Genome-wide investigation of the AP2/ERF gene family in tartary buckwheat (Fagopyum Tataricum)
Abstract Background AP2/ERF transcription factors perform indispensable functions in various biological processes, such as plant growth, development, biotic and abiotic stresses responses. The AP2/ERF transcription factor family has been identified in many plants, and several AP2/ERF transcription f...
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| Format: | Article |
| Language: | English |
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BMC
2019-02-01
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| Series: | BMC Plant Biology |
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| Online Access: | http://link.springer.com/article/10.1186/s12870-019-1681-6 |
| _version_ | 1818524445867769856 |
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| author | Moyang Liu Wenjun Sun Zhaotang Ma Tianrun Zheng Li Huang Qi Wu Gang Zhao Zizhong Tang Tongliang Bu Chenglei Li Hui Chen |
| author_facet | Moyang Liu Wenjun Sun Zhaotang Ma Tianrun Zheng Li Huang Qi Wu Gang Zhao Zizhong Tang Tongliang Bu Chenglei Li Hui Chen |
| author_sort | Moyang Liu |
| collection | DOAJ |
| description | Abstract Background AP2/ERF transcription factors perform indispensable functions in various biological processes, such as plant growth, development, biotic and abiotic stresses responses. The AP2/ERF transcription factor family has been identified in many plants, and several AP2/ERF transcription factors from Arabidopsis thaliana (A. thaliana) have been functionally characterized. However, little research has been conducted on the AP2/ERF genes of tartary buckwheat (Fagopyum tataricum), which is an important edible and medicinal crop. The recently published whole genome sequence of tartary buckwheat allowed us to study the tissue and expression profiles of AP2/ERF genes in tartary buckwheat on a genome-wide basis. Results In this study, 134 AP2/ERF genes of tartary buckwheat (FtAP2/ERF) were identified and renamed according to the chromosomal distribution of the FtAP2/ERF genes. According to the number conserved domains and gene structure, the AP2/ERF genes were divided into three subfamilies by phylogenetic tree analysis, namely, AP2 (15 members), ERF (116 members) and RAV (3 members). A total of 10 motifs were detected in tartary buckwheat AP2/ERF genes, and some of the unique motifs were found to be important for the function of AP2/ERF genes. Conclusion A comprehensive analysis of AP2/ERF gene expression patterns in different tissues and fruit development stages by quantitative real-time PCR (qRT-PCR) showed that they played an important role in the growth and development of tartary buckwheat, and genes that might regulate flower and fruit development were preliminarily identified. This systematic analysis establishes a foundation for further studies of the functional characteristics of FtAP2/ERF genes and improvement of tartary buckwheat crops. |
| first_indexed | 2024-12-11T05:57:14Z |
| format | Article |
| id | doaj.art-52d3c95caad54f338d8fb7ab19cb3d70 |
| institution | Directory Open Access Journal |
| issn | 1471-2229 |
| language | English |
| last_indexed | 2024-12-11T05:57:14Z |
| publishDate | 2019-02-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Plant Biology |
| spelling | doaj.art-52d3c95caad54f338d8fb7ab19cb3d702022-12-22T01:18:38ZengBMCBMC Plant Biology1471-22292019-02-0119111910.1186/s12870-019-1681-6Genome-wide investigation of the AP2/ERF gene family in tartary buckwheat (Fagopyum Tataricum)Moyang Liu0Wenjun Sun1Zhaotang Ma2Tianrun Zheng3Li Huang4Qi Wu5Gang Zhao6Zizhong Tang7Tongliang Bu8Chenglei Li9Hui Chen10College of Life Science, Sichuan Agricultural UniversityCollege of Life Science, Sichuan Agricultural UniversityCollege of Life Science, Sichuan Agricultural UniversityCollege of Life Science, Sichuan Agricultural UniversityCollege of Life Science, Sichuan Agricultural UniversityCollege of Life Science, Sichuan Agricultural UniversityCollege of Biological Industry, Chengdu UniversityCollege of Life Science, Sichuan Agricultural UniversityCollege of Life Science, Sichuan Agricultural UniversityCollege of Life Science, Sichuan Agricultural UniversityCollege of Life Science, Sichuan Agricultural UniversityAbstract Background AP2/ERF transcription factors perform indispensable functions in various biological processes, such as plant growth, development, biotic and abiotic stresses responses. The AP2/ERF transcription factor family has been identified in many plants, and several AP2/ERF transcription factors from Arabidopsis thaliana (A. thaliana) have been functionally characterized. However, little research has been conducted on the AP2/ERF genes of tartary buckwheat (Fagopyum tataricum), which is an important edible and medicinal crop. The recently published whole genome sequence of tartary buckwheat allowed us to study the tissue and expression profiles of AP2/ERF genes in tartary buckwheat on a genome-wide basis. Results In this study, 134 AP2/ERF genes of tartary buckwheat (FtAP2/ERF) were identified and renamed according to the chromosomal distribution of the FtAP2/ERF genes. According to the number conserved domains and gene structure, the AP2/ERF genes were divided into three subfamilies by phylogenetic tree analysis, namely, AP2 (15 members), ERF (116 members) and RAV (3 members). A total of 10 motifs were detected in tartary buckwheat AP2/ERF genes, and some of the unique motifs were found to be important for the function of AP2/ERF genes. Conclusion A comprehensive analysis of AP2/ERF gene expression patterns in different tissues and fruit development stages by quantitative real-time PCR (qRT-PCR) showed that they played an important role in the growth and development of tartary buckwheat, and genes that might regulate flower and fruit development were preliminarily identified. This systematic analysis establishes a foundation for further studies of the functional characteristics of FtAP2/ERF genes and improvement of tartary buckwheat crops.http://link.springer.com/article/10.1186/s12870-019-1681-6Tartary buckwheatFtAP2/ERFGenome-wideFruit developmentExpression patterns |
| spellingShingle | Moyang Liu Wenjun Sun Zhaotang Ma Tianrun Zheng Li Huang Qi Wu Gang Zhao Zizhong Tang Tongliang Bu Chenglei Li Hui Chen Genome-wide investigation of the AP2/ERF gene family in tartary buckwheat (Fagopyum Tataricum) BMC Plant Biology Tartary buckwheat FtAP2/ERF Genome-wide Fruit development Expression patterns |
| title | Genome-wide investigation of the AP2/ERF gene family in tartary buckwheat (Fagopyum Tataricum) |
| title_full | Genome-wide investigation of the AP2/ERF gene family in tartary buckwheat (Fagopyum Tataricum) |
| title_fullStr | Genome-wide investigation of the AP2/ERF gene family in tartary buckwheat (Fagopyum Tataricum) |
| title_full_unstemmed | Genome-wide investigation of the AP2/ERF gene family in tartary buckwheat (Fagopyum Tataricum) |
| title_short | Genome-wide investigation of the AP2/ERF gene family in tartary buckwheat (Fagopyum Tataricum) |
| title_sort | genome wide investigation of the ap2 erf gene family in tartary buckwheat fagopyum tataricum |
| topic | Tartary buckwheat FtAP2/ERF Genome-wide Fruit development Expression patterns |
| url | http://link.springer.com/article/10.1186/s12870-019-1681-6 |
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