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Genome-wide expression profiling of the response to D-limonene in Saccharomyces cerevisiae

ABSTRACT: Metabolic engineering of Saccharomyces cerevisiae for efficient monoterpenes production was mostly restricted by the limited tolerance to these chemicals. Understanding of the molecular mechanisms underlying the tolerance of S. cerevisiae to monoterpenes was essential for the de novo biosynthesis these chemicals in S. cerevisiae. In this study, commercial oligonucleotide microarray assays were performed to investigate the global response of S. cerevisiae to typical monoterpene D-limonene under transcriptional level. Yeast cell treated with sublethal dose of D-liomonene, gene change profiles were investigated at transcription level and the microarry data were also verified with quantitative real time PCR.

ORGANISM(S): Saccharomyces cerevisiae

PROVIDER: GSE34665 | GEO | 2013/12/23

SECONDARY ACCESSION(S): PRJNA151233

REPOSITORIES: GEO

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Genome-wide expression profiling of the response to D-limonene in Saccharomyces cerevisiae

Project description:Metabolic engineering of Saccharomyces cerevisiae for efficient monoterpenes production was mostly restricted by the limited tolerance to these chemicals. Understanding of the molecular mechanisms underlying the tolerance of S. cerevisiae to monoterpenes was essential for the de novo biosynthesis these chemicals in S. cerevisiae. In this study, commercial oligonucleotide microarray assays were performed to investigate the global response of S. cerevisiae to typical monoterpene D-limonene under transcriptional level. Yeast cell treated with sublethal dose of D-liomonene, gene change profiles were investigated at transcription level and the microarry data were also verified with quantitative real time PCR. D-limonene induced gene expression in Saccharomyces cerevisiae at early logarithmic phase was measured at 2 hours after exposure to doses of 0.02% (v/v) D-limonene. Three independent experiments were performed for each experiment (control or 2 hours).

2013-12-23 | E-GEOD-34665 | biostudies-arrayexpress

Development of Corynebacterium glutamicum as a monoterpene production platform

Project description:Monoterpenes are commonly known for their role in the flavors and fragrances industry and are also gaining attention for other uses like insect repellant and as potential renewable fuels for aviation. Corynebacterium glutamicum, a Generally Recognized as Safe microbe, has been a choice organism in industry for the annual million ton-scale bioproduction of amino acids for more than 50 years; however, efforts to produce monoterpenes in C. glutamicum have remained relatively limited. In this study, we report a further expansion of the C. glutamicum biosynthetic repertoire through the development and optimization of a mevalonate-based monoterpene platform. In the course of our initial plasmid design iterations, we demonstrated an increased flux through the mevalonate-based bypass pathway to increase isoprenol production to the highest reported titers to date at nearly 1.5 g/L. These designs also evaluated the effects of backbone, promoter, and GPP synthase homolog source on product titers. Monoterpene production was further improved by disrupting competing pathways for isoprenoid precursor supply and by implementing a biphasic production system to prevent volatilization. With this platform, we achieved 486.3 mg/L (± 54.6 mg/L) of geranoids, 557.3 mg/L of 1,8-cineole (± 12.3 mg/L), and 209.7 mg/L of linalool (±23.9 mg/L). Furthermore, we determined that C. glutamicum oxidizes geraniol through an aldehyde intermediate before asymmetrically reducing geraniol to citronellol.

2024-02-28 | PXD044193 | Pride

Expression profiling of Grosmannia clavigera (Gc) under various conditions

Project description:Gc, a Mountain pine beetle associated pathogen, can survive from highly abundant pine chemicals ( e.g terpenes) and use some unflavored compound’s as carbon source. using RNA_Seq, we analyzed the transcriptome of Gc when it grew on limonene, mannose oliver-oil, oleic acid as carbon source, as well as when it survived from high concentration of limonene or heptane. We profiled the expression of some interesting genes ( ABC transporters, P450s) potentially involved in the tree-pathogen interaction. An ABC-G group transporter gene (GcABC-G1) was one of the most highly induced genes and characterized as a mono-terpene specific efflux transporter with genetic and molecular tools. RNA- seq also indicated Gc utilize limonene and oleic acid through the same beta-oxidation pathway. However the degradation of limonene is more complex and multiple pathways contributed to the survival/utilization.

