Project description:10-day-old seedlings from Col and h2a.w mutants (h2a.w.6, h2a.w.7, h2a.w.6,7, h2a.w.6,7,12) were harvested. Nuclei extracted using Honda buffer was fragmented with mirococcal nuclease (MNase, NEB M0247S). The fragmented DNA was purified by phenol/chloroform/isoamyl alcohol (24:24:1) extraction, followed by ethanol precipitation and 2% agarose gel separation and gel extraction of ~145-150 bp DNA. Purified DNA sent to BGI (Hong Kong) for library preparation and sequencing.
Project description:0.3-0.5 mm buds from Col and h2a.w mutants (h2a.w.6,7, h2a.w.6,7,12) were harvested. Nuclei extracted using Honda buffer was fragmented with mirococcal nuclease (MNase, NEB M0247S). The fragmented DNA was purified by phenol/chloroform/isoamyl alcohol (24:24:1) extraction, followed by ethanol precipitation and 2% agarose gel separation and gel extraction of ~145-150 bp DNA. Purified DNA sent to BGI (Hong Kong) for library preparation and sequencing.
Project description:We determined the transcriptomes of hda9-1, pif4-2 and wild type Col-0 seedlings of 2 day old and 7 day old, at control and high temperature conditions (22oC vs 27oC), in short day (8h) photoperiod
Project description:Heterochromatin of flowering plants is occupied by histone variant H2A.W and marked by DNA and H3K9 methylation. The relative impact of these heterochromatic features on activity of Transposable Elements (TEs) remains largely unknown. We obtained mutants deficient for H2A.W and key components controlling each of the key heterochromatic pathway in Arabidopsis and observed that knock out of individual pathway does not affect in a major manner TEs activity. However, when we combine the loss of H2A.W with any of the other heterochromatin controller we observe synergistic effects on heterochromatin compaction as well TEs activity. H2A.W appears to control expression of all TEs while each other heterochromatin controller target distinct subsets of TEs. We also observe an impact of linker histone H1. We propose that H2A.W acts together with several components of heterochromatin to prevents activity of distinct sets of TEs activity and chromatin architecture. Synergistic action with H2A.W is more prominent specifically in pathways controlled by the plant specific DNA chromomethyltransferases, CMT2 and CMT3.
Project description:rs09-06_silencing-muntants - silencing mutants - Find endogenous targets of SDE3, SDE5 and IR71. - Lines IR71 KO n°3, smd8#25, sde3 (Col-0), sde5 (Col-0), Suc-SUL(Col-0) and Col-0 were grown for 11 days on MS solid medium, seedlings were then transferred in MS liquid medium and harvested 2.5 days after. Keywords: genotype comparaison
Project description:We aimed to compare the differences in gene expression in Col-0 and ein2-5 seedlings under glucose depletion and glucose recovery conditions. Col-0 and ein2-5 seedlings were germinated in liquid 1/2 MS medium without glucose for 4 days and were then treated with or without glucose for 2 hours. mRNA seq was performed to make the comparisons.
Project description:1-day-old seedlings of Col-0 and vil1-1 were performed RNA-Seq to identify differentially expressed genes caused by VIL1 mutation in Arabidopsis