Nicolas Schauer

Nicolas Schauer
biocrates life sciences ag

Dr.

About

114
Publications
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Introduction
Nicolas Schauer currently is CEO of Metabolomic Discoveries, a Metabolon, Inc company. Nicolas does research in Analytical Chemistry, Biochemistry and Microbiology. Their most recent publication is 'Porcine intestinal yeast species, Kazachstania slooffiae , a new potential protein source with favourable amino acid composition for animals'.

Publications

Publications (114)
Article
Full-text available
We recently demonstrated that the sympathetic nervous system can be voluntarily activated following a training program consisting of cold exposure, breathing exercises, and meditation. This resulted in profound attenuation of the systemic inflammatory response elicited by lipopolysaccharide (LPS) administration. Herein, we assessed whether this tra...
Article
Full-text available
Tomato fruit ripening is controlled by the hormone ethylene and by a group of transcription factors, acting upstream of ethylene. During ripening, the linear carotene lycopene accumulates at the expense of cyclic carotenoids. Fruit‐specific overexpression of LYCOPENE β‐CYCLASE (LCYb) resulted in increased β‐carotene (provitamin A) content. Unexpect...
Article
Full-text available
Fusarium graminearum is a filamentous ascomycete and the causal agent of Fusarium head blight on wheat that threatens food and feed production worldwide as infection reduces crop yield both quantitatively by interfering with kernel development and qualitatively by poisoning any remaining kernels with mycotoxins. In wheat, F. graminearum infects spi...
Article
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Primary progressive multiple sclerosis (PPMS) shows a highly variable disease progression with poor prognosis and a characteristic accumulation of disabilities in patients. These hallmarks of PPMS make it difficult to diagnose and currently impossible to efficiently treat. This study aimed to identify plasma metabolite profiles that allow diagnosis...
Data
Workflow and summary of metabolomic profiling. (A) General workflow in data analysis. (B) Pie chart illustrating the percentage of putatively identified metabolites from each metabolite class, classified according to KEGG, Lipidmaps and HMDB. In total 534 metabolites were analysed. (C) PLS-DA scores plot of all 534 metabolites in HC cohort A (n = 1...
Data
Linear model fit of PPMS marker levels and age of all analyzed individuals in PPMS cohorts A and B. Utilized linear model to fit correlation between PPMS marker levels and ageing. Black: Linear model for all data points, light red: linear model for HC cohort A, green: linear model for HC cohort B, blue: linear model for PPMS cohort A, purple: linea...
Data
Inter-cohort dependencies determined by chi-square test for gender and one-way ANOVA for age, EDSS and disease duration (DD). Comparisons with significant p-values (p-value < 0.05) are highlighted in bold red.
Data
PPMS marker levels and sex dependency in all individuals analyzed. Utilized one way ANOVA with Tukey’s post hoc test to compute differences between PPMS marker levels and sex in all groups. ∗Metabolites with significantly different levels between males and females (p-value < 0.05), ∗∗Metabolites with significantly different levels between males and...
Data
Linear model fit of PPMS marker levels and age of all analyzed individuals in the RRMS cohort. Utilized linear model to fit correlation between PPMS marker levels and ageing. Black: Linear model for all data points, green: linear model for HC, orange: linear model for RRMS. Grey areas around the lines indicate the 0.95 confidence interval. Metaboli...
Data
Cohorts. Patient information from investigated RRMS, PPMS, PD cohorts including age and gender. A disease duration of 0 corresponds to less than 1 year (∗.xlsx file).
Data
Plasma metabolites identified in PPMS cohorts A and B (∗.xlsx file).
Data
Model parameters for the tested models and their corresponding p-values after sample-label permutation test.
Data
Metabolites with significant changes between HC and PPMS patients (A and B cohorts) their corresponding AUC values and VIP score ranks for component 1 and 2. Univariate AUCs and 95% CI (500 bootstrapping) calculated using MetaboAnalyst.
Data
PPMS marker measured in RRMS, intensity levels in the RRMS cohort. P-values determined by Welch’s t-test, p-value adjustment for multiple comparison using Benjamini and Hochberg (FDR) adjustment (∗.xlsx file).
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Extracted ion chromatograms of metabolites contributing to the specific PPMS signature.
