Genome-wide distribution of superoxide dismutase (SOD) gene families in Sorghum bicolor

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dc.contributor.authorFiliz, Ertuğrul
dc.contributor.authorTombuloğlu, Hüseyin
dc.date.accessioned2020-05-01T12:10:13Z
dc.date.available2020-05-01T12:10:13Z
dc.date.issued2015
dc.departmentDÜ, Çilimli Meslek Yüksekokulu, Bitkisel ve Hayvansal Üretim Bölümüen_US
dc.descriptionTombuloglu, Huseyin/0000-0001-8546-2658; Filiz, Ertugrul/0000-0001-9636-6389en_US
dc.descriptionWOS: 000346847200006en_US
dc.description.abstractSuperoxide dismutases (SODs) are critical enzymes protecting cells against toxic superoxide radicals. To date, 3 types of SODs have been identified: Cu-ZnSODs, Fe-MnSODs, and NiSODs. In this study, a genome-wide analysis was performed in Sorghum bicolor to characterize SOD genes and proteins. Using several bioinformatics tools, we characterized a total of 8 SOD genes from the Sorghum genome. Gene structure, chromosomal distribution, tissue specific expression, conserved domain, and phylogenetic analyses of SOD genes were carried out. Additionally, 3-dimensional structures were determined and compared within each SbSOD protein. Chromosomal distributions revealed that the highest number of SOD genes was on chromosomes 1 and 10, with 2 members on each. Single segmental gene duplication was observed between the genes SbSOD2 and SbSOD5. Intron numbers of SbSOD genes ranged from 5 to 7. Motif analyses showed that SbSODs included 2 and 3 common motifs in Cu-ZnSOD and Fe-MnSODs, respectively. In addition, 3 functional domains were identified in SbSODs: 1) copper-zinc domain (Pfam: 00080) in Cu-ZnSOD; and 2) iron/manganese superoxide dismutases alpha-hairpin domain (Pfam: 00081) and 3) iron/manganese superoxide dismutases, C-terminal domain (Pfam: 02777) in Fe-MnSODs. Gene Ontology term enrichment analysis showed that 8 SOD genes have similar molecular functions and biological processes, and variable cellular components. Phylogenetic analysis revealed that Cu-ZnSODs (92%) and Fe-MnSODs (100%) were separated by high bootstrap values. Additionally, predicted motif structures and critical binding sites of SbSODs were found to be similar within each SOD group. The results of this study contribute to a better understanding of SOD genes and proteins in plants, especially in Sorghum taxa.en_US
dc.identifier.doi10.3906/biy-1403-9en_US
dc.identifier.endpage59en_US
dc.identifier.issn1300-0152
dc.identifier.issn1303-6092
dc.identifier.issue1en_US
dc.identifier.scopusqualityQ2en_US
dc.identifier.startpage49en_US
dc.identifier.urihttps://doi.org/10.3906/biy-1403-9
dc.identifier.urihttps://hdl.handle.net/20.500.12684/6082
dc.identifier.volume39en_US
dc.identifier.wosWOS:000346847200006en_US
dc.identifier.wosqualityQ3en_US
dc.indekslendigikaynakWeb of Scienceen_US
dc.indekslendigikaynakScopusen_US
dc.indekslendigikaynakTR-Dizinen_US
dc.language.isoenen_US
dc.publisherTubitak Scientific & Technical Research Council Turkeyen_US
dc.relation.ispartofTurkish Journal Of Biologyen_US
dc.relation.publicationcategoryMakale - Uluslararası Hakemli Dergi - Kurum Öğretim Elemanıen_US
dc.rightsinfo:eu-repo/semantics/openAccessen_US
dc.subjectSuperoxide dismutaseen_US
dc.subjectSODen_US
dc.subjectSorghum bicoloren_US
dc.subjectgenome-wide analysisen_US
dc.subjectin silico analysisen_US
dc.titleGenome-wide distribution of superoxide dismutase (SOD) gene families in Sorghum bicoloren_US
dc.typeArticleen_US

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