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1.
BMC Biol ; 18(1): 51, 2020 05 22.
Artículo en Inglés | MEDLINE | ID: mdl-32438927

RESUMEN

BACKGROUND: The cline of human genetic diversity observable across Europe is recapitulated at a micro-geographic scale by variation within the Italian population. Besides resulting from extensive gene flow, this might be ascribable also to local adaptations to diverse ecological contexts evolved by people who anciently spread along the Italian Peninsula. Dissecting the evolutionary history of the ancestors of present-day Italians may thus improve the understanding of demographic and biological processes that contributed to shape the gene pool of European populations. However, previous SNP array-based studies failed to investigate the full spectrum of Italian variation, generally neglecting low-frequency genetic variants and examining a limited set of small effect size alleles, which may represent important determinants of population structure and complex adaptive traits. To overcome these issues, we analyzed 38 high-coverage whole-genome sequences representative of population clusters at the opposite ends of the cline of Italian variation, along with a large panel of modern and ancient Euro-Mediterranean genomes. RESULTS: We provided evidence for the early divergence of Italian groups dating back to the Late Glacial and for Neolithic and distinct Bronze Age migrations having further differentiated their gene pools. We inferred adaptive evolution at insulin-related loci in people from Italian regions with a temperate climate, while possible adaptations to pathogens and ultraviolet radiation were observed in Mediterranean Italians. Some of these adaptive events may also have secondarily modulated population disease or longevity predisposition. CONCLUSIONS: We disentangled the contribution of multiple migratory and adaptive events in shaping the heterogeneous Italian genomic background, which exemplify population dynamics and gene-environment interactions that played significant roles also in the formation of the Continental and Southern European genomic landscapes.


Asunto(s)
Evolución Molecular , Variación Genética , Genoma Humano , Arqueología , ADN Antiguo/análisis , Humanos , Italia , Población Blanca
2.
Pediatr Diabetes ; 20(7): 832-841, 2019 11.
Artículo en Inglés | MEDLINE | ID: mdl-31254470

RESUMEN

BACKGROUND: While insulin resistance (IR) is associated with specific metabolite signatures in adults, there have been few truly longitudinal studies in healthy children, either to confirm which abnormalities are present, or to determine whether they precede or result from IR. Therefore, we investigated the association of serum metabolites with IR in childhood in the Earlybird cohort. METHODS: The Earlybird cohort is a well-characterized cohort of healthy children with annual measurements from age 5 to 16 years. For the first time, longitudinal association analyses between individual serum metabolites and homeostatic model assessment (HOMA) of insulin resistance (HOMA-IR) have been performed taking into account the effects of age, growth, puberty, adiposity, and physical activity. RESULTS: IR was higher in girls than in boys and was associated with increasing body mass index (BMI). In longitudinal analysis IR was associated with reduced concentrations of branched-chain amino acids (BCAA), 2-ketobutyrate, citrate and 3-hydroxybutyrate, and higher concentrations of lactate and alanine. These findings demonstrate the widespread biochemical consequences of IR for intermediary metabolism, ketogenesis, and pyruvate oxidation during normal child growth and development. CONCLUSIONS: Longitudinal analysis can differentiate metabolite signatures that precede or follow the development of greater levels of IR. In healthy normal weight children, higher levels of IR are associated with reduced levels of BCAA, ketogenesis, and fuel oxidation. In contrast, elevated lactate concentrations preceded the rise in IR. These changes reveal the metabolite signature of insulin action during normal growth, and they contrast with previous findings in obese children and adults that represent the consequences of IR and obesity.


Asunto(s)
Sangre/metabolismo , Desarrollo Infantil/fisiología , Resistencia a la Insulina/fisiología , Metaboloma , Adiposidad/fisiología , Adolescente , Niño , Preescolar , Estudios de Cohortes , Ejercicio Físico/fisiología , Femenino , Humanos , Estudios Longitudinales , Masculino , Metabolómica/métodos , Fenotipo , Pubertad/metabolismo , Maduración Sexual/fisiología
3.
Brief Bioinform ; 17(3): 527-40, 2016 05.
Artículo en Inglés | MEDLINE | ID: mdl-26307062

RESUMEN

Systems Medicine (SM) can be defined as an extension of Systems Biology (SB) to Clinical-Epidemiological disciplines through a shifting paradigm, starting from a cellular, toward a patient centered framework. According to this vision, the three pillars of SM are Biomedical hypotheses, experimental data, mainly achieved by Omics technologies and tailored computational, statistical and modeling tools. The three SM pillars are highly interconnected, and their balancing is crucial. Despite the great technological progresses producing huge amount of data (Big Data) and impressive computational facilities, the Bio-Medical hypotheses are still of primary importance. A paradigmatic example of unifying Bio-Medical theory is the concept of Inflammaging. This complex phenotype is involved in a large number of pathologies and patho-physiological processes such as aging, age-related diseases and cancer, all sharing a common inflammatory pathogenesis. This Biomedical hypothesis can be mapped into an ecological perspective capable to describe by quantitative and predictive models some experimentally observed features, such as microenvironment, niche partitioning and phenotype propagation. In this article we show how this idea can be supported by computational methods useful to successfully integrate, analyze and model large data sets, combining cross-sectional and longitudinal information on clinical, environmental and omics data of healthy subjects and patients to provide new multidimensional biomarkers capable of distinguishing between different pathological conditions, e.g. healthy versus unhealthy state, physiological versus pathological aging.


Asunto(s)
Inflamación , Análisis de Sistemas , Biomarcadores , Estudios Transversales , Humanos , Neoplasias , Biología de Sistemas
4.
Mediators Inflamm ; 2018: 7109312, 2018.
Artículo en Inglés | MEDLINE | ID: mdl-29681767

RESUMEN

The production of reactive oxygen species (ROS) may promote immunosenescence if not counterbalanced by the antioxidant systems. Cell membranes, proteins, and nucleic acids become the target of ROS and progressively lose their structure and functions. This process could lead to an impairment of the immune response. However, little is known about the capability of the immune cells of elderly individuals to dynamically counteract the oxidative stress. Here, the response of the main lymphocyte subsets to the induced oxidative stress in semisupercentenarians (CENT), their offspring (OFF), elderly controls (CTRL), and young individuals (YO) was analyzed using flow cytometry. The results showed that the ratio of the ROS levels between the induced and noninduced (I/NI) oxidative stress conditions was higher in CTRL and OFF than in CENT and YO, in almost all T, B, and NK subsets. Moreover, the ratio of reduced glutathione levels between I/NI conditions was higher in OFF and CENT compared to the other groups in almost all the subsets. Finally, we observed significant correlations between the response to the induced oxidative stress and the degree of methylation in specific genes on the oxidative stress pathway. Globally, these data suggest that the capability to buffer dynamic changes in the oxidative environment could be a hallmark of longevity in humans.


Asunto(s)
Envejecimiento/fisiología , Linfocitos/fisiología , Especies Reactivas de Oxígeno/metabolismo , Factores de Edad , Anciano , Anciano de 80 o más Años , Antioxidantes/metabolismo , Células Cultivadas , Femenino , Citometría de Flujo , Glutatión/metabolismo , Humanos , Linfocitos/inmunología , Masculino , Persona de Mediana Edad , Oxidación-Reducción , Estrés Oxidativo/fisiología
5.
PLoS Genet ; 10(2): e1004132, 2014 Feb.
Artículo en Inglés | MEDLINE | ID: mdl-24586186

RESUMEN

Metabolic traits are molecular phenotypes that can drive clinical phenotypes and may predict disease progression. Here, we report results from a metabolome- and genome-wide association study on (1)H-NMR urine metabolic profiles. The study was conducted within an untargeted approach, employing a novel method for compound identification. From our discovery cohort of 835 Caucasian individuals who participated in the CoLaus study, we identified 139 suggestively significant (P<5×10(-8)) and independent associations between single nucleotide polymorphisms (SNP) and metabolome features. Fifty-six of these associations replicated in the TasteSensomics cohort, comprising 601 individuals from São Paulo of vastly diverse ethnic background. They correspond to eleven gene-metabolite associations, six of which had been previously identified in the urine metabolome and three in the serum metabolome. Our key novel findings are the associations of two SNPs with NMR spectral signatures pointing to fucose (rs492602, P = 6.9×10(-44)) and lysine (rs8101881, P = 1.2×10(-33)), respectively. Fine-mapping of the first locus pinpointed the FUT2 gene, which encodes a fucosyltransferase enzyme and has previously been associated with Crohn's disease. This implicates fucose as a potential prognostic disease marker, for which there is already published evidence from a mouse model. The second SNP lies within the SLC7A9 gene, rare mutations of which have been linked to severe kidney damage. The replication of previous associations and our new discoveries demonstrate the potential of untargeted metabolomics GWAS to robustly identify molecular disease markers.


