Dokument: Cell-type specific epi-genomic studies in Arabidopsis thaliana
| Titel: | Cell-type specific epi-genomic studies in Arabidopsis thaliana | |||||||
| URL für Lesezeichen: | https://docserv.uni-duesseldorf.de/servlets/DocumentServlet?id=53234 | |||||||
| URN (NBN): | urn:nbn:de:hbz:061-20200520-105932-8 | |||||||
| Kollektion: | Dissertationen | |||||||
| Sprache: | Englisch | |||||||
| Dokumententyp: | Wissenschaftliche Abschlussarbeiten » Dissertation | |||||||
| Medientyp: | Text | |||||||
| Autor: | Dr. Fu, Yu [Autor] | |||||||
| Dateien: |
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| Beitragende: | Prof. Dr. Schubert, Daniel [Gutachter] Prof. Dr. Simon, Rüdiger [Gutachter] | |||||||
| Stichwörter: | Cell-type specific, Epigenetic, genome, Arabidopsis | |||||||
| Dewey Dezimal-Klassifikation: | 500 Naturwissenschaften und Mathematik » 570 Biowissenschaften; Biologie | |||||||
| Beschreibung: | As multicellular organisms, plants harbor various cell types that are all derived from the undifferentiated stem cells in different stem cell niches. Distinct cell types acquire cell identity via transcription and post-transcription regulations. Therefore, profiling the transcriptome and epigenome of specific cell types is essential for characterizing the mechanisms of cell fate determination and cell-type specific responses.
In this study, we adopted the INTACT (Isolation of Nuclei Tagged in specific Cell Types) technique to isolate stem cell populations and abaxial cells of the Arabidopsis shoot apex. Together with high-throughput sequencing, we generated transcriptome and H3K4me3 and H3K27me3 genome-wide profiles in stem cells, abaxial cells, and other tissues apart from abaxial cells. Although the INTACT method was not suitable to elucidate stem cell transcriptomic and epigenomic patterns, we observed dynamic of transcription as well as H3K4me3 and H3K27me3 between abaxial cells and other non-abaxial tissues. Not only we confirmed the known regulatory network underlying the abaxial cell specification, but we also found other candidate genes that may restrict the spatial expression pattern of abaxial/adaxial determinants. In addition, we observed that the regulators of double-stranded RNA biogenesis were exclusively expressed in abaxial cells, suggesting that dsRNA might be generated in the abaxial side and move to other tissues. Apart from analyzing gene regulatory networks underlying abaxial cell fate determination, we also took advantage of the high level of homogeneous cells among INTACT-isolated abaxial cells and analyzed the detailed distribution of chromatin state (H3K4me3 and H3K27me3). Besides the enrichment of H3K4me3 at gene coding regions, we identified hundreds of intergenic regions were also enriched in H3K4me3, whereas an LBD (LOB DOMAIN) motif is significantly enriched. Furthermore, we scrutinized the broad H3K4me3 domains which were previously shown to be linked with certain cell fate identity in mammalian cells. Despite the enrichment of photosynthesis and response genes within broad H3K4me3 targets, we found no clear indication of the association of cell identity and broad H3K4me3 in this study. Overall, this study generated high-resolution transcriptome and H3K4me3 and H3K27me3 profiles of abaxial cells and revealed dynamic regulations on abaxial cell identity. | |||||||
| Lizenz: |  Urheberrechtsschutz | |||||||
| Fachbereich / Einrichtung: | Mathematisch- Naturwissenschaftliche Fakultät » WE Biologie | |||||||
| Dokument erstellt am: | 20.05.2020 | |||||||
| Dateien geändert am: | 20.05.2020 | |||||||
| Promotionsantrag am: | 19.12.2019 | |||||||
| Datum der Promotion: | 14.05.2020 |
