論文 - 詳細
| RRC ID | 73012 |
|---|---|
| 著者 | Sun D, Zhang J, He J, Geng Z, Li S, Zhang J, Li P, Zhang L, Wang Z, Wang L, Chen F, Song A. |
| タイトル | Whole-transcriptome profiles of Chrysanthemum seticuspe improve genome annotation and shed new light on mRNA-miRNA-lncRNA networks in ray florets and disc florets. |
| ジャーナル | BMC Plant Biol |
| Abstract |
BACKGROUND:Chrysanthemum seticuspe has emerged as a model plant species of cultivated chrysanthemums, especially for studies involving diploid and self-compatible pure lines (Gojo-0). Its genome was sequenced and assembled into chromosomes. However, the genome annotation of C. seticuspe still needs to be improved to elucidate the complex regulatory networks in this species. RESULTS:In addition to the 74,259 mRNAs annotated in the C. seticuspe genome, we identified 18,265 novel mRNAs, 51,425 novel lncRNAs, 501 novel miRNAs and 22,065 novel siRNAs. Two C-class genes and YABBY family genes were highly expressed in disc florets, while B-class genes were highly expressed in ray florets. A WGCNA was performed to identify the hub lncRNAs and mRNAs in ray floret- and disc floret-specific modules, and CDM19, BBX22, HTH, HSP70 and several lncRNAs were identified. ceRNA and lncNAT networks related to flower development were also constructed, and we found a latent functional lncNAT-mRNA combination, LXLOC_026470 and MIF2. CONCLUSIONS:The annotations of mRNAs, lncRNAs and small RNAs in the C. seticuspe genome have been improved. The expression profiles of flower development-related genes, ceRNA networks and lncNAT networks were identified, laying a foundation for elucidating the regulatory mechanisms underlying disc floret and ray floret formation. |
| 巻・号 | 22(1) |
| ページ | 515 |
| 公開日 | 2022-11-5 |
| DOI | 10.1186/s12870-022-03889-y |
| PII | 10.1186/s12870-022-03889-y |
| PMID | 36333790 |
| PMC | PMC9636758 |
| MeSH | Chrysanthemum* / genetics Chrysanthemum* / metabolism Gene Regulatory Networks MicroRNAs* / genetics MicroRNAs* / metabolism RNA, Long Noncoding* / genetics RNA, Long Noncoding* / metabolism RNA, Messenger / genetics RNA, Messenger / metabolism Transcriptome |
| IF | 3.497 |
| リソース情報 | |
| 広義キク属 | Gojo-0 |