GEO DataSets

(Submitter supplied) Flatfish have evolved their visual system to meet the demands of their environment through a fascinating process of metamorphosis. This morphological transformation involves a significant change in lifestyle from pelagic to benthic, accompanied by changes in body structure to achieve an asymmetrical flat shape. However, the fundamental change lies in the migration of one eye from its original position to the opposite location on the body. more...

Organism:

Scophthalmus maximus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL33853

18 Samples

Download data: TXT

(Submitter supplied) We established a bacteria infective intestinal inflammation in turbot (Scophthalmus maximus). And found that β-glucan could significantly alleviate the phenotype of turbot intestinal inflammation. We performed single cell transcriptome analysis to study bacteria infective intestinal inflammation and the effects of β-glucan. Furthermore, we revealed that β-glucan through activates Th17 cells to alleviate intestinal inflammation in turbot.

Organism:

Scophthalmus maximus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30097

2 Samples

Download data: H5

(Submitter supplied) Cell types of turbot blood leukocytes remian unknown. We used single cell RNA sequencing (scRNA-seq) to analyze the cell types of turbot blood leukocytes.

Organism:

Scophthalmus maximus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30097

1 Sample

Download data: TXT

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

Organism:

Scophthalmus maximus

Type:

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

Platform:

GPL32742

16 Samples

Download data: BW, TXT

(Submitter supplied) Metamorphosis is a widely studied post-embryonic process in which many tissues undergo dramatic modifications to adapt to the new adult lifestyle. Flatfish represent a good example of metamorphosis in teleosts. During flatfish metamorphosis, organ regression and neo-formation occur, being the most remarkable change the migration of one of the eyes to the other side of the body. In order to create a useful and reliable tool to advance the molecular study of metamorphosis in flatfish, we generated a chromatin accessible atlas as well as gene expression profile during four developmental stages ranging from a phylotypic stage to a post-metamorphic stage. more...

Organism:

Scophthalmus maximus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL32742

8 Samples

Download data: BED, BW

(Submitter supplied) Metamorphosis is a widely studied post-embryonic process in which many tissues undergo dramatic modifications to adapt to the new adult lifestyle. Flatfish represent a good example of metamorphosis in teleosts. During flatfish metamorphosis, organ regression and neo-formation occur, being the most remarkable change the migration of one of the eyes to the other side of the body. In order to create a useful and reliable tool to advance the molecular study of metamorphosis in flatfish, we generated a chromatin accessible atlas as well as gene expression profile during four developmental stages ranging from a phylotypic stage to a post-metamorphic stage. more...

Organism:

Scophthalmus maximus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32742

8 Samples

Download data: BW, TXT

(Submitter supplied) We establish a trained immunity activation model in turbot (Scophthalmus maximus) by training with β-glucan in vivo. Through single cell RNA-sequencing analysis, we annotate 16 clusters of immune cells and blood cells from head kidney and spleen, and successfully characterize that neutrophils exhibit distinguished feature of trained immunity.

Organism:

Scophthalmus maximus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30097

8 Samples

Download data: H5

(Submitter supplied) We used 10X scRNA-Seq to investigate gene expression dynamics and cell type changes in four turbot immuno-organs (gill, head kidney, posterior intestine and spleen) during infection. In total, 103,055 high quality leukocytes were characterized. Our results not only provide a useful resource for the study of fish immune system, but also uncover the origins of adaptive immunity throughout vertebrate evolution.

Organism:

Scophthalmus maximus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30097

24 Samples

Download data: FA, TXT

(Submitter supplied) We used a microarray approach to examine changes in gene expression in turbot peritoneal cells after injection of the fish with vaccines containing the ciliate parasite Philasterides dicentrarchi as antigen and one of the following adjuvants: chitosan-PVMMA microspheres, Freund´s complete adjuvant, aluminium hydroxide gel, and Matrix-Q (Isconova, Sweden). We identified 374 genes that were differentially expressed in all groups of fish. more...

Organism:

Scophthalmus maximus

Type:

Expression profiling by array

Platform:

GPL19564

42 Samples

Download data: TXT

(Submitter supplied) Accidental spills of chemical or oil tankers such as Levoli Sun or Prestige have recently impacted the European seas. The analysis of the genes regulated by exposure to spilled chemical substances could help elucidating adaptatory and compensatory pathways that may participate in pathogenesis in marine biota. Hepatic expression profiles of male juvenile S. maximus exposed to a nº2 fuel-oil (FO) and to styrene were studied employing a turbot custom microarray containing 2715 3’-UTR biassed single-sequences, many of them unannotated. more...

Organism:

Scophthalmus maximus

Type:

Expression profiling by array

Platform:

GPL16478

11 Samples

Download data: TXT

(Submitter supplied) Accidental spills of chemical or oil tankers such as Levoli Sun or Prestige have recently impacted the European seas. The analysis of the genes regulated by exposure to spilled chemical substances could help elucidating adaptatory and compensatory pathways that may participate in pathogenesis in marine biota. Hepatic expression profiles of male juvenile S. maximus exposed to a nº2 fuel-oil (FO) and to styrene were studied employing a turbot custom microarray containing 2715 3’-UTR biassed single-sequences, many of them unannotated. more...

