GEO DataSets

(Submitter supplied) Isolated mesenteries from MHC::mCherry Adults were used to generate FACS-sorted RNA sequencing libraries in order to characterize gene use in Cnidarian smooth muscle. Transgenic mCherry expressing cells are compared to the non-expressing cells of the surrounding tissues, and up-regulated genes within the muscle cell population can be identified as important muscle-related gene products.

Organism:

Nematostella vectensis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23802

4 Samples

Download data: TXT

(Submitter supplied) Transcription factor brachyury plays a key role during mesoderm development in vertebrates. In this study we study study the effect of this transcription factor in diploblastic cnidarian model organism N. vectensis

Organism:

Nematostella vectensis

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL17090 GPL23802

17 Samples

Download data: BED, TXT

(Submitter supplied) Understanding how brains evolved is critical to determine the origin(s) of centralized nervous systems. Brains are patterned along their anteroposterior axis by stripes of gene expression that appear to be conserved, suggesting brains are homologous. However, the striped expression is also part of the deeply conserved anteroposterior axial program. An emerging hypothesis is that similarities in brain patterning are convergent, arising through the repeated co-option of axial programs. more...

Organism:

Nematostella vectensis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29226

4 Samples

Download data: MTX, RDATA, TSV

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Nematostella vectensis

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL23029 GPL23802

8 Samples

Download data: MTX, TSV

(Submitter supplied) A diversity of life cycle stages processed into single-cell RNA-seq libraries in order to characterize cell type diversity and relationships

Organism:

Nematostella vectensis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23029

12 Samples

Download data: CSV, GTF, MTX

(Submitter supplied) Sub-adult tissue pieces were processed into single cell RNA sequencing libraries in order to catalog spatial information and cell type distribution

Organism:

Nematostella vectensis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23029

4 Samples

Download data: MTX, TSV

(Submitter supplied) We wanted to infer the contribution of host vs symbiotic microbiota plasticities on thermal acclimation of the holobiont. We long-term acclimated anymals of the same clonal line to 3 different temperatures (15, 20 and 25°C) and monitored along time the changes in fitness, microbiota composition, and host transcriptome.

Organism:

Nematostella vectensis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29855

15 Samples

Download data: GFF3, TXT

(Submitter supplied) The spatial transcriptome data has allowed us to explore the differential gene expression among the oral-aboral domains and provided new insights into the apical organ signalling pathways for future mechanistic studies and genes associated with oral/aboral differentiation. This resource identifies numerous candidates for elucidating the functional role of the apical organ and to address the evolution of the metazoan larval nervous system.

Organism:

Nematostella vectensis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29226

10 Samples

Download data: TXT

(Submitter supplied) In mammals, the cGAS-cGAMP-STING pathway is crucial for sensing viral infection and initiating an anti-viral type I interferon response. cGAS and STING are highly conserved genes that originated in bacteria and are present in most animals. By contrast, interferons only emerged in vertebrates; thus, the function of STING in invertebrates is unclear. Here, we use the STING ligand 2'3'-cGAMP to activate immune responses in a model cnidarian invertebrate, the starlet sea anemone Nematostella vectensis. more...

Organism:

Nematostella vectensis

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL29855 GPL29226

33 Samples

Download data: TXT

(Submitter supplied) We performed single-cell transcriptome analysis (using 10x genomics 3' scRNA-seq v3.1 chemistry) in the sea anemone Nematostella vectensis (Cnidaria).

Organism:

Nematostella vectensis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23802

1 Sample

Download data: RDS

(Submitter supplied) We used bacteria isolated from field samples of Nematostella vectensis to quantify gene expression through comparisons of transcriptomes.

Organism:

Nematostella vectensis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23802

76 Samples

Download data: TXT

(Submitter supplied) The human transcription factor (TF) CGGBP1 (“CGG Binding Protein”) is conserved only in amniotes, and is believed to derive from the zf-BED and Hermes transposase DNA-binding domains (DBDs) of a hAT DNA transposon. Here, we examine the DNA binding preferences of a wide variety of metazoan CGGBP1-like TFs with this bipartite domain using PBM experiments. The derived motifs are available at ...

