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Nucleic Acids Research Advance Access originally published online on June 25, 2007
Nucleic Acids Research 2007 35(14):4640-4648; doi:10.1093/nar/gkm331
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Nucleic Acids Research, 2007, Vol. 35, No. 14 4640-4648
© 2007 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Genomics

iGentifier: indexing and large-scale profiling of unknown transcriptomes

Achim Fischer1,3,*, Alistair Lenhard2,3, Heike Tronecker1,4, Yvonne Lorat1, Marcel Kraenzle2,4, Oliver Sorgenfrei2, Tim Zeppenfeld2,5, Michael Haushalter2,3, Gerhard Vogt2, Ulrich Gruene1, Annette Meyer2, Ulrich Handlbichler1, Patrick Schweizer6 and Leo Gaelweiler1

1Gentana GmbH, 2Axaron Bioscience AG, Im Neuenheimer Feld 515, D-69120 Heidelberg/FRG, 3ALTANA Pharma AG, Byk-Gulden-Strasse 2, D-78467 Konstanz/FRG, 4Febit GmbH, 5Gene Bridges GmbH, Im Neuenheimer Feld 584, D-69120 Heidelberg/FRG and 6Institut für Kulturpflanzenforschung und Pflanzenzüchtung (IPK), Corrensstrasse 3, D-06466 Gatersleben/FRG

*To whom correspondence should be addressed. Tel: +49 (0) 7531 845258; Fax: +49 (0) 7531 845321; Email: achim.fischer{at}altanapharma.com

Received January 21, 2007. Revised April 14, 2007. Accepted April 18, 2007.

Development and refinement of methods to analyse differential gene expression has been essential in the progress of molecular biology. A novel approach called iGentifier is presented for profiling known and unknown transcriptomes, thus bypassing a major limitation in microarray analysis. The iGentifier technology combines elements of fragment display (e.g. Differential Display or RMDD) and tag sequencing (e.g. SAGE, MPSS) and allows for analysis of samples in high throughput using current capillary electrophoresis equipment. Application to epidermal tissue of wild-type and mlo5 barley (Hordeum vulgare) plants, infected with powdery mildew [Blumeria graminis (DC.) E.O. Speer f.sp.hordei], led to the identification of several 100 genes induced or repressed upon infection with many well known for their response to fungal pathogens or other stressors. Ten of these genes are suggested to be classified as marker genes for durable resistance mediated by the mlo5 resistance gene.


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