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ABSTRACT: Long read transcriptome sequencing of Arctic char (Salvelinus alpinus oquassa)

PROVIDER: PRJNA1070010 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR27750840_1.fastq.gz	Fastqsanger.gz
	SRR27750841_1.fastq.gz	Fastqsanger.gz
	SRR27750842_1.fastq.gz	Fastqsanger.gz

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Project description:We report here the release of a multi organ transcriptome developped for the Arctic char Salvelinus alpinus. This reference set was obtained using the 454 GS FLX+ technology. A pool of one-year-old, immature offspring of wild, anadromous Arctic charr originating from Lake Varflusjoen, Svalbard (79oN), including both lean and fat individuals, and three-years-old mature offspring of charr originating from Lake Vårflusjøen, North-Norway (70oN) was sampled. In order to maximize the diversity of expressed transcripts, we sampled a variety of organs and tissues; the whole brain, gill and head kidney and pieces of the liver, gonad, abdominal fat and muscle.

2016-08-18 | E-MTAB-3522 | biostudies-arrayexpress

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RNA-Seq of liver tissue samples from northern pike (Esox lucius), coho salmon (Oncorhynchus kisutch) and Arctic charr (Salvelinus alpinus)

Project description:The aim of this sequencing experiment was to make available liver tissue expression for selected fish species, northern pike (Esox lucius, Eluc), coho salmon (Oncorhynchus kisutch, Okis) and Arctic charr (Salvelinus alpinus, Salp), for comparative expression studies between the species. Samples in replicate of four were sacrificed according to protocols at each of the facilities from where samples were obtained. RNA was extracted from samples and Illumina TruSeq Stranded mRNA libraries were built. Sequencing was performed in two passes on an Illumina HiSeq2500, paired-end 125bp reads. Processed count tables per species as raw counts, FPKM, or TPM, were generated from read alignment to the NCBI genomes of the respective species using STAR and gene level counting using RSEM and NCBI gene annotation.

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