Open Access Research article

Comparative gene expression in toxic versus non-toxic strains of the marine dinoflagellate Alexandrium minutum

Ines Yang12, Uwe John1*, Sára Beszteri1, Gernot Glöckner345, Bernd Krock1, Alexander Goesmann6 and Allan D Cembella1

Author Affiliations

1 Alfred-Wegener-Institut für Polar-und Meeresforschung, Am Handelshafen 12, 27570 Bremerhaven, Germany

2 School of Biosciences, University of Exeter, Stocker Road, Exeter, EX4 4QD, UK

3 Fritz Lipmann Institute for Age Research, Beutenbergstraß 11, 07745 Jena, Germany

4 Institute for Biochemistry I, University of Cologne, Joseph-Stelzmann-Str. 52, 50931 Cologne, Germany

5 Berlin Center for Genomics in Biodiversity Research, Königin-Luise-Str. 1-3, 14195 Berlin, Germany

6 Universität Bielefeld, CeBiTec, 33594 Bielefeld, Germany

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BMC Genomics 2010, 11:248  doi:10.1186/1471-2164-11-248

Published: 19 April 2010

Additional files

Additional file 1:

Primer tables and respective PCR conditions. All primers used and the respective PCR protocols of the study are listed in this file.

Format: PDF Size: 32KB Download file

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Open Data

Additional file 2:

Phyml-based likelihood trees with bootstrap support values. 14 phylogenies of A. minutum EST contigs that produced significant (e < 10-4) BLAST hits with cyanobacterial sxt-related genes. Phylogenies were calculated including the A. minutum contig sequence, the corresponding cyanobacterial gene, and their closest SwissProt matches as identified by PhylogGena (Top10Select-mode). Phylogenies M.2 and N.2 additionally include the best 20 hits produced by blasting the Alexandrium sequences against the NCBI non-redundant protein sequence database (nr).

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Additional file 3:

List of differentially expressed genes. Table of contigs identified as differentially expressed between both toxic strains and the non-toxic strain at two time-points during light phase. Included are contig IDs, microarray-based gene expression data, characterisation of the contigs, manual annotation and results of various database searches.

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Additional file 4:

Rarefaction curve. Generated ESTs and assembled cluster as contigs were analysed using http://www.biology.ualberta.ca/jbrzusto/rarefact.php#Calculator webcite.

Format: PDF Size: 98KB Download file

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Open Data