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Metabolomics: Official Journal of the Metabolomic Society

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https://www.readbyqxmd.com/read/29147105/depletion-of-stercobilin-in-fecal-matter-from-a-mouse-model-of-autism-spectrum-disorders
#1
Emily R Sekera, Heather L Rudolph, Stephen D Carro, Michael J Morales, Glenna C L Bett, Randall L Rasmusson, Troy D Wood
Introduction: Autism spectrum disorders (ASD) are a group of neurodevelopmental disorders lacking a clinical biomarker for diagnosis. Emerging evidence shows that intestinal microflora from ASD subjects can be distinguished from controls, suggesting metabolite differences due to the action of intestinal microbes may provide a means for identifying potential biomarkers for ASD. Objectives: The aim of this study was to determine if quantitative differences in levels of stercobilin and stercobilinogen, metabolites produced by biological action of intestinal microflora, exist in the fecal matter between an ASD mouse model population and controls...
November 2017: Metabolomics: Official Journal of the Metabolomic Society
https://www.readbyqxmd.com/read/28757815/insulin-induces-a-shift-in-lipid-and-primary-carbon-metabolites-in-a-model-of-fasting-induced-insulin-resistance
#2
Keedrian I Olmstead, Michael R La Frano, Johannes Fahrmann, Dmitry Grapov, Jose A Viscarra, John W Newman, Oliver Fiehn, Daniel E Crocker, Fabian V Filipp, Rudy M Ortiz
INTRODUCTION: Prolonged fasting in northern elephant seals (NES) is characterized by a reliance on lipid metabolism, conservation of protein, and reduced plasma insulin. During early fasting, glucose infusion previously reduced plasma free fatty acids (FFA); however, during late-fasting, it induced an atypical elevation in FFA despite comparable increases in insulin during both periods suggestive of a dynamic shift in tissue responsiveness to glucose-stimulated insulin secretion. OBJECTIVE: To better assess the contribution of insulin to this fasting-associated shift in substrate metabolism...
May 2017: Metabolomics: Official Journal of the Metabolomic Society
https://www.readbyqxmd.com/read/28496395/a-relative-quantitative-positive-negative-ion-switching-method-for-untargeted-lipidomics-via-high-resolution-lc-ms-ms-from-any-biological-source
#3
Susanne B Breitkopf, Stéphane J H Ricoult, Min Yuan, Ying Xu, David A Peake, Brendan D Manning, John M Asara
INTRODUCTION: Advances in high-resolution mass spectrometry have created renewed interest for studying global lipid biochemistry in disease and biological systems. OBJECTIVES: Here, we present an untargeted 30 min. LC-MS/MS platform that utilizes positive/negative polarity switching to perform unbiased data dependent acquisitions (DDA) via higher energy collisional dissociation (HCD) fragmentation to profile more than 1000-1500 lipid ions mainly from methyl-tert-butyl ether (MTBE) or chloroform:methanol extractions...
March 2017: Metabolomics: Official Journal of the Metabolomic Society
https://www.readbyqxmd.com/read/28190989/candidate-serum-metabolite-biomarkers-for-differentiating-gastroesophageal-reflux-disease-barrett-s-esophagus-and-high-grade-dysplasia-esophageal-adenocarcinoma
#4
Matthew F Buas, Haiwei Gu, Danijel Djukovic, Jiangjiang Zhu, Lynn Onstad, Brian J Reid, Daniel Raftery, Thomas L Vaughan
INTRODUCTION/OBJECTIVES: Incidence of esophageal adenocarcinoma (EA), an often fatal cancer, has increased sharply over recent decades. Several important risk factors (reflux, obesity, smoking) have been identified for EA and its precursor, Barrett's esophagus (BE), but a key challenge remains identifying individuals at highest risk, since most with reflux do not develop BE, and most with BE do not progress to cancer. Metabolomics represents an emerging approach for identifying novel biomarkers associated with cancer development...
March 2017: Metabolomics: Official Journal of the Metabolomic Society
https://www.readbyqxmd.com/read/29151824/a-real-time-metabolomic-profiling-approach-to-detecting-fish-fraud-using-rapid-evaporative-ionisation-mass-spectrometry
#5
Connor Black, Olivier P Chevallier, Simon A Haughey, Julia Balog, Sara Stead, Steven D Pringle, Maria V Riina, Francesca Martucci, Pier L Acutis, Mike Morris, Dimitrios S Nikolopoulos, Zoltan Takats, Christopher T Elliott
Introduction: Fish fraud detection is mainly carried out using a genomic profiling approach requiring long and complex sample preparations and assay running times. Rapid evaporative ionisation mass spectrometry (REIMS) can circumvent these issues without sacrificing a loss in the quality of results. Objectives: To demonstrate that REIMS can be used as a fast profiling technique capable of achieving accurate species identification without the need for any sample preparation...
