Project description:Bisulfite treatment libraries were made to characterize DNA methylation of Norway spruce Overall design: Genome-wide methylome was done by Illumina TruSeq preparation kits followed by high-throughput sequencing with Illumina HiSeq 2500
Project description:The goal is to look at changes in the pattern of expression of the xylem transcriptome through the growth season in two spruces (Picea glauca and Picea abies). One-color comparison of active xylem collected in June, July, August and September, in two spruce species. Six biological repetitions per time point and specie, for a total of 48 slides.
Project description:Conifer-specific responses to elicitation with the chemical elicitor chitosan have been investigated using a transcriptome analysis in Norway spruce using a cell suspension culture system that has been previously described (Phillips, Walter et al. 2007). This study has demonstrated that the early events following chitosan elicitation include calcium mediated signaling and an oxidative response that have not previously been described in intact trees. Keywords: stress response Overall design: A factorial hybridization design with dye balance was chosen to assess gene expression among the untreated control cells, the four time points of cells treated with chitsan (i.e., 15 min, 30 min, 45 min and 2h), and cells treated with the heat-killed Ceratocystis polonica fungus (30 min). Each of the eight biological replicates for each treatment and time point were hybridized only once for a total of 24 hybridizations.
Project description:An attractive objective in the breeding of forest trees is to reduce the content of lignin or alter the lignin composition. However, for long-lived forest trees, such as conifers, it is time consuming and expensive to wait until mature wood is formed for estimating how different ligninfication genes affect cell wall differentiation. The aim of this work was to examine the possibility of detecting changes in global gene expression and of genes involved in lignin biosynthesis already in embryogenic cultures carrying the native Norway spruce cinnamoyl CoA reductase (CCR) gene in antisense orientation. Several genes, including genes regulating phenylalanine ammonia-lyase and peroxidase, regulating different pathways associated with lignin biosynthesis were affected but the transcript abundances of genes regulating lignin biosynthesis were not affected. Functional assignment defined by Gene Ontology terms, which provide functional classification for genes and gene products representing their corresponding biological process, cellular component and molecular function showed that transformation with asCCR affects a broad spectrum of functional categories, especially processes taking place in the cell wall. Furthermore, many changes in genes related to chromatin, DNA and chromosome take place. Keywords: transgenic Norway spruce, embryogenic culture Overall design: Comparing three asCCR lines, A78:3, A78:4, A78:5; twotransformed control lines, G88:5, G88:9; and the untransformed line 95:11:22. The embryogenic lines were compared in a fully balanced loop design for each biological replicate encompassing in total 24 microarray slides.