François-pierre Martin | Nestlé Institute of Health Sciences (original) (raw)

Papers by François-pierre Martin

Research paper thumbnail of Metabonomic and Microbiological Analysis of the Dynamic Effect of Vancomycin-Induced Gut Microbiota Modification in the Mouse

Journal of Proteome Research, 2008

Bookmarks Related papers MentionsView impact

Research paper thumbnail of A top-down systems biology view of microbiome-mammalian metabolic interactions in a mouse model

Molecular Systems Biology, 2007

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Top-down systems biology integration of conditional prebiotic modulated transgenomic interactions in a humanized microbiome mouse model

Molecular Systems Biology, 2008

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Transgenomic Metabolic Interactions in a Mouse Disease Model:  Interactions of Trichinella s piralis Infection with Dietary Lactobacillus p aracasei Supplementation

Journal of Proteome Research, 2006

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Analysis of Time-Related Metabolic Fluctuations Induced by Ethionine in the Rat

Journal of Proteome Research, 2007

The time-course of metabolic events following response to a model hepatotoxin ethionine (800 mg/k... more The time-course of metabolic events following response to a model hepatotoxin ethionine (800 mg/kg) was investigated over a 7 day period in rats using high-resolution (1)H NMR spectroscopic analysis of urine and multivariate statistics. Complementary information was obtained by multivariate analysis of (1)H MAS NMR spectra of intact liver and by conventional histopathology and clinical chemistry of blood plasma. (1)H MAS NMR spectra of liver showed toxin-induced lipidosis 24 h postdose consistent with the steatosis observed by histopathology, while hypertaurinuria was suggestive of liver injury. Early biochemical changes in urine included elevation of guanidinoacetate, suggesting impaired methylation reactions. Urinary increases in 5-oxoproline and glycine suggested disruption of the gamma-glutamyl cycle. Signs of ATP depletion together with impairment of the energy metabolism were given from the decreased levels in tricarboxylic acid cycle intermediates, the appearance of ketone bodies in urine, the depletion of hepatic glucose and glycogen, and also hypoglycemia. The observed increase in nicotinuric acid in urine could be an indication of an increase in NAD catabolism, a possible consequence of ATP depletion. Effects on the gut microbiota were suggested by the observed urinary reductions in the microbial metabolites 3-/4-hydroxyphenyl propionic acid, dimethylamine, and tryptamine. At later stages of toxicity, there was evidence of kidney damage, as indicated by the tubular damage observed by histopathology, supported by increased urinary excretion of lactic acid, amino acids, and glucose. These studies have given new insights into mechanisms of ethionine-induced toxicity and show the value of multisystem level data integration in the understanding of experimental models of toxicity or disease.

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Panorganismal Gut Microbiome−Host Metabolic Crosstalk

Journal of Proteome Research, 2009

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Topographical Variation in Murine Intestinal Metabolic Profiles in Relation to Microbiome Speciation and Functional Ecological Activity

Journal of Proteome Research, 2009

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Probiotic modulation of symbiotic gut microbial–host metabolic interactions in a humanized microbiome mouse model

Molecular Systems Biology, 2008

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Impact of breast-feeding and high- and low-protein formula on the metabolism and growth of infants from overweight and obese mothers

Pediatric Research, 2014

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Correction: Metabolic Signatures of Extreme Longevity in Northern Italian Centenarians Reveal a Complex Remodeling of Lipids, Amino Acids, and Gut Microbiota Metabolism

PLoS ONE, 2013

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Metabolomics in nutrition

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Systems biology approaches for inflammatory bowel disease: emphasis on gut microbial metabolism

Inflammatory bowel diseases, 2014

Although the prevalence of main idiopathic forms of inflammatory bowel disease (IBD) has risen co... more Although the prevalence of main idiopathic forms of inflammatory bowel disease (IBD) has risen considerably over the last decades, their clinical features do not allow accurate prediction of prognosis, likelihood of disease progression, or response to specific therapy. Through a better understanding of the molecular pathways involved in IBD and the promise of more targeted therapies, the personalized approach to the management of IBD shows potential. To achieve this, there remains a significant need to better understand the disease process at cellular and molecular levels for any given individual with IBD. The complexity of biological functional networks behind the etiology of IBD highlights the need for their comprehensive analysis. In this, omics technologies can generate a systemic view of IBD pathogenesis on which to base novel, multiple pathway-integrated therapies. Omics sciences have just started to contribute here by generating gene, protein expression, metabolite data at gl...