Organism:

Scophthalmus maximus

Type:

Expression profiling by array

Platform:

GPL16478

25 Samples

Download data: TXT

(Submitter supplied) Accidental spills of chemical or oil tankers such as Levoli Sun or Prestige have recently impacted the European seas. The analysis of the genes regulated by exposure to spilled chemical substances could help elucidating adaptatory and compensatory pathways that may participate in pathogenesis in marine biota. Hepatic expression profiles of male juvenile S. maximus exposed to a nº2 fuel-oil (FO) and to styrene were studied employing a turbot custom microarray containing 2715 3’-UTR biassed single-sequences, many of them unannotated. more...

Organism:

Scophthalmus maximus

Type:

Expression profiling by array

Platform:

GPL16478

15 Samples

Download data: TXT

(Submitter supplied) Gonad is a bipotential tissue that depending on the genetic and environmental inputs its final phenotype will be determined. Gonadal development is a very complex process because from an undifferentiated gonad the future testis or ovary will be formed. To better understand the complexity of the gonad plasticity throughout development we explored the transcriptomic landscape of gonads from undifferentiated to juvenile fish. more...

Organism:

Scophthalmus maximus

Type:

Expression profiling by array

Platform:

GPL19564

30 Samples

Download data: TXT

(Submitter supplied) With the aim of shedding light on the protection conferred by the DNA vaccines based in the G glycoprotein of viral haemorrhagic septicaemia virus (VHSV) in turbot (Scophthalmus maximus) we have used a specific microarray highly enriched in antiviral sequences to carry out the transcriptomic study associated to VHSV DNA vaccination/infection. The differential gene expression pattern in response to empty plasmid (pMCV1.4) and DNA vaccine (pMCV1.4-G860) intramuscular administration with regard to non-stimulated turbot was analyzed in head kidney at 8, 24 and 72 hours post-vaccination. more...

Organism:

Scophthalmus maximus

Type:

Expression profiling by array

Platform:

GPL18520

68 Samples

Download data: TXT

(Submitter supplied) Background: Enteromyxosis caused by the intestinal myxozoan parasite Enteromyxum scophthalmi is a serious threat for turbot (Scophthalmus maximus, L.) aquaculture, causing severe catarrhal enteritis leading to a cachectic syndrome, with no therapeutic options available. There are still many aspects of host-parasite interaction and disease pathogenesis that are yet to be elucidated, and to date, no analysis of the transcriptomic changes induced by E. more...

Organism:

Scophthalmus maximus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19505

12 Samples

Download data: TXT

(Submitter supplied) Turbot (Scophthalmus maximus) is a valuable resource for aquaculture in Galicia (NW Spain). Since it has been observed that viral hemorraghic septicaemia can affect turbot, among other finfish, increase of knowledge in molecular factors affected by the exposure to pathogen could help to develop strategies of VHSV prevention and treatment. In this study, it has been used a custom oligo-microarray by Agilent to identify genes differentially expressed in several turbot families showing different susceptibility to VHSV. more...

Organism:

Scophthalmus maximus

Type:

Expression profiling by array

Platform:

GPL11161

16 Samples

Download data: TXT

(Submitter supplied) We evaluated the expression profiles of turbot in spleen, liver and head kidney across five temporal points of the Philasterides dicentrarchi infection process using an 8x15K Agilent oligo-microarray. The microarray included 2,176 different 5-fold replicated gene probes designed from a turbot 3’ sequenced EST database. We were able to identify 221 differentially expressed (DE) genes (8.1% of the whole microarray), 113 in spleen, 83 in liver and 90 in head kidney, in at least one of the 5 temporal points sampled for each organ. more...

Organism:

Scophthalmus maximus

Type:

Expression profiling by array

Platform:

GPL8937

18 Samples

Download data: TXT

(Submitter supplied) Fluorosurfactants are the key components in aqueous film forming foams (AFFF). They provide these fire fighting agents with the required low surface tension and they enable film formation on top of lighter fuels to prevent burn back. Development of effective and environmentally acceptable PFOS alternatives is one of the most important priorities in the fire fighting foam industry. DuPontTM offers the fluorosurfactant mixtures Forafac®1157 and Forafac®1157N for the formulation of AFFFs which are alternatives to the persistent and toxic perfluorooctane sulphonate (PFOS). more...

Organism:

Scophthalmus maximus

Type:

Expression profiling by array

Platform:

GPL11161

22 Samples

Download data: GPR

(Submitter supplied) An EST database from immune tissues was used to design the first high density turbot (Scophthalmus maximus) oligo-microarray with the aim of identifying candidate genes for tolerance to pathogens. Specific oligonucleotides (60mers) were successfully designed for 2716 out of 3482 unique sequences of the database. The performance of the microarray and the sources of variation along microarray analysis were examined on spleen pools of controls and Aeromonas salmonicida challenged fish at 3 days post-infection. more...

Organism:

Scophthalmus maximus

Type:

Expression profiling by array

Platform:

GPL8937

32 Samples

Download data: TXT