Characterization and expression profiles of miRNAs in the triploid hybrids of Brassica napus and Brassica rapa
Abstract Background Polyploidy provides a means of interspecific genome transfer to incorporate preferable traits from progenitor to progeny. However, few studies on miRNA expression profiles of interspecific hybrids of B. napus (AnAnCnCn) and B. rapa (ArAr) have been reported. Results Here, we appl...
| Main Authors: | , , , , , |
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| Format: | Article |
| Language: | English |
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BMC
2019-08-01
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| Series: | BMC Genomics |
| Subjects: | |
| Online Access: | http://link.springer.com/article/10.1186/s12864-019-6001-x |
| _version_ | 1818261955666771968 |
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| author | Libin Zhang Jun Zou Shisheng Li Baoshan Wang Nadia Raboanatahiry Maoteng Li |
| author_facet | Libin Zhang Jun Zou Shisheng Li Baoshan Wang Nadia Raboanatahiry Maoteng Li |
| author_sort | Libin Zhang |
| collection | DOAJ |
| description | Abstract Background Polyploidy provides a means of interspecific genome transfer to incorporate preferable traits from progenitor to progeny. However, few studies on miRNA expression profiles of interspecific hybrids of B. napus (AnAnCnCn) and B. rapa (ArAr) have been reported. Results Here, we apply small RNA sequencing to explore miRNA expression patterns between B. napus, B. rapa and their F1 hybrid. Bioinformatics analysis identified 376, 378, 383 conserved miRNAs and 82, 76, 82 novel miRNAs in B. napus, B. rapa and the F1 hybrid, respectively. Moreover, 213 miRNAs were found to be differentially expressed between B. napus, B. rapa and the F1 hybrid. The present study also shows 211 miRNAs, including 77 upregulated and 134 downregulated miRNAs, to be nonadditively expressed in the F1 hybrid. Furthermore, miRNA synteny analysis revealed high genomic conservation between the genomes of B. napus, B. rapa and their F1 hybrid, with some miRNA loss and gain events in the F1 hybrid. Conclusions This study not only provides useful resources for exploring global miRNA expression patterns and genome structure but also facilitates genetic research on the roles of miRNAs in genomic interactions of Brassica allopolyploids. |
| first_indexed | 2024-12-12T18:55:27Z |
| format | Article |
| id | doaj.art-48113775f09243c588fb6058504fc4a8 |
| institution | Directory Open Access Journal |
| issn | 1471-2164 |
| language | English |
| last_indexed | 2024-12-12T18:55:27Z |
| publishDate | 2019-08-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Genomics |
| spelling | doaj.art-48113775f09243c588fb6058504fc4a82022-12-22T00:15:15ZengBMCBMC Genomics1471-21642019-08-0120111210.1186/s12864-019-6001-xCharacterization and expression profiles of miRNAs in the triploid hybrids of Brassica napus and Brassica rapaLibin Zhang0Jun Zou1Shisheng Li2Baoshan Wang3Nadia Raboanatahiry4Maoteng Li5College of Life Science and Technology, Huazhong University of Science and TechnologyCollege of Plant Science and Technology, Huazhong Agricultural UniversityHubei Collaborative Innovation Center for the Characteristic Resources Exploitation of Dabie Mountains, Huanggang Normal UniversityCollege of Life Science, Shandong Normal UniversityCollege of Life Science and Technology, Huazhong University of Science and TechnologyCollege of Life Science and Technology, Huazhong University of Science and TechnologyAbstract Background Polyploidy provides a means of interspecific genome transfer to incorporate preferable traits from progenitor to progeny. However, few studies on miRNA expression profiles of interspecific hybrids of B. napus (AnAnCnCn) and B. rapa (ArAr) have been reported. Results Here, we apply small RNA sequencing to explore miRNA expression patterns between B. napus, B. rapa and their F1 hybrid. Bioinformatics analysis identified 376, 378, 383 conserved miRNAs and 82, 76, 82 novel miRNAs in B. napus, B. rapa and the F1 hybrid, respectively. Moreover, 213 miRNAs were found to be differentially expressed between B. napus, B. rapa and the F1 hybrid. The present study also shows 211 miRNAs, including 77 upregulated and 134 downregulated miRNAs, to be nonadditively expressed in the F1 hybrid. Furthermore, miRNA synteny analysis revealed high genomic conservation between the genomes of B. napus, B. rapa and their F1 hybrid, with some miRNA loss and gain events in the F1 hybrid. Conclusions This study not only provides useful resources for exploring global miRNA expression patterns and genome structure but also facilitates genetic research on the roles of miRNAs in genomic interactions of Brassica allopolyploids.http://link.springer.com/article/10.1186/s12864-019-6001-xB. rapaB. napusHybridMicroRNAsSmall RNA sequencing |
| spellingShingle | Libin Zhang Jun Zou Shisheng Li Baoshan Wang Nadia Raboanatahiry Maoteng Li Characterization and expression profiles of miRNAs in the triploid hybrids of Brassica napus and Brassica rapa BMC Genomics B. rapa B. napus Hybrid MicroRNAs Small RNA sequencing |
| title | Characterization and expression profiles of miRNAs in the triploid hybrids of Brassica napus and Brassica rapa |
| title_full | Characterization and expression profiles of miRNAs in the triploid hybrids of Brassica napus and Brassica rapa |
| title_fullStr | Characterization and expression profiles of miRNAs in the triploid hybrids of Brassica napus and Brassica rapa |
| title_full_unstemmed | Characterization and expression profiles of miRNAs in the triploid hybrids of Brassica napus and Brassica rapa |
| title_short | Characterization and expression profiles of miRNAs in the triploid hybrids of Brassica napus and Brassica rapa |
| title_sort | characterization and expression profiles of mirnas in the triploid hybrids of brassica napus and brassica rapa |
| topic | B. rapa B. napus Hybrid MicroRNAs Small RNA sequencing |
| url | http://link.springer.com/article/10.1186/s12864-019-6001-x |
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