Revealing genes associated with vitellogenesis in the liver of the zebrafish (Danio rerio) by transcriptome profiling

doi:10.1186/1471-2164-10-141

BMC Genomics

Volume 10

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Levi L
Pekarski I
Gutman E
Fortina P
Hyslop T
Biran J
Levavi-Sivan B
Lubzens E

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Pekarski I
Gutman E
Fortina P
Hyslop T
Biran J
Levavi-Sivan B
Lubzens E
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Research article

Revealing genes associated with vitellogenesis in the liver of the zebrafish (Danio rerio) by transcriptome profiling

Liraz Levi¹^,2 , Irena Pekarski¹ , Ellen Gutman³ , Paolo Fortina³^,4 , Terry Hyslop⁵ , Jakob Biran² , Berta Levavi-Sivan² and Esther Lubzens¹

¹Department Marine Biology and Biotechnology, Israel Oceanographic and Limnological Research, Haifa, Israel

²Department of Animal Sciences, Faculty of Agricultural, Food and Environmental Quality Sciences, The Hebrew University of Jerusalem, Rehovot 76100, Israel

³Department of Cancer Biology, Kimmel Cancer Center, Thomas Jefferson University Jefferson Medical College, Philadelphia, PA 19107, USA

⁴Department of Experimental Medicine, University La Sapienza, Roma, Italy

⁵Division of Biostatistics, Thomas Jefferson University Jefferson Medical College, PA 19107, USA

author email corresponding author email

BMC Genomics 2009, 10:141doi:10.1186/1471-2164-10-141


Published:	31 March 2009

Additional files

Additional file 1:

Significantly different transcripts among the five tested groups. List of 2, 523 genes corresponding to the significantly different transcripts found by SAM analysis.

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Additional file 2:

Detailed lists of genes that were found to be regulated in this study. Detailed lists of gene accession numbers and gene names in groups 1–9 as they appear in Figures 6 and 7.

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Additional file 3:

Genes in selected GO terms. This table represents SAM values and E2 regulation of genes in selected functions for the five tested groups.

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Additional file 4:

Primers used for chip validation. List of primers used in real-time PCR for microarray validation.

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Additional file 5:

Validation of microarray results by real-time PCR. The graphs in the figure indicate the correlation between the microarray results and real-time PCR results of 16 selected genes, represented by the R²value in each graph. The expression levels of the following 16 genes genes were normalized to ef1a: 1) retinoic acid receptor alpha a (raraa); 2) estrogen receptor alpha gene (esr1); 3) retinol dehydrogenase 10 (rdh10); 4) retinol dehydrogenase 14 (rdh14); 5) dehydrogenase/reductase (SDR family) member 10 (dhrs10); 6) stearoyl-desaturase (sCd); 7) fatty acid desaturase 2 (fads2); 8) alcohol dehydrogenase 5 (adh5); 9) vitellogenin 1 (vtg1); 10) vitellognin 3 (vtg3); 11) insulin-like growth factor 1 (igf1); 12) nothepsin (nots); 13) alcohol dehydrogenase 8b (adh8b); 14) cytochrome p450, family 1, subfamily a1 (cyp1a1); 15) cytochrome P450, family 2, subfamily K, polypeptide 6 (cyp2k6) and 16) steroidogenic acute regulatory protein (star).

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