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Correction: Topographical Body Fat Distribution Links to Amino Acid and Lipid Metabolism in Healthy Non-Obese Women

PLoS ONE, 2013

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Transcriptomics and Metabonomics Identify Essential Metabolic Signatures in Calorie Restriction (CR) Regulation across Multiple Mouse Strains

Metabolites, 2013

Calorie restriction (CR) has long been used to study lifespan effects and oppose the development ... more Calorie restriction (CR) has long been used to study lifespan effects and oppose the development of a broad array of age-related biological and pathological changes (increase healthspan). Yet, a comprehensive comparison of the metabolic phenotype across different genetic backgrounds to identify common metabolic markers affected by CR is still lacking. Using a system biology approach comprising metabonomics and liver transcriptomics we revealed the effect of CR across multiple mouse strains (129S1/SvlmJ, C57BL6/J, C3H/HeJ, CBA/J, DBA/2J, JC3F1/J). Oligonucleotide microarrays identified 76 genes as differentially expressed in all six strains confirmed. These genes were subjected to quantitative RT-PCR analysis in the C57BL/6J mouse strain, and a CR-induced change expression was confirmed for 14 genes. To fully depict the metabolic pathways affected by CR and complement the changes observed through differential gene expression, the metabolome of C57BL6/J was further characterized in li...

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Foodomics

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Nutrimetabonomics: an approach to assess individual's metabolic health trajectory

Modern nutrition has expanded its mission towards providing better health and wellbeing to consum... more Modern nutrition has expanded its mission towards providing better health and wellbeing to consumers. For this purpose, Nutrition attempts to elucidate the mechanisms of action of nutrients at different levels of biological organization using transcriptomics, proteomics and metabonomics approaches. However, the understanding of molecular interactions between foods and organisms, such as mammals, requires a comprehensive modelling of the inherent inter-individual

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Topographical Body Fat Distribution Links to Amino Acid and Lipid Metabolism in Healthy Non-Obese Women

PLoS ONE, 2013

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Promoting gut health with probiotic metabolomics

... here are looking for general and specific aspects of the gut microbiome revealing alteration ... more ... here are looking for general and specific aspects of the gut microbiome revealing alteration in species that are re-sponsible for changes in the host's physiological regulatory processes, probing the understanding of the microbial-mammalian metabolic axis. ...

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Metabolomic applications to decipher gut microbial metabolic influence in health and disease

Dietary preferences and nutrients composition have been shown to influence human and gut microbia... more Dietary preferences and nutrients composition have been shown to influence human and gut microbial metabolism, which ultimately has specific effects on health and diseases' risk. Increasingly, results from molecular biology and microbiology demonstrate the key role of the gut microbiota metabolic interface to the overall mammalian host's health status. There is therefore raising interest in nutrition research to characterize the molecular foundations of the gut microbial-mammalian cross talk at both physiological and biochemical pathway levels. Tackling these challenges can be achieved through systems biology approaches, such as metabolomics, to underpin the highly complex metabolic exchanges between diverse biological compartments, including organs, systemic biofluids, and microbial symbionts. By the development of specific biomarkers for prediction of health and disease, metabolomics is increasingly used in clinical applications as regard to disease etiology, diagnostic stratification, and potentially mechanism of action of therapeutical and nutraceutical solutions. Surprisingly, an increasing number of metabolomics investigations in pre-clinical and clinical studies based on proton nuclear magnetic resonance ((1)H NMR) spectroscopy and mass spectrometry provided compelling evidence that system wide and organ-specific biochemical processes are under the influence of gut microbial metabolism. This review aims at describing recent applications of metabolomics in clinical fields where main objective is to discern the biochemical mechanisms under the influence of the gut microbiota, with insight into gastrointestinal health and diseases diagnostics and improvement of homeostasis metabolic regulation.

