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Comparison of Thermoanaerobacter pseudethanolicus 39E grown on different xylose concentrations

ABSTRACT: Thermoanaerobacter pseudethanolicus 39E was grown on 10, 50 and 200 mM xylose in order to identify pathways and transporters responsible for xylose transport and conversion to ethanol.

ORGANISM(S): Thermoanaerobacter pseudethanolicus ATCC 33223

PROVIDER: GSE31522 | GEO | 2011/11/02

SECONDARY ACCESSION(S): PRJNA145513

REPOSITORIES: GEO

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Comparison of Thermoanaerobacter sp. X514 grown on different xylose concentrations

Project description:Thermoanaerobacter sp. X514 was grown on 1, 10, 50 and 200 mM xylose in order to identify pathways and transporters responsible for xylose transport and conversion to ethanol.

2011-11-02 | GSE31521 | GEO

Thermoanaerobacter sp. X514 in various carbon sources

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Thermoanaerobacter sp. X514 in various carbon sources

Project description:The sugar metabolic mechanism on glucose, xylose, fructose and cellobiose as the sole or dual carbon source by Thermoanaerobacter sp. X514 was characterized by whole genome cDNA micorarrays. In this study, X514 cell grew in difeined medium supplement with different carbohydrates. Each sample was prepared harvested at early-, mid- and late-log phases respectively. Samples were used to acquire expression profiles of total 2322 unique genes, leading to metabolic mechanism construction.

2011-02-01 | E-GEOD-24458 | biostudies-arrayexpress

the transcript profiles of Thermoanaerobacter sp. X514 (wild type) and its ethanol tolerant mutants (Xm and Xe) with or without ethanol

Project description:The ethanol shock and stress response mechanisms by Thermoanaerobacter sp. X514 (wt) and mutants (Xm and Xe) were characterized by whole genome cDNA micorarrays.

2013-06-01 | GSE32630 | GEO

Multiomic studies of inhibitory effects of lignocellulose-derived inhibitors on xylose utilization in Zymomonas mobilis using chemical defined synthetic hydrolysates

Project description:Previously we found that modified Zymomonas mobilis is able to convert glucose to ethanol when fermenting highly concentrated hydrolysates such as 9% glucan-loading AFEX-pretreated corn stover hydrolysate (ACSH), but that xylose conversion after glucose depletion is greatly impaired. We hypothesized that impaired xylose conversion is caused by lignocellulose-derived inhibitors (LDIs) present in highly concentrated hydrolysates. To investigate the effects of LDIs on xylose utilization in Z. mobilis, we generated synthetic hydrolysates (SynHs) that contains nutrients and LDI at concentrations found in authentic 9% ACSH. Comparative fermentations of Z. mobilis 2032 using SynH with or without LDI were performed, and samples were collected for endproduct, transcriptomic, metabolomic, and proteomic analyses. Our data suggest that the overall flux of xylose metabolism is reduced in the presence of LDIs. However, the expression of most genes involved in glucose and xylose assimilation was not affected by LDIs nor did we observe blocks in glucose and xylose metabolic pathways. Several LDI-specific effects were observed including intracellular accumulation of mannose-1P and mannose-6P, down regulation of a Type I secretion system (ZMO0252-0255), and upregulation of sulfur metabolism genes and the RND family efflux pump system (ZMO0282_0283_0285). This efflux pump system is involved in detoxification. Together, our findings identify cellular responses to LDIs and possible causes of impaired xylose conversion that will enable future strain engineering of Z. mobilis.

2019-10-28 | PXD015007 | Pride

Xylose metabolism in Candida utilis

Project description:A recombinant C. utilis strain expressing Candida shehatae xylose reductase K275R/N277D (NADH-preferring), C. shehatae xylitol dehydrogenase and Pichia stipitis xylulokinase produce ethanol from xylose. Here, we report the transcriptional-profiling in the engineered C. utilis strain grown on xylose using DNA microarray. Transcriptome analysis indicated that expression of genes encoding the tricarboxylic acid cycle, respiration enzymes and the ethanol consumption were increased significantly when cells were cultivated on xylose. Gene expression in Candida utilis cells grown on glucose or xylose was measured at 10.5 and 24 hours, respectively. Two or three independent experiments were performed at each time for each experiment.

