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Redox Biol. 2019 Sep;26:101247. doi: 10.1016/j.redox.2019.101247. Epub 2019 Jun 6.

RedoxiBase: A database for ROS homeostasis regulated proteins.

Author information

1
Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, CNRS, UPS, 24 chemin de Borde Rouge, Auzeville, BP42617, 31326, Castanet-Tolosan, France. Electronic address: savelli@lrsv.ups-tlse.fr.
2
Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, CNRS, UPS, 24 chemin de Borde Rouge, Auzeville, BP42617, 31326, Castanet-Tolosan, France; Citrus Research Institute, Southwest University/Chinese Academy of Agricultural Sciences, Beibei, Chongqing, 400712, China.
3
Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, CNRS, UPS, 24 chemin de Borde Rouge, Auzeville, BP42617, 31326, Castanet-Tolosan, France.
4
Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, CNRS, UPS, 24 chemin de Borde Rouge, Auzeville, BP42617, 31326, Castanet-Tolosan, France; Institute for Botany and Molecular Genetics, Bioeconomy Science Center, RWTH Aachen University, Aachen, Germany.
5
Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, CNRS, UPS, 24 chemin de Borde Rouge, Auzeville, BP42617, 31326, Castanet-Tolosan, France; International Agency for Research on Cancer, Lyon, France.
6
Department of Molecular Evolution & Development University Vienna, Althanstrasse 14, A-1090, Vienna, Austria; Laboratory of Phylogenomic Ecology, Institute of Molecular Biology, Slovak Academy of Sciences, Dubravska cesta 21, SK-84551, Bratislava, Slovakia.
7
Laboratoire de Recherche en Sciences Végétales, Université de Toulouse, CNRS, UPS, 24 chemin de Borde Rouge, Auzeville, BP42617, 31326, Castanet-Tolosan, France. Electronic address: dunand@lrsv.ups-tlse.fr.

Abstract

We present a new database, specifically devoted to ROS homeostasis regulated proteins. This database replaced our previous database, the PeroxiBase, which was focused only on various peroxidase families. The addition of 20 new protein families related with ROS homeostasis justifies the new name for this more complex and comprehensive database as RedoxiBase. Besides enlarging the focus of the database, new analysis tools and functionalities have been developed and integrated through the web interface, with which the users can now directly access to orthologous sequences and see the chromosomal localization of sequences when available. OrthoMCL tool, completed with a post-treatment process, provides precise predictions of orthologous gene groups for the sequences present in this database. In order to explore and analyse orthogroups results, taxonomic visualization of organisms containing sequence of a specific orthogroup as well as chromosomal distribution of the orthogroup with one or two organisms have been included.

KEYWORDS:

Catalase; Multigenic family; Oxido-reductases; Peroxidases; ROS homeostasis

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