ABSTRACT: Exploiting next-generation sequencing and third-generation sequencing to assemble whole-genome sequences and annotate genes for functional probiotics of Lacticaseibacillus paracasei strain GMNL-143
Project description:MiR-143 is a miRNA commonly found to be downregulated in a variety of cancers. The goal of this study is the identifacation of miR-143 target mRNAs by next generation sequencing (NGS) in myeloid cells after overxpression of miR-143.
Project description:MicroRNAs (miRNAs) have emerged as important gene regulators and are recognized as key players in tumorigenesis. miR-143 is reported to be down-regulated in several cancers, but knowledge of its targets in colon cancer remains limited. To investigate the role of miR-143 in colon cancer, we have employed a microarray based approach to identify miR-143 targets. Based on seed site enrichment analyses and unbiased word analyses, we found a significant enrichment of miRNA binding sites in the 3’-untranslated regions (UTRs) of transcripts down-regulated upon miRNA overexpression. Here we identify Hexokinase 2 (HK2) as a direct target of miR-143 and show that re-introduction of miR-143 in the colon cancer cell line DLD-1 results in a decreased lactate secretion, indicating that miR-143 down-regulation of HK2 affects glucose metabolism in colon cancer cells.
Project description:To investigate molecular network mediated by miR-143, we analyzed the transcriptome profile of retinas isolated from neonatal pups subjected to either normoxia or oxygen-induced retinopathy (OIR) for 14 days (P14) receiving an intravitreal injection of either scrambled miRNAs (control) or miR-143 mimics. Total RNAs were isolated from the retinas and subjected to RNA-Seq. Analysis of RNA-Seq data identified 2064 genes with altered levels between OIR rats and shame rats receiving scrambled RNAs (adjusted p<0.05).