Genome-wide analysis of the superoxide dismutase (SOD) gene family in Zostera marina and expression profile analysis under temperature stress
Superoxide dismutases (SODs) serve as the first line of defense in the plant antioxidant enzyme system, and play a primary role in the removal of reactive oxygen species (ROS). However, our understanding of the functions of the SOD family in Zostera marina is limited. In this study, a systematic ana...
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PeerJ Inc.
2020-05-01
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| author | Yu Zang Jun Chen Ruoxi Li Shuai Shang Xuexi Tang |
| author_facet | Yu Zang Jun Chen Ruoxi Li Shuai Shang Xuexi Tang |
| author_sort | Yu Zang |
| collection | DOAJ |
| description | Superoxide dismutases (SODs) serve as the first line of defense in the plant antioxidant enzyme system, and play a primary role in the removal of reactive oxygen species (ROS). However, our understanding of the functions of the SOD family in Zostera marina is limited. In this study, a systematic analysis was conducted on the characteristics of the SOD genes in Z. marina at the whole-genome level. Five SOD genes were identified, consisting of two Cu/ZnSODs, two FeSODs, and one MnSOD. Phylogenetic analysis showed that ZmSOD proteins could be divided into two major categories (Cu/ZnSODs and Fe-MnSODs). Sequence motifs, gene structure, and the 3D-modeled protein structures further supported the phylogenetic analysis, with each subgroup having similar motifs, exon-intron structures, and protein structures. Additionally, several cis-elements were identified that may respond to biotic and abiotic stresses. Transcriptome analysis revealed expression diversity of ZmSODs in various tissues. Moreover, qRT-PCR analysis showed that the expression level of most ZmSOD genes trended to decreased expression with the increase of temperature, indicating that heat stress inhibits expression of ZmSODs and may result in reduced ability of ZmSODs to scavenge ROS. Our results provide a basis for further functional research on the SOD gene family in Z. marina, which will help to determine the molecular mechanism of ZmSOD genes in response to environmental stress. |
| first_indexed | 2024-03-09T06:47:00Z |
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| institution | Directory Open Access Journal |
| issn | 2167-8359 |
| language | English |
| last_indexed | 2024-03-09T06:47:00Z |
| publishDate | 2020-05-01 |
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| spelling | doaj.art-24ba52f0ad96460294c7c2b350224a7f2023-12-03T10:34:26ZengPeerJ Inc.PeerJ2167-83592020-05-018e906310.7717/peerj.9063Genome-wide analysis of the superoxide dismutase (SOD) gene family in Zostera marina and expression profile analysis under temperature stressYu Zang0Jun Chen1Ruoxi Li2Shuai Shang3Xuexi Tang4College of Marine Life Sciences, Ocean University of China, Qingdao, ChinaCollege of Marine Life Sciences, Ocean University of China, Qingdao, ChinaSchool of Life Science, Southwest University, Chongqing, ChinaCollege of Biological and Environmental Engineering, Binzhou University, Binzhou, ChinaCollege of Marine Life Sciences, Ocean University of China, Qingdao, ChinaSuperoxide dismutases (SODs) serve as the first line of defense in the plant antioxidant enzyme system, and play a primary role in the removal of reactive oxygen species (ROS). However, our understanding of the functions of the SOD family in Zostera marina is limited. In this study, a systematic analysis was conducted on the characteristics of the SOD genes in Z. marina at the whole-genome level. Five SOD genes were identified, consisting of two Cu/ZnSODs, two FeSODs, and one MnSOD. Phylogenetic analysis showed that ZmSOD proteins could be divided into two major categories (Cu/ZnSODs and Fe-MnSODs). Sequence motifs, gene structure, and the 3D-modeled protein structures further supported the phylogenetic analysis, with each subgroup having similar motifs, exon-intron structures, and protein structures. Additionally, several cis-elements were identified that may respond to biotic and abiotic stresses. Transcriptome analysis revealed expression diversity of ZmSODs in various tissues. Moreover, qRT-PCR analysis showed that the expression level of most ZmSOD genes trended to decreased expression with the increase of temperature, indicating that heat stress inhibits expression of ZmSODs and may result in reduced ability of ZmSODs to scavenge ROS. Our results provide a basis for further functional research on the SOD gene family in Z. marina, which will help to determine the molecular mechanism of ZmSOD genes in response to environmental stress.https://peerj.com/articles/9063.pdfGlobal changeZostera marinaSuperoxide dismutasesTemperature stressGene families |
| spellingShingle | Yu Zang Jun Chen Ruoxi Li Shuai Shang Xuexi Tang Genome-wide analysis of the superoxide dismutase (SOD) gene family in Zostera marina and expression profile analysis under temperature stress PeerJ Global change Zostera marina Superoxide dismutases Temperature stress Gene families |
| title | Genome-wide analysis of the superoxide dismutase (SOD) gene family in Zostera marina and expression profile analysis under temperature stress |
| title_full | Genome-wide analysis of the superoxide dismutase (SOD) gene family in Zostera marina and expression profile analysis under temperature stress |
| title_fullStr | Genome-wide analysis of the superoxide dismutase (SOD) gene family in Zostera marina and expression profile analysis under temperature stress |
| title_full_unstemmed | Genome-wide analysis of the superoxide dismutase (SOD) gene family in Zostera marina and expression profile analysis under temperature stress |
| title_short | Genome-wide analysis of the superoxide dismutase (SOD) gene family in Zostera marina and expression profile analysis under temperature stress |
| title_sort | genome wide analysis of the superoxide dismutase sod gene family in zostera marina and expression profile analysis under temperature stress |
| topic | Global change Zostera marina Superoxide dismutases Temperature stress Gene families |
| url | https://peerj.com/articles/9063.pdf |
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