Gene expression profiles in HepG2 cells treated with the methanol leaf extract of Tamarindus indica (T. indica)
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ABSTRACT:
ORGANISM(S): Homo sapiens
PROVIDER: GSE71606 | GEO | 2015/08/01
SECONDARY ACCESSION(S): PRJNA291608
REPOSITORIES: GEO
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Project description:The leaf extract of T. indica had been reported to posses high phenolic content and showed high antioxidant activities. However, scientific data on the molecular mechanisms underlying the beneficial properties of the leaf extract are still lacking. In this study, the effects of the leaf extract on the expression of genes in cultured HepG2 cells were investigated using microarray technology. The leaf extract significantly regulated the expression of genes involved with consequential impact on the coagulation system, cholesterol biosynthesis, xenobiotic metabolism signaling and antimicrobial response. HepG2 cells were seeded and treated with an IC20 concentration of the methanol leaf extract of T. indica for 24 h. Following this, cells were trypsinized and then preciptated by centrifugation. Cells were washed with phosphate buffer saline (PBS) before total cellular RNA (tcRNA) were extracted from the cells. tcRNA from both untreated and T. indica leaf-treated HepG2 cells were selected for RNA extraction and hybridization on Affymetrix microarrays. All experiments were done in triplicate. The microarray analysis was performed on Affymetrix Human Gene 1.0 S.T Array according to the manufacturer's protocol. The gene sets were then subjected to analysis of variance (ANOVA) in the Partek Genomics Suite software to determine significantly expressed genes which was set according to P value less than 0.05 and fold change difference of equal to or greater than 1.5.
2015-08-01 | E-GEOD-71606 | biostudies-arrayexpress
Project description:The water extract of the leaf of B. racemosa had been reported to posses high phenolic content and showed high antioxidant activities. However, scientific data on the molecular mechanisms underlying the beneficial properties of the leaf extract are still lacking. In this study, the effects of the leaf extract on the expression of genes in cultured HepG2 cells were investigated using microarray technology. The leaf extract significantly regulated the expression of genes involved with consequential impact on the glycolysis, gluconeogenesis and metabolism of xenobiotics.
2016-03-23 | GSE79473 | GEO
Project description:The water extract of the leaf of B. racemosa had been reported to posses high phenolic content and showed high antioxidant activities. However, scientific data on the molecular mechanisms underlying the beneficial properties of the leaf extract are still lacking. In this study, the effects of the leaf extract on the expression of genes in cultured HepG2 cells were investigated using microarray technology. The leaf extract significantly regulated the expression of genes involved with consequential impact on the glycolysis, gluconeogenesis and metabolism of xenobiotics. HepG2 cells were seeded and treated with an 50 µg/ml of the water leaf extract of B. racemosa for 24 h. Following this, cells were trypsinized and then preciptated by centrifugation. Cells were washed with phosphate buffer saline (PBS) before total cellular RNA (tcRNA) were extracted from the cells. tcRNA from both untreated and B. racemosa leaf-treated HepG2 cells were selected for RNA extraction and hybridization on Affymetrix microarrays. All experiments were done in triplicate. The microarray analysis was performed on Affymetrix Human Gene 1.0 S.T Array according to the manufacturer's protocol. The gene sets were then subjected to analysis of variance (ANOVA) in the Partek Genomics Suite software to determine significantly expressed genes which was set according to P value less than 0.05 and fold change difference of equal to or greater than 1.5.
2016-03-23 | E-GEOD-79473 | biostudies-arrayexpress
Project description:In this study, the hypolipidemic effects of Tamarindus indica fruit pulp extract (Tifpe) in the serum obtained from diet-induced hypercholesterolemic hamsters were investigated using two-dimensional gel electrophoresis and mass spectrometry. Significantly altered levels of serum proteins were validated using ELISA. Hamsters fed with Tifpe, both in the absence and presence of high-cholesterol diet, were shown to have significantly reduced levels of serum triglyceride, LDL-C and total cholesterol. The Tifpe fed non-hypercholesterolemic hamsters also showed significant enhanced levels of serum apolipoprotein A1 (APOA1), antithrombin III (ATIII), transferrin (TF), transthyretin and vitamin D binding protein (VDBP). In diet-induced hypercholesterolemic hamsters, APOA1, ATIII and TF, which were relatively low in levels, became significantly enhanced when the hamsters were fed with Tifpe. These Tifpe-fed hypercholesterolemic hamsters also showed significant higher levels of serum VDBP. Ingenuity Pathway Analysis of the Tifpe modulated serum proteins singled out “Lipid metabolism, molecular transport, small molecule biochemistry” as the top network. Our results suggest that the hypolipidemic effects of Tifpe are associated with alterations of serum proteins that are known to be cardioprotective and involved in the metabolism of lipids.
