Project description:To investigate the effect of aging on mitochondrial gene expression we isolated liver mitochondria from 4 12-week and 4 65-week C57BL/6N WT mice. We then isolated RNA and prepared the barcoded library using PCR-cDNA Barcoding Kit SQK-PCB109 and ran it on MinIOn R9.4.1 Flow cells.
Project description:Seeking life in sedimented waters: environmental DNA from diverse habitat types reveals ecologically significant species in a tropical marine environment
Project description:RNA silencing is a mechanism for regulating gene expression at the transcriptional and post-transcriptional levels. Its functions include regulating endogenous gene expression and protecting the cell against viruses and invading transposable elements (TEs). A key component of the mechanism is small RNAs (sRNAs) of 21-24 nucleotides (nt) in length, which direct the silencing machinery in a sequence specific manner to target nucleic acids. sRNAs of 24 nt are involved in methylation of cytosine residues of target loci in three sequence contexts (CG, CHG and CHH), referred to as RNA-directed DNA methylation (RdDM). We previously demonstrated that 24 nt sRNAs are mobile from shoot to root in Arabidopsis thaliana. In this study we demonstrated that methylation of thousands of loci in root tissues is dependent upon mobile sRNAs from the shoot. Furthermore, we found that mobile sRNA-dependent DNA methylation occurs predominantly in non-CG contexts. These findings were made using base-resolution next generation sequencing approaches and genome wide analyses. Specific classes of short TEs are the predominant targets of mobile sRNA-dependent DNA methylation; classes typically found in gene-rich euchromatic regions. Mobile sRNA-regulated genes were also identified. Mechanistically, we demonstrate that mobile sRNA-dependent non-CG methylation is largely independent of the CMT2/3 RdDM pathway but dependent upon the DRM1/DRM2 RdDM pathway. This is in contrast to non-mobile sRNA-dependent DNA methylation, which predominantly depends upon the CMT2/3 RdDM pathway. These data are complementary to the small RNA sequencing data from Arabidopsis root grafts described in Molnar et al (Science, 2010 May 14;328(5980):872-5).
Project description:The genome of two isogenic lines from Aedes aegypti from Ile Royale, French Guiana, with a marked difference in resistance to deltamethrin was investigated in order to understand the genetic basis of this phenotypic difference. Genomic sequencing was performed both with Illumina short, paired reads and with Minion long reads.
