Comprehensive genome-wide identification and expression analysis of the EPF/EPFL gene family in oat
Abstract Epidermal pattern factor-like (EPF/EPFL) genes are a unique class of small, secreted peptides found in plants that play crucial roles in plant stress responses. A genome-wide analysis revealed 33 AsEPF/EPFL genes in oats (Avena sativa), with 28 containing the conserved EPF domain and 5 harb...
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BMC
2025-06-01
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| Series: | BMC Genomics |
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| Online Access: | https://doi.org/10.1186/s12864-025-11585-y |
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| author | Qingxue Jiang Lin Ma Siyuan Guo Xinyue Zhou Zhipeng Zhang Yanhong Cui Jun Tang Dengxia Yi Xuemin Wang |
| author_facet | Qingxue Jiang Lin Ma Siyuan Guo Xinyue Zhou Zhipeng Zhang Yanhong Cui Jun Tang Dengxia Yi Xuemin Wang |
| author_sort | Qingxue Jiang |
| collection | DOAJ |
| description | Abstract Epidermal pattern factor-like (EPF/EPFL) genes are a unique class of small, secreted peptides found in plants that play crucial roles in plant stress responses. A genome-wide analysis revealed 33 AsEPF/EPFL genes in oats (Avena sativa), with 28 containing the conserved EPF domain and 5 harbouring the stomagen domain. These proteins share 2–6 conserved motifs, reflecting functional modularity. The phylogenetic classification grouped these genes into five evolutionarily conserved clades containing both monocot and dicot homologues, indicating early divergence prior to monocot–dicot speciation. Expression profiling revealed distinct tissue-specific patterns: preferential expression in roots (12 genes), stems (6 genes), leaves (5 genes), and spikes (7 genes), with 3 genes showing dual peak expression in stems and leaves. Further analysis of gene expression under salt and drought stress revealed that AsEPF/EPFLs are induced by both types of stress, with different genes showing varying expression patterns under drought and salt stress. This study identified valuable candidate genes for high-yielding and stress-resistant oat breeding. |
| format | Article |
| id | doaj-art-e93a535587e1428084a3ed6b3e9d3efc |
| institution | Kabale University |
| issn | 1471-2164 |
| language | English |
| publishDate | 2025-06-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Genomics |
| spelling | doaj-art-e93a535587e1428084a3ed6b3e9d3efc2025-08-20T03:47:24ZengBMCBMC Genomics1471-21642025-06-0126111210.1186/s12864-025-11585-yComprehensive genome-wide identification and expression analysis of the EPF/EPFL gene family in oatQingxue Jiang0Lin Ma1Siyuan Guo2Xinyue Zhou3Zhipeng Zhang4Yanhong Cui5Jun Tang6Dengxia Yi7Xuemin Wang8Institute of Animal Sciences, Chinese Academy of Agricultural SciencesInstitute of Animal Sciences, Chinese Academy of Agricultural SciencesFaculty of Science, McMaster UniversityInstitute of Animal Sciences, Chinese Academy of Agricultural SciencesInstitute of Animal Sciences, Chinese Academy of Agricultural SciencesInstitute of Animal Sciences, Chinese Academy of Agricultural SciencesInstitute of Animal Sciences, Chinese Academy of Agricultural SciencesInstitute of Animal Sciences, Chinese Academy of Agricultural SciencesInstitute of Animal Sciences, Chinese Academy of Agricultural SciencesAbstract Epidermal pattern factor-like (EPF/EPFL) genes are a unique class of small, secreted peptides found in plants that play crucial roles in plant stress responses. A genome-wide analysis revealed 33 AsEPF/EPFL genes in oats (Avena sativa), with 28 containing the conserved EPF domain and 5 harbouring the stomagen domain. These proteins share 2–6 conserved motifs, reflecting functional modularity. The phylogenetic classification grouped these genes into five evolutionarily conserved clades containing both monocot and dicot homologues, indicating early divergence prior to monocot–dicot speciation. Expression profiling revealed distinct tissue-specific patterns: preferential expression in roots (12 genes), stems (6 genes), leaves (5 genes), and spikes (7 genes), with 3 genes showing dual peak expression in stems and leaves. Further analysis of gene expression under salt and drought stress revealed that AsEPF/EPFLs are induced by both types of stress, with different genes showing varying expression patterns under drought and salt stress. This study identified valuable candidate genes for high-yielding and stress-resistant oat breeding.https://doi.org/10.1186/s12864-025-11585-yAvena sativaEPF/EPFLDrought stressSalt stressExpression analysis |
| spellingShingle | Qingxue Jiang Lin Ma Siyuan Guo Xinyue Zhou Zhipeng Zhang Yanhong Cui Jun Tang Dengxia Yi Xuemin Wang Comprehensive genome-wide identification and expression analysis of the EPF/EPFL gene family in oat BMC Genomics Avena sativa EPF/EPFL Drought stress Salt stress Expression analysis |
| title | Comprehensive genome-wide identification and expression analysis of the EPF/EPFL gene family in oat |
| title_full | Comprehensive genome-wide identification and expression analysis of the EPF/EPFL gene family in oat |
| title_fullStr | Comprehensive genome-wide identification and expression analysis of the EPF/EPFL gene family in oat |
| title_full_unstemmed | Comprehensive genome-wide identification and expression analysis of the EPF/EPFL gene family in oat |
| title_short | Comprehensive genome-wide identification and expression analysis of the EPF/EPFL gene family in oat |
| title_sort | comprehensive genome wide identification and expression analysis of the epf epfl gene family in oat |
| topic | Avena sativa EPF/EPFL Drought stress Salt stress Expression analysis |
| url | https://doi.org/10.1186/s12864-025-11585-y |
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