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...

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Autores principales:	Hong Yu, Marçal Soler, Isabelle Mila, Hélène San Clemente, Bruno Savelli, Christophe Dunand, Jorge A P Paiva, Alexander A Myburg, Mondher Bouzayen, Jacqueline Grima-Pettenati, Hua Cassan-Wang
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2014
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/4c7ef8aedad64bce8632319ec334bd3c
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spelling	oai:doaj.org-article:4c7ef8aedad64bce8632319ec334bd3c2021-11-25T05:58:26ZGenome-wide characterization and expression profiling of the AUXIN RESPONSE FACTOR (ARF) gene family in Eucalyptus grandis.1932-620310.1371/journal.pone.0108906https://doaj.org/article/4c7ef8aedad64bce8632319ec334bd3c2014-01-01T00:00:00Zhttps://doi.org/10.1371/journal.pone.0108906https://doaj.org/toc/1932-6203Auxin 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.Hong YuMarçal SolerIsabelle MilaHélène San ClementeBruno SavelliChristophe DunandJorge A P PaivaAlexander A MyburgMondher BouzayenJacqueline Grima-PettenatiHua Cassan-WangPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 9, Iss 9, p e108906 (2014)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Hong Yu Marçal Soler Isabelle Mila Hélène San Clemente Bruno Savelli Christophe Dunand Jorge A P Paiva Alexander A Myburg Mondher Bouzayen Jacqueline Grima-Pettenati Hua Cassan-Wang Genome-wide characterization and expression profiling of the AUXIN RESPONSE FACTOR (ARF) gene family in Eucalyptus grandis.
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	article
author	Hong Yu Marçal Soler Isabelle Mila Hélène San Clemente Bruno Savelli Christophe Dunand Jorge A P Paiva Alexander A Myburg Mondher Bouzayen Jacqueline Grima-Pettenati Hua Cassan-Wang
author_facet	Hong Yu Marçal Soler Isabelle Mila Hélène San Clemente Bruno Savelli Christophe Dunand Jorge A P Paiva Alexander A Myburg Mondher Bouzayen Jacqueline Grima-Pettenati Hua Cassan-Wang
author_sort	Hong Yu
title	Genome-wide characterization and expression profiling of the AUXIN RESPONSE FACTOR (ARF) gene family in Eucalyptus grandis.
title_short	Genome-wide characterization and expression profiling of the AUXIN RESPONSE FACTOR (ARF) gene family in Eucalyptus grandis.
title_full	Genome-wide characterization and expression profiling of the AUXIN RESPONSE FACTOR (ARF) gene family in Eucalyptus grandis.
title_fullStr	Genome-wide characterization and expression profiling of the AUXIN RESPONSE FACTOR (ARF) gene family in Eucalyptus grandis.
title_full_unstemmed	Genome-wide characterization and expression profiling of the AUXIN RESPONSE FACTOR (ARF) gene family in Eucalyptus grandis.
title_sort	genome-wide characterization and expression profiling of the auxin response factor (arf) gene family in eucalyptus grandis.
publisher	Public Library of Science (PLoS)
publishDate	2014
url	https://doaj.org/article/4c7ef8aedad64bce8632319ec334bd3c
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Genome-wide characterization and expression profiling of the AUXIN RESPONSE FACTOR (ARF) gene family in Eucalyptus grandis.

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