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FLabBer

ABSTRACT: Labrus bergylta (ballan wrasse), genomic and transcriptomic data

PROVIDER: PRJEB64950 | ENA |

REPOSITORIES: ENA

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Dataset's files

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			Action	DRS
	ERR11837516_1.fastq.gz	Fastqsanger.gz
	ERR11837516_2.fastq.gz	Fastqsanger.gz
	ERR11837517_1.fastq.gz	Fastqsanger.gz
	ERR11837517_2.fastq.gz	Fastqsanger.gz
	ERR11843426.fastq.gz	Fastqsanger.gz

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fLabBer

Project description:Labrus bergylta (ballan wrasse)

| PRJEB64951 | ENA

Sequencing of the stomach-less ballan wrasse (Labrus berggylta) genome and transcriptomic characterization of the intestine

Project description:Stomach-less fishes comprise a diverse phylogenetic group within the teleosts indicating that the organ has been lost several times during evolution. In the present project we have combined Illumina short read platform with the PacBio long read platform to sequence the ballan wrasse (Labrus bergylta) genome and its intestinal transcriptome. The genome was applied to investigate the elimination and conservation of genes related to stomach function and appetite regulation in wrasse in relation to the loss of stomach in this species. We have sequenced the transcriptome of four intestinal segments from six ballan wrasse (Labrus bergylta) for the purpose of identifying possible functional organization along the wrasse intestine. The transcriptomic reads were mapped against the newly assembled genome. The analysis revealed a transcriptional gradient showing genes involved in nutrient digestion and uptake being highly expressed in the anterior intestine and declining towards the end of the intestine. The last segment, hind-gut, had the most distinct expression between the four segments with increased expression of genes coding for proteins involved in lysosomal activity, antigen presenting and vitamin b12 uptake. Overall, our results suggests that the wrasse entire digestive system is comparable to the small intestine of mammals with regards to gene expression missing both a stomach and colon. Gene expression related to colon in humans such as MS4A12 were found in the last segment. The genome analysis also confirmed the lack of genes coding for gastric proteins such as gastric lipase, pepsin, gastrin and ghrelin. Although ghrelin is not only related to stomach, ghrelin was missing in all stomach-less fish species with the exception of cyprinid. Ghrelin is currently the only known orexigenic hormone.

2017-06-01 | GSE93191 | GEO

fLabBer1

Project description:Labrus bergylta (ballan wrasse) genome assembly, fLabBer1

| PRJEB72177 | ENA

BallGen

Project description:Sequencing of the ballan wrasse (Labrus bergylta) genome

| PRJEB13687 | ENA

Ontogeny of lymphoid organs and mucosal associated lymphoid tissues in ballan wrasse and the effect of different diets

Project description:Ballan wrasse (Labrus bergylta) is used as a cleaner fish in Norwegian aquaculture to control sea lice. Thus, knowledge on the digestive physiology and nutrient requirements, as well as the ontogeny of the immune system is important. In this study, two different diets were tested; diet 1 was used as control diet consisting of artemia and rotifers cultivated and enriched in the in-house facility at IMR, Austevoll, Bergen (Norway). Diet 2 consists in plankton which has successfully been used before in cod larvae generating more robust individuals. Sampling was done according to the standard length of the larvae rather than age (dph). Sampling point 0 (BW0) (4 mm), sampling point 2 (BW2) (4,5 mm), sampling point 3 (BW3) (5,7 to 6 mm), sampling 4 (BW4) (7 to 7,5 mm), sampling point 5 (BW5) (10 to 10,5 mm), sampling point 6 (BW6) (16 to 16,5 mm), and sampling point 7 (BW7) (25 to 30 mm). Ontogeny of lymphoid organs and mucosal associated lymphoid tissues in ballan wrasse and the effect of different diets were investigated.

2023-02-17 | GSE200208 | GEO

fLabBer1 alternate haplotype

Project description:Labrus bergylta (ballan wrasse) genome assembly, fLabBer1, alternate haplotype

| PRJEB72176 | ENA

fLabMix

Project description:Labrus mixtus (cuckoo wrasse), genomic and transcriptomic data

| PRJEB63506 | ENA

Ballan wrasse Eggs metagenomic

Project description:Bacterial communities of Ballan wrasse (Labrus bergylta) eggs during incubation at a commercial marine hatchery

| PRJEB30278 | ENA

Nutrient sensing controlling gut motility in the stomachless fish ballan wrasse (Labrus berggylta)

Project description:Ex vivo intestines from 15-20 g ballan wrass (Labrus bergylta) were administered a bolus (lipid, protein, inert matter or empty control) before being mounted in oxygenated physiological buffer inside a glass vial. The intestinal motility patterns were documented with time lapse imaging for 14 hours. The images were used to construct spatio-temporal maps for gut motility analysis; i.e. to determine the speed, amplitude, frequency, travelled distance, direction, and initiation site of waves of muscle contractions. The experiments were repeated for RNA sampling and deep seq analysis. Gene expression analysis showed that intestines administered intact lipids clustered closer to the empty intestines compared to those given hydrolyzed lipids.

2020-04-01 | GSE129459 | GEO

Ballan wrasse (distribution RAD)

Project description:Development of broodstock management and husbandry tools for improved hatchery performance of ballan wrasse (Labrus bergylta).

| PRJEB6999 | ENA

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