2017: Metabolomics: Official Journal of the Metabolomic Society
https://www.readbyqxmd.com/read/29142509/using-an-nmr-metabolomics-approach-to-investigate-the-pathogenicity-of-amyloid-beta-and-alpha-synuclein
#6
M M Phelan, E Caamaño-Gutiérrez, M S Gant, R X Grosman, J Madine
Introduction: The pathogenicity at differing points along the aggregation pathway of many fibril-forming proteins associated with neurodegenerative diseases is unclear. Understanding the effect of different aggregation states of these proteins on cellular processes is essential to enhance understanding of diseases and provide future options for diagnosis and therapeutic intervention. Objectives: To establish a robust method to probe the metabolic changes of neuronal cells and use it to monitor cellular response to challenge with three amyloidogenic proteins associated with neurodegenerative diseases in different aggregation states...
2017: Metabolomics: Official Journal of the Metabolomic Society
https://www.readbyqxmd.com/read/29104520/metabolomic-analysis-of-tomato-seed-germination
#7
Rashid H Kazmi, Leo A J Willems, Ronny V L Joosen, Noorullah Khan, Wilco Ligterink, Henk W M Hilhorst
Introduction: Seed germination is inherently related to seed metabolism, which changes throughout its maturation, desiccation and germination processes. The metabolite content of a seed and its ability to germinate are determined by underlying genetic architecture and environmental effects during development. Objective: This study aimed to assess an integrative approach to explore genetics modulating seed metabolism in different developmental stages and the link between seed metabolic- and germination traits...
2017: Metabolomics: Official Journal of the Metabolomic Society
https://www.readbyqxmd.com/read/29104519/metabolite-profiling-of-yam-dioscorea-spp-accessions-for-use-in-crop-improvement-programmes
#8
Elliott J Price, Ranjana Bhattacharjee, Antonio Lopez-Montes, Paul D Fraser
Introduction: Ninety-seven percent of yam (Dioscorea spp.) production takes place in low income food deficit countries (LIFDCs) and the crop provides 200 calories a day to approximately 300 million people. Therefore, yams are vital for food security. Yams have high-yield potential and high market value potential yet current breeding of yam is hindered by a lack of genomic information and genetic resources. New tools are needed to modernise breeding strategies and unlock the potential of yam to improve livelihood in LIFDCs...
2017: Metabolomics: Official Journal of the Metabolomic Society
https://www.readbyqxmd.com/read/29046620/the-dental-calculus-metabolome-in-modern-and-historic-samples
#9
Irina M Velsko, Katherine A Overmyer, Camilla Speller, Lauren Klaus, Matthew J Collins, Louise Loe, Laurent A F Frantz, Krithivasan Sankaranarayanan, Cecil M Lewis, Juan Bautista Rodriguez Martinez, Eros Chaves, Joshua J Coon, Greger Larson, Christina Warinner
INTRODUCTION: Dental calculus is a mineralized microbial dental plaque biofilm that forms throughout life by precipitation of salivary calcium salts. Successive cycles of dental plaque growth and calcification make it an unusually well-preserved, long-term record of host-microbial interaction in the archaeological record. Recent studies have confirmed the survival of authentic ancient DNA and proteins within historic and prehistoric dental calculus, making it a promising substrate for investigating oral microbiome evolution via direct measurement and comparison of modern and ancient specimens...
2017: Metabolomics: Official Journal of the Metabolomic Society
https://www.readbyqxmd.com/read/28989335/estimation-of-metabolite-networks-with-regard-to-a-specific-covariable-applications-to-plant-and-human-data
#10
Georgios Bartzis, Joris Deelen, Julio Maia, Wilco Ligterink, Henk W M Hilhorst, Jeanine-J Houwing-Duistermaat, Fred van Eeuwijk, Hae-Won Uh
INTRODUCTION: In systems biology, where a main goal is acquiring knowledge of biological systems, one of the challenges is inferring biochemical interactions from different molecular entities such as metabolites. In this area, the metabolome possesses a unique place for reflecting "true exposure" by being sensitive to variation coming from genetics, time, and environmental stimuli. While influenced by many different reactions, often the research interest needs to be focused on variation coming from a certain source, i...
