Project description:The reduviid bug Triatoma dimidiata is an important Chagas disease vector widely distributed along Central America. This insect has great capability for domestic adaptation as the majority of specimens caught inside human dwellings or in peridomestic areas in Central America fed human blood. Within this context, exploring the salivary compounds that overcome host haemostatic and immune responses to assist blood-feeding is of great scientific interest. Our aim is to provide a deeper insight into T. dimidiata salivary gland molecules that may contribute to its haematophagic habit. We realized T. dimidiata salivary transcriptomic analysis and complemented it through proteomics, disclosing the set complexity of 119 secreted proteins. The large-scale approach used enriches the pharmacologically active molecules database and improves our knowledge about the complexity of salivary compounds from haematophagous vectors and their biological interactions.
Project description:This study focuses on determining resistance to different pyrethroids in populations of Triatoma dimidiata of Boyacá, Colombia. To determine the possible causes of resistance, we sequenced RNA of three populations: laboratory, field, and under pressure of lambda-cyhalothrin. Transcriptomic profile analyses of T. dimidiata revealed differentially regulated genes in both the field population and in the laboratory population under pressure from lambda-cyhalothrin. Gene enrichment analysis showed positive regulation of transcripts related to detoxifying enzymes and mitochondrial proteins, suggesting a significant role in resistance.
Project description:Purpose: The goal of this study is to compare endothelial small RNA transcriptome to identify the target of OASL under basal or stimulated conditions by utilizing miRNA-seq. Methods: Endothelial miRNA profilies of siCTL or siOASL transfected HUVECs were generated by illumina sequencing method, in duplicate. After sequencing, the raw sequence reads are filtered based on quality. The adapter sequences are also trimmed off the raw sequence reads. rRNA removed reads are sequentially aligned to reference genome (GRCh38) and miRNA prediction is performed by miRDeep2. Results: We identified known miRNA in species (miRDeep2) in the HUVECs transfected with siCTL or siOASL. The expression profile of mature miRNA is used to analyze differentially expressed miRNA(DE miRNA). Conclusions: Our study represents the first analysis of endothelial miRNA profiles affected by OASL knockdown with biologic replicates.
Project description:A cDNA library was constructed by Novogene (CA, USA) using a Small RNA Sample Pre Kit, and Illumina sequencing was conducted according to company workflow, using 20 million reads. Raw data were filtered for quality as determined by reads with a quality score > 5, reads containing N < 10%, no 5' primer contaminants, and reads with a 3' primer and insert tag. The 3' primer sequence was trimmed and reads with a poly A/T/G/C were removed
Project description:Whole exome sequencing of 5 HCLc tumor-germline pairs. Genomic DNA from HCLc tumor cells and T-cells for germline was used. Whole exome enrichment was performed with either Agilent SureSelect (50Mb, samples S3G/T, S5G/T, S9G/T) or Roche Nimblegen (44.1Mb, samples S4G/T and S6G/T). The resulting exome libraries were sequenced on the Illumina HiSeq platform with paired-end 100bp reads to an average depth of 120-134x. Bam files were generated using NovoalignMPI (v3.0) to align the raw fastq files to the reference genome sequence (hg19) and picard tools (v1.34) to flag duplicate reads (optical or pcr), unmapped reads, reads mapping to more than one location, and reads failing vendor QC.
