ArticleBMC genomics2013
Characterization of differential transcript abundance through time during Nematostella vectensis development.
Article in BMC genomics, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 45 papers.
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Who cites it
45 citing papers in PubMed, 82 citations in OpenAlex.
- Gene body methylation suppresses intragenic transcription and permits epigenetic inheritance in a cnidarian.Nature ecology & evolution · 2026Article
- Whole body regeneration deploys a rewired embryonic gene regulatory network logic.Nature communications · 2025Article
- A whole-body atlas of BMP signaling activity in an adult sea anemone.BMC biology · 2025Article
- Sea Anemone Membrane Attack Complex/Perforin Superfamily Demonstrates an Evolutionary Transitional State between Venomous and Developmental Functions.Molecular biology and evolution · 2024Article
- Parallels and contrasts between the cnidarian and bilaterian maternal-to-zygotic transition are revealed in Hydractinia embryos.PLoS genetics · 2023Article
- Parallels and contrasts between the cnidarian and bilaterian maternal-to-zygotic transition are revealed inbioRxiv : the preprint server for biology · 2023Article
- Sea anemone Frizzled receptors play partially redundant roles in oral-aboral axis patterning.Development (Cambridge, England) · 2022Article
- Histone demethylase Lsd1 is required for the differentiation of neural cells in Nematostella vectensis.Nature communications · 2022Article
- Creating a User-Friendly and Open-Access Gene Expression Database for Comparing Embryonic Development and Regeneration in Nematostella vectensis.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Developmental series of gene expression clarifies maternal mRNA provisioning and maternal-to-zygotic transition in a reef-building coral.BMC genomics · 2021Article
- Review
- Functional Characterization of the Cnidarian Antiviral Immune Response Reveals Ancestral Complexity.Molecular biology and evolution · 2021Article
- The Evolution of Calcification in Reef-Building Corals.Molecular biology and evolution · 2021Article
- Cnidarian-bilaterian comparison reveals the ancestral regulatory logic of the β-catenin dependent axial patterning.Nature communications · 2021Article
- Developmental gene regulatory network connections predicted by machine learning from gene expression data alone.PloS one · 2021Article
- Transcriptomic Analysis in the Sea Anemone Nematostella vectensis.Methods in molecular biology (Clifton, N.J.) · 2021Article
- Article
- The genetic basis for PRC1 complex diversity emerged early in animal evolution.Proceedings of the National Academy of Sciences of the United States of America · 2020Article
- Looking Down on NF-κB.Molecular and cellular biology · 2020Review
- Expression Analysis of Cnidarian-Specific Neuropeptides in a Sea Anemone Unveils an Apical-Organ-Associated Nerve Net That Disintegrates at Metamorphosis.Frontiers in endocrinology · 2020Article
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Authors and funding
5 authors at 2 institutions in 1 country.
Funding
Abstract
backgroundNematostella vectensis, a burrowing sea anemone, has become a popular species for the study of cnidarian development. In previous studies, the expression of a variety of genes has been characterized during N. vectensis development with in situ mRNA hybridization. This has provided detailed spatial resolution and a qualitative perspective on changes in expression. However, little is known about broad transcriptome-level patterns of gene expression through time. Here we examine the expression of N. vectensis genes through the course of development with quantitative RNA-seq. We provide an overview of changes in the transcriptome through development, and examine the maternal to zygotic transition, which has been difficult to investigate with other tools.
resultsWe measured transcript abundance in N. vectensis with RNA-seq at six time points in development: zygote (2 hours post fertilization (HPF)), early blastula (7 HPF), mid-blastula (12 HPF), gastrula (24 HPF), planula (5 days post fertilization (DPF)) and young polyp (10 DPF). The major wave of zygotic expression appears between 7-12 HPF, though some changes occur between 2-7 HPF. The most dynamic changes in transcript abundance occur between the late blastula and early gastrula stages. More transcripts are upregulated between the gastrula and planula than downregulated, and a comparatively lower number of transcripts significantly change between planula and polyp. Within the maternal to zygotic transition, we identified a subset of maternal factors that decrease early in development, and likely play a role in suppressing zygotic gene expression. Among the first genes to be expressed zygotically are genes whose proteins may be involved in the degradation of maternal RNA.
conclusionsThe approach presented here is highly complementary to prior studies on spatial patterns of gene expression, as it provides a quantitative perspective on a broad set of genes through time but lacks spatial resolution. In addition to addressing the problems identified above, our work provides an annotated matrix that other investigators can use to examine genes and developmental events that we do not examine in detail here.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.