2017: Metabolomics: Official Journal of the Metabolomic Society
https://www.readbyqxmd.com/read/28989334/masspix-an-r-package-for-annotation-and-interpretation-of-mass-spectrometry-imaging-data-for-lipidomics
#11
Nicholas J Bond, Albert Koulman, Julian L Griffin, Zoe Hall
INTRODUCTION: Mass spectrometry imaging (MSI) experiments result in complex multi-dimensional datasets, which require specialist data analysis tools. OBJECTIVES: We have developed massPix-an R package for analysing and interpreting data from MSI of lipids in tissue. METHODS: massPix produces single ion images, performs multivariate statistics and provides putative lipid annotations based on accurate mass matching against generated lipid libraries...
2017: Metabolomics: Official Journal of the Metabolomic Society
https://www.readbyqxmd.com/read/28943831/a-robust-single-injection-method-for-targeted-broad-spectrum-plasma-metabolomics
#12
Kefeng Li, Jane C Naviaux, A Taylor Bright, Lin Wang, Robert K Naviaux
BACKGROUND: Metabolomics is a powerful emerging technology for studying the systems biology and chemistry of health and disease. Current targeted methods are often limited by the number of analytes that can be measured, and/or require multiple injections. METHODS: We developed a single-injection, targeted broad-spectrum plasma metabolomic method on a SCIEX Qtrap 5500 LC-ESI-MS/MS platform. Analytical validation was conducted for the reproducibility, linearity, carryover and blood collection tube effects...
2017: Metabolomics: Official Journal of the Metabolomic Society
https://www.readbyqxmd.com/read/28932179/non-invasive-real-time-monitoring-of-yeast-volatilome-by-ptr-tof-ms
#13
Iuliia Khomenko, Irene Stefanini, Luca Cappellin, Valentina Cappelletti, Pietro Franceschi, Duccio Cavalieri, Tilmann D Märk, Franco Biasioli
INTRODUCTION: Producing a wide range of volatile secondary metabolites Saccharomyces cerevisiae influences wine, beer, and bread sensory quality and hence selection of strains based on their volatilome becomes pivotal. A rapid on-line method for volatilome assessing of strains growing on standard solid media is still missing. OBJECTIVES: Methodologically, the aim of this study was to demonstrate the automatic, real-time, direct, and non-invasive monitoring of yeast volatilome in order to rapidly produce a robust large data set encompassing measurements relative to many strains, replicates and time points...
2017: Metabolomics: Official Journal of the Metabolomic Society
https://www.readbyqxmd.com/read/28890673/navigating-freely-available-software-tools-for-metabolomics-analysis
#14
REVIEW
Rachel Spicer, Reza M Salek, Pablo Moreno, Daniel Cañueto, Christoph Steinbeck
INTRODUCTION: The field of metabolomics has expanded greatly over the past two decades, both as an experimental science with applications in many areas, as well as in regards to data standards and bioinformatics software tools. The diversity of experimental designs and instrumental technologies used for metabolomics has led to the need for distinct data analysis methods and the development of many software tools. OBJECTIVES: To compile a comprehensive list of the most widely used freely available software and tools that are used primarily in metabolomics...
2017: Metabolomics: Official Journal of the Metabolomic Society
https://www.readbyqxmd.com/read/28890672/multivariate-strategy-for-the-sample-selection-and-integration-of-multi-batch-data-in-metabolomics
#15
Izabella Surowiec, Erik Johansson, Frida Torell, Helena Idborg, Iva Gunnarsson, Elisabet Svenungsson, Per-Johan Jakobsson, Johan Trygg
INTRODUCTION: Availability of large cohorts of samples with related metadata provides scientists with extensive material for studies. At the same time, recent development of modern high-throughput 'omics' technologies, including metabolomics, has resulted in the potential for analysis of large sample sizes. Representative subset selection becomes critical for selection of samples from bigger cohorts and their division into analytical batches. This especially holds true when relative quantification of compound levels is used...
