Genome-wide identification, evolutionary expansion and expression divergence of the AP2/ERF gene family in loquat (Eriobotrya japonica)
Loquat (Eriobotrya japonica) is a subtropical evergreen fruit tree with high economic benefits and nutritional value. AP2/ERF (APETALA2/ethylene responsive factor) are a wide range of transcription factors found in plants, which play an important role in regulating plant development and biological p...
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Maximum Academic Press
2024-01-01
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| Series: | Fruit Research |
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| Online Access: | https://www.maxapress.com/article/doi/10.48130/frures-0024-0028 |
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| author | Yumeng Liu Linqi Cai Xiurun Fan Huiling Zhang Minghui Chen Yue Lin Junwei Chen Kai Xu Boping Wu |
| author_facet | Yumeng Liu Linqi Cai Xiurun Fan Huiling Zhang Minghui Chen Yue Lin Junwei Chen Kai Xu Boping Wu |
| author_sort | Yumeng Liu |
| collection | DOAJ |
| description | Loquat (Eriobotrya japonica) is a subtropical evergreen fruit tree with high economic benefits and nutritional value. AP2/ERF (APETALA2/ethylene responsive factor) are a wide range of transcription factors found in plants, which play an important role in regulating plant development and biological processes. However, the systematic identification and characterization of AP2/ERF genes in loquat remains unclear. In the present research, a total of 189 loquat AP2/ERF members were identified. According to the phylogenetic tree, these members were divided into three subfamilies, including AP2 (42), ERF (96), and DREB (51). Except for three genes located on the skeleton, most of the loquat AP2/ERF genes were unevenly distributed across all chromosomes. The collinearity results showed that 175 duplicate gene pairs were found in the AP2/ERF gene family of loquat. Ka/Ks results indicated that these genes underwent purification selection pressure. The syntenic analysis of AP2/ERF genes between Arabidopsis, pomegranate, peach, and loquat provided valuable clues for the potential evolution of AP2/ERF family in loquat. Cis-element analysis showed that most of the AP2/ERF genes in loquat had multiple cis-elements related to stress response, plant hormone signal transduction, and plant growth and development. Transcriptomic data indicated that the expression patterns of AP2/ERF genes exhibited diversity in different loquat cultivars during fruit development and ripening. The results of this study displayed the first comprehensive analysis of AP2/ERF genes in loquat, which provides a solid foundation for future research on the function of AP2/ERF genes in loquat. |
| format | Article |
| id | doaj-art-cc82dd9ffc3047c4be9650f3d5bcb9b6 |
| institution | DOAJ |
| issn | 2769-4615 |
| language | English |
| publishDate | 2024-01-01 |
| publisher | Maximum Academic Press |
| record_format | Article |
| series | Fruit Research |
| spelling | doaj-art-cc82dd9ffc3047c4be9650f3d5bcb9b62025-08-20T03:18:54ZengMaximum Academic PressFruit Research2769-46152024-01-014111110.48130/frures-0024-0028frures-0024-0028Genome-wide identification, evolutionary expansion and expression divergence of the AP2/ERF gene family in loquat (Eriobotrya japonica)Yumeng Liu0Linqi Cai1Xiurun Fan2Huiling Zhang3Minghui Chen4Yue Lin5Junwei Chen6Kai Xu7Boping Wu8Collaborative Innovation Center for Efficient and Green Production of Agriculture in Mountainous Areas of Zhejiang Province, College of Horticulture Science, Zhejiang A&F University, Hangzhou 311300, 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 311300, 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 311300, 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 311300, 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 311300, 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 311300, Zhejiang, ChinaInstitute of Horticulture, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, 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 311300, 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 311300, Zhejiang, ChinaLoquat (Eriobotrya japonica) is a subtropical evergreen fruit tree with high economic benefits and nutritional value. AP2/ERF (APETALA2/ethylene responsive factor) are a wide range of transcription factors found in plants, which play an important role in regulating plant development and biological processes. However, the systematic identification and characterization of AP2/ERF genes in loquat remains unclear. In the present research, a total of 189 loquat AP2/ERF members were identified. According to the phylogenetic tree, these members were divided into three subfamilies, including AP2 (42), ERF (96), and DREB (51). Except for three genes located on the skeleton, most of the loquat AP2/ERF genes were unevenly distributed across all chromosomes. The collinearity results showed that 175 duplicate gene pairs were found in the AP2/ERF gene family of loquat. Ka/Ks results indicated that these genes underwent purification selection pressure. The syntenic analysis of AP2/ERF genes between Arabidopsis, pomegranate, peach, and loquat provided valuable clues for the potential evolution of AP2/ERF family in loquat. Cis-element analysis showed that most of the AP2/ERF genes in loquat had multiple cis-elements related to stress response, plant hormone signal transduction, and plant growth and development. Transcriptomic data indicated that the expression patterns of AP2/ERF genes exhibited diversity in different loquat cultivars during fruit development and ripening. The results of this study displayed the first comprehensive analysis of AP2/ERF genes in loquat, which provides a solid foundation for future research on the function of AP2/ERF genes in loquat.https://www.maxapress.com/article/doi/10.48130/frures-0024-0028loquatap2/erfphylogenetic analysisexpression patterns |
| spellingShingle | Yumeng Liu Linqi Cai Xiurun Fan Huiling Zhang Minghui Chen Yue Lin Junwei Chen Kai Xu Boping Wu Genome-wide identification, evolutionary expansion and expression divergence of the AP2/ERF gene family in loquat (Eriobotrya japonica) Fruit Research loquat ap2/erf phylogenetic analysis expression patterns |
| title | Genome-wide identification, evolutionary expansion and expression divergence of the AP2/ERF gene family in loquat (Eriobotrya japonica) |
| title_full | Genome-wide identification, evolutionary expansion and expression divergence of the AP2/ERF gene family in loquat (Eriobotrya japonica) |
| title_fullStr | Genome-wide identification, evolutionary expansion and expression divergence of the AP2/ERF gene family in loquat (Eriobotrya japonica) |
| title_full_unstemmed | Genome-wide identification, evolutionary expansion and expression divergence of the AP2/ERF gene family in loquat (Eriobotrya japonica) |
| title_short | Genome-wide identification, evolutionary expansion and expression divergence of the AP2/ERF gene family in loquat (Eriobotrya japonica) |
| title_sort | genome wide identification evolutionary expansion and expression divergence of the ap2 erf gene family in loquat eriobotrya japonica |
| topic | loquat ap2/erf phylogenetic analysis expression patterns |
| url | https://www.maxapress.com/article/doi/10.48130/frures-0024-0028 |
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