Gene Family in Eucalyptus grandis Yu, Hong Soler, Marçal Mila, Isabelle San Clemente, Hélène Savelli, Bruno Dunand, Christophe Paiva, Jorge A. P. Myburg, Alexander A. Bouzayen, Mondher Grima-Pettenati, Jacqueline Cassan-Wang, Hua PLoS One Research Article Auxin is a central hormone involved in a wide range of developmental processes including the specification of vascular stem cells. Auxin Response Factors (ARF) are important actors of the auxin signalling pathway, regulating the transcription of auxin-responsive genes through direct binding to their promoters. The recent availability of the Eucalyptus grandis genome sequence allowed us to examine the characteristics and evolutionary history of this gene family in a woody plant of high economic importance. With 17 members, the E. grandis ARF gene family is slightly contracted, as compared to those of most angiosperms studied hitherto, lacking traces of duplication events. In silico analysis of alternative transcripts and gene truncation suggested that these two mechanisms were preeminent in shaping the functional diversity of the ARF family in Eucalyptus. Comparative phylogenetic analyses with genomes of other taxonomic lineages revealed the presence of a new ARF clade found preferentially in woody and/or perennial plants. High-throughput expression profiling among different organs and tissues and in response to environmental cues highlighted genes expressed in vascular cambium and/or developing xylem, responding dynamically to various environmental stimuli. Finally, this study allowed identification of three ARF candidates potentially involved in the auxin-regulated transcriptional program underlying wood formation. Public Library of Science 2014-09-30 /pmc/articles/PMC4182523/ /pubmed/25269088 http://dx.doi.org/10.1371/journal.pone.0108906 Text en © 2014 Yu et al http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are properly credited. |
spellingShingle | Research Article Yu, Hong Soler, Marçal Mila, Isabelle San Clemente, Hélène Savelli, Bruno Dunand, Christophe Paiva, Jorge A. P. Myburg, Alexander A. Bouzayen, Mondher Grima-Pettenati, Jacqueline Cassan-Wang, Hua Genome-Wide Characterization and Expression Profiling of the AUXIN RESPONSE FACTOR (ARF) Gene Family in Eucalyptus grandis |
title | Genome-Wide Characterization and Expression Profiling of the AUXIN RESPONSE FACTOR (ARF) Gene Family in Eucalyptus grandis
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title_full | Genome-Wide Characterization and Expression Profiling of the AUXIN RESPONSE FACTOR (ARF) Gene Family in Eucalyptus grandis
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title_fullStr | Genome-Wide Characterization and Expression Profiling of the AUXIN RESPONSE FACTOR (ARF) Gene Family in Eucalyptus grandis
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title_full_unstemmed | Genome-Wide Characterization and Expression Profiling of the AUXIN RESPONSE FACTOR (ARF) Gene Family in Eucalyptus grandis
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title_short | Genome-Wide Characterization and Expression Profiling of the AUXIN RESPONSE FACTOR (ARF) Gene Family in Eucalyptus grandis
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title_sort | genome-wide characterization and expression profiling of the auxin response factor (arf) gene family in eucalyptus grandis |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4182523/ https://www.ncbi.nlm.nih.gov/pubmed/25269088 http://dx.doi.org/10.1371/journal.pone.0108906 |
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