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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Dual transcriptomic analysis of the interaction between the ectomycorrhizal fungus Laccaria bicolor S238N and soil Collimonas fungivorans Ter331

ABSTRACT: In order to get insights into the ability of ectomycorrhizal fungi to perceive their biotic environment as well as into the mechanisms of the interactions between ectomycorrhizal fungi and soil bacteria, we analysed the transcriptomic response of the ectomycorrhizal fungus L. bicolor and one detrimental bacterial strain during their interactions in vitro. We performed hybridizations (whole genome array) with samples derived from Collimonas fungivorans Ter331cultivated alone or with Laccaria bicolor S238N in vitro (2 control biological replicates and 2 biological replicates with L. bicolor)

ORGANISM(S): Collimonas fungivorans

SUBMITTER: Annegret Kohler

PROVIDER: E-GEOD-54533 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Dual transcriptomic analysis of the interaction between the ectomycorrhizal fungus Laccaria bicolor S238N and soil Pseudomonas fluorescens Pf29Arp

Project description:In order to get insights into the ability of ectomycorrhizal fungi to perceive their biotic environment as well as into the mechanisms of the interactions between ectomycorrhizal fungi and soil bacteria, we analysed the transcriptomic response of the ectomycorrhizal fungus L. bicolor and the strain Pseudomonas fluorescens Pf29Arp during their interactions in vitro. We performed six hybridizations (shotgun DNA microarray) with samples derived from Pseudomonas fluorescens Pf29Arp cultivated alone or with Laccaria bicolor S238N in vitro (3 control biological replicates and 3 biological replicates with L. bicolor)

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Dual transcriptomic analysis of the interaction between the ectomycorrhizal fungus Laccaria bicolor S238N and soil bacterium Collimonas fungivorans Ter331

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2014-10-10 | E-GEOD-62226 | biostudies-arrayexpress

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Project description:Illumina GAIIx technology was used to generate mRNA profiles from the ectomycorrhizal fungi Laccaria bicolor colonizing roots of Populus trichocarpa. Samples were taken after two, four and 12 weeks of contact in order to identify mycorrhiza-regulated transcripts. 37bp reads were generated and aligned to the Populus trichocarpa (http://www.phytozome.net/poplar.php) and the Laccaria bicolor (http://genome.jgi-psf.org/Lacbi2/Lacbi2.home.html) reference genomes using CLC Genomics Workbench 6. mRNA profiles from Populus trichocarpa roots colonized by Laccaria bicolor for two, four and 12 weeks as well as from control roots and free-living mycelium were generated by using one lane of 37 bp Illumina GAIIx sequencing per sample.

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