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| Status |
Public on Oct 05, 2025 |
| Title |
Epigenomic and transcriptomic profiling of cnidocyte subtypes in the sea anemone Nematostella vectensis [RNA-Seq] |
| Organism |
Nematostella vectensis |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Cnidarians, including corals, sea anemones, and jellyfish, possess specialized stinging cells called cnidocytes that function in prey capture and defense. These cells represent a striking evolutionary innovation and include distinct types such as venom injecting nematocytes and mechanically acting spirocytes. While their biomechanics and transcriptional regulation have been studied extensively, little is known about their epigenetic regulation. Here, we combined epigenetic profiling with RNA sequencing in the sea anemone Nematostella vectensis to explore regulatory programs underlying cnidocyte diversity. We identified cell type specific regulatory elements in promoter and enhancer regions and linked them to distinct gene expression programs. This analysis revealed fundamental differences between nematocytes and spirocytes and uncovered a previously unrecognized nematocyte population that expresses the nep3 toxin but lacks most other toxins. These findings highlight the complexity of cnidocyte regulation and suggest greater cellular diversity within this defining cnidarian cell type than previously appreciated.
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| Overall design |
This study investigates the chromatin and transcriptional programs underlying cnidocyte specialization in the sea anemone Nematostella vectensis. Cnidocyte types (Ncol3⁺ and Nep3⁺) and their negative counterparts were isolated from adult polyps by fluorescence activated cell sorting (FACS). CUT&Tag (H3K27ac) and RNA-seq were performed in four biological replicates per condition to identify cell type-specific regulatory regions and gene expression programs. The design allows direct comparisons between positive and negative populations for each reporter line.
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| Contributor(s) |
Kozlovski I, Jaimes-Becerra A, Aleshkina D, Levy M, Moran Y |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| BioProject |
PRJNA1333351 |
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| Submission date |
Sep 29, 2025 |
| Last update date |
Oct 06, 2025 |
| Contact name |
Itamar Kozlovski |
| E-mail(s) |
itamar.kozlovski@mail.huji.ac.il
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| Phone |
+972556619988
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| Organization name |
The Hebrew University of Jerusalem
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| Department |
Ecology, Evolution and Behavior
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| Street address |
Alexander Silberman Institute of Life Sciences
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| City |
Jerusalem |
| ZIP/Postal code |
9190401 |
| Country |
Israel |
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| Platforms (1) |
| GPL34897 |
NextSeq 2000 (Nematostella vectensis) |
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| Samples (18)
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| GSM9267655 |
RNA-seq of Ncol3-negative cells, replicate 1 |
| GSM9267656 |
RNA-seq of Ncol3-negative cells, replicate 2 |
| GSM9267657 |
RNA-seq of Ncol3-negative cells, replicate 3 |
| GSM9267658 |
RNA-seq of Ncol3-negative cells, replicate 4 |
| GSM9267659 |
RNA-seq of Ncol3-positive cells, replicate 1 |
| GSM9267660 |
RNA-seq of Ncol3-positive cells, replicate 2 |
| GSM9267661 |
RNA-seq of Ncol3-positive cells, replicate 3 |
| GSM9267662 |
RNA-seq of Ncol3-positive cells, replicate 4 |
| GSM9267663 |
RNA-seq of Nep3-negative cells, replicate 1 |
| GSM9267664 |
RNA-seq of Nep3-negative cells, replicate 2 |
| GSM9267665 |
RNA-seq of Nep3-negative cells, replicate 3 |
| GSM9267666 |
RNA-seq of Nep3-negative cells, replicate 4 |
| GSM9267667 |
RNA-seq of Nep3-negative cells, replicate 5 |
| GSM9267668 |
RNA-seq of Nep3-positive cells, replicate 1 |
| GSM9267669 |
RNA-seq of Nep3-positive cells, replicate 2 |
| GSM9267670 |
RNA-seq of Nep3-positive cells, replicate 3 |
| GSM9267671 |
RNA-seq of Nep3-positive cells, replicate 4 |
| GSM9267672 |
RNA-seq of Nep3-positive cells, replicate 5 |
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| Supplementary file |
Size |
Download |
File type/resource |
| GSE309458_RNAseq_counts_matrix.txt.gz |
608.3 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
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