Project description:To provide a transcriptome resource for identification of transcripts where abundance correlated with developmental changes in willow plantlets derived from bud culture after transfer to soil.
Project description:Proper development of limb bud relies on the concordance of various signals, otherwise limb deformities occur. We report that heterogeneous nuclear ribonucleoprotein K (hnRNPK) is essential for limb bud development. here, we knock out Hnrnpk in limb bud and exert the RNA-seq, ATAC-seq, CUT&RUN-seq, and Hi-C assay using primary limb bud cells to explore the function of Hnrnpk in limb bud development.
Project description:Shrub willow (Salix spp.), a short rotation woody biomass crop, has superior properties as a perennial energy crop for the Northeast and Midwest US. However, the insect pest potato leafhopper Empoasca fabae (Harris) (PLH) can cause serious damage and reduce yield of susceptible genotypes. Currently, the willow cultivars in use display varying levels of susceptibility under PLH infestation. However, genes and markers for resistance to PLH are not yet available for marker-assisted selection in breeding. In this study, transcriptome differences between a resistant genotype 94006 (S. purpurea) and a susceptible cultivar ‘Jorr’ (S. viminalis), and their hybrid progeny were determined. Over 600 million RNA-Seq reads were generated and mapped to the Salix purpurea reference transcriptome. Gene expression analyses revealed the unique defense mechanism in resistant genotype 94006 that involves PLH-induced secondary cell wall modification. In the susceptible genotypes, genes involved in programed cell death were highly expressed, explaining the necrosis symptoms after potato leafhopper feeding. Overall, the discovery of resistance genes and defense mechanisms provides new resources for shrub willow breeding and research in the future.
Project description:We have conducted a season and subspecies comparasion on the two Willow Warbler subspecies Phylloscopus trochilus trochilus and Phylloscopus trochilus acredula. The analysis were performed by hybridizing cDNA from the Willow Warbler (Phylloscopus trochilus) on a Affymetrix costum array designed for the zebra finch (Taeniopygia guttata), the Lund-zf array.
Project description:Analysis of pathways altered by aggregation culture during differentiation from pancreatic progenitor cells into pancreatic bud cells. The hypothesis tested in the present study was that the high-cell density culture induces specific signals to facilitate the differentiation into pancreatic bud cells. Results provide the differentially regulated pathways between the low-cell density cultures and the high-cell density cultures.
Project description:Comparison of gene expression in differentiating limb bud mesenchymal cells harvested at 0, 1 day and 3 days culture. Keywords: other