Organism:

Locusta migratoria; Crocodylus porosus; Homo sapiens; Rhodnius prolixus; Rhipicephalus appendiculatus; Kryptolebias marmoratus; Nematostella vectensis; Acanthochromis polyacanthus; Hippocampus comes; Hofstenia miamia; Aedes aegypti; Culex quinquefasciatus; Latimeria chalumnae; Cyprinus carpio; synthetic construct; Hucho hucho; Amphiprion ocellaris; Labeo rohita; Mola mola; Sphaeramia orbicularis; Anabarilius grahami; Petromyzon marinus; Acipenser ruthenus; Gallus gallus; Erpetoichthys calabaricus; Rhizophagus irregularis; Paramormyrops kingsleyae; Acyrthosiphon pisum; Salmo salar; Fundulus heteroclitus; Sparus aurata; Chrysemys picta; Austrofundulus limnaeus; Anabas testudineus; Amphiprion percula; Salarias fasciatus

Type:

Other

Platform:

GPL11260

258 Samples

Download data: TXT

(Submitter supplied) Knockdown of NveAGO1 and NveAGO2 in Nematostella results in severe developmental defects. NveAGO1 and NveAGO2 immunoprecipitation reveals subfunctionalization for differential miRNA sorting as well as siRNA specialization.

Organism:

Nematostella vectensis

Type:

Non-coding RNA profiling by high throughput sequencing; Expression profiling by high throughput sequencing

Platform:

GPL23029

30 Samples

Download data: XLSX

(Submitter supplied) Gene expression of Nematostella vectensis from 5 different locations under chronic (30 day) temperature stress

Organism:

Nematostella vectensis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23802

52 Samples

Download data: TXT

(Submitter supplied) We exposed N. vectensis to three forms of trauma (streptomycin, cytochalasin D, or calcium-free seawater) to determine differences in gene expression during recovery from the trauma. Gene expression was monitored during different time points of recovery for animals exposed to cytochalasin D or calcium-free seawater. Gene expression was monitored following designated times of exposure and after 1 hour of recovery for animals exposed to streptomycin.

Organism:

Nematostella vectensis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23802

84 Samples

Download data: TXT

(Submitter supplied) We assessed genome-wide temporal transcript expression patterns in the sea anemone, Nematostella vectensis, in Great Sippewissett Marsh in Massachusetts, where anemones experienced a natural light cycle with intensity varying from 0-200 lum/ft2, daily temperature fluctuations of ~9C. We measured ‘in situ’ gene expression from recaptured anemones every hour from 0800 to 1700 and identified six time-dependent gene clusters, represented by several genes involved in metabolism, stress, and transcription-translation related functions.

Organism:

Nematostella vectensis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23802

66 Samples

Download data: TXT

(Submitter supplied) DNA methylation has been found throughout animal kingdom, but it is still unclear whether this epigenetic mechanism affects the evolution of genomic elements in animals. Here, we compare the DNA methylomes of gametes and embryos from 7 representative animal species. We find that parental methylomes are propagated to the progeny without significant changes during embryogenesis in cnidarians and insects, but undergo substantial reprogramming in echinoderms, and the reprogramming become more dramatic during deuterostome evolution. more...

Organism:

Strongylocentrotus purpuratus; Nematostella vectensis; Apis mellifera; Ciona savignyi

Type:

Methylation profiling by high throughput sequencing

4 related Platforms

22 Samples

Download data: BED

(Submitter supplied) The spatial and temporal regulation of transcription initiation is pivotal for controlling gene expression. Here, we introduce capped-small RNA-seq (csRNA-seq), which uses total RNA as starting material to detect transcription start sites (TSS) of both stable and unstable RNAs at single-nucleotide resolution. csRNA-seq is highly sensitive to acute changes in transcription and identifies an order of magnitude more regulated transcripts than RNA-seq. more...

Organism:

Nematostella vectensis; Neurospora crassa; Capsaspora owczarzaki; Oryza sativa; Homo sapiens; Mus musculus

Type:

Other

10 related Platforms

40 Samples

Download data: BIGWIG, BW, TXT

(Submitter supplied) Vertebrates have highly methylated genomes at CpG positions while most invertebrates have sparsely methylated genomes. Therefore, hypermethylation is considered a major innovation that shaped the genome and the regulatory roles of DNA methylation in vertebrates. However, here we report that the marine sponge Amphimedon queenslandica, belonging to one of the earliest branching animal lineages, has evolved a hypermethylated genome with remarkable similarities to that of a vertebrate. more...

Organism:

Mnemiopsis leidyi; Nematostella vectensis; Sycon ciliatum; Amphimedon queenslandica

Type:

Genome binding/occupancy profiling by high throughput sequencing; Methylation profiling by high throughput sequencing

5 related Platforms

36 Samples

Download data: CGMAP, TXT

(Submitter supplied) We utilized the eyeless sea anemone, Nematostella vectensis, to quantify gene expression differences between different colors of light (red, green, blue) and in constant darkness through comparisons of 96 transcriptomes

Organism:

Nematostella vectensis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23802

96 Samples

Download data: TXT