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https://www.readbyqxmd.com/read/28445851/development-and-validation-of-a-uhplc-esi-ms-ms-method-for-the-simultaneous-quantification-of-mammal-lysophosphatidylcholines-and-lysophosphatidylethanolamines-in-serum
#1
Susana Suárez-García, Lluís Arola, Aïda Pascual-Serrano, Anna Arola-Arnal, Gerard Aragonès, Cinta Bladé, Manuel Suárez
Recent investigations based on non-targeted metabolomics have proposed lysophospholipids (Lyso-PLs) as biomarkers of different diseases. In particular, lysophosphatidylcholines (Lyso-PCs) and lysophosphatidylethanolamines (Lyso-PEs) have been associated with serious lipid pathologies. Methods to determine the different molecular species in a biological sample and to quantify even less abundant species are required for the evaluation of the Lyso-PL pattern as a novel comprehensive biomarker of dyslipidemia. This study describes the development and validation of an ultra-high-performance liquid chromatography coupled to tandem mass spectrometry assay for the determination of a large number of Lyso-PCs and Lyso-PEs in biological samples...
April 18, 2017: Journal of Chromatography. B, Analytical Technologies in the Biomedical and Life Sciences
https://www.readbyqxmd.com/read/28444347/fluxomics-links-cellular-functional-analyses-to-whole-plant-phenotyping
#2
Christophe Salon, Jean-Christophe Avice, Sophie Colombié, Martine Dieuaide-Noubhani, Karine Gallardo, Christian Jeudy, Alain Ourry, