Genome-Wide Characterization Analysis of <i>CCT</i> Genes in <i>Raphanus sativus</i> and Their Potential Role in Flowering and Abiotic Stress Response
<i>CCT</i> genes play vital roles in flowering, plant growth, development, and response to abiotic stresses. Although they have been reported in many plants, the characterization and expression pattern of <i>CCT</i> genes is still limited in <i>R. sativus</i>. In...
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MDPI AG
2022-04-01
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| Series: | Horticulturae |
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| author | Qunyun Tan Zhengjin He Shiyong Mei Jifang Zhang |
| author_facet | Qunyun Tan Zhengjin He Shiyong Mei Jifang Zhang |
| author_sort | Qunyun Tan |
| collection | DOAJ |
| description | <i>CCT</i> genes play vital roles in flowering, plant growth, development, and response to abiotic stresses. Although they have been reported in many plants, the characterization and expression pattern of <i>CCT</i> genes is still limited in <i>R. sativus</i>. In this study, a total of 58 <i>CCT</i> genes were identified in <i>R. sativus</i>. Phylogenetic tree, gene structure, and conserved domains revealed that all <i>CCT</i> genes were classified into three groups: <i>COL</i>, <i>CMF</i>, and <i>PRR</i>. Genome-wide identification and evolutionary analysis showed that segmental duplication expanded the <i>CCT</i> gene families considerably, with the LF subgenome retaining more <i>CCT</i> genes. We observed strong purifying selection pressure for <i>CCT</i> genes. <i>RsCCT</i> genes showed tissue specificity, and some genes (such as <i>RsCCT22</i>, <i>RsCCT36</i>, <i>RsCCT42</i> and <i>RsCCT51</i>) were highly expressed in flowers. Promoter cis-elements and RNA-seq data analysis showed that <i>RsCCT</i> genes could play roles in controlling flowering through the photoperiodic pathway and vernalization pathway. The expression profiles of <i>RsCCT</i> genes under Cd, Cr, Pb, and heat and salt stresses revealed that many <i>RsCCT</i> genes could respond to one or more abiotic stresses. Our findings could provide essential information for further studies on the function of <i>RsCCT</i> genes. |
| first_indexed | 2024-03-10T03:47:34Z |
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| last_indexed | 2024-03-10T03:47:34Z |
| publishDate | 2022-04-01 |
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| series | Horticulturae |
| spelling | doaj.art-b1fd6f20f93e44eb89a25fbadc58c1612023-11-23T11:16:22ZengMDPI AGHorticulturae2311-75242022-04-018538110.3390/horticulturae8050381Genome-Wide Characterization Analysis of <i>CCT</i> Genes in <i>Raphanus sativus</i> and Their Potential Role in Flowering and Abiotic Stress ResponseQunyun Tan0Zhengjin He1Shiyong Mei2Jifang Zhang3Institute of Bast Fiber Crops, Chinese Academy of Agricultural Science, Changsha 410205, ChinaInstitute of Bast Fiber Crops, Chinese Academy of Agricultural Science, Changsha 410205, ChinaInstitute of Bast Fiber Crops, Chinese Academy of Agricultural Science, Changsha 410205, ChinaInstitute of Bast Fiber Crops, Chinese Academy of Agricultural Science, Changsha 410205, China<i>CCT</i> genes play vital roles in flowering, plant growth, development, and response to abiotic stresses. Although they have been reported in many plants, the characterization and expression pattern of <i>CCT</i> genes is still limited in <i>R. sativus</i>. In this study, a total of 58 <i>CCT</i> genes were identified in <i>R. sativus</i>. Phylogenetic tree, gene structure, and conserved domains revealed that all <i>CCT</i> genes were classified into three groups: <i>COL</i>, <i>CMF</i>, and <i>PRR</i>. Genome-wide identification and evolutionary analysis showed that segmental duplication expanded the <i>CCT</i> gene families considerably, with the LF subgenome retaining more <i>CCT</i> genes. We observed strong purifying selection pressure for <i>CCT</i> genes. <i>RsCCT</i> genes showed tissue specificity, and some genes (such as <i>RsCCT22</i>, <i>RsCCT36</i>, <i>RsCCT42</i> and <i>RsCCT51</i>) were highly expressed in flowers. Promoter cis-elements and RNA-seq data analysis showed that <i>RsCCT</i> genes could play roles in controlling flowering through the photoperiodic pathway and vernalization pathway. The expression profiles of <i>RsCCT</i> genes under Cd, Cr, Pb, and heat and salt stresses revealed that many <i>RsCCT</i> genes could respond to one or more abiotic stresses. Our findings could provide essential information for further studies on the function of <i>RsCCT</i> genes.https://www.mdpi.com/2311-7524/8/5/381<i>CCT</i> generadishevolutiongene expressionabiotic stress |
| spellingShingle | Qunyun Tan Zhengjin He Shiyong Mei Jifang Zhang Genome-Wide Characterization Analysis of <i>CCT</i> Genes in <i>Raphanus sativus</i> and Their Potential Role in Flowering and Abiotic Stress Response Horticulturae <i>CCT</i> gene radish evolution gene expression abiotic stress |
| title | Genome-Wide Characterization Analysis of <i>CCT</i> Genes in <i>Raphanus sativus</i> and Their Potential Role in Flowering and Abiotic Stress Response |
| title_full | Genome-Wide Characterization Analysis of <i>CCT</i> Genes in <i>Raphanus sativus</i> and Their Potential Role in Flowering and Abiotic Stress Response |
| title_fullStr | Genome-Wide Characterization Analysis of <i>CCT</i> Genes in <i>Raphanus sativus</i> and Their Potential Role in Flowering and Abiotic Stress Response |
| title_full_unstemmed | Genome-Wide Characterization Analysis of <i>CCT</i> Genes in <i>Raphanus sativus</i> and Their Potential Role in Flowering and Abiotic Stress Response |
| title_short | Genome-Wide Characterization Analysis of <i>CCT</i> Genes in <i>Raphanus sativus</i> and Their Potential Role in Flowering and Abiotic Stress Response |
| title_sort | genome wide characterization analysis of i cct i genes in i raphanus sativus i and their potential role in flowering and abiotic stress response |
| topic | <i>CCT</i> gene radish evolution gene expression abiotic stress |
| url | https://www.mdpi.com/2311-7524/8/5/381 |
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