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A pig multi-tissue normalised cDNA library: large-scale sequencing, cluster analysis and 9K micro-array resource

Agnès Bonnet¹, Eddie Iannuccelli, Karine Hugot

¹Laboratoire de Génétique Cellulaire, INRA, UMR444, Institut National de la Recherche Agronomique, F-31326 Castanet-Tolosan, France. agnes.bonnet@toulouse.inra.fr

|January 16, 2008

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A new pig multi-tissue cDNA library and microarray were created to improve understanding of pig physiology. This resource enhances expressed sequence tag data and aids high-sensitivity transcriptome analysis for animal breeding.

Area of Science:

Animal Genomics
Molecular Biology
Bioinformatics

Background:

Improving domestic animal breeding and product quality necessitates understanding physiological functions and their interactions.
Availability of expressed gene sequences and cDNA arrays is crucial for transcriptome analysis.
The AGENAE program aimed to enhance pig gene sequence data and create tools for transcriptome analysis.

Purpose of the Study:

To create a high-throughput expressed sequence tag (EST) dataset for pigs.
To develop a diverse cDNA microarray for pig transcriptome analysis.
To improve the understanding of pig physiological functions and their interactions.

Main Methods:

Construction of a normalized and subtracted 38-tissue cDNA library.

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Generation and release of 24,449 high-quality expressed sequence tags (ESTs) into the EMBL database.

Assembly of public ESTs, resulting in 40,786 contigs and 54,653 singletons.

Production of a 9K nylon cDNA microarray.

Main Results:

A normalized, subtracted multi-tissue cDNA library was successfully constructed.
A significant number of high-quality pig ESTs were generated and deposited in public databases.
The AGENAE sequences contributed to a substantial portion of assembled pig gene contigs.
A 9K cDNA microarray was produced and is available for transcriptome analyses.

Conclusions:

A pig multi-tissue cDNA library and a 9K cDNA microarray were successfully developed.
This resource expands the available expressed sequence tag data for pigs.
The developed microarray serves as a valuable tool for high-sensitivity pig transcriptome analysis.