Open Access Research article

Gill transcriptome response to changes in environmental calcium in the green spotted puffer fish

Patrícia IS Pinto1, Hideo Matsumura2, Michael AS Thorne3, Deborah M Power1, Ryohei Terauchi4, Richard Reinhardt5 and Adelino VM Canário1*

Author Affiliations

1 Centro de Ciências do Mar (CCMAR), CIMAR-Laboratório Associado, University of Algarve, Campus de Gambelas, 8005-139 Faro, Portugal

2 Gene Research Center, Shinshu University, Nagano, 390-8621, Japan

3 British Antarctic Survey (BAS), High Cross, Madingley Road, Cambridge, CB3 0ET, UK

4 Iwate Biotechnology Research Center (IBRC), 22-174-4 Narita, Kitakami, Iwate 024-0003, Japan

5 Max Planck Institute for Molecular Genetics (MPIMG), Ihnestraße 63-73 - 14195 Berlin, Germany

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BMC Genomics 2010, 11:476  doi:10.1186/1471-2164-11-476

Published: 17 August 2010

Additional files

Additional file 1:

Venn diagram summarizing the mapping of differentially expressed tag sequences to the three available datasets containing T. nigroviridis DNA sequences.

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Additional file 2:

Percentage of tag mapping to different T. nigroviridis DNA datasets using different levels of stringency.

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Additional file 3:

Main data file summarizing all the expression (tag counts, expression ratios and clustering) and annotation data (BlastN and BlastX results) for the 1,339 differentially expressed tags identified. Tags are sorted by LowCa cluster number, annotation and gene symbol. Significant BlastN hits (26/26 identical nucleotides) and BlastX hits (E < 10-5) shown in white, non-significant hits in grey. * indicates BlastX hits confirmed by manual annotation.

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Additional file 4:

List of enriched GO categories in clusters of the LowCa analysis. Cluster number, GO code, GO type (P = biological process, F = molecular function, C = cellular compartment), description and adjusted p value are shown for significantly enriched categories (adjusted p value < 0.01).

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Additional file 5:

List of enriched GO categories in clusters of the 12 h analysis. Cluster number, GO code, GO type (P = biological process, F = molecular function, C = cellular compartment), description and adjusted p value are shown for significantly enriched categories (adjusted p value < 0.01).

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Additional file 6:

Detailed information for the differentially expressed tags/genes analyzed by qPCR. Includes gene accession numbers, name and sequence; tag sequence, counts, classification as differentially expressed (p < 0.05) or not, clustering and Pearson correlation coefficient and p value between SuperSAGE and qPCR results.

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Additional file 7:

Parameters used in G-test statistical comparison of tag-proportions among Tetraodon gill SuperSAGE libraries

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Additional file 8:

Primer sequences and PCR product sizes of genes selected for qPCR.

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