Genome-wide identification and expression analysis of ARF gene family in embryonic development of Korean pine (Pinus koraiensis)
Abstract Background The Auxin Responsive Factor (ARF) family plays a crucial role in mediating auxin signal transduction and is vital for plant growth and development. However, the function of ARF genes in Korean pine (Pinus koraiensis), a conifer species of significant economic value, remains uncle...
| Main Authors: | , , , |
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| Format: | Article |
| Language: | English |
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BMC
2024-04-01
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| Series: | BMC Plant Biology |
| Subjects: | |
| Online Access: | https://doi.org/10.1186/s12870-024-04827-w |
| _version_ | 1797209498432045056 |
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| author | Yue Zhang Wei Wu Hailong Shen Ling Yang |
| author_facet | Yue Zhang Wei Wu Hailong Shen Ling Yang |
| author_sort | Yue Zhang |
| collection | DOAJ |
| description | Abstract Background The Auxin Responsive Factor (ARF) family plays a crucial role in mediating auxin signal transduction and is vital for plant growth and development. However, the function of ARF genes in Korean pine (Pinus koraiensis), a conifer species of significant economic value, remains unclear. Results This study utilized the whole genome of Korean pine to conduct bioinformatics analysis, resulting in the identification of 13 ARF genes. A phylogenetic analysis revealed that these 13 PkorARF genes can be classified into 4 subfamilies, indicating the presence of conserved structural characteristics within each subfamily. Protein interaction prediction indicated that Pkor01G00962.1 and Pkor07G00704.1 may have a significant role in regulating plant growth and development as core components of the PkorARFs family. Additionally, the analysis of RNA-seq and RT-qPCR expression patterns suggested that PkorARF genes play a crucial role in the development process of Korean pine. Conclusion Pkor01G00962.1 and Pkor07G00704.1, which are core genes of the PkorARFs family, play a potentially crucial role in regulating the fertilization and developmental process of Korean pine. This study provides a valuable reference for investigating the molecular mechanism of embryonic development in Korean pine and establishes a foundation for cultivating high-quality Korean pine. |
| first_indexed | 2024-04-24T09:55:39Z |
| format | Article |
| id | doaj.art-b693956b35e347e79d82bc40acd20ac0 |
| institution | Directory Open Access Journal |
| issn | 1471-2229 |
| language | English |
| last_indexed | 2024-04-24T09:55:39Z |
| publishDate | 2024-04-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Plant Biology |
| spelling | doaj.art-b693956b35e347e79d82bc40acd20ac02024-04-14T11:11:43ZengBMCBMC Plant Biology1471-22292024-04-0124111210.1186/s12870-024-04827-wGenome-wide identification and expression analysis of ARF gene family in embryonic development of Korean pine (Pinus koraiensis)Yue Zhang0Wei Wu1Hailong Shen2Ling Yang3State Key Laboratory of Tree Genetics and Breeding, College of Forestry, Northeast Forestry UniversityState Key Laboratory of Tree Genetics and Breeding, College of Forestry, Northeast Forestry UniversityState Forestry and Grassland Administration Engineering Technology Research Center of Korean PineState Key Laboratory of Tree Genetics and Breeding, College of Forestry, Northeast Forestry UniversityAbstract Background The Auxin Responsive Factor (ARF) family plays a crucial role in mediating auxin signal transduction and is vital for plant growth and development. However, the function of ARF genes in Korean pine (Pinus koraiensis), a conifer species of significant economic value, remains unclear. Results This study utilized the whole genome of Korean pine to conduct bioinformatics analysis, resulting in the identification of 13 ARF genes. A phylogenetic analysis revealed that these 13 PkorARF genes can be classified into 4 subfamilies, indicating the presence of conserved structural characteristics within each subfamily. Protein interaction prediction indicated that Pkor01G00962.1 and Pkor07G00704.1 may have a significant role in regulating plant growth and development as core components of the PkorARFs family. Additionally, the analysis of RNA-seq and RT-qPCR expression patterns suggested that PkorARF genes play a crucial role in the development process of Korean pine. Conclusion Pkor01G00962.1 and Pkor07G00704.1, which are core genes of the PkorARFs family, play a potentially crucial role in regulating the fertilization and developmental process of Korean pine. This study provides a valuable reference for investigating the molecular mechanism of embryonic development in Korean pine and establishes a foundation for cultivating high-quality Korean pine.https://doi.org/10.1186/s12870-024-04827-wKorean pine (Pinus koraiensis)Auxin response factorGene familyPhylogenetic analysisExpression analysisEmbryonic development |
| spellingShingle | Yue Zhang Wei Wu Hailong Shen Ling Yang Genome-wide identification and expression analysis of ARF gene family in embryonic development of Korean pine (Pinus koraiensis) BMC Plant Biology Korean pine (Pinus koraiensis) Auxin response factor Gene family Phylogenetic analysis Expression analysis Embryonic development |
| title | Genome-wide identification and expression analysis of ARF gene family in embryonic development of Korean pine (Pinus koraiensis) |
| title_full | Genome-wide identification and expression analysis of ARF gene family in embryonic development of Korean pine (Pinus koraiensis) |
| title_fullStr | Genome-wide identification and expression analysis of ARF gene family in embryonic development of Korean pine (Pinus koraiensis) |
| title_full_unstemmed | Genome-wide identification and expression analysis of ARF gene family in embryonic development of Korean pine (Pinus koraiensis) |
| title_short | Genome-wide identification and expression analysis of ARF gene family in embryonic development of Korean pine (Pinus koraiensis) |
| title_sort | genome wide identification and expression analysis of arf gene family in embryonic development of korean pine pinus koraiensis |
| topic | Korean pine (Pinus koraiensis) Auxin response factor Gene family Phylogenetic analysis Expression analysis Embryonic development |
| url | https://doi.org/10.1186/s12870-024-04827-w |
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