TY - CHAP

T1 - Microarrays as Tools to Decipher Transcriptomes in Symbiotic Interactions

AU - Küster, Helge

AU - Becker, Anke

PY - 2008/6/10

Y1 - 2008/6/10

N2 - In the past it has been found that microarrays constructed from longmer oligonucleotides provide efficient tools to derive snapshots of gene expression in different species. In order to profile gene expression during the symbiotic interaction of the model legumeMedicago truncatula with beneficial arbuscular mycorrhizal fungi and nitrogen-fixing rhizobial prokaryotes, we developed 70mer oligonucleotide microarrays designated Mt16kOLI1Plus. These expression profiling tools are based on 16 470 oligonucleotide probes representing more than 14 000 genes of the model legume Medicago truncatula, an estimated 35% of the gene space. To derive transcription profiles from symbiotic tissue samples, robust target labeling, microarray hybridization, and data evaluation protocols were established. Our microarrays were applied to the identification of genes up-regulated in arbuscular mycorrhiza as well as genes activated both during nodulation and mycorrhization. Our transcriptome profiling experiments not only identified a range of genes associated with different cellular functions required for the formation of efficient root endosymbioses, such as the facilitation of transport processes across perisymbiotic membranes, but also specified putative signaling components as well as transcriptional regulators.

AB - In the past it has been found that microarrays constructed from longmer oligonucleotides provide efficient tools to derive snapshots of gene expression in different species. In order to profile gene expression during the symbiotic interaction of the model legumeMedicago truncatula with beneficial arbuscular mycorrhizal fungi and nitrogen-fixing rhizobial prokaryotes, we developed 70mer oligonucleotide microarrays designated Mt16kOLI1Plus. These expression profiling tools are based on 16 470 oligonucleotide probes representing more than 14 000 genes of the model legume Medicago truncatula, an estimated 35% of the gene space. To derive transcription profiles from symbiotic tissue samples, robust target labeling, microarray hybridization, and data evaluation protocols were established. Our microarrays were applied to the identification of genes up-regulated in arbuscular mycorrhiza as well as genes activated both during nodulation and mycorrhization. Our transcriptome profiling experiments not only identified a range of genes associated with different cellular functions required for the formation of efficient root endosymbioses, such as the facilitation of transport processes across perisymbiotic membranes, but also specified putative signaling components as well as transcriptional regulators.

KW - 70mer oligonucleotide microarray

KW - Arbuscular mycorrhiza

KW - Arbuscule

KW - in silico analysis

KW - Medicago truncatula

KW - Symbiosis

UR - http://www.scopus.com/inward/record.url?scp=84889966937&partnerID=8YFLogxK

U2 - 10.1002/9783527622542.ch7

DO - 10.1002/9783527622542.ch7

M3 - Contribution to book/anthology

AN - SCOPUS:84889966937

SN - 9783527318858

SP - 137

EP - 162

BT - The Handbook of Plant Functional Genomics

PB - Wiley - VCH Verlag GmbH & CO. KGaA

ER -