Genome-wide identification and transcriptional expression analysis of superoxide dismutase (SOD) family in wheat (Triticum aestivum)

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1 Engineering Research Center of Ecology and Agricultural Use of Wetland, Ministry of Education/Hubei Collaborative Innovation Center for Grain Industry/College of Agriculture, Yangtze University, Jingzhou, Hubei, China
2 Institute of Plant Protection and Soil Science, Hubei Academy of Agricultural Sciences, Wuhan, Hubei, China
3 Institute of Plant Protection, Jiangsu Academy of Agricultural Sciences, Nanjing, Jiangsu, China
DOI
10.7287/peerj.preprints.27402v1
Published
Accepted
Subject Areas
Agricultural Science, Bioinformatics, Genomics
Keywords
SOD, gene structure, protein characterization, abiotic stress, expression profiles
Copyright
© 2018 Jiang et al.
Licence
This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, reproduction and adaptation in any medium and for any purpose provided that it is properly attributed. For attribution, the original author(s), title, publication source (PeerJ Preprints) and either DOI or URL of the article must be cited.
Cite this article
Jiang WJ, Yang LY, He YH, Zhang HZ, Li WL, Chen HC, Ma DM, Yin JY. 2018. Genome-wide identification and transcriptional expression analysis of superoxide dismutase (SOD) family in wheat (Triticum aestivum) PeerJ Preprints 6:e27402v1

Abstract

Superoxide dismutases (SODs) are a key antioxidant enzyme family, which plays a critical function in plant growth and development. Previously, this gene family has been investigated in Arabidopsis and rice. In the present study, it was the first time for us to perform a genome-wide analysis of SOD gene family in wheat. And using bioinformatics-based methods, 26 SOD genes were identified from the whole genome of wheat, including 17 Cu/Zn-SODs, 6 Fe-SODs, and 3 Mn-SODs. The chromosomal distribution analysis revealed that SOD genes are only distributed on 2, 4 and 7 chromosomes of wheat. Phylogenetic analyses with SODs from wheat and several other species revealed that these SOD proteins can divided into two major categories. SOD1 is mainly composed of Cu/Zn-SODs, and SOD2 is mainly composed of Fe-SODs and Mn-SODs. Gene structure and motif analysis indicated that most of the SOD genes have relatively conserved exon/intron arrangement and motif composition. Analysis of transcriptional data indicated that most of the wheat SOD genes are expressed in almost all the tested tissues and it possibly have important function in abiotic stress. Taken together, our results provide a basis for further functional research on SOD gene family in wheat and facilitate their potential applications in the genetic improvement of wheat.

Author Comment

This is a submission to PeerJ for review.

Supplemental Information

Table S2 Annotation of putative of TaSODs identified by MEME

DOI: 10.7287/peerj.preprints.27402v1/supp-1

Table S1 SOD genes found in Arabidopsis thaliana, Oryza sativa, and Zea mays

DOI: 10.7287/peerj.preprints.27402v1/supp-2

Table S4 The FPKM data of TaSOD genes in different tissues and environment

DOI: 10.7287/peerj.preprints.27402v1/supp-3

Table S3 Location TaSODs genes on Chinese Spring

DOI: 10.7287/peerj.preprints.27402v1/supp-4

File S1 The gene sequences used in this research

DOI: 10.7287/peerj.preprints.27402v1/supp-5

Figure S1 The exon/intron organization of TaSOD

DOI: 10.7287/peerj.preprints.27402v1/supp-6