Function-informed transcriptome analysis of Drosophila renal tubule

Genome Biology
Jing WangJulian A T Dow

Abstract

Comprehensive, tissue-specific, microarray analysis is a potent tool for the identification of tightly defined expression patterns that might be missed in whole-organism scans. We applied such an analysis to Drosophila melanogaster Malpighian (renal) tubule, a defined differentiated tissue. The transcriptome of the D. melanogaster Malpighian tubule is highly reproducible and significantly different from that obtained from whole-organism arrays. More than 200 genes are more than 10-fold enriched and over 1,000 are significantly enriched. Of the top 200 genes, only 18 have previously been named, and only 45% have even estimates of function. In addition, 30 transcription factors, not previously implicated in tubule development, are shown to be enriched in adult tubule, and their expression patterns respect precisely the domains and cell types previously identified by enhancer trapping. Of Drosophila genes with close human disease homologs, 50 are enriched threefold or more, and eight enriched 10-fold or more, in tubule. Intriguingly, several of these diseases have human renal phenotypes, implying close conservation of renal function across 400 million years of divergent evolution. From those genes that are identifiable, a radicall...Continue Reading

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Citations

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Methods Mentioned

BETA
reverse transcription PCR
PCR
X-ray
dissection

Software Mentioned

MAS
Affymetrix MAS
ArrayExpress
MAS5
Excel
SAM
Perl
Affymetrix SAM
Significance Analysis of Microarrays ( SAM )
Affymetrix Data Mining Tool

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