Data
Linear model fit of PPMS marker levels and age of all individuals analyzed in the PD cohort. Utilized linear model to fit correlation between PPMS marker levels and ageing. Black: Linear model for all data points, green: linear model for HC, purple: linear model for PD. Grey areas around the lines indicate the 0.95 confidence interval. Metabolites...
Data
PPMS marker in PPMS patients compared to RRMS and PD patients. First p-value is determined by one-way ANOVA with Tukey’s post hoc with correction for multiple testing per metabolite. Metabolites with p-values < 0.05 are highlighted in bold green. Second p-value has been corrected (FDR) for all comparison including all metabolites.
Data
Pathway analysis of identified changes in PPMS patients compared to healthy controls (HC). Pathway information retrieved from KEGG. Significantly altered metabolites are highlighted in dark red rectangles including the corresponding KEGG ID. Grey font indicates involved enzymes, dashed grey line indicates additional reactions which are not displaye...
Data
MS/MS fragments used for PPMS marker identification. Identities confirmed by available authentic standards (validation level 1). MS/MS spectra were matched against online databases such as Metlin and MassBank (validation level 2) or against in silico fragmentation spectra (validation level 3) retrieved from Metfrag, CFM-ID and/or CSI:FingerID with...
Data
PPMS marker measured in PD, intensity levels in the PD cohort. P-values determined by Welch’s t-test, p-value adjustment for multiple comparison using Benjamini and Hochberg (FDR) adjustment (∗.xlsx file).
Data
Metabolite levels with significant changes between HC and PPMS patients measured in the longitudinal PPMS cohort (∗.xlsx file).
Article
Omp85 proteins form a large membrane protein family found in bacteria and eukaryotes. Omp85 proteins are composed of a C‐terminal β‐barrel‐shaped membrane domain and one, or more, N‐terminal polypeptide‐transport‐associated (POTRA) domain(s). However, Arabidopsis thaliana contains two genes coding for Omp85 proteins without POTRA domain. One gene i...
Article
Full-text available
Parkinson's disease (PD) shows high heterogeneity with regard to the underlying molecular pathogenesis involving multiple pathways and mechanisms. Diagnosis is still challenging and rests entirely on clinical features. Thus, there is an urgent need for robust diagnostic biofluid markers. Untargeted metabolomics allows establishing low-molecular com...
Data
Top 100 proposed metabolites in the plasma PLS model. Each individual scaled VIP score plotted from the highest to the lowest value. Dashed line: cut-off used to determine most influential metabolites in the model based on the point where the slope flattens (threshold = 68).
Data
Model parameters obtained for the PLS and RF models in plasma and CSF.
Data
Top 100 proposed metabolites in the plasma RF model. Each individual scaled importance score plotted from the highest to lowest value. Dashed line: cut-off used to determine most influential metabolites in the model based on the point where the slope flattens (threshold = 59).
Data
Two component PLS Monte Carlo cross validation models for plasma and CSF. Corresponding ROC curves of different metabolite sets (2, 3, 5, 7, 10, 20) in (A) plasma and (2, 3, 5, 7, 10, 14) (B) CSF. Predicted accuracy with different number of metabolites in (C) plasma and (D) CSF. Abbreviations: Var., variable e.g., metabolite, AUC, area under the cu...
Data
Score distance and orthogonal distance matrix used for outlier detection. Samples in the highlighted area were considered outliers in (A) plasma and (B) CSF. C, controls; PD, Parkinson's disease.
Data
Intensity levels for potential PD plasma marker panel determined by our PLS model showing relative differences in abundance in each patient analyzed. Red, controls; gray, Parkinson's disease (PD) patient. *Statistically significant change according to Welch's t-test statistics or Wilcoxon test (p-value < 0.05) after FDR correction.
Data
Top 100 proposed metabolites in the CSF RF model. Each individual scaled importance score plotted from the highest to lowest value. Dashed line: cut off used to determine most influential metabolites in the model based on the point where the slope flattens (threshold = 55).
Data
Intensity levels for potential PD CSF marker panel determined by our PLS model showing relative differences in abundance in each patient analyzed. Red: controls, light blue: Parkinson's disease (PD) patient. *Statistically significant change according to Welch's t-test statistics or Wilcoxon test (p-value < 0.05) after FDR correction. **Statistical...
