COMPARISON OF GENE EXPRESSION PROFILES AMONG PAPILLA, MEDULLA AND CORTEX IN RAT KIDNEY

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概要

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• The aim of this study was to compare gene expression profiles in the different kidney regions as the basis for toxicogenomics. Rat kidney was separated into papilla, medulla and cortex, and total RNA was isolated from these and from the whole slice. Gene expression profiling was performed using Affymetrix Rat Genome 2302.0 Array. When global normalization was applied, the expression of β-actin or GAPDH varied among the regions. It was considered that such a comparison could not be made, especially between papilla and other portions, since the production of total mRNA in the former was relatively low. In fact, ANOVA was performed on the gene expression values with global normalization in papilla, medulla, cortex, and whole slice, and the numbers of genes appeared to be the highest in papilla. It was also observed that many genes showed their maximum or minimum in the whole slice, which was theoretically impossible. To overcome the problems associated with global normalization, the "percelome" normalization (a way to obtain the values directly related to the copies of mRNA per cell) was employed to compare the regions. In applying this procedure, probe sets with regional difference in expression were efficiently extracted by ANOVA. When they were sorted by the fold difference to other regions, the higher rank was occupied by genes characteristic of the functions of kidney, i.e., channels, transporters and metabolic enzymes. Some of them were consistent with the literature and were related to pathophysiological phenomena. Comprehensive comparison of data of gene expression in the renal anatomical area will greatly enhance studies of the physiological function and mechanism of toxicity in kidney.

• 日本トキシコロジー学会の論文
• 2006-12-15

著者

• NAGAO Taku

  National Institute of Health Sciences

• Nagao Taku

  Food Safety Commission Of Japan

• Nagao Taku

  Laboratory Of Pharmacology & Toxicology Graduate School Of Pharmaceutical Sciences The Universit

• Nagao Taku

  Laboratory Of Pharmacology And Toxicology Graduate School Of Pharmaceutical Sciences The University

• Ono Atsushi

  Toxicogenomics Project National Institute Of Biomedical Innovation:national Institute Of Health Scie

• Miwa Satoko

  Exploratory Toxicology & Dmpk Research Laboratories Tanabe Seiyaku Co. Ltd.

• MIYAGISHIMA Toshikazu

  Toxicogenomics Project, National Institute of Biomedical Innovation

• Urushidani Tetsuro

  Toxicogenomics Project National Institute Of Biomedical Innovation:department Of Pathophysiology Dos

• Urushidani Tetsuro

  Laboratory Of Pharmacology & Toxicology Graduate School Of Pharmaceutical Sciences The Universit

• Miyagishima Toshikazu

  Toxicogenomics Project National Institute Of Biomedical Innovation

• Kasahara Toshihiko

  Toxicogenomics Project National Institute Of Biomedical Innovation

• Tamura Kotaro

  Toxicogenomics Project National Inst. Of Biomedical Innovation

• Nagao Taku

  National Institute Of Health Sci.

• Ono Atsushi

  Toxicogenomics Project National Institute Of Biomedical Innovation:national Institute Of Health Scie

• Urushidani Tetsuro

  Toxicogenomics Project National Institute Of Biomedical Innovation

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