Genome-wide identification, characterization, evolution and expression analysis of the DIR gene family in potato (Solanum tuberosum)
The dirigent (DIR) gene is a key player in environmental stress response and has been identified in many multidimensional tube plant species. However, there are few studies on the StDIR gene in potato. In this study, we used genome-wide identification to identify 31 StDIR genes in potato. Among the...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2023-08-01
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| Series: | Frontiers in Genetics |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fgene.2023.1224015/full |
| _version_ | 1797738333955162112 |
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| author | Wenqi Jia Yuting Xiong Man Li Shengli Zhang Zhongcai Han Kuihua Li |
| author_facet | Wenqi Jia Yuting Xiong Man Li Shengli Zhang Zhongcai Han Kuihua Li |
| author_sort | Wenqi Jia |
| collection | DOAJ |
| description | The dirigent (DIR) gene is a key player in environmental stress response and has been identified in many multidimensional tube plant species. However, there are few studies on the StDIR gene in potato. In this study, we used genome-wide identification to identify 31 StDIR genes in potato. Among the 12 potato chromosomes, the StDIR gene was distributed on 11 chromosomes, among which the third chromosome did not have a family member, while the tenth chromosome had the most members with 11 members. 22 of the 31 StDIRs had a classical DIR gene structure, with one exon and no intron. The conserved DIR domain accounts for most of the proteins in the 27 StDIRs. The structure of the StDIR gene was analyzed and ten different motifs were detected. The StDIR gene was divided into three groups according to its phylogenetic relationship, and 22 duplicate genes were identified. In addition, four kinds of cis-acting elements were detected in all 31 StDIR promoter regions, most of which were associated with biotic and abiotic stress. The findings demonstrated that the StDIR gene exhibited specific responses to cold stress, salt stress, ABA, and drought stress. This study provides new candidate genes for improving potato’s resistance to stress. |
| first_indexed | 2024-03-12T13:41:20Z |
| format | Article |
| id | doaj.art-870d439a1ef94d96b1f862ea9b254583 |
| institution | Directory Open Access Journal |
| issn | 1664-8021 |
| language | English |
| last_indexed | 2024-03-12T13:41:20Z |
| publishDate | 2023-08-01 |
| publisher | Frontiers Media S.A. |
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| series | Frontiers in Genetics |
| spelling | doaj.art-870d439a1ef94d96b1f862ea9b2545832023-08-23T15:28:02ZengFrontiers Media S.A.Frontiers in Genetics1664-80212023-08-011410.3389/fgene.2023.12240151224015Genome-wide identification, characterization, evolution and expression analysis of the DIR gene family in potato (Solanum tuberosum)Wenqi Jia0Yuting Xiong1Man Li2Shengli Zhang3Zhongcai Han4Kuihua Li5Agricultural College, Yanbian University, Yanji, Jilin, ChinaAgricultural College, Yanbian University, Yanji, Jilin, ChinaAgricultural College, Yanbian University, Yanji, Jilin, ChinaJilin Academy of Vegetable and Flower Science, Changchun, Jilin, ChinaJilin Academy of Vegetable and Flower Science, Changchun, Jilin, ChinaAgricultural College, Yanbian University, Yanji, Jilin, ChinaThe dirigent (DIR) gene is a key player in environmental stress response and has been identified in many multidimensional tube plant species. However, there are few studies on the StDIR gene in potato. In this study, we used genome-wide identification to identify 31 StDIR genes in potato. Among the 12 potato chromosomes, the StDIR gene was distributed on 11 chromosomes, among which the third chromosome did not have a family member, while the tenth chromosome had the most members with 11 members. 22 of the 31 StDIRs had a classical DIR gene structure, with one exon and no intron. The conserved DIR domain accounts for most of the proteins in the 27 StDIRs. The structure of the StDIR gene was analyzed and ten different motifs were detected. The StDIR gene was divided into three groups according to its phylogenetic relationship, and 22 duplicate genes were identified. In addition, four kinds of cis-acting elements were detected in all 31 StDIR promoter regions, most of which were associated with biotic and abiotic stress. The findings demonstrated that the StDIR gene exhibited specific responses to cold stress, salt stress, ABA, and drought stress. This study provides new candidate genes for improving potato’s resistance to stress.https://www.frontiersin.org/articles/10.3389/fgene.2023.1224015/fullabiotic stressbioinformaticsDIRgene familypotato |
| spellingShingle | Wenqi Jia Yuting Xiong Man Li Shengli Zhang Zhongcai Han Kuihua Li Genome-wide identification, characterization, evolution and expression analysis of the DIR gene family in potato (Solanum tuberosum) Frontiers in Genetics abiotic stress bioinformatics DIR gene family potato |
| title | Genome-wide identification, characterization, evolution and expression analysis of the DIR gene family in potato (Solanum tuberosum) |
| title_full | Genome-wide identification, characterization, evolution and expression analysis of the DIR gene family in potato (Solanum tuberosum) |
| title_fullStr | Genome-wide identification, characterization, evolution and expression analysis of the DIR gene family in potato (Solanum tuberosum) |
| title_full_unstemmed | Genome-wide identification, characterization, evolution and expression analysis of the DIR gene family in potato (Solanum tuberosum) |
| title_short | Genome-wide identification, characterization, evolution and expression analysis of the DIR gene family in potato (Solanum tuberosum) |
| title_sort | genome wide identification characterization evolution and expression analysis of the dir gene family in potato solanum tuberosum |
| topic | abiotic stress bioinformatics DIR gene family potato |
| url | https://www.frontiersin.org/articles/10.3389/fgene.2023.1224015/full |
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