Genome wide identification and characterization of EPFL genes and its potential association with male sterility in Brassica rapa
Abstract The epidermal patterning factor-like (EPFL) gene family, encoding cysteine-rich polypeptides (CRPs), regulates diverse developmental processes in plants, including the control of stomatal density and the guidance of pollen tube elongation. To investigate its potential association with male...
Saved in:
| Main Authors: | , , , , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Nature Portfolio
2025-07-01
|
| Series: | Scientific Reports |
| Subjects: | |
| Online Access: | https://doi.org/10.1038/s41598-025-09555-1 |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
| _version_ | 1849335114504339456 |
|---|---|
| author | Kang Wang Yongkang Wang Xiaoyan Tang Na Liao Danni Yang Wenjie Wang Lingyun Yuan Jinfeng Hou Jianqiang Wu Chenggang Wang Guohu Chen |
| author_facet | Kang Wang Yongkang Wang Xiaoyan Tang Na Liao Danni Yang Wenjie Wang Lingyun Yuan Jinfeng Hou Jianqiang Wu Chenggang Wang Guohu Chen |
| author_sort | Kang Wang |
| collection | DOAJ |
| description | Abstract The epidermal patterning factor-like (EPFL) gene family, encoding cysteine-rich polypeptides (CRPs), regulates diverse developmental processes in plants, including the control of stomatal density and the guidance of pollen tube elongation. To investigate its potential association with male sterility in Brassica rapa, we performed a comprehensive genome-wide identification using bioinformatics approaches. Our analysis revealed 14 BrEPFL members distributed across 8 of the 10 chromosomes. Phylogenetic analysis of EPFL proteins from 15 Brassicaceae species classified 204 orthologous genes into six distinct subfamilies, revealing their evolutionary conservation across crucifers. Syntenic collinearity and nonsynonymous/synonymous (Ka/Ks) analyses identified 63 orthologous gene pairs between B. rapa and three other species, all of which have undergone strong purifying selection during evolution. Tissue-specific expression profiling through RNA-seq and RT-qPCR demonstrated that most BrEPFL genes exhibit predominant expression in reproductive tissues. Co-expression network analysis implicated three BrEPFL coexpressed genes (BraA07g025640.3 C, BraA09g052700.3 C, and BraA10g002620.3 C) in pollen development pathways. These findings may provide valuable information for the further understanding of BrEPFL functions in male sterility in B. rapa. |
| format | Article |
| id | doaj-art-f2d0d5fb2b764d47bcd5a930f66df294 |
| institution | Kabale University |
| issn | 2045-2322 |
| language | English |
| publishDate | 2025-07-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Scientific Reports |
| spelling | doaj-art-f2d0d5fb2b764d47bcd5a930f66df2942025-08-20T03:45:23ZengNature PortfolioScientific Reports2045-23222025-07-0115111210.1038/s41598-025-09555-1Genome wide identification and characterization of EPFL genes and its potential association with male sterility in Brassica rapaKang Wang0Yongkang Wang1Xiaoyan Tang2Na Liao3Danni Yang4Wenjie Wang5Lingyun Yuan6Jinfeng Hou7Jianqiang Wu8Chenggang Wang9Guohu Chen10Anhui Provincial Engineering Research Center of Horticultural Crop Breeding, College of Horticulture, Anhui Agricultural UniversityAnhui Provincial Engineering Research Center of Horticultural Crop Breeding, College of Horticulture, Anhui Agricultural UniversityAnhui Provincial Engineering Research Center of Horticultural Crop Breeding, College of Horticulture, Anhui Agricultural UniversityAnhui Provincial Engineering Research Center of Horticultural Crop Breeding, College of Horticulture, Anhui Agricultural UniversityAnhui Provincial Engineering Research Center of Horticultural Crop Breeding, College of Horticulture, Anhui Agricultural UniversityAnhui Provincial Engineering Research Center of Horticultural Crop Breeding, College of Horticulture, Anhui Agricultural UniversityAnhui Provincial Engineering Research Center of Horticultural Crop Breeding, College of Horticulture, Anhui Agricultural UniversityAnhui Provincial Engineering Research Center of Horticultural Crop Breeding, College of Horticulture, Anhui Agricultural UniversityAnhui Provincial Engineering Research Center of Horticultural Crop Breeding, College of Horticulture, Anhui Agricultural UniversityAnhui Provincial Engineering Research Center of Horticultural Crop Breeding, College of Horticulture, Anhui Agricultural UniversityAnhui Provincial