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Current status on genome-metabolome-wide associations: an opportunity in nutrition research

Genome-wide association studies (GWASs) have become a very important tool to address the genetic ... more Genome-wide association studies (GWASs) have become a very important tool to address the genetic origin of phenotypic variability, in particular associated with diseases. Nevertheless, these types of studies provide limited information about disease etiology and the molecular mechanisms involved. Recently, the incorporation of metabolomics into the analysis has offered novel opportunities for a better understanding of disease-related metabolic deregulation. The pattern emerging from this work is that gene-driven changes in metabolism are prevalent and that common genetic variations can have a profound impact on the homeostatic concentrations of specific metabolites. A particularly interesting aspect of this work takes into account interactions of environment and lifestyle with the genome and how this interaction translates into changes in the metabolome. For instance, the role of PYROXD2 in trimethylamine metabolism points to an interaction between host and microbiome genomes (host/microbiota). Often, these findings reveal metabolic deregulations, which could eventually be tuned with a nutritional intervention. Here we review the development of gene-metabolism association studies from a single-gene/single-metabolite to a genome-wide/metabolome-wide approach and highlight the conceptual changes associated with this ongoing transition. Moreover, we report some of our recent GWAS results on a cohort of 265 individuals from an ethnically diverse population that validate and refine previous findings on gene-urine metabolism interactions. Specifically, our results confirm the effect of PYROXD2 polymorphisms on trimethylamine metabolism and suggest that a previously reported association of N-acetylated compounds with the ALMS1/NAT8 locus is driven by SNPs in the ALMS1 gene.

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Metabonomic and Microbiological Analysis of the Dynamic Effect of Vancomycin-Induced Gut Microbiota Modification in the Mouse

Journal of Proteome Research, 2008

Bookmarks Related papers MentionsView impact

Research paper thumbnail of A top-down systems biology view of microbiome-mammalian metabolic interactions in a mouse model

Molecular Systems Biology, 2007

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Top-down systems biology integration of conditional prebiotic modulated transgenomic interactions in a humanized microbiome mouse model

Molecular Systems Biology, 2008

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Transgenomic Metabolic Interactions in a Mouse Disease Model:  Interactions of Trichinella s piralis Infection with Dietary Lactobacillus p aracasei Supplementation

Journal of Proteome Research, 2006

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Analysis of Time-Related Metabolic Fluctuations Induced by Ethionine in the Rat

Journal of Proteome Research, 2007

The time-course of metabolic events following response to a model hepatotoxin ethionine (800 mg/k... more The time-course of metabolic events following response to a model hepatotoxin ethionine (800 mg/kg) was investigated over a 7 day period in rats using high-resolution (1)H NMR spectroscopic analysis of urine and multivariate statistics. Complementary information was obtained by multivariate analysis of (1)H MAS NMR spectra of intact liver and by conventional histopathology and clinical chemistry of blood plasma. (1)H MAS NMR spectra of liver showed toxin-induced lipidosis 24 h postdose consistent with the steatosis observed by histopathology, while hypertaurinuria was suggestive of liver injury. Early biochemical changes in urine included elevation of guanidinoacetate, suggesting impaired methylation reactions. Urinary increases in 5-oxoproline and glycine suggested disruption of the gamma-glutamyl cycle. Signs of ATP depletion together with impairment of the energy metabolism were given from the decreased levels in tricarboxylic acid cycle intermediates, the appearance of ketone bodies in urine, the depletion of hepatic glucose and glycogen, and also hypoglycemia. The observed increase in nicotinuric acid in urine could be an indication of an increase in NAD catabolism, a possible consequence of ATP depletion. Effects on the gut microbiota were suggested by the observed urinary reductions in the microbial metabolites 3-/4-hydroxyphenyl propionic acid, dimethylamine, and tryptamine. At later stages of toxicity, there was evidence of kidney damage, as indicated by the tubular damage observed by histopathology, supported by increased urinary excretion of lactic acid, amino acids, and glucose. These studies have given new insights into mechanisms of ethionine-induced toxicity and show the value of multisystem level data integration in the understanding of experimental models of toxicity or disease.

