Data · dataset · 2026
<p>scRNA-seq reveals subcellular distribution of RNAs.</p>
Listed in ZivaHub
<p><b>(A)</b> Retina Wrapping glia Gal4 driving expression of membrane-bound GFP (cyan), RedStinger (nuclear, yellow), and Repo (magenta) to identify glial cells.
Description
The dashed line shows where the optic lobe and eye-disc were separated during dissection prior to the sequencing of the optic lobe. <b>(B)</b> Chiasm glia Gal4 driving expression of membrane-bound GFP (green) and Repo antibody (magenta). The white dashed line shows the position of chiasm glia cell bodies. <b>(C)</b> Cortex glia-Gal4 (<i>Cyp4g15</i>-Gal4) driving expression of GFP (cyan).
Repo antibody (magenta) and Ncad show the position of the medulla neuropil (yellow). Some cortex glia somas are indicated by a white arrowhead. <b>(D)</b> Schematic representation of glial cell fragmentation and the formation of nonnucleated fragments containing mRNA. Large cells such as glia can be fragmented due to mechanical stress during the dissociation process (dashed line).
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Both the nucleated and nonnucleated fragments contain mRNA molecules that can be sequenced by single-cell methods. <b>(E–P)</b> Violin plots comparing Chiasm_CB and Chiasm_PC (E–G and K–N) or Cortex_CB and Cortex_PC (H–J, O and P). Statistics by Wilcox-test, <i>p</i>-value < 0.00005 = ****, <i>p</i>-value > 0.05 = non-significant (ns). The blue bar represents the median.
(E) Number of UMIs per cell. Chiasm_CB has significantly more UMIs than Chiasm_PC. (F) Expression level of repo.
Chiasm_CB contains significantly more repo than Chiasm_PC. (G) Percentage of reads that align to all transcription factors (TFs). Chiasm_CB has significantly more reads than Chiasm_PC.
(H) Number of UMIs per cell. Cortex_CB has significantly more UMIs than Cortex_PC. (I) Expression level of <i>repo</i>.
Cortex_CB contains significantly higher <i>repo</i> than Cortex_PC. (J) Percentage of reads that align to all TFs. Cortex_CB has significantly more reads than Cortex_PC.
(K) Expression level of <i>Act5C</i>. Chiasm_PC contains significantly more <i>Act5C</i> than Chiasm_CB. (L) Expression level of <i>FK506-bp2</i>.
Chiasm_PC contains significantly higher <i>FK506-bp2</i> than Chiasm_CB. (M) Expression level of <i>CG14598</i>. Both clusters have similar levels of <i>CG14598</i>.
(N) Percentage of valid reads mapping to introns. Chiasm_CB has significantly more introns than Chiasm_PC. (O) Expression level of <i>fabp</i>.
Cortex_PC contains significantly higher <i>fabp</i> than Cortex_CB. (P) Expression level of <i>FK506-bp2</i>. Cortex_PC contains significantly higher <i>FK506-bp2</i> than Cortex_CB. <b>(Q)</b> HCR RNA FISH of the L3 optic lobe expressing membrane-bound GFP in chiasm glia.
Yellow outlines highlight chiasm glia nuclei. Arrows point to chiasm glia processes. Hoechst shows nuclei of all cells (blue). <i>DAT</i>-Gal4 drives membrane-bound GFP (gray) expression in chiasm glia. <i>GFP</i> mRNA was detected by FISH. <b>(Q’)</b> <i>repo</i> mRNA is found around the nuclei, but not in the processes of chiasm glia. <b>(Q’’)</b> <i>CG14598</i> mRNA is found around the nuclei and in the processes of chiasm glia.
(Q’’’) Merged image, <i>repo</i> (magenta), <i>GFP</i> (cyan), and <i>CG14598</i> (yellow). Scale bar = 20 µm. The code used to generate the graphs can be found at <a href="zenodo.org/records/21890456" target="_blank">zenodo.org/records/21890456</a>.</p>
Links
Where it is published
- DOI doi.org/10.1371/journal.pbio.3004015.g006 ↗
DOI / persistent id · from zivahub uct ac za
Catalogue records · 1
- OAI-PMH record api.figshare.com/v2/oai?verb=GetRecord&metadataPrefix=oai_dc&identifier=oai%3Af… ↗
metadata API · from zivahub uct ac za
Topics
- From keywords
- Biochemistry and cell biology · Cancer · Earth & Environmental Science · Genetics · Life Sciences · Medicine & Health · Plant biology
- Inferred from text
- Image 75% · Sequencing 75% · Single-cell RNA sequencing 65%
Provenance · 1 source records, 15 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| ZivaHub | oai:figshare.com:article/34017691 | 10 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · zivahub uct ac za | connector:zivahub_uct_ac_za@1.0.0 | |
| concepts[disease].local:disease:cancer | mapping · zivahub uct ac za | vocabulary-mapper@1.0.0 | keywords['Cancer'] |
| concepts[field].anzsrc:group:3101 | mapping · zivahub uct ac za | vocabulary-mapper@1.0.0 | keywords['Cell Biology'] |
| concepts[field].anzsrc:group:3105 | mapping · zivahub uct ac za | vocabulary-mapper@1.0.0 | keywords['Genetics'] |
| concepts[field].anzsrc:group:3108 | mapping · zivahub uct ac za | vocabulary-mapper@1.0.0 | keywords['Plant Biology'] |
| concepts[field].local:field:earth-environmental | mapping · zivahub uct ac za | connector:zivahub_uct_ac_za@1.0.0 | |
| concepts[field].local:field:life-sciences | mapping · zivahub uct ac za | connector:zivahub_uct_ac_za@1.0.0 | |
| concepts[field].local:field:medicine-health | mapping · zivahub uct ac za | connector:zivahub_uct_ac_za@1.0.0 | |
| concepts[modality].local:modality:image | enrichment · zivahub uct ac za | keyword-concept-rules@1.0.0 | title+description (75%) |
| concepts[modality].local:modality:sequencing | enrichment · zivahub uct ac za | keyword-concept-rules@1.0.0 | title+description (75%) |
| concepts[modality].local:modality:single-cell-rna-seq | enrichment · zivahub uct ac za | keyword-concept-rules@1.0.0 | title+description (65%) |
| description | source · zivahub uct ac za | connector:zivahub_uct_ac_za@1.0.0 | /metadata/dc/description |
| license | source · zivahub uct ac za | connector:zivahub_uct_ac_za@1.0.0 | /metadata/dc/rights |
| publication_date | source · zivahub uct ac za | connector:zivahub_uct_ac_za@1.0.0 | |
| title | source · zivahub uct ac za | connector:zivahub_uct_ac_za@1.0.0 | /metadata/dc/title |