2017: Metabolomics: Official Journal of the Metabolomic Society
https://www.readbyqxmd.com/read/28867989/exhaled-breath-analysis-a-review-of-breath-taking-methods-for-off-line-analysis
#16
REVIEW
Oluwasola Lawal, Waqar M Ahmed, Tamara M E Nijsen, Royston Goodacre, Stephen J Fowler
BACKGROUND: The potential of exhaled breath sampling and analysis has long attracted interest in the areas of medical diagnosis and disease monitoring. This interest is attributed to its non-invasive nature, access to an unlimited sample supply (i.e., breath), and the potential to facilitate a rapid at patient diagnosis. However, progress from laboratory setting to routine clinical practice has been slow. Different methodologies of breath sampling, and the consequent difficulty in comparing and combining data, are considered to be a major contributor to this...
2017: Metabolomics: Official Journal of the Metabolomic Society
https://www.readbyqxmd.com/read/28867988/identification-of-weak-and-gender-specific-effects-in-a-short-3%C3%A2-weeks-intervention-study-using-barley-and-oat-mixed-linkage-%C3%AE-glucan-dietary-supplements-a-human-fecal-metabolome-study-by-gc-ms
#17
Alessia Trimigno, Bekzod Khakimov, Josue Leonardo Castro Mejia, Mette Skau Mikkelsen, Mette Kristensen, Birthe Møller Jespersen, Søren Balling Engelsen
INTRODUCTION: Mixed-linkage (1→3),(1→4)-β-d-glucans (BG) reduce cholesterol level and insulin response in humans. Despite this, their role in human metabolism and a mode of action remains largely unknown. OBJECTIVES: To investigate the effects of three structurally different BG on human fecal metabolome in a full cross-over intervention using GC-MS metabolomics. METHODS: Over three weeks of intervention, young healthy adults received food supplemented with BG from oat, two different BG from barley or a non-fiber control in a full cross-over design...
2017: Metabolomics: Official Journal of the Metabolomic Society
https://www.readbyqxmd.com/read/28804275/metabolomics-based-markers-predict-type-2-diabetes-in-a-14-year-follow-up-study
#18
Jun Liu, Sabina Semiz, Sven J van der Lee, Ashley van der Spek, Aswin Verhoeven, Jan B van Klinken, Eric Sijbrands, Amy C Harms, Thomas Hankemeier, Ko Willems van Dijk, Cornelia M van Duijn, Ayşe Demirkan
BACKGROUND: The growing field of metabolomics has opened up new opportunities for prediction of type 2 diabetes (T2D) going beyond the classical biochemistry assays. OBJECTIVES: We aimed to identify markers from different pathways which represent early metabolic changes and test their predictive performance for T2D, as compared to the performance of traditional risk factors (TRF). METHODS: We analyzed 2776 participants from the Erasmus Rucphen Family study from which 1571 disease free individuals were followed up to 14-years...
2017: Metabolomics: Official Journal of the Metabolomic Society
https://www.readbyqxmd.com/read/28804274/non-invasive-urinary-metabolomic-profiling-discriminates-prostate-cancer-from-benign-prostatic-hyperplasia
#19
Clara Pérez-Rambla, Leonor Puchades-Carrasco, María García-Flores, José Rubio-Briones, José Antonio López-Guerrero, Antonio Pineda-Lucena
INTRODUCTION: Prostate cancer (PCa) is one of the most common malignancies in men worldwide. Serum prostate specific antigen (PSA) level has been extensively used as a biomarker to detect PCa. However, PSA is not cancer-specific and various non-malignant conditions, including benign prostatic hyperplasia (BPH), can cause a rise in PSA blood levels, thus leading to many false positive results. OBJECTIVES: In this study, we evaluated the potential of urinary metabolomic profiling for discriminating PCa from BPH...
2017: Metabolomics: Official Journal of the Metabolomic Society
https://www.readbyqxmd.com/read/28781589/effect-of-everolimus-on-the-glucose-metabolic-pathway-in-mouse-skeletal-muscle-cells-c2c12
#20
Kayoko Yoshida, Chiyo K Imamura, Kanako Hara, Mayumi Mochizuki, Yusuke Tanigawara
INTRODUCTION: Everolimus selectively inhibits mammalian target of rapamycin complex 1 (mTORC1) and exerts an antineoplastic effect. Metabolic disturbance has emerged as a common and unique side effect of everolimus. OBJECTIVES: We used targeted metabolomic analysis to investigate the effects of everolimus on the intracellular glycometabolic pathway. METHODS: Mouse skeletal muscle cells (C2C12) were exposed to everolimus for 48 h, and changes in intracellular metabolites were determined by capillary electrophoresis time-of-flight mass spectrometry...
2017: Metabolomics: Official Journal of the Metabolomic Society
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