title: Looking for Arabidopsis thaliana peroxidases involved in lignin biosynthesis.
abstract: Monolignol polymerization into lignin is catalyzed by peroxidases or laccases. Recently, a Zinnia elegans peroxidase (ZePrx) that is considered responsible for monolignol polymerization in this plant has been molecularly and functionally characterized. Nevertheless, Arabidopsis thaliana has become an alternative model plant for studies of lignification, filling the gaps that may occur with Z. elegans. The arabidopsis genome offers the possibility of performing bioinformatic analyses and data mining that are not yet feasible with other plant species, in order to obtain preliminary evidence on the role of genes and proteins. In our search for arabidopsis homologs to the ZePrx, we performed an exhaustive in silico characterization of everything from the protein to the transcript of Arabidopsis thaliana peroxidases (AtPrxs) homologous to ZePrx, with the aim of identifying one or more peroxidases that may be involved in monolignol polymerization. Nine peroxidases (AtPrx 4, 5, 52, 68, 67, 36, 14, 49 and 72) with an E-value greater than 1e-80 with ZePrx were selected for this study. The results demonstrate that a high level of 1D, 2D and 3D homology between these AtPrxs and ZePrx are not always accompanied by the presence of the same electrostatic and mRNA properties that indicate a peroxidase is involved in lignin biosynthesis. In summary, we can confirm that the peroxidases involved in lignification are among AtPrx 4, 52, 49 and 72. Their structural and mRNA features indicate that exert their action in the cell wall similar to ZePrx.
authors.affiliation: Department of Plant Biology, University of Alcalá, E-28871 Alcalá de Henares, Madrid, Spain. Electronic address: joaquin.herrero@uah.es.
authors.forename: Joaquín
authors.initials: J
authors.lastname: Herrero
authors.affiliation: Department of Plant Biology, Complutense University, E-28040 Madrid, Spain. Electronic address: aecarrasco@bio.ucm.es.
authors.forename: Alberto
authors.initials: A
authors.lastname: Esteban-Carrasco
authors.affiliation: Department of Plant Biology, University of Alcalá, E-28871 Alcalá de Henares, Madrid, Spain. Electronic address: josem.zapata@uah.es.
authors.forename: José Miguel
authors.initials: JM
authors.lastname: Zapata
mesh_terms: D017360:Arabidopsis / Q000201:enzymology* / Q000378:metabolism*; D029681:Arabidopsis Proteins / Q000235:genetics / Q000378:metabolism; D019295:Computational Biology; D018506:Gene Expression Regulation, Plant; D008031:Lignin / Q000096:biosynthesis*; D009195:Peroxidase / Q000235:genetics / Q000378:metabolism; D010544:Peroxidases / Q000378:metabolism*
chemical_list: D029681:Arabidopsis Proteins; D008031:Lignin; D010544:Peroxidases; D009195:Peroxidase
keywords: Arabidopsis thaliana; AtPrx; Bioinformatics; Lignification; Peroxidase; ZePrx; Zinnia elegans