Insilco identification and characterization of superoxide dismutase gene family in Brassica rapa
| Autor: | Z.A. Dar ., Shabir A. Bangroo, Daniel Ingo Hefft, Asif M. Iqbal Qureshi, S. S. Mahdi, Mudasir H. Khan, Mehraj uddin Sofi, Niyaz A. Dar, Simona Mariana Popescu, Hamed A. El-Serehy |
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| Jazyk: | angličtina |
| Rok vydání: | 2021 |
| Předmět: |
Genetics
Super oxide dismutase Phylogenetic tree fungi Brassica rapa Brassica food and beverages Superoxide dismutase Biology biology.organism_classification Genome Genome-wide analysis In-silico analysis Gene family Original Article General Agricultural and Biological Sciences Reactive oxygen species Gene Synteny |
| Zdroj: | Saudi Journal of Biological Sciences |
| ISSN: | 2213-7106 1319-562X |
| Popis: | Superoxide Dismutase SODs are defense associated proteins that detoxify ROS and primarily serve as scavengers. They have been described in numerous plant species, but their in-depth characterization in Brassica rapa has not been reported. Therefore, the present investigation on genome wide study of SOD gene family was conducted to identify BrSOD genes, their domain-based organization, gene structure analysis, phylogenetic analysis, intron-exon structure of genes and expression analysis. The sequence characterization of Super oxide dismutase gene family in Brassica rapa, their syntenic associateship of conserved motifs and phylogenetic correlationship, prediction of cis-elements and determing the expression analysis in distinct tissues namely plant callus, root, stem, leaf, flower, and silique under abiotic conditions have been analysed using different software’s. The study on SOD gene family identified 17 BrSOD genes which were grouped into eight BrCu-ZnSODs and nine BrFe-MnSODs domain-based organization. Furthermore, the conserved character of BrSODs were confirmed by intron-exon organisation, motif arrangements and domain architectural investigations. Expression analysis using RNA Sequence data of different developmental stages proclaimed that genes were manifested in all six tissues with an exception of BrCu-ZnSOD3, which was not manifested in roots; however, whose transcript was detected in all other tested tissues. The study has genome wide insight into the occurrence and functional specifications of BrSOD gene family in Brassica rapa that can be potentially utilized in breeding program for resilience to climate change and abiotic stresses tolerance Brassica variety. |
| Databáze: | OpenAIRE |
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