ABSTRACT: Additional new species of Grouvellinus Champion 1923 (Insecta, Coleoptera, Elmidae) discovered by citizen scientists and genetically barcoded in the field applying a new MinION-based workflow
Project description:First descriptions of larval stages of Grouvellinus spp. (Insecta: Coleoptera: Elmidae) from Borneo matched with the imagines by mtDNA barcodes.
Project description:Ancyronyx clisteri, a new Spider Water Beetle species from Borneo and comments on the variability and distribution of A. sarawacensis Jäch with description of the larva using DNA barcodes (Coleoptera: Elmidae)
| PRJEB34970 | ENA
Project description:Analysis of repetitive DNA in Coleoptera (Insecta)
| PRJNA791791 | ENA
Project description:Phylogeny of the Quediini (Insecta: Coleoptera: Staphylinidae)
Project description:We present a new approach, Light-Seq, for multiplexed spatial indexing of intact biological samples using light-directed DNA barcoding in fixed cells and tissues followed by ex situ sequencing. Light-Seq combines spatially-targeted, rapid photocrosslinking of DNA barcodes onto cDNAs in situ with a novel one-step DNA stitching reaction to create pooled, spatially-indexed sequencing libraries. This light-directed barcoding enables in situ selection of multiple cell populations in intact fixed tissue samples for full transcriptome sequencing based on location, morphology, or protein stains, without cellular dissociation. Applying Light-Seq to mouse retinal sections, we recovered thousands of differentially enriched transcripts from three adjacent cellular layers and discovered new biomarkers for a very rare neuronal subtype, dopaminergic amacrine cells, from only 4-8 individual cells per section. Light-Seq provides an accessible workflow to combine in situ imaging and protein staining with next-generation sequencing of the same cells, leaving the sample intact sample for further analysis post-sequencing.
Project description:Primases are key enzymes involved in DNA replication. They act on single-stranded DNA, and catalyze the synthesis of short RNA primers used by DNA polymerases. Here, we investigate the DNA-binding and functional activity of the bacteriophage T7 primase using a new workflow called High-Throughput Primase Profiling (HTPP). Using a unique combination of high-throughput binding assays and biochemical analyses, HTPP reveals a complex landscape of binding specificity and functional activity for the T7 primase, determined by sequences flanking the primase recognition site. We identified specific features, such at G/T-rich flanks, which in-crease primase-DNA binding up to 10-fold and, surprisingly, also increase the length of newly formed RNA (2-3 fold). To our knowledge, variability in primer length has not been reported for this primase. We expect that applying HTPP to additional enzymes will reveal new insights into the effects of DNA sequence composition on the DNA recognition and functional activity of primases.
2018-08-23 | GSE102981 | GEO
Project description:New library preparation workflow inspired by DISTAL ligation
Project description:New method to measure tumor growth with programmable multiplexed CRISPR/Cas9-induced genotypes via ultra-deep sequencing of DNA barcoded tumors
