Genome-wide characterization, phylogenetic and expression analysis of ABCG gene subfamily in cucumber (Cucumis sativus L.)
The ABCG is the largest subfamily of the ABC family with extensive functions, and only a few members have been identified in detail. However, more and more studies have shown that the members of this family are very important and are involved in many life processes such as plant development and resp...
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| Language: | English |
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Frontiers Media S.A.
2023-05-01
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| Series: | Frontiers in Plant Science |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fpls.2023.1178710/full |
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| author | Qi Yuan Qi Yuan Qi Yuan Jing Zhang Jing Zhang Jing Zhang Wanlu Zhang Jingtao Nie Jingtao Nie Jingtao Nie |
| author_facet | Qi Yuan Qi Yuan Qi Yuan Jing Zhang Jing Zhang Jing Zhang Wanlu Zhang Jingtao Nie Jingtao Nie Jingtao Nie |
| author_sort | Qi Yuan |
| collection | DOAJ |
| description | The ABCG is the largest subfamily of the ABC family with extensive functions, and only a few members have been identified in detail. However, more and more studies have shown that the members of this family are very important and are involved in many life processes such as plant development and response to various stresses. Cucumber is an important vegetable crops around the world. The cucumber development is essential for its production and quality. Meanwhile, various stresses have caused serious losses of cucumber. However, the ABCG genes were not well characterized and functioned in cucumber. In this study, the cucumber CsABCG gene family were identified and characterized, and their evolutionary relationship and functions were analyzed. The cis-acting elements and expression analysis showed that they played important role in development and responding to various biotic and abiotic stresses in cucumber. Phylogenetic analysis, sequence alignment and MEME (Multiple Em for Motif Elicitation) analysis indicated that the functions of ABCG proteins in different plants are evolutionarily conserved. Collinear analysis revealed that the ABCG gene family was highly conserved during the evolution. In addition, the potential binding sites of the CsABCG genes targeted by miRNA were predicted. These results will lay a foundation for further research on the function of the CsABCG genes in cucumber. |
| first_indexed | 2024-04-09T13:17:50Z |
| format | Article |
| id | doaj.art-5d75c18197104ff08d09666ca3955df2 |
| institution | Directory Open Access Journal |
| issn | 1664-462X |
| language | English |
| last_indexed | 2024-04-09T13:17:50Z |
| publishDate | 2023-05-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Plant Science |
| spelling | doaj.art-5d75c18197104ff08d09666ca3955df22023-05-11T13:39:29ZengFrontiers Media S.A.Frontiers in Plant Science1664-462X2023-05-011410.3389/fpls.2023.11787101178710Genome-wide characterization, phylogenetic and expression analysis of ABCG gene subfamily in cucumber (Cucumis sativus L.)Qi Yuan0Qi Yuan1Qi Yuan2Jing Zhang3Jing Zhang4Jing Zhang5Wanlu Zhang6Jingtao Nie7Jingtao Nie8Jingtao Nie9College of Horticulture Science, Zhejiang A&F University, Hangzhou, Zhejiang, ChinaKey Laboratory of Quality and Safety Control for Subtropical Fruit and Vegetable, Ministry of Agriculture and Rural Affairs, Hangzhou, Zhejiang, ChinaCollaborative Innovation Center for Efficient and Green Production of Agriculture in Mountainous Areas of Zhejiang Province, College of Horticulture Science, Zhejiang A&F University, Hangzhou, Zhejiang, ChinaCollege of Horticulture Science, Zhejiang A&F University, Hangzhou, Zhejiang, ChinaKey Laboratory of Quality and Safety Control for Subtropical Fruit and Vegetable, Ministry of Agriculture and Rural Affairs, Hangzhou, Zhejiang, ChinaCollaborative Innovation Center for Efficient and Green Production of Agriculture in Mountainous Areas of Zhejiang Province, College of Horticulture Science, Zhejiang A&F University, Hangzhou, Zhejiang, ChinaCollege of Horticulture Science, Zhejiang A&F University, Hangzhou, Zhejiang, ChinaCollege of Horticulture Science, Zhejiang A&F University, Hangzhou, Zhejiang, ChinaKey Laboratory of Quality and Safety Control for Subtropical Fruit and Vegetable, Ministry of Agriculture and Rural Affairs, Hangzhou, Zhejiang, ChinaCollaborative Innovation Center for Efficient and Green Production of Agriculture in Mountainous Areas of Zhejiang Province, College of Horticulture Science, Zhejiang A&F University, Hangzhou, Zhejiang, ChinaThe ABCG is the largest subfamily of the ABC family with extensive functions, and only a few members have been identified in detail. However, more and more studies have shown that the members of this family are very important and are involved in many life processes such as plant development and response to various stresses. Cucumber is an important vegetable crops around the world. The cucumber development is essential for its production and quality. Meanwhile, various stresses have caused serious losses of cucumber. However, the ABCG genes were not well characterized and functioned in cucumber. In this study, the cucumber CsABCG gene family were identified and characterized, and their evolutionary relationship and functions were analyzed. The cis-acting elements and expression analysis showed that they played important role in development and responding to various biotic and abiotic stresses in cucumber. Phylogenetic analysis, sequence alignment and MEME (Multiple Em for Motif Elicitation) analysis indicated that the functions of ABCG proteins in different plants are evolutionarily conserved. Collinear analysis revealed that the ABCG gene family was highly conserved during the evolution. In addition, the potential binding sites of the CsABCG genes targeted by miRNA were predicted. These results will lay a foundation for further research on the function of the CsABCG genes in cucumber.https://www.frontiersin.org/articles/10.3389/fpls.2023.1178710/fullcucumberCsABCGbioinformatic charactergene expressionstress responsesmicroRNA |
| spellingShingle | Qi Yuan Qi Yuan Qi Yuan Jing Zhang Jing Zhang Jing Zhang Wanlu Zhang Jingtao Nie Jingtao Nie Jingtao Nie Genome-wide characterization, phylogenetic and expression analysis of ABCG gene subfamily in cucumber (Cucumis sativus L.) Frontiers in Plant Science cucumber CsABCG bioinformatic character gene expression stress responses microRNA |
| title | Genome-wide characterization, phylogenetic and expression analysis of ABCG gene subfamily in cucumber (Cucumis sativus L.) |
| title_full | Genome-wide characterization, phylogenetic and expression analysis of ABCG gene subfamily in cucumber (Cucumis sativus L.) |
| title_fullStr | Genome-wide characterization, phylogenetic and expression analysis of ABCG gene subfamily in cucumber (Cucumis sativus L.) |
| title_full_unstemmed | Genome-wide characterization, phylogenetic and expression analysis of ABCG gene subfamily in cucumber (Cucumis sativus L.) |
| title_short | Genome-wide characterization, phylogenetic and expression analysis of ABCG gene subfamily in cucumber (Cucumis sativus L.) |
| title_sort | genome wide characterization phylogenetic and expression analysis of abcg gene subfamily in cucumber cucumis sativus l |
| topic | cucumber CsABCG bioinformatic character gene expression stress responses microRNA |
| url | https://www.frontiersin.org/articles/10.3389/fpls.2023.1178710/full |
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