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BMC Genomics. 2010 Apr 30;11:278. doi: 10.1186/1471-2164-11-278.

An EST resource for tilapia based on 17 normalized libraries and assembly of 116,899 sequence tags.

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  • 1Department of Biology, University of Maryland, College Park, Maryland 20742, USA.

Abstract

BACKGROUND:

Large collections of expressed sequence tags (ESTs) are a fundamental resource for analysis of gene expression and annotation of genome sequences. We generated 116,899 ESTs from 17 normalized and two non-normalized cDNA libraries representing 16 tissues from tilapia, a cichlid fish widely used in aquaculture and biological research.

RESULTS:

The ESTs were assembled into 20,190 contigs and 36,028 singletons for a total of 56,218 unique sequences and a total assembled length of 35,168,415 bp. Over the whole project, a unique sequence was discovered for every 2.079 sequence reads. 17,722 (31.5%) of these unique sequences had significant BLAST hits (e-value < 10(-10)) to the UniProt database.

CONCLUSION:

Normalization of the cDNA pools with double-stranded nuclease allowed us to efficiently sequence a large collection of ESTs. These sequences are an important resource for studies of gene expression, comparative mapping and annotation of the forthcoming tilapia genome sequence.

PMID:
20433739
PMCID:
PMC2874815
DOI:
10.1186/1471-2164-11-278
[PubMed - indexed for MEDLINE]
Free PMC Article
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