2014-01-01 | E-GEOD-43514 | biostudies-arrayexpress

Metabolomic and transcriptomic analysis for rate-limiting metabolic steps in xylose utilization by recombinant Candida utilis

Project description:We previously reported that a recombinant Candida utilis strain expressing a Candida shehatae xylose reductase K275R/N277D, a C. shehatae xylitol dehydrogenase, and xylulokinase from Pichia stipitis produced ethanol from xylose. However, its productivity was low. In this study, metabolomic (CE-TOF MS) and transcriptomic (microarray) analyses were performed to characterize xylose metabolism by the engineered C. utilis and to identify key genetic changes contributing to efficient xylose utilization. Metabolomic analysis revealed that the xylose-fermenting strain accumulated more pentose phosphate pathway intermediates, more NADH, and more glycolytic intermediates upstream of glyceraldehyde 3-phosphate than wild-type. Transcriptomic analysis of the strain grown on xylose indicated a significant increase in expression of genes encoding tricarboxylic acid cycle enzymes, respiratory enzymes, and enzymes involved in ethanol oxidation. To decrease the NADH/NAD+ ratio and increase ethanol yield from the fermentation of xylose, ADH1 encoding NADH-dependent alcohol dehydrogenase was overexpressed. The resultant strain exhibited a 17% increase in ethanol production and a 22% decrease in xylitol accumulation relative to the control.

2014-01-01 | GSE43514 | GEO

Comparative xylose metabolism among the ascomycetes C. albicans, S. stipitis and S. cerevisiae

Project description:The ascomycetes Saccharomyces cerevisiae, Candida albicans and Scheffersomyces stipitis metabolize the pentose sugar xylose very differently. S. cerevisiae fails to grow on xylose, while C. albicans can grow, and S. stipitis can both grow and ferment xylose to ethanol. However, all three species contain highly similar genes that encode xylose reductase and xylitol dehydrogenase required to convert xylose to xylulose, on which all three fungi grow. We have created C. albicans strains deleted for either or both the xylose reductase gene GRE3, and the xylitol dehydrogenase gene XYL2. As expected, all the mutant strains cannot grow on xylose, while the gre3 mutant can grow on xylitol. The gre3 and xyl2 mutants are complemented efficiently by the XYL1 and XYL2 from S. stipitis respectively. Intriguingly, the S. cerevisiae GRE3 and SOR1 genes can complement the gre3 and xyl2 mutants respectively, showing that S. cerevisiae contains the enzymatic capacity for converting xylose to xylulose. In addition, the gre3 xyl2 double mutant is effectively rescued by the xylose isomerase (XI) gene of either Piromyces or Orpinomyces, suggesting that the XI provides an alternative to the missing oxido-reductase functions in the mutant required for the xylose-xylulose conversion. Overall this work establishes that C. albicans strains engineered to lack essential steps for xylose metabolism provide a platform for the analysis of xylose metabolism enzymes from a variety of species, and confirms that S. cerevisiae has the genetic potential to convert xylose to xylulose, although non-engineered strains cannot proliferate on xylose as the sole carbon source.

2013-10-30 | GSE50476 | GEO

Thermoanaerobacter sp. X514

Project description:Comparison of Thermoanaerobacter sp. X514 grown on different xylose concentrations

| PRJNA145511 | ENA

the transcript profiles of Thermoanaerobacter sp. X514 (wild type) and its ethanol tolerant mutants (Xm and Xe) with or without ethanol

Project description:The ethanol shock and stress response mechanisms by Thermoanaerobacter sp. X514 (wt) and mutants (Xm and Xe) were characterized by whole genome cDNA micorarrays. In this study, X514 (wt) and mutants (Xm and Xe) cell grew in difeined medium supplement with 50mM glucose under different ethanol treatment. Each sample was prepared harvested at different treated times respectively. Samples were used to acquire expression profiles of total 2322 unique genes, leading to metabolic mechanism construction.

2013-06-01 | E-GEOD-32630 | biostudies-arrayexpress

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