E-GEOD-48357 - MALDI imaging MS reveals candidate lipid markers of polycystic kidney disease

Status
Released on 1 December 2013, last updated on 3 June 2014
Organism
Rattus norvegicus
Samples (12)
Array (1)
Protocols (7)
Description
Autosomal recessive polycystic kidney disease is a severe, monogenetically inherited kidney and liver disease and PCK rats carrying the orthologous mutant gene serve as a model of human disease. We combined selective MALDI imaging of sulfated kidney lipids and Fisher discriminant analysis of imaging data sets for identification of candidate lipid markers of progressive disease in PCK rats. Our study highlights strong increases in lower mass lipids as main classifiers of cystic disease. Structure determination by high resolution mass spectrometry identifies these altered lipids as taurine-conjugated bile acids. Beside increased levels of serum-cholesterol these sulfated lipids are selectively elevated in the PCK rat model but not in models of related hepatorenal fibrocystic diseases suggesting that they be molecular markers of the disease. Genome-scale gene expression profiling of PCK and SD livers as control was performed to attempt elucidation of some of the underlying mechanisms leading to increases of cholesterol and taurine-conjugated bile acids in the PCK rat. Several pathways were found to be changed in cystic livers with up regulation or down regulation of important gene sets. Enhanced expression of steroid biosynthesis genes might result in the observed increased levels of cholesterol. In contrast, primary bile acid biosynthesis was found to be down regulated in diseased livers. These findings might be explained by compensatory mechanisms of liver metabolism to reduce toxic levels of accumulated bile acids. Snap-frozen liver tissue of 10 week old rats were subjected for RNA extraction and hybridization on Affymetrix microarrays to perform genome-scale gene expression profiling of n = 6 diseased PCK and n = 6 Sprague Dawley rat livers as control.
Experiment type
transcription profiling by array 
Contacts
Bernhard Wirnitzer, Carsten Hopf, Carsten Sticht, Hermelindis Ruh, Jens Fuchser, Matthias Schwartz, Norbert Gretz, Theresia Salonikios
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-GEOD-48357.idf.txt
Sample and data relationshipE-GEOD-48357.sdrf.txt
Raw data (1)E-GEOD-48357.raw.1.zip
Processed data (1)E-GEOD-48357.processed.1.zip
Array designA-GEOD-17378.adf.txt
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