Effect of FDC-SP on Gene Expression of Human Periodontal Ligament Cells
ABSTRACT: Previous research has reported that FDC-SP had similar molecular properties to statherin, a protein exists in saliva which plays important roles in preventing Ca precipitation. Further biomolecular study has suggested that the expression of FDC-SP may be associated with periodontal ligament (PDL) phenotype expression. Therefore, we hypothesized that FDC-SP may play specific roles in the inhibition of calcium precipitation during periodontal regeneration, as well as affect phenotype expression of periodontal ligament cells (PDLCs) during the differentiation process. To investigate this, we applied microarray technology to identify gene expression changes in hPDLCs transfected with FDC-SP and then clustered them according to their biological functions. We firstly established a recombinant lentiviral vector containing FDC-SP and obtained safe and efficient FDC-SP overexpression in human periodontal ligament cells (hPDLCs). After that, we applied Agilent Whole Human Genome Oligo Microarray (4×44K) to identify differentially expressed genes between empty vector-transfected hPDLCs and FDC-SP -transfected ones and then clustered them according to their biological functions. 3 independent experiments were performed and the empty vector-transfected hPDLCs were used as control.
Project description:The alkaliphilic halotolerant bacterium Bacillus sp. N16-5 often faces salt stress in its natural habitats. One-color microarrays was used to investigate transcriptome expression profiles of Bacillus sp. N16-5 adaptation reactions to prolonged grown at different salinities (0%, 2%, 8% and 15% NaCl) and the initial reaction to suddenly alter salinity from 0% to 8% NaCl. Salt induced gene expression was measured when culture was grown on different salinities (0%, 2%, 8% and 15% NaCl) to mid-logarithmic phase. And salt induced gene expression was also measured at 0 min, 10 min, 30 min, 60min, 120min after a sudden change salinity from 0% to 8% NaCl.
Project description:This study describes the discovery of the gene responsible for differentiation of stem cells into ligament tissue. This important finding may lead to the development of treatments for gonarthrosis, rupture of the cruciate ligament and periodontal ligament, and ossification of the posterior longitudinal ligament. This study describes the discovery of the gene (A) responsible for differentiation of stem cells into ligament tissue. The transfection of this gene into mouse mesenchymal stem cells resulted in the formation of ligament-like connective tissue composed of parallel fibres. We performed microarray analysis of four samples: stem cells (sample1), ligament-like tissue from stem cells transfected with A (sample 4), ligament tissue from A-transgenic mice (sample 2) , and ligament tissue from wild type mice (sample 3).
Project description:Periodontitis can impair the osteogenic differentiation of human periodontal mesenchymal stem cells, but the underlying molecular mechanisms are still poorly understood. Long noncoding RNAs (lncRNAs) have been demonstrated to play significant roles under both physiologic and pathological conditions. We performed comprehensive lncRNAs profiling by lncRNA microarray to identify differentially expressed long noncoding RNA expression between Periodontal ligament stem cells from healthy Periodontal tissue and periodontal ligament stem cells from inflammatory periodontal tissue. Our analysis identified 233 lncRNAs and 423 mRNAs that were differently expressed (fold change >2.0, p-value < 0.05) between the two groups of cells. The GO analysis revealed that the significantly down-regulated biological processes included multicellular organismal process, developmental process and multicellular organismal development and the significantly up-regulated biological processes included cellular process, biological regulation and response to stimulus in periodontal ligament stem cells from inflammatory periodontal tissue. The Pathway analysis revealed that the differentially expressed mRNAs may involved in Focal adhesion, ECM-receptor interaction, Bacterial invasion of epithelial cells, Long-term depression, Circadian entrainment and HIF-1 signaling pathway. Two-condition experiment, periodontal ligament stem cells from healthy periodontal tissue (hPDLSCs) vs. periodontal ligament stem cells from inflammatory periodontal tissue (pPDLSCs), Biological replicates: 3 control replicates (hPDLSCs), 3 testing replicates (pPDLSCs).
Project description:Alkaline hemicellulytic bacteria Bacillus sp. N16-5 has abroad substrate spectrum and exhibits great growth ability on complex carbohydrates. In order to get insight into its carbohydrate utilization mechanism, global transcriptional profiles were separately determined for growth on glucose, fructose, mannose, galactose, arabinose, xylose, galactomannan, xylan, pectin and carboxymethyl cellulose by using one-color microarrays. Substrate induced gene expression was measured when culture was grown on glucose, fructose, mannose, galactose, arabinose, xylose, galactomannan, xylan and CMC to mid-logarithmic phase.
Project description:To delineate the putative biological functions for lncRNA625, We performed expression profile from stably-transfected KYSE150 transfected with shlncRNA625 or shscramble for functions of lncRNA625 in ESCC Stably-transfected KYSE150, transfected with shlncRNA625 or shscramble, were collected and lysed in TRIzol (Life technologies). Microarray experiments were performed following the Affymetrix protocol at the Shanghai Biotechnology Corporation.
Project description:Comparison of expression profiles in adipose derived MSCs (AD-MSCs) without or with transfection of siR-EID1 and shR-EID1 and cord blood-derived HSCs (CB-HSCs). After MSCs were transfected with sRNA-EID1, they could be converted into HSCs. The goal was to determine possible molecular mechanisms of MSC transdetermination. Two-condition experiments: AD-MSCs vs CB-HSCs, and AD-MSCs transfected with the combination of siR-EID1 and shR-EID1 vs AD-MSCs transfected with shR-EID1.
Project description:Limited nutrient availability during development puts individuals at risk to develop complications later in life. Central in this early-life stress paradox lies developmental plasticity, a poorly understood mechanism that responds to environmental cues from early to late developmental stages. In this study, we aim to introduce the zebrafish (Danio rerio) as a model to study the early-developmental responses to reduced nutrient availability and their outcome. To reduce nutrient availability, we partially remove the yolk during embryogenesis. Around 5 hours post-fertilization, from 3 batches of embryos, we removed ~30% of the yolk (YD samples) or sham-punctured embryos (SP) with a Hamilton syringe system. At 2 days post-fertilization, we collected RNA from whole embryos and obtained transcriptome profiles by microarray hybridization.
Project description:We knocked down EP300 and examined the expression of lncRNA625 target genes. Gene expression profiling of knockdown samples on cDNA microarrays indicated that EP300 affected expression of several lncRNA625 downstream target genes Stably-transfected KYSE150, transfected with shlncRNA625 or shscramble, were collected and lysed in TRIzol (Life technologies). Microarray experiments were performed following the Affymetrix protocol at the Shanghai Biotechnology Corporation.