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. 2020 Nov 25:2020:baaa082.
doi: 10.1093/database/baaa082.

Siberian sturgeon multi-tissue reference transcriptome database

Christophe Klopp  1 , Cédric Cabau  2 , Gonzalo Greif  3 , André Lasalle  4 , Santiago Di Landro  4 , Denise Vizziano-Cantonnet  4
Affiliations

Siberian sturgeon multi-tissue reference transcriptome database

Christophe Klopp et al. Database (Oxford). .

Abstract

Motivation: Siberian sturgeon is a long lived and late maturing fish farmed for caviar production in 50 countries. Functional genomics enable to find genes of interest for fish farming. In the absence of a reference genome, a reference transcriptome is very useful for sequencing based functional studies.

Results: We present here a high-quality transcriptome assembly database built using RNA-seq reads coming from brain, pituitary, gonadal, liver, stomach, kidney, anterior kidney, heart, embryonic and pre-larval tissues. It will facilitate crucial research on topics such as puberty, reproduction, growth, food intake and immunology. This database represents a major contribution to the publicly available sturgeon transcriptome reference datasets.

Availability: The database is publicly available at http://siberiansturgeontissuedb.sigenae.org Supplementary information: Supplementary data are available at Database online.

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Figures

Figure 1.
Figure 1.
BUSCO scores of the eight sturgeon transcriptome assemblies found in TSA plus the sturgeon reference database named SSTbd.
Figure 2.
Figure 2.
Home page of the Siberian sturgeon transcriptome database website. The main menu enables to visualize and query contigs and variants as well as download the raw and result files.
See this image and copyright information in PMC

References

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