Analysis of Arabidopsis thaliana Redox Gene Network Indicates Evolutionary Expansion of Class III Peroxidase in Plants

Abstract Reactive oxygen species (ROS) are byproducts of aerobic metabolism and may cause oxidative damage to biomolecules. Plants have a complex redox system, involving enzymatic and non-enzymatic compounds. The evolutionary origin of enzymatic antioxidant defense in plants is yet unclear. Here, we...

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Autores principales:	Raffael Azevedo de Carvalho Oliveira, Abraão Silveira de Andrade, Danilo Oliveira Imparato, Juliana Gabriela Silva de Lima, Ricardo Victor Machado de Almeida, João Paulo Matos Santos Lima, Matheus Augusto de Bittencourt Pasquali, Rodrigo Juliani Siqueira Dalmolin
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Lenguaje:	EN
Publicado:	Nature Portfolio 2019
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/7e541e382409477fa4120f37f827090b
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spelling	oai:doaj.org-article:7e541e382409477fa4120f37f827090b2021-12-02T15:08:08ZAnalysis of Arabidopsis thaliana Redox Gene Network Indicates Evolutionary Expansion of Class III Peroxidase in Plants10.1038/s41598-019-52299-y2045-2322https://doaj.org/article/7e541e382409477fa4120f37f827090b2019-10-01T00:00:00Zhttps://doi.org/10.1038/s41598-019-52299-yhttps://doaj.org/toc/2045-2322Abstract Reactive oxygen species (ROS) are byproducts of aerobic metabolism and may cause oxidative damage to biomolecules. Plants have a complex redox system, involving enzymatic and non-enzymatic compounds. The evolutionary origin of enzymatic antioxidant defense in plants is yet unclear. Here, we describe the redox gene network for A. thaliana and investigate the evolutionary origin of this network. We gathered from public repositories 246 A. thaliana genes directly involved with ROS metabolism and proposed an A. thaliana redox gene network. Using orthology information of 238 Eukaryotes from STRINGdb, we inferred the evolutionary root of each gene to reconstruct the evolutionary history of A. thaliana antioxidant gene network. We found two interconnected clusters: one formed by SOD-related, Thiol-redox, peroxidases, and other oxido-reductase; and the other formed entirely by class III peroxidases. Each cluster emerged in different periods of evolution: the cluster formed by SOD-related, Thiol-redox, peroxidases, and other oxido-reductase emerged before opisthokonta-plant divergence; the cluster composed by class III peroxidases emerged after opisthokonta-plant divergence and therefore contained the most recent network components. According to our results, class III peroxidases are in expansion throughout plant evolution, with new orthologs emerging in each evaluated plant clade divergence.Raffael Azevedo de Carvalho OliveiraAbraão Silveira de AndradeDanilo Oliveira ImparatoJuliana Gabriela Silva de LimaRicardo Victor Machado de AlmeidaJoão Paulo Matos Santos LimaMatheus Augusto de Bittencourt PasqualiRodrigo Juliani Siqueira DalmolinNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 9, Iss 1, Pp 1-9 (2019)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Raffael Azevedo de Carvalho Oliveira Abraão Silveira de Andrade Danilo Oliveira Imparato Juliana Gabriela Silva de Lima Ricardo Victor Machado de Almeida João Paulo Matos Santos Lima Matheus Augusto de Bittencourt Pasquali Rodrigo Juliani Siqueira Dalmolin Analysis of Arabidopsis thaliana Redox Gene Network Indicates Evolutionary Expansion of Class III Peroxidase in Plants
description	Abstract Reactive oxygen species (ROS) are byproducts of aerobic metabolism and may cause oxidative damage to biomolecules. Plants have a complex redox system, involving enzymatic and non-enzymatic compounds. The evolutionary origin of enzymatic antioxidant defense in plants is yet unclear. Here, we describe the redox gene network for A. thaliana and investigate the evolutionary origin of this network. We gathered from public repositories 246 A. thaliana genes directly involved with ROS metabolism and proposed an A. thaliana redox gene network. Using orthology information of 238 Eukaryotes from STRINGdb, we inferred the evolutionary root of each gene to reconstruct the evolutionary history of A. thaliana antioxidant gene network. We found two interconnected clusters: one formed by SOD-related, Thiol-redox, peroxidases, and other oxido-reductase; and the other formed entirely by class III peroxidases. Each cluster emerged in different periods of evolution: the cluster formed by SOD-related, Thiol-redox, peroxidases, and other oxido-reductase emerged before opisthokonta-plant divergence; the cluster composed by class III peroxidases emerged after opisthokonta-plant divergence and therefore contained the most recent network components. According to our results, class III peroxidases are in expansion throughout plant evolution, with new orthologs emerging in each evaluated plant clade divergence.
format	article
author	Raffael Azevedo de Carvalho Oliveira Abraão Silveira de Andrade Danilo Oliveira Imparato Juliana Gabriela Silva de Lima Ricardo Victor Machado de Almeida João Paulo Matos Santos Lima Matheus Augusto de Bittencourt Pasquali Rodrigo Juliani Siqueira Dalmolin
author_facet	Raffael Azevedo de Carvalho Oliveira Abraão Silveira de Andrade Danilo Oliveira Imparato Juliana Gabriela Silva de Lima Ricardo Victor Machado de Almeida João Paulo Matos Santos Lima Matheus Augusto de Bittencourt Pasquali Rodrigo Juliani Siqueira Dalmolin
author_sort	Raffael Azevedo de Carvalho Oliveira
title	Analysis of Arabidopsis thaliana Redox Gene Network Indicates Evolutionary Expansion of Class III Peroxidase in Plants
title_short	Analysis of Arabidopsis thaliana Redox Gene Network Indicates Evolutionary Expansion of Class III Peroxidase in Plants
title_full	Analysis of Arabidopsis thaliana Redox Gene Network Indicates Evolutionary Expansion of Class III Peroxidase in Plants
title_fullStr	Analysis of Arabidopsis thaliana Redox Gene Network Indicates Evolutionary Expansion of Class III Peroxidase in Plants
title_full_unstemmed	Analysis of Arabidopsis thaliana Redox Gene Network Indicates Evolutionary Expansion of Class III Peroxidase in Plants
title_sort	analysis of arabidopsis thaliana redox gene network indicates evolutionary expansion of class iii peroxidase in plants
publisher	Nature Portfolio
publishDate	2019
url	https://doaj.org/article/7e541e382409477fa4120f37f827090b
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Analysis of Arabidopsis thaliana Redox Gene Network Indicates Evolutionary Expansion of Class III Peroxidase in Plants

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