Project description:A microarray analysis was conducted to analyze gene expression patterns in different tissues of the ECM interaction between Betula pendula and Paxillus involutus grown in peat microcosms containing (NH4)2SO4 nutrient patches. Expression profiles for mycorrhizal root tips (TIP), rhizomorphs (CORD) and the mycelium harvested from (NH4)2SO4 nutrient patches (PATCH) were compared. Our goal was to identify genes that showed nutrient- and tissue-specific differential regulation. <br> <br> The entire design involved 9 slides (DW1_01--DW1_09), 12 labelled extracts, and 3 biological replicates (R1-R3). The experiment was designed as a simple loop (all-pairwise comparisons) of the three tissues including dye-swap, biological and technical replication.
Project description:A microarray analysis was conducted to investigate transcriptional differences between strains of Paxillus involutus that show different abilities in formation of ectomycorrhizal associations with birch (Betula pendula). Our goal was to identify genes that showed differential regulation from comparing incompatible (not mycorrhiza forming) (Nau) and compatible (mycorrhiza forming) strains (ATCC200175 and Maj) of P. involutus, in association with birch. The entire design involved 11 slides (ME01-M11), 13 labelled extracts, and 3 biological replicates (Rep1-Rep3). The experiment was designed as a simple loop (all-pairwise comparisons) of all three strains including dye-swap, biological and technical replication. Additional information: In our pre-processing of data, 4 channels were excluded for further analyses due to overall poor quality and are listed below. Slide ME03, Cy5(635nm) (strain Nau, Rep2) Slide ME04, Cy5(635nm) (strain Nau, Rep2) Slide ME06, Cy5(635nm) (strain Maj, Rep2) Slide ME09, Cy5(635nm) (strain Nau, Rep2)