Data
Top 100 proposed metabolites in the CSF PLS model. Each individual scaled VIP score plotted from the highest to lowest value. Dashed line: cut-off used to determine most influential metabolites in the model based on the point where the slope flattens (threshold = 69).
Data
PD_Metabolome. List of identified putative metabolites from untargeted profiling in PD plasma (Sheet plasma) and PD CSF (Sheet CSF) (*.xlsx file).
Data
Current state of metabolomics research in Parkinson's disease.
Article
There is little information about Kazachstania slooffiae which dominates among other yeasts in the pigs’ intestine. Therefore, the aims of this study were to characterize the yeast cell contents, and to investigate which nitrogen sources, organic acids, and alcohols may be utilized or produced by this species. The results showed that, K. slooffiae...
Article
Full-text available
Cordyceps sensu lato is a genus of arthropod-pathogenic fungi, which have been used traditionally as medicinal in Asia. Within the genus, Ophiocordyceps sinensis is the most coveted and expensive species in China. Nevertheless, harvesting wild specimens has become a challenge given that natural populations of the fungus are decreasing and because l...
Data
Venn diagram for compounds reported. A) methanol, B) water, and C) n-hexane fractions. (TIF)
Data
Bacterial and fungal strains used in the antimicrobial susceptibility assays. (XLSX)
Data
Metabolite composition from cultured Cordyceps nidus. (XLSX)
Data
GenBank accession numbers for taxa included in this study. (XLSX)
Article
Full-text available
In mass spectrometry-based untargeted metabolomics, rarely more than 30% of the compounds are identified. Without the true identity of these molecules it is impossible to draw conclusions about the biological mechanisms, pathway relationships and provenance of compounds. The only way at present to address this discrepancy is to use in silico fragme...
Article
Full-text available
Background Phytoestrogens such as genistein, the most prominent isoflavone from soy, show concentration-dependent anti-estrogenic or estrogenic effects. High genistein concentrations (>10 μM) also promote proliferation of bone cancer cells in vitro. On the other hand, the most active component of the vitamin D family, calcitriol, has been shown to...
Data
Protein expression analysis via western blotting of cancer relevant enzymes of the glycolysis and Krebs cycle in MG-63 cells after 48 h treatment with the vehicle control (C), 1, 10, 100 μM genistein (G), 10 nM calcitriol (VitD3) or the combination of both. Glycolytic enzymes were hexokinase 1, platelet-type phosphofructokinase (PFKP), lactate dehy...
Data
Principal component analysis (PCA) of control (A), cells treated with 100 μM genistein (B), 10 nM calcitriol (C) and 100 μM genistein+10 nM calcitriol (D) with four replicates each. (TIF)
Data
Alkaline phosphate activity (ALP), calcification via Alizarin Red S staining and matrix mineralization with osteocalcin immunofluorescence staining in untreated MG-63, Saos-2 bone cancer cells and in primary osteoblasts (POB). All cells were counterstained with DAPI to visualize cell nuclei. (TIF)
Article
UPLC-ESI-QTOF-MS was applied for investigation of diet effects on lipid metabolites in muscle of Landrace pigs that were fed n–3 or n–6 PUFA supplemented diets. In total, over 1200 lipid metabolites were detected in pig muscle, and 187 lipids were significantly different between the diet groups. The fold-change (FC) values were much higher (up to 2...
Article
Full-text available
X-linked adrenoleukodystrophy (ALD), a progressive neurodegenerative disease, is caused by mutations in ABCD1 and characterized by very-long-chain fatty acids (VLCFA) accumulation. Virtually all males develop progressive myelopathy (AMN). A subset of patients, however, develops a fatal cerebral demyelinating disease (cerebral ALD). Hematopoietic st...
Article
Full-text available
In the version of this article initially published, in the Reagent Setup section, it was stated that 50% v/v Percoll should be made by diluting Percoll in 10× PBS at a 1:1 v/v ratio. Percoll should, in fact, be diluted in 2× PBS at a 1:1 ratio. The error has been corrected in the HTML and PDF versions of the article. In the version of this article...
