Genome-Wide Identification and Expression Pattern Analysis of the <i>TCP</i> Gene Family in Radish (<i>Raphanus sativus</i> L.)
TCP transcription factors are a unique transcription family in higher plants, and play important roles in plant development, responses to environmental stresses and phytohormones. Radish is an important crop and widely cultivated worldwide. However, genome-wide identification and expression analysis...
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| Format: | Article |
| Language: | English |
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MDPI AG
2022-07-01
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| Series: | Horticulturae |
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| Online Access: | https://www.mdpi.com/2311-7524/8/7/656 |
| _version_ | 1797446672299589632 |
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| author | Yi Mei Zhe Liu Jiaqiu Zheng Weiwei Wang Yanxia Zu Yongcheng Wu Lina Zhang Ruchao Feng Feng Shen |
| author_facet | Yi Mei Zhe Liu Jiaqiu Zheng Weiwei Wang Yanxia Zu Yongcheng Wu Lina Zhang Ruchao Feng Feng Shen |
| author_sort | Yi Mei |
| collection | DOAJ |
| description | TCP transcription factors are a unique transcription family in higher plants, and play important roles in plant development, responses to environmental stresses and phytohormones. Radish is an important crop and widely cultivated worldwide. However, genome-wide identification and expression analysis of TCP family in radish has not been reported yet. In this study, 32 <i>RsTCP</i> genes were identified from the whole genome. Phylogenetic analysis showed that the RsTCP family can be divided into two major groups and three subgroups, namely Class I (PCF), Class II (CIN), and Class II (CYC/TB1). Chromosome mapping showed that 32 genes were distributed on all nine chromosomes of radish. Transcriptome data indicated that the transcription of <i>RsTCP</i> genes differed between tissues and developmental stages. Multiple phytohormone-related <i>cis</i>-acting elements in the promoter region of <i>RsTCPs</i> and several post-translational modification sites in RsTCP protein sequences were identified. The real-time quantitative PCR (RT-qPCR) analysis indicated that several <i>RsTCP</i> genes changed significantly in response to the treatments, including low temperature, drought, salt, gibberellin (GA<sub>3</sub>), and abscisic acid. Among them, <i>RsTCP16</i> showed significantly higher levels in leaves than in other radish tissues, and the transcription of <i>RsTCP16</i> was significantly upregulated under the five treatments, especially during low temperature, salt shock, and GA<sub>3</sub> response, suggesting that <i>RsTCP16</i> could be involved in the development of radish leaves and the response to stress. In summary, these results provided a basis for further exploring the molecular mechanism of <i>RsTCP</i> genes in radish. |
| first_indexed | 2024-03-09T13:44:55Z |
| format | Article |
| id | doaj.art-22c9fe48603a4351b2a59251831114a2 |
| institution | Directory Open Access Journal |
| issn | 2311-7524 |
| language | English |
| last_indexed | 2024-03-09T13:44:55Z |
| publishDate | 2022-07-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Horticulturae |
| spelling | doaj.art-22c9fe48603a4351b2a59251831114a22023-11-30T21:01:47ZengMDPI AGHorticulturae2311-75242022-07-018765610.3390/horticulturae8070656Genome-Wide Identification and Expression Pattern Analysis of the <i>TCP</i> Gene Family in Radish (<i>Raphanus sativus</i> L.)Yi Mei0Zhe Liu1Jiaqiu Zheng2Weiwei Wang3Yanxia Zu4Yongcheng Wu5Lina Zhang6Ruchao Feng7Feng Shen8Jiangsu Coastal Area Institute of Agricultural Sciences, Yancheng 224002, ChinaJiangsu Coastal Area Institute of Agricultural Sciences, Yancheng 224002, ChinaJiangsu Coastal Area Institute of Agricultural Sciences, Yancheng 224002, ChinaJiangsu Coastal Area Institute of Agricultural Sciences, Yancheng 224002, ChinaJiangsu Coastal Area Institute of Agricultural Sciences, Yancheng 224002, ChinaJiangsu Coastal Area Institute of Agricultural Sciences, Yancheng 224002, ChinaJiangsu Coastal Area Institute of Agricultural Sciences, Yancheng 224002, ChinaJiangsu Coastal Area Institute of Agricultural Sciences, Yancheng 224002, ChinaJiangsu Coastal Area Institute of Agricultural Sciences, Yancheng 224002, ChinaTCP transcription factors are a unique transcription family in higher plants, and play important roles in plant development, responses to environmental stresses and phytohormones. Radish is an important crop and widely cultivated worldwide. However, genome-wide identification and expression analysis of TCP family in radish has not been reported yet. In this study, 32 <i>RsTCP</i> genes were identified from the whole genome. Phylogenetic analysis showed that the RsTCP family can be divided into two major groups and three subgroups, namely Class I (PCF), Class II (CIN), and Class II (CYC/TB1). Chromosome mapping showed that 32 genes were distributed on all nine chromosomes of radish. Transcriptome data indicated that the transcription of <i>RsTCP</i> genes differed between tissues and developmental stages. Multiple phytohormone-related <i>cis</i>-acting elements in the promoter region of <i>RsTCPs</i> and several post-translational modification sites in RsTCP protein sequences were identified. The real-time quantitative PCR (RT-qPCR) analysis indicated that several <i>RsTCP</i> genes changed significantly in response to the treatments, including low temperature, drought, salt, gibberellin (GA<sub>3</sub>), and abscisic acid. Among them, <i>RsTCP16</i> showed significantly higher levels in leaves than in other radish tissues, and the transcription of <i>RsTCP16</i> was significantly upregulated under the five treatments, especially during low temperature, salt shock, and GA<sub>3</sub> response, suggesting that <i>RsTCP16</i> could be involved in the development of radish leaves and the response to stress. In summary, these results provided a basis for further exploring the molecular mechanism of <i>RsTCP</i> genes in radish.https://www.mdpi.com/2311-7524/8/7/656radish<i>TCP</i> gene familygenome-wide analysisexpression profiling |
| spellingShingle | Yi Mei Zhe Liu Jiaqiu Zheng Weiwei Wang Yanxia Zu Yongcheng Wu Lina Zhang Ruchao Feng Feng Shen Genome-Wide Identification and Expression Pattern Analysis of the <i>TCP</i> Gene Family in Radish (<i>Raphanus sativus</i> L.) Horticulturae radish <i>TCP</i> gene family genome-wide analysis expression profiling |
| title | Genome-Wide Identification and Expression Pattern Analysis of the <i>TCP</i> Gene Family in Radish (<i>Raphanus sativus</i> L.) |
| title_full | Genome-Wide Identification and Expression Pattern Analysis of the <i>TCP</i> Gene Family in Radish (<i>Raphanus sativus</i> L.) |
| title_fullStr | Genome-Wide Identification and Expression Pattern Analysis of the <i>TCP</i> Gene Family in Radish (<i>Raphanus sativus</i> L.) |
| title_full_unstemmed | Genome-Wide Identification and Expression Pattern Analysis of the <i>TCP</i> Gene Family in Radish (<i>Raphanus sativus</i> L.) |
| title_short | Genome-Wide Identification and Expression Pattern Analysis of the <i>TCP</i> Gene Family in Radish (<i>Raphanus sativus</i> L.) |
| title_sort | genome wide identification and expression pattern analysis of the i tcp i gene family in radish i raphanus sativus i l |
| topic | radish <i>TCP</i> gene family genome-wide analysis expression profiling |
| url | https://www.mdpi.com/2311-7524/8/7/656 |
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