2018-10-04 | PXD010232 | Pride
Project description:Plant-derived secondary metabolites found in animal feed sources are beneficial for nutrition and health. Cowpea is a protein and phenolic-rich forage used as feed resource in animal system. The objective of this study was to understand the effect of cowpea secondary metabolites on gene expression in cows blood in vitro. Whole blood collected from Holstein Friesian cows (n=5) were treated with 10 ug/ml of cowpea leaf phenolic extract and untreated samples served as control. Total RNA was isolated and pooled together for microarray analysis. The Agilent one color bovine (v2) 4x44KÂ array was used and preliminary gene expression profiles generated using Cy3 labeled cDNA from CPE-stimulated and untreated samples. Gene expression analysis revealed a total of 3170 differentially expressed genes- 1716 up regulated and 1454 down regulated genes respectively. Pathway analysis identified CPE treatment association with innate immune response pathways including Toll-like receptor (TLR) signaling pathway, the Wnt signaling pathway, inflammation response pathway, and increased expression of the transcription factor NFKB1 were observed. Treatment with CPE decreased the expression of proinflammatory cytokines IL1A, IL1B and IL21. Quantitative real time PCR was performed to validate some gene members of the Toll-like receptor, inflammation response and Wnt signaling pathways. In vitro treatment with CPE impacted global gene expression profile in cow blood and results obtained in this study shows the potential immuno-modulatory properties of cowpea feed phenolic in cows. The global gene expression of the effect of cowpea phenolic extract (CPE) was measured in bovine peripheral blood.The experiment involved two groups; cowpea phenolic extract (CPE) treated samples vs untreated control group. Pooled RNA samples from each group was hybridized on Agilent one color bovine (v2) 4x44KÂ microarray slides. Two slides were prepared each with 4 array compartment.
2015-11-21 | E-GEOD-75239 | biostudies-arrayexpress
Project description:An indica rice cultivar IET8585 (Ajaya), resists diverse races of the Xanthomonas oryzae pv oryzae (Xoo) pathogen attack, and is often cultivated as bacterial leaf blight (blb) resistant check in India. Earlier we reported a recessive blb resistance gene mapped to the long arm of chromosome 5 in IET8585. To further understand the mechanism of recessive and durable resistance response, two indica rice genotypes namely, i) IET8585 (Ajaya), a disease resistant indica veriety from India and ii) IR24, a bacterial leaf blight disease susceptible genotype were selected for this study. We used the 22K rice Oligoarray from Agilent technologies to study the transcript profile in the leaves of the two contrasting rice genotypes under inoculated and un-inoculated conditions during seedling stage. Keywords: Bacterial leaf blight disease resistance mechanism
2007-10-29 | GSE6244 | GEO
Project description:Colonization of barley roots with the basidiomycete fungus Piriformospora indica enhances resistance against the leaf pathogen Blumeria graminis f.sp. hordei (Bgh). To identify genes involved in this mycorrhiza-induced systemic resistance, we used the Affymetrix Barley1 22K gene chip for leaf transcriptome analysis of P. indica-colonized and non-colonized barley plants 12, 24 and 96 hours post inoculation (hpi) with a compatible Bgh strain.
2011-10-06 | E-MEXP-3389 | biostudies-arrayexpress
Project description:Many genes involve in pathogenicity and virulence are induced only in plant or in the presence of host components. Bean leaf extract was obtained from healthy bean leaves. In this work we investigated the effect of bean leaf extract on the transcriptomic profile of the bacterium, when grown at low temperature in minimal medium with or without extract from healthy bean leaves.
2009-03-03 | GSE14998 | GEO
Project description:An indica rice cultivar IET8585 (Ajaya), resists diverse races of the Xanthomonas oryzae pv oryzae (Xoo) pathogen attack, and is often cultivated as bacterial leaf blight (blb) resistant check in India. Earlier we reported a recessive blb resistance gene mapped to the long arm of chromosome 5 in IET8585. To further understand the mechanism of recessive and durable resistance response, two indica rice genotypes namely, i) IET8585 (Ajaya), a disease resistant indica veriety from India and ii) IR24, a bacterial leaf blight disease susceptible genotype were selected for this study. We used the 22K rice Oligoarray from Agilent technologies to study the transcript profile in the leaves of the two contrasting rice genotypes under inoculated and un-inoculated conditions during seedling stage. Experiment Overall Design: We used Agilent rice gene chips (G4138A) to investigate the transcript level changes in rice leaf tissues during bacterial pathogen infection. We used two contrasting rice genotypes (IET8585 (Ajaya) blb resistant IR24 blb susceptible) differing in bacterial disease response. Plants were grown growth chambers and inoculated with bacterial pathogen on 18th DAS. Leaf sampling was done in both un-inoculated and inoculated plants at 3 time points. Two replications of microarray experiments were carried out by hybridizing the resistant samples against the susceptible samples.
2008-06-14 | E-GEOD-6244 | biostudies-arrayexpress
Project description:An indica rice cultivar FR13A, is widely grown as submergence tolerant variety and can withstand submergence up to two weeks. The tolerance is governed by a major QTL on chromosome 9 and represented as sub1. Recently the gene for sub1 has been mapped and cloned. However, the trait is governed by several QTLs and not by a single gene. To understand the mechanism of submergence tolerance we selected, two indica rice genotypes namely, I) FR13A, a tolerant indica variety and ii) IR24, a susceptible genotype for this study. We used the 22K rice Oligoarray from Agilent technologies to study the transcript profile in the leaves of the two contrasting rice genotypes under constitutive and submerged conditions at seedling stage. SUBMITTER_CITATION: Combining In Silico Mapping and Arraying: an Approach to Identifying Common Candidate Genes for Submergence Tolerance and Resistance to Bacterial Leaf Blight in Rice. Mol. Cells 2007 24:394-408. Experiment Overall Design: We used Agilent rice gene chips (G4138A) to investigate the transcript level changes in rice leaf tissues during submergence treatment. We used two contrasting rice genotypes (FR13A tolerant and IR24 susceptible) differing in submergence response. Plants were grown in growth chambers and treated by submerging the plants in transparent polythene bags on14th DAS. Leaf sampling was done in both constitutive and treated plants at 3 time points. Two replications of microarray experiments were carried out by hybridizing the RNA from tolerant samples against the susceptible lines.
2008-06-14 | E-GEOD-6362 | biostudies-arrayexpress