Article
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In the past decade the number of studies investigating temperament in farm animals has increased greatly because temperament has been shown not only to affect handling but also reproduction, health and economically important production traits. However, molecular pathways underlying temperament and molecular pathways linking temperament to productio...
Chapter
The application of marker-assisted selection has facilitated the breeding of important agronomic traits in recent decades. It helped to find novel traits and to improve the existing ones. Today, the improvement of crops is an urgent step in keeping up with environmental changes and a growing world population. While improving traits was relatively e...
Article
Full-text available
The process of dark-induced senescence in plants is relatively poorly understood, but a functional electron-transfer flavoprotein/electron-transfer flavoprotein:ubiquinone oxidoreductase (ETF/ETFQO) complex, which supports respiration during carbon starvation, has recently been identified. Here, we studied the responses of Arabidopsis thaliana muta...
Article
Biomarkers are used to predict phenotypical properties before these features become apparent and, therefore, are valuable tools for both fundamental and applied research. Diagnostic biomarkers have been discovered in medicine many decades ago and are now commonly applied. While this is routine in the field of medicine, it is of surprise that in agr...
Article
Full-text available
Plants possess acclimation responses in which structural reconfigurations adapt the photosynthetic apparatus to fluctuating illumination. Long-term acclimation involves changes in plastid and nuclear gene expression and is controlled by redox signals from photosynthesis. The kinetics of these signals and the adjustments of energetic and metabolic d...
Article
Full-text available
Indole Acetic Acid 9 (IAA9) is a negative auxin response regulator belonging to the Aux/IAA transcription factor gene family whose downregulation triggers fruit set before pollination, thus giving rise to parthenocarpy. In situ hybridization experiments revealed that a tissue-specific gradient of IAA9 expression is established during flower develop...
Article
Full-text available
The concept of metabolite profiling has been around for decades and technical innovations are now enabling it to be carried out on a large scale with respect to the number of both metabolites measured and experiments carried out. However, studies are generally confined to polar compounds alone. Here we describe a simple method for lipophilic compou...
Data
α-amyrin spectrum. The data provided represent the list of m/z of α-amyrin with absolute and relative intensities.
Data
Evaluation of carryover. The data provided represent estimation of carryover for each lipophilic compound from this study in percents.
Data
δ-amyrin spectrum. The data provided represent the list of m/z of δ-amyrin with absolute and relative intensities.
Data
n-eicosenoic acid spectrum. The data provided represent the list of m/z of n-eicosenoic acid with absolute and relative intensities.
Article
Full-text available
Oxygen can fall to low concentrations within plant tissues, either because of environmental factors that decrease the external oxygen concentration or because the movement of oxygen through the plant tissues cannot keep pace with the rate of oxygen consumption. Recent studies document that plants can decrease their oxygen consumption in response to...
Article
Full-text available
Metabolomics approaches enable the parallel assessment of the levels of a broad range of metabolites and have been documented to have great value in both phenotyping and diagnostic analyses in plants. These tools have recently been turned to evaluation of the natural variance apparent in metabolite composition. Here, we describe exciting progress m...
Article
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Marine primary productivity is iron (Fe)-limited in vast regions of the contemporary oceans, most notably the high nutrient low chlorophyll (HNLC) regions. Diatoms often form large blooms upon the relief of Fe limitation in HNLC regions despite their prebloom low cell density. Although Fe plays an important role in controlling diatom distribution,...
Article
Full-text available
Superoxide dismutases (SODs) are key components of the plant antioxidant defense system. While plastidic and cytosolic isoforms have been extensively studied, the importance of mitochondrial SOD at a cellular and whole-plant level has not been established. To address this, transgenic Arabidopsis (Arabidopsis thaliana) plants were generated in which...
Article
Full-text available
To evaluate components of fruit metabolic composition, we have previously metabolically phenotyped tomato (Solanum lycopersicum) introgression lines containing segmental substitutions of wild species chromosome in the genetic background of a cultivated variety. Here, we studied the hereditability of the fruit metabolome by analyzing an additional y...
Article
Under the auspices of the European Training and Networking Activity programme of the European Union, a 'Metabolic Profiling and Data Analysis' Plant Genomics and Bioinformatics Summer School was hosted in Potsdam, Germany between 20 and 29 September 2006. Sixteen early career researchers were invited from the European Union partner nations and the...