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Expression profiling of Grosmannia clavigera (Gc) under various conditions

2013-12-31 | E-GEOD-43006 | biostudies-arrayexpress

Downregulated d-limonene transgenic orange trees with increased linalool content showed resistance to Phyllosticta citricarpa

Project description:Terpene volatiles play an important role in the interactions among specialized pathogens and fruits. Citrus Black Spot (CBS), caused by the fungus Phyllosticta citricarpa, is associated with losses in different citrus-growing areas worldwide. The pathogen may infect the fruit for 20-24 weeks after petal fall but the typical hard spot symptoms appear when the fruit become almost mature, as consequence of fungal colonization and induction of cell lyses around essential oil cavities. D-limonene represents about 95% of total oil gland content in mature orange fruit. We have used here d-limonene synthase downregulated orange fruit generated via an antisense (AS) approach to investigate whether d-limonene decrease content in peel oil glands may affect fruit interaction with P. citricarpa compared to that of empty-vector (EV) controls. AS fruit showed enhanced resistance to the fungus compared to EV ones. Because of d-limonene decreased content, an over-accumulation of linalool and other monoterpene alcohols was found in AS compared to EV fruit. A global gene expression analysis at 2h and 8d after inoculation with P. citricarpa revealed activation of defence responses in AS fruit, via the upregulation of different PR genes, likely due to the enhanced constitutive accumulation of linalool and other alcohols. When assayed in vitro and in vivo, the main altered terpene volatile compounds including linalool at concentrations emulating those present in AS fruit, showed strong antifungal activity. We show here that terpene engineering in fruit peels could be a promising method for developing new strategies to obtain resistance to fruit diseases.

2018-04-13 | GSE99295 | GEO

Using the combined analysis of transcripts and metabolites to propose key genes for differential terpene accumulation across two regions

Project description:To obtain an interpretation from the view of transcriptome on distinct metabolite accumulation between ecologically different regions in China, next-generation sequencing technology was performed on E-L 31, 35，36 and 38 stages of Muscat Blanc a Petits Grains grape berries from Changli (CL, eastern) and Gaotai (GT, western). Transcriptome analysis revealed that some key genes involved in terpene synthesis were markedly up-regulated in the CL region. Particularly in the MEP pathway, the expression of VvHDR (1-hydroxy-2-methyl-2-butenyl 4-diphosphate reductase) paralleled with the accumulation of terpenes, which can promote the flow of isopentenyl diphosphate (IPP) into the terpene synthetic pathway. The glycosidically bound monoterpenes accumulated differentially along with maturation in both regions, which is synchronous with the expression of a monoterpene glucosyltransferase gene (VvGT14). Other genes were also found to be related to the differential accumulation of terpenes and monoterpene glycosides in the grapes between regions. Transcription factors that could regulate terpene synthesis were predicted through gene co-expression network analysis. Additionally, the genes involved in abscisic acid (ABA) and ethylene signal responses were expressed at high levels earlier in GT grapes than in CL grapes.

2015-07-22 | GSE71146 | GEO

Transcription profiling of Arabidopsis plants treated with monoterpene followed by wounding or insect stress

Project description:monoterpene treatment followed by wounding or insect stress compared to monoterpene treated plants.

2007-12-31 | E-MEXP-901 | biostudies-arrayexpress

Using the combined analysis of transcripts and metabolites to propose key genes for differential terpene accumulation across two regions

Project description:To obtain an interpretation from the view of transcriptome on distinct metabolite accumulation between ecologically different regions in China, next-generation sequencing technology was performed on E-L 31, 35?36 and 38 stages of Muscat Blanc a Petits Grains grape berries from Changli (CL, eastern) and Gaotai (GT, western). Transcriptome analysis revealed that some key genes involved in terpene synthesis were markedly up-regulated in the CL region. Particularly in the MEP pathway, the expression of VvHDR (1-hydroxy-2-methyl-2-butenyl 4-diphosphate reductase) paralleled with the accumulation of terpenes, which can promote the flow of isopentenyl diphosphate (IPP) into the terpene synthetic pathway. The glycosidically bound monoterpenes accumulated differentially along with maturation in both regions, which is synchronous with the expression of a monoterpene glucosyltransferase gene (VvGT14). Other genes were also found to be related to the differential accumulation of terpenes and monoterpene glycosides in the grapes between regions. Transcription factors that could regulate terpene synthesis were predicted through gene co-expression network analysis. Additionally, the genes involved in abscisic acid (ABA) and ethylene signal responses were expressed at high levels earlier in GT grapes than in CL grapes. cDNA libraries generated from four developmental stages (E-L 31, 35, 36 and 38) of Muscat Blanc a Petits Grains grape berries in two consecutive years from Changli (CL) and Gaotai (GT) in China were sequenced using Illumina HiSeq™ 2000.Only one RNA-seq library was constructed for each of the E-L31 and E-L36 stage samples because of the small amount of high quality RNA acquired, whereas two libraries were constructed for each of the E-L35 and E-L38 stage samples. As a result, a total of 24 libraries were obtained for the two regions within two years.

2015-07-22 | E-GEOD-71146 | biostudies-arrayexpress

Genome Wide Effect of Tetracycline, Doxycycline and 4-epidoxycycline on gene expression in Saccharomyces cerevisiae

Project description:Investigating Saccharomyces cerevisiae genome-wide gene expression response to tetracycline family chemicals.

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Synechococcus elongatus PCC 7942 proteomics

Project description:The first comparative proteomics is to understand protein profile differences between high limonene production phase and low limonene production phase in limonene producing strain L1118. The second comparative proteomics is to understand protein profile differences between L1118 and sucrose mutant Lsps.

2023-10-24 | PXD030282 | Pride

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