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Panorganismal Gut Microbiome−Host Metabolic Crosstalk

Journal of Proteome Research, 2009

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Topographical Variation in Murine Intestinal Metabolic Profiles in Relation to Microbiome Speciation and Functional Ecological Activity

Journal of Proteome Research, 2009

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Probiotic modulation of symbiotic gut microbial–host metabolic interactions in a humanized microbiome mouse model

Molecular Systems Biology, 2008

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Impact of breast-feeding and high- and low-protein formula on the metabolism and growth of infants from overweight and obese mothers

Pediatric Research, 2014

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Correction: Metabolic Signatures of Extreme Longevity in Northern Italian Centenarians Reveal a Complex Remodeling of Lipids, Amino Acids, and Gut Microbiota Metabolism

PLoS ONE, 2013

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Metabolomics in nutrition

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Systems biology approaches for inflammatory bowel disease: emphasis on gut microbial metabolism

Inflammatory bowel diseases, 2014

Although the prevalence of main idiopathic forms of inflammatory bowel disease (IBD) has risen co... more Although the prevalence of main idiopathic forms of inflammatory bowel disease (IBD) has risen considerably over the last decades, their clinical features do not allow accurate prediction of prognosis, likelihood of disease progression, or response to specific therapy. Through a better understanding of the molecular pathways involved in IBD and the promise of more targeted therapies, the personalized approach to the management of IBD shows potential. To achieve this, there remains a significant need to better understand the disease process at cellular and molecular levels for any given individual with IBD. The complexity of biological functional networks behind the etiology of IBD highlights the need for their comprehensive analysis. In this, omics technologies can generate a systemic view of IBD pathogenesis on which to base novel, multiple pathway-integrated therapies. Omics sciences have just started to contribute here by generating gene, protein expression, metabolite data at gl...

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Correction: Topographical Body Fat Distribution Links to Amino Acid and Lipid Metabolism in Healthy Non-Obese Women

PLoS ONE, 2013

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Transcriptomics and Metabonomics Identify Essential Metabolic Signatures in Calorie Restriction (CR) Regulation across Multiple Mouse Strains

Metabolites, 2013

Calorie restriction (CR) has long been used to study lifespan effects and oppose the development ... more Calorie restriction (CR) has long been used to study lifespan effects and oppose the development of a broad array of age-related biological and pathological changes (increase healthspan). Yet, a comprehensive comparison of the metabolic phenotype across different genetic backgrounds to identify common metabolic markers affected by CR is still lacking. Using a system biology approach comprising metabonomics and liver transcriptomics we revealed the effect of CR across multiple mouse strains (129S1/SvlmJ, C57BL6/J, C3H/HeJ, CBA/J, DBA/2J, JC3F1/J). Oligonucleotide microarrays identified 76 genes as differentially expressed in all six strains confirmed. These genes were subjected to quantitative RT-PCR analysis in the C57BL/6J mouse strain, and a CR-induced change expression was confirmed for 14 genes. To fully depict the metabolic pathways affected by CR and complement the changes observed through differential gene expression, the metabolome of C57BL6/J was further characterized in li...

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Foodomics

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Nutrimetabonomics: an approach to assess individual's metabolic health trajectory

Modern nutrition has expanded its mission towards providing better health and wellbeing to consum... more Modern nutrition has expanded its mission towards providing better health and wellbeing to consumers. For this purpose, Nutrition attempts to elucidate the mechanisms of action of nutrients at different levels of biological organization using transcriptomics, proteomics and metabonomics approaches. However, the understanding of molecular interactions between foods and organisms, such as mammals, requires a comprehensive modelling of the inherent inter-individual

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Topographical Body Fat Distribution Links to Amino Acid and Lipid Metabolism in Healthy Non-Obese Women

PLoS ONE, 2013

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Promoting gut health with probiotic metabolomics

... here are looking for general and specific aspects of the gut microbiome revealing alteration ... more ... here are looking for general and specific aspects of the gut microbiome revealing alteration in species that are re-sponsible for changes in the host's physiological regulatory processes, probing the understanding of the microbial-mammalian metabolic axis. ...

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Metabolomic applications to decipher gut microbial metabolic influence in health and disease

Dietary preferences and nutrients composition have been shown to influence human and gut microbia... more Dietary preferences and nutrients composition have been shown to influence human and gut microbial metabolism, which ultimately has specific effects on health and diseases' risk. Increasingly, results from molecular biology and microbiology demonstrate the key role of the gut microbiota metabolic interface to the overall mammalian host's health status. There is therefore raising interest in nutrition research to characterize the molecular foundations of the gut microbial-mammalian cross talk at both physiological and biochemical pathway levels. Tackling these challenges can be achieved through systems biology approaches, such as metabolomics, to underpin the highly complex metabolic exchanges between diverse biological compartments, including organs, systemic biofluids, and microbial symbionts. By the development of specific biomarkers for prediction of health and disease, metabolomics is increasingly used in clinical applications as regard to disease etiology, diagnostic stratification, and potentially mechanism of action of therapeutical and nutraceutical solutions. Surprisingly, an increasing number of metabolomics investigations in pre-clinical and clinical studies based on proton nuclear magnetic resonance ((1)H NMR) spectroscopy and mass spectrometry provided compelling evidence that system wide and organ-specific biochemical processes are under the influence of gut microbial metabolism. This review aims at describing recent applications of metabolomics in clinical fields where main objective is to discern the biochemical mechanisms under the influence of the gut microbiota, with insight into gastrointestinal health and diseases diagnostics and improvement of homeostasis metabolic regulation.

Bookmarks Related papers MentionsView impact

Research paper thumbnail of Current status on genome-metabolome-wide associations: an opportunity in nutrition research

Genome-wide association studies (GWASs) have become a very important tool to address the genetic ... more Genome-wide association studies (GWASs) have become a very important tool to address the genetic origin of phenotypic variability, in particular associated with diseases. Nevertheless, these types of studies provide limited information about disease etiology and the molecular mechanisms involved. Recently, the incorporation of metabolomics into the analysis has offered novel opportunities for a better understanding of disease-related metabolic deregulation. The pattern emerging from this work is that gene-driven changes in metabolism are prevalent and that common genetic variations can have a profound impact on the homeostatic concentrations of specific metabolites. A particularly interesting aspect of this work takes into account interactions of environment and lifestyle with the genome and how this interaction translates into changes in the metabolome. For instance, the role of PYROXD2 in trimethylamine metabolism points to an interaction between host and microbiome genomes (host/microbiota). Often, these findings reveal metabolic deregulations, which could eventually be tuned with a nutritional intervention. Here we review the development of gene-metabolism association studies from a single-gene/single-metabolite to a genome-wide/metabolome-wide approach and highlight the conceptual changes associated with this ongoing transition. Moreover, we report some of our recent GWAS results on a cohort of 265 individuals from an ethnically diverse population that validate and refine previous findings on gene-urine metabolism interactions. Specifically, our results confirm the effect of PYROXD2 polymorphisms on trimethylamine metabolism and suggest that a previously reported association of N-acetylated compounds with the ALMS1/NAT8 locus is driven by SNPs in the ALMS1 gene.

Bookmarks Related papers MentionsView impact