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FSymMel

ABSTRACT: Symphodus melops (corkwing wrasse), genomic and transcriptomic data

PROVIDER: PRJEB56369 | ENA |

REPOSITORIES: ENA

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Dataset's files

Source:

			Action	DRS
	ERR10313052_1.fastq.gz	Fastqsanger.gz
	ERR10313052_2.fastq.gz	Fastqsanger.gz
	ERR10368981.fastq.gz	Fastqsanger.gz
	ERR10908610_1.fastq.gz	Fastqsanger.gz
	ERR10908610_2.fastq.gz	Fastqsanger.gz

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fSymMel

Project description:Symphodus melops (corkwing wrasse)

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

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

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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

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