Engineering Research Center of Horticultural Crop Breeding, College of Horticulture, Anhui Agricultural UniversityAbstract The epidermal patterning factor-like (EPFL) gene family, encoding cysteine-rich polypeptides (CRPs), regulates diverse developmental processes in plants, including the control of stomatal density and the guidance of pollen tube elongation. To investigate its potential association with male sterility in Brassica rapa, we performed a comprehensive genome-wide identification using bioinformatics approaches. Our analysis revealed 14 BrEPFL members distributed across 8 of the 10 chromosomes. Phylogenetic analysis of EPFL proteins from 15 Brassicaceae species classified 204 orthologous genes into six distinct subfamilies, revealing their evolutionary conservation across crucifers. Syntenic collinearity and nonsynonymous/synonymous (Ka/Ks) analyses identified 63 orthologous gene pairs between B. rapa and three other species, all of which have undergone strong purifying selection during evolution. Tissue-specific expression profiling through RNA-seq and RT-qPCR demonstrated that most BrEPFL genes exhibit predominant expression in reproductive tissues. Co-expression network analysis implicated three BrEPFL coexpressed genes (BraA07g025640.3 C, BraA09g052700.3 C, and BraA10g002620.3 C) in pollen development pathways. These findings may provide valuable information for the further understanding of BrEPFL functions in male sterility in B. rapa.https://doi.org/10.1038/s41598-025-09555-1Epidermal pattern building factor-likeComparative transcriptomic analysisBrassica rapaMale sterility |
| spellingShingle | Kang Wang Yongkang Wang Xiaoyan Tang Na Liao Danni Yang Wenjie Wang Lingyun Yuan Jinfeng Hou Jianqiang Wu Chenggang Wang Guohu Chen Genome wide identification and characterization of EPFL genes and its potential association with male sterility in Brassica rapa Scientific Reports Epidermal pattern building factor-like Comparative transcriptomic analysis Brassica rapa Male sterility |
| title | Genome wide identification and characterization of EPFL genes and its potential association with male sterility in Brassica rapa |
| title_full | Genome wide identification and characterization of EPFL genes and its potential association with male sterility in Brassica rapa |
| title_fullStr | Genome wide identification and characterization of EPFL genes and its potential association with male sterility in Brassica rapa |
| title_full_unstemmed | Genome wide identification and characterization of EPFL genes and its potential association with male sterility in Brassica rapa |
| title_short | Genome wide identification and characterization of EPFL genes and its potential association with male sterility in Brassica rapa |
| title_sort | genome wide identification and characterization of epfl genes and its potential association with male sterility in brassica rapa |
| topic | Epidermal pattern building factor-like Comparative transcriptomic analysis Brassica rapa Male sterility |
| url | https://doi.org/10.1038/s41598-025-09555-1 |
| work_keys_str_mv | AT kangwang genomewideidentificationandcharacterizationofepflgenesanditspotentialassociationwithmalesterilityinbrassicarapa AT yongkangwang genomewideidentificationandcharacterizationofepflgenesanditspotentialassociationwithmalesterilityinbrassicarapa AT xiaoyantang genomewideidentificationandcharacterizationofepflgenesanditspotentialassociationwithmalesterilityinbrassicarapa AT naliao genomewideidentificationandcharacterizationofepflgenesanditspotentialassociationwithmalesterilityinbrassicarapa AT danniyang genomewideidentificationandcharacterizationofepflgenesanditspotentialassociationwithmalesterilityinbrassicarapa AT wenjiewang genomewideidentificationandcharacterizationofepflgenesanditspotentialassociationwithmalesterilityinbrassicarapa AT lingyunyuan genomewideidentificationandcharacterizationofepflgenesanditspotentialassociationwithmalesterilityinbrassicarapa AT jinfenghou genomewideidentificationandcharacterizationofepflgenesanditspotentialassociationwithmalesterilityinbrassicarapa AT jianqiangwu genomewideidentificationandcharacterizationofepflgenesanditspotentialassociationwithmalesterilityinbrassicarapa AT chenggangwang genomewideidentificationandcharacterizationofepflgenesanditspotentialassociationwithmalesterilityinbrassicarapa AT guohuchen genomewideidentificationandcharacterizationofepflgenesanditspotentialassociationwithmalesterilityinbrassicarapa |