Asunto(s)
Metaboloma/genética , Metabolómica , Polimorfismo de Nucleótido Simple/genética , Orina , Sistemas de Transporte de Aminoácidos Básicos/genética , Animales , Enfermedad de Crohn/genética , Enfermedad de Crohn/metabolismo , Fucosiltransferasas/genética , Fucosiltransferasas/metabolismo , Estudio de Asociación del Genoma Completo , Humanos , Enfermedades Renales/genética , Enfermedades Renales/metabolismo , Espectroscopía de Resonancia Magnética , Masculino , Ratones , Galactósido 2-alfa-L-Fucosiltransferasa
6.
Pediatr Res ; 75(4): 535-43, 2014 Apr.
Artículo en Inglés | MEDLINE | ID: mdl-24375085

RESUMEN

BACKGROUND: The combination of maternal obesity in early pregnancy and high protein intake in infant formula feeding might predispose to obesity risk in later life. METHODS: This study assesses the impact of breast- or formula-feeding (differing in protein content by 1.65 or 2.7 g/100 kcal) on the metabolism of term infants from overweight and obese mothers. From birth to 3 mo of age, infants received exclusively either breast- or starter formula-feeding and until 6 mo, exclusively either a formula designed for this study or breast-feeding. From 6 to 12 mo, infants received complementary weaning food. Metabonomics was conducted on the infants' urine and stool samples collected at the age of 3, 6, and 12 mo. RESULTS: Infant formula-feeding resulted in higher protein-derived short-chain fatty acids and amino acids in stools. Urine metabonomics revealed a relationship between bacterial processing of dietary proteins and host protein metabolism stimulated with increasing protein content in the formula. Moreover, formula-fed infants were metabolically different from breast-fed infants, at the level of lipid and energy metabolism (carnitines, ketone bodies, and Krebs cycle). CONCLUSION: Noninvasive urine and stool metabolic monitoring of responses to early nutrition provides relevant readouts to assess nutritional requirements for infants' growth.


Asunto(s)
Lactancia Materna , Proteínas en la Dieta/administración & dosificación , Obesidad/metabolismo , Sobrepeso/metabolismo , Femenino , Humanos , Lactante , Recién Nacido , Metabolómica
7.
J Proteome Res ; 12(4): 1956-68, 2013 Apr 05.
Artículo en Inglés | MEDLINE | ID: mdl-23473242

RESUMEN

We investigated the short-term (7 days) and long-term (60 days) metabolic effect of high fat diet induced obesity (DIO) and weight gain in isogenic C57BL/6 mice and examined the specific metabolic differentiation between mice that were either strong-responders (SR), or non-responders (NR) to weight gain. Mice (n = 80) were fed a standard chow diet for 7 days prior to randomization into a high-fat (HF) (n = 56) or a low-fat (LF) (n = 24) diet group. The (1)H NMR urinary metabolic profiles of LF and HF mice were recorded 7 and 60 days after the diet switch. On the basis of the body weight gain (BWG) distribution of HF group, we identified NR mice (n = 10) and SR mice (n = 14) to DIO. Compared with LF, HF feeding increased urinary excretion of glycine conjugates of ß-oxidation intermediate (hexanoylglycine), branched chain amino acid (BCAA) catabolism intermediates (isovalerylglycine, α-keto-ß-methylvalerate and α-ketoisovalerate) and end-products of nicotinamide adenine dinucleotide (NAD) metabolism (N1-methyl-2-pyridone-5-carboxamide, N1-methyl-4-pyridone-3-carboxamide) suggesting up-regulation of mitochondrial oxidative pathways. In the HF group, NR mice excreted relatively more hexanoylglycine, isovalerylglycine, and fewer tricarboxylic acid (TCA) cycle intermediate (succinate) in comparison to SR mice. Thus, subtle regulation of ketogenic pathways in DIO may alleviate the saturation of the TCA cycle and mitochondrial oxidative metabolism.


Asunto(s)
Adaptación Fisiológica , Dieta Alta en Grasa/efectos adversos , Mitocondrias/metabolismo , Obesidad/metabolismo , Aumento de Peso/efectos de los fármacos , Animales , Femenino , Hemiterpenos , Cetoácidos/metabolismo , Espectroscopía de Resonancia Magnética , Ratones , Ratones Endogámicos C57BL , NAD/metabolismo , Obesidad/etiología , Oxidación-Reducción , Ácido Succínico/metabolismo , Orina/fisiología
8.
Anal Chem ; 85(12): 5801-9, 2013 Jun 18.
Artículo en Inglés | MEDLINE | ID: mdl-23718684

RESUMEN

Metabolism is essential to understand human health. To characterize human metabolism, a high-resolution read-out of the metabolic status under various physiological conditions, either in health or disease, is needed. Metabolomics offers an unprecedented approach for generating system-specific biochemical definitions of a human phenotype through the capture of a variety of metabolites in a single measurement. The emergence of large cohorts in clinical studies increases the demand of technologies able to analyze a large number of measurements, in an automated fashion, in the most robust way. NMR is an established metabolomics tool for obtaining metabolic phenotypes. Here, we describe the analysis of NMR-based urinary profiles for metabolic studies, challenged to a large human study (3007 samples). This method includes the acquisition of nuclear Overhauser effect spectroscopy one-dimensional and J-resolved two-dimensional (J-Res-2D) (1)H NMR spectra obtained on a 600 MHz spectrometer, equipped with a 120 µL flow probe, coupled to a flow-injection analysis system, in full automation under the control of a sampler manager. Samples were acquired at a throughput of ~20 (or 40 when J-Res-2D is included) min/sample. The associated technical analysis error over the full series of analysis is 12%, which demonstrates the robustness of the method. With the aim to describe an overall metabolomics workflow, the quantification of 36 metabolites, mainly related to central carbon metabolism and gut microbial host cometabolism, was obtained, as well as multivariate data analysis of the full spectral profiles. The metabolic read-outs generated using our analytical workflow can therefore be considered for further pathway modeling and/or biological interpretation.


Asunto(s)
Automatización de Laboratorios/métodos , Espectroscopía de Resonancia Magnética/métodos , Metaboloma/fisiología , Urinálisis/métodos , Adulto , Anciano , Automatización de Laboratorios/normas , Femenino , Análisis de Inyección de Flujo/métodos , Análisis de Inyección de Flujo/normas , Humanos , Espectroscopía de Resonancia Magnética/normas , Masculino , Persona de Mediana Edad , Urinálisis/normas
9.
J Nutr ; 143(6): 766-73, 2013 Jun.
Artículo en Inglés | MEDLINE | ID: mdl-23616503

RESUMEN

Epidemiological studies consistently find that diets rich in whole-grain (WG) cereals lead to decreased risk of disease compared with refined grain (RG)-based diets. Aside from a greater amount of fiber and micronutrients, possible mechanisms for why WGs may be beneficial for health remain speculative. In an exploratory, randomized, researcher-blinded, crossover trial, we measured metabolic profile differences between healthy participants eating a diet based on WGs compared with a diet based on RGs. Seventeen healthy adult participants (11 female, 6 male) consumed a controlled diet based on either WG-rich or RG-rich foods for 2 wk, followed by the other diet after a 5-wk washout period. Both diets were the same except for the use of WG (150 g/d) or RG foods. The metabolic profiles of plasma, urine, and fecal water were measured using (1)H-nuclear magnetic resonance spectroscopy and gas chromatography-mass spectrometry (plasma only). After 1 wk of intervention, the WG diet led to decreases in urinary excretion of metabolites related to protein catabolism (urea, methylguanadine), lipid (carnitine and acylcarnitines) and gut microbial (4-hydroxyphenylacetate, trimethylacetate, dimethylacetate) metabolism in men compared with the same time point during the RG intervention. There were no differences between the interventions after 2 wk. Urinary urea, carnitine, and acylcarnitine were lower at wk 1 of the WG intervention relative to the RG intervention in all participants. Fecal water short-chain fatty acids acetate and butyrate were relatively greater after the WG diet compared to the RG diet. Although based on a small population and for a short time period, these observations suggest that a WG diet may affect protein metabolism.


Asunto(s)
Biomarcadores/orina , Dieta , Grano Comestible , Intestinos/microbiología , Proteínas/metabolismo , Acetatos/análisis , Adulto , Bacterias/metabolismo , Biomarcadores/sangre , Carnitina/orina , Estudios Cruzados , Fibras de la Dieta , Metabolismo Energético , Heces/química , Femenino , Manipulación de Alimentos , Cromatografía de Gases y Espectrometría de Masas , Promoción de la Salud , Humanos , Metabolismo de los Lípidos , Espectroscopía de Resonancia Magnética , Masculino , Metaboloma , Metilaminas/análisis , Metilguanidina/orina , Persona de Mediana Edad , Ácidos Nicotínicos/análisis , Organofosfatos/análisis , Fenilacetatos/análisis , Factores Sexuales , Urea/orina
10.
Pediatr Res ; 73(4 Pt 2): 570-6, 2013 Apr.
Artículo en Inglés | MEDLINE | ID: mdl-23314292

RESUMEN

Increasing evidence points toward the critical and long-term involvement of prenatal and early nutrition and lifestyle on later health and disease risk predisposition. Metabolomics is now a well-established top-down systems biology approach that explores the genetic-environment-health paradigm. The generalization of such approaches has opened new research areas to deepen our current understanding of many physiological processes, as well as foods and nutrient functionalities in target populations. It is envisioned that this will provide new avenues toward preventive medicine and prognostic strategies for tailored therapeutic and personalized nutrition management. The development of systems biology approaches and the new generation of biomarker patterns will provide the opportunity to associate complex metabolic regulations with the etiology of multifactorial pediatric diseases. This may subsequently lead to the development of system mechanistic hypotheses that could be targeted with new nutritional personalized concepts. Therefore, this review aims to describe recent applications of metabolomics in preclinical and clinical fields with insights into disease diagnostics/monitoring and improvement of homeostasis metabolic regulation that may be translatable to novel therapeutic and nutrition advances in pediatric research.


Asunto(s)
Dieta , Metabolómica , Pediatría/métodos , Biología de Sistemas/métodos , Animales , Biomarcadores/metabolismo , Niño , Femenino , Homeostasis , Humanos , Masculino , Metabolómica/métodos , Modelos Biológicos , Fenotipo
11.
Br J Clin Pharmacol ; 75(3): 619-29, 2013 Mar.
Artículo en Inglés | MEDLINE | ID: mdl-22348240

RESUMEN

Metabolomics is recognized as a powerful top-down system biological approach to understand genetic-environment-health paradigms paving new avenues to identify clinically relevant biomarkers. It is nowadays commonly used in clinical applications shedding new light on physiological regulatory processes of complex mammalian systems with regard to disease aetiology, diagnostic stratification and, potentially, mechanism of action of therapeutic solutions. A key feature of metabolomics lies in its ability to underpin the complex metabolic interactions of the host with its commensal microbial partners providing a new way to define individual and population phenotypes. This review aims at describing recent applications of metabolomics in clinical fields with insight into diseases, diagnostics/monitoring and improvement of homeostatic metabolic regulation.


Asunto(s)
Investigación Biomédica/métodos , Atención a la Salud/métodos , Metabolómica/métodos , Animales , Biomarcadores/metabolismo , Investigación Biomédica/tendencias , Atención a la Salud/tendencias , Manejo de la Enfermedad , Humanos , Metabolómica/tendencias , Modelos Animales
12.
Geroscience ; 45(1): 85-103, 2023 02.
Artículo en Inglés | MEDLINE | ID: mdl-35864375

RESUMEN

Circulating cell-free DNA (cf-DNA) has emerged as a promising biomarker of ageing, tissue damage and cellular stress. However, less is known about health behaviours, ageing phenotypes and metabolic processes that lead to elevated cf-DNA levels. We sought to analyse the relationship of circulating cf-DNA level to age, sex, smoking, physical activity, vegetable consumption, ageing phenotypes (physical functioning, the number of diseases, frailty) and an extensive panel of biomarkers including blood and urine metabolites and inflammatory markers in three human cohorts (N = 5385; 17-82 years). The relationships were assessed using correlation statistics, and linear and penalised regressions (the Lasso), also stratified by sex.cf-DNA levels were significantly higher in men than in women, and especially in middle-aged men and women who smoke, and in older more frail individuals. Correlation statistics of biomarker data showed that cf-DNA level was higher with elevated inflammation (C-reactive protein, interleukin-6), and higher levels of homocysteine, and proportion of red blood cells and lower levels of ascorbic acid. Inflammation (C-reactive protein, glycoprotein acetylation), amino acids (isoleucine, leucine, tyrosine), and ketogenesis (3-hydroxybutyrate) were included in the cf-DNA level-related biomarker profiles in at least two of the cohorts.In conclusion, circulating cf-DNA level is different by sex, and related to health behaviour, health decline and metabolic processes common in health and disease. These results can inform future studies where epidemiological and biological pathways of cf-DNA are to be analysed in details, and for studies evaluating cf-DNA as a potential clinical marker.


Asunto(s)
Proteína C-Reactiva , Ácidos Nucleicos Libres de Células , Masculino , Humanos , Femenino , Persona de Mediana Edad , Anciano , Envejecimiento/genética , Biomarcadores , Fenotipo , Inflamación , Conductas Relacionadas con la Salud , ADN
13.
J Proteome Res ; 11(12): 6252-63, 2012 Dec 07.
Artículo en Inglés | MEDLINE | ID: mdl-23163751

RESUMEN

Systems biology approaches are providing novel insights into the role of nutrition for the management of health and disease. In the present study, we investigated if dietary preference for dark chocolate in healthy subjects may lead to different metabolic response to daily chocolate consumption. Using NMR- and MS-based metabolic profiling of blood plasma and urine, we monitored the metabolic response of 10 participants stratified as chocolate desiring and eating regularly dark chocolate (CD) and 10 participants stratified as chocolate indifferent and eating rarely dark chocolate (CI) to a daily consumption of 50 g of dark chocolate as part of a standardized diet over a one week period. We demonstrated that preference for chocolate leads to different metabolic response to chocolate consumption. Daily intake of dark chocolate significantly increased HDL cholesterol by 6% and decreased polyunsaturated acyl ether phospholipids. Dark chocolate intake could also induce an improvement in the metabolism of long chain fatty acid, as noted by a compositional change in plasma fatty acyl carnitines. Moreover, a relationship between regular long-term dietary exposure to a small amount of dark chocolate, gut microbiota, and phenolics was highlighted, providing novel insights into biological processes associated with cocoa bioactives.


Asunto(s)
Cacao/metabolismo , Dulces , Preferencias Alimentarias , Tracto Gastrointestinal/metabolismo , Tracto Gastrointestinal/microbiología , Adulto , Bacterias/metabolismo , Biomarcadores/sangre , Biomarcadores/metabolismo , Biomarcadores/orina , Carnitina/sangre , Carnitina/metabolismo , HDL-Colesterol/sangre , HDL-Colesterol/metabolismo , Femenino , Humanos , Espectroscopía de Resonancia Magnética , Masculino , Metaboloma , Metabolómica/métodos , Metagenoma , Persona de Mediana Edad , Éteres Fosfolípidos/sangre , Éteres Fosfolípidos/metabolismo , Polifenoles/orina , Factores de Tiempo , Urinálisis/métodos , Adulto Joven
14.
Int J Mol Sci ; 13(3): 3949-3958, 2012.
Artículo en Inglés | MEDLINE | ID: mdl-22489191

RESUMEN

Cooperative effects of magnesium ions and acidic polypeptides originating from a family of proteins known as Asprich (mollusk Atrina rigida) were studied. In our previous studies, these two acidic polypeptides were found to be effective in controlling the morphology of the calcium carbonate mineral, the main inorganic constituent of prismatic layer of the mollusk shell. Since these Asprich sequences are believed to contain a putative magnesium binding domain, the morphology-controlling effects were further investigated with the addition of magnesium ions. The mineral morphology was dramatically changed by the combined influence of each polypeptides and the magnesium ions, substantiating the recognized importance of magnesium in the formation of calcium carbonate-based biominerals.


Asunto(s)
Exoesqueleto/crecimiento & desarrollo , Calcificación Fisiológica/fisiología , Carbonato de Calcio/química , Magnesio/química , Moluscos/metabolismo , Exoesqueleto/química , Exoesqueleto/metabolismo , Animales , Carbonato de Calcio/metabolismo , Magnesio/metabolismo , Minerales , Proteínas/metabolismo
15.
J Proteome Res ; 10(3): 990-1003, 2011 Mar 04.
Artículo en Inglés | MEDLINE | ID: mdl-21275419

RESUMEN

Insulin/IGF-like signaling (IIS) and nutrient sensing are among the most potent regulators of health status and aging. Here, a global view of the metabolic changes in C. elegans with impaired function of IIS represented by daf-2 and daf-16 and the intestinal di- and tripeptide transport pept-1 was generated using (1)H nuclear magnetic resonance spectroscopic analysis of worm extracts and spent culture media. We showed that specific metabolic profiles were significantly associated with each type of mutant. On the basis of the metabonomics data, selected underlying processes were further investigated using proteomic and transcriptomic approaches. The observed changes suggest a decreased activity of the one carbon metabolism in pept-1(lg601) mutants. Higher concentration of branched-chain amino acids (BCAA) and altered transcript levels of genes involved in BCAA metabolism were observed in long-living strains daf-2(e1370) and daf-2(e1370);pept-1(lg601) when compared to wild types and daf-16(m26);daf-2(e1370);pept-1(lg601) C. elegans, suggesting a DAF-16-dependent mechanism.


Asunto(s)
Aminoácidos/metabolismo , Proteínas de Caenorhabditis elegans/metabolismo , Caenorhabditis elegans/metabolismo , Medios de Cultivo/metabolismo , Insulina/metabolismo , Metabolómica/métodos , Transducción de Señal , Aminoácidos/química , Animales , Proteínas de Caenorhabditis elegans/genética , Medios de Cultivo/química , Metabolismo Energético , Perfilación de la Expresión Génica , Humanos , Longevidad/fisiología , Resonancia Magnética Nuclear Biomolecular/métodos , Fenotipo , Análisis de Componente Principal
16.
J Proteome Res ; 10(12): 5523-35, 2011 Dec 02.
Artículo en Inglés | MEDLINE | ID: mdl-22029571

RESUMEN

The underlying biochemical consequences of inflammatory bowel disease (IBD) on the systemic and gastrointestinal metabolism have not yet been fully elucidated but could help to better understand the disease pathogenesis and to identify tissue-specific markers associated with the different disease stages. Here, we applied a metabonomic approach to monitor metabolic events associated with the gradual development of Crohn's disease (CD)-like ileitis in the TNF(ΔARE/WT) mouse model. Metabolic profiles of different intestinal compartments from the age of 4 up to 24 weeks were generated by combining proton nuclear magnetic resonance ((1)H NMR) spectroscopy and liquid chromatography-mass spectrometry (LC-MS). From 8 weeks onward, mice developed CD similar to the immune and tissue-related phenotype of human CD with ileal involvement, including ileal histological abnormalities, reduced fat mass and body weight, as well as hallmarks of malabsorption with higher energy wasting. The metabonomic approach highlighted shifts in the intestinal lipid metabolism concomitant to the histological onset of inflammation. Moreover, the advanced disease status was characterized by a significantly altered metabolism of cholesterol, triglycerides, phospholipids, plasmalogens, and sphingomyelins in the inflamed tissue (ileum) and the adjacent intestinal parts (proximal colon). These results describe different biological processes associated with the disease onset, including modifications of the general cell membrane composition, alteration of energy homeostasis, and finally the generation of inflammatory lipid mediators. Taken together, this provides novel insights into IBD-related alterations of specific lipid-dependant processes during inflammatory states.


Asunto(s)
Ileítis/etiología , Enfermedades Inflamatorias del Intestino/patología , Metabolómica/métodos , Factor de Necrosis Tumoral alfa/genética , Tejido Adiposo/química , Animales , Composición Corporal , Membrana Celular/química , Cromatografía Liquida/métodos , Enfermedad de Crohn/etiología , Enfermedad de Crohn/patología , Modelos Animales de Enfermedad , Metabolismo Energético , Ileítis/genética , Ileítis/patología , Mediadores de Inflamación/análisis , Mediadores de Inflamación/química , Enfermedades Inflamatorias del Intestino/etiología , Enfermedades Inflamatorias del Intestino/genética , Metabolismo de los Lípidos , Espectroscopía de Resonancia Magnética/métodos , Espectrometría de Masas/métodos , Metaboloma , Ratones , Ratones Endogámicos C57BL , Fenotipo , Factor de Necrosis Tumoral alfa/química , Pérdida de Peso
17.
Magn Reson Chem ; 49 Suppl 1: S47-54, 2011 Dec.
Artículo en Inglés | MEDLINE | ID: mdl-22290709

RESUMEN

Recent advances in molecular biology and microbiology have increased awareness on the importance of the gut microbiota to the overall mammalian host's health status. There is therefore increasing interest in nutrition research to characterise the molecular foundations of the gut microbial mammalian crosstalk at both physiological and biochemical pathway levels. Tackling these challenges can be achieved through systems biology strategies based on the measurement of metabolites to assess the highly complex metabolic exchanges between diverse biological compartments, including organs, biofluids and microbial symbionts. By opening a direct biochemical window into the metabolome, metabonomics is uniquely suited for the identification of biomarkers providing better understanding of these complex metabolic processes. Recent applications of top-down system biology based on (1)H NMR spectroscopy coupled to advanced chemometric modelling approaches provided compelling evidence that system-wide and organ-specific changes in biochemical processes may be finely tuned by gut microbial activities. This review aims at describing current advances in NMR-based metabonomics where the main objective is to discern the molecular pathways and biochemical mechanisms under the influence of the gut microbiota. Furthermore, emphasis is given on nutritional approaches, where the quest for homeostatic balance is dependent not only on the host but also on the nutritional modulation of the gut microbiota-host metabolic interactions, using, for instance, probiotics and prebiotics.


Asunto(s)
Tracto Gastrointestinal , Salud , Espectroscopía de Resonancia Magnética , Metabolómica , Modelos Biológicos , Animales , Tracto Gastrointestinal/microbiología , Humanos
18.
Chimia (Aarau) ; 65(6): 396-9, 2011.
Artículo en Inglés | MEDLINE | ID: mdl-21797167

RESUMEN

Nutritional research has emerged in the last century from the study of nutrients as a means of nourishment to the general population to the quest for wellness improvement through specific food components. Advances in nutrigenomics technologies have allowed nutrition scientists to be for the first time at the forefront of nutritional research. Such advances have given them the ability to discern new vital scientific discoveries specifically for the development of new tailored dietary patterns. In this, nutritional metabonomics has rapidly evolved into a very powerful bioanalytical tool able to assess multi-parametric metabolic responses of living organisms to specific dietary interventions. Nutritional metabonomics therefore provides a systematic approach through the comprehensive analysis of metabolites aiming today at the quest for homeostatic balance which is dependent not only on the host but also on the crucial metabolic interactions with microbial symbionts.


Asunto(s)
Metabolómica , Fenómenos Fisiológicos de la Nutrición/fisiología , Análisis de los Alimentos , Humanos , Fenómenos Fisiológicos de la Nutrición/genética
19.
Elife ; 102021 05 04.
Artículo en Inglés | MEDLINE | ID: mdl-33941312

RESUMEN

Extreme longevity is the paradigm of healthy aging as individuals who reached the extreme decades of human life avoided or largely postponed all major age-related diseases. In this study, we sequenced at high coverage (90X) the whole genome of 81 semi-supercentenarians and supercentenarians [105+/110+] (mean age: 106.6 ± 1.6) and of 36 healthy unrelated geographically matched controls (mean age 68.0 ± 5.9) recruited in Italy. The results showed that 105+/110+ are characterized by a peculiar genetic background associated with efficient DNA repair mechanisms, as evidenced by both germline data (common and rare variants) and somatic mutations patterns (lower mutation load if compared to younger healthy controls). Results were replicated in a second independent cohort of 333 Italian centenarians and 358 geographically matched controls. The genetics of 105+/110+ identified DNA repair and clonal haematopoiesis as crucial players for healthy aging and for the protection from cardiovascular events.


Asunto(s)
Hematopoyesis Clonal/genética , Reparación del ADN , Longevidad/genética , Secuenciación Completa del Genoma/estadística & datos numéricos , Anciano , Anciano de 80 o más Años , Estudios de Cohortes , Femenino , Antecedentes Genéticos , Humanos , Italia , Masculino , Persona de Mediana Edad , Mutación , Secuenciación Completa del Genoma/métodos
20.
Biochemistry ; 48(16): 3669-77, 2009 Apr 28.
Artículo en Inglés | MEDLINE | ID: mdl-19344178

RESUMEN

A number of fully functional proteins have been identified to exist in a partially or fully disordered state. These intrinsically disordered proteins (IDP) are recognized as an important sequence class that fulfill many roles. A number of biomineral-associated proteins, particularly those which possess polyelectrolyte domains, represent potential members of the IDP class. This report describes a bioinformatics study of a ten member polyanionic sequence biomineralization protein family, Asprich, and the experimental characterization of the conserved N- and C-terminal regions found within seven members of this family. Using protein disorder prediction algorithms (DPROT, PONDR, GLOBPLOT), we confirm that all ten Asprich protein sequences are disordered, and that two polyelectrolyte domains within each protein contribute to the disorder scoring. Using synthetic peptides which model the conserved N- (F1,48 AA) and C-terminal (F2, 42 AA) domains, we determine that both domains are globally disordered and remain so in the presence of Ca(II). However, F1 and F2 possess differing proportions of extended beta strand relative to random coil structure and sequence spacing of Asp, Glu residues. As a result, the F2 sequence possesses a higher anionic surface charge density, solvent accessibility, and greater degree of local conformational response to Ca(II). These differences may explain why F1 and F2 differ with regard to step growth kinetics, mineral modulation, and metal ion complexation, and possibly distinguish the molecular role(s) that each domain conveys to the Asprich protein family. Structural and surface charge density features may also control the function of Asp, Glu polyelectrolyte domains within other IDP proteins.


Asunto(s)
Algoritmos , Secuencia de Aminoácidos , Proteínas/química , Análisis de Secuencia de Proteína , Biología Computacional , Metales/química , Modelos Moleculares , Datos de Secuencia Molecular , Fragmentos de Péptidos/síntesis química , Fragmentos de Péptidos/química , Fragmentos de Péptidos/genética , Conformación Proteica , Proteínas/genética
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