Details
| Original language | English |
|---|---|
| Title of host publication | The Handbook of Plant Functional Genomics |
| Subtitle of host publication | Concepts and Protocols |
| Publisher | Wiley - VCH Verlag GmbH & CO. KGaA |
| Pages | 137-162 |
| Number of pages | 26 |
| ISBN (electronic) | 9783527622542 |
| ISBN (print) | 9783527318858 |
| Publication status | Published - 10 Jun 2008 |
| Externally published | Yes |
Abstract
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.
Keywords
- 70mer oligonucleotide microarray, Arbuscular mycorrhiza, Arbuscule, in silico analysis, Medicago truncatula, Symbiosis
ASJC Scopus subject areas
- Biochemistry, Genetics and Molecular Biology(all)
- General Biochemistry,Genetics and Molecular Biology
Cite this
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The Handbook of Plant Functional Genomics: Concepts and Protocols. Wiley - VCH Verlag GmbH & CO. KGaA, 2008. p. 137-162.
Research output: Chapter in book/report/conference proceeding › Contribution to book/anthology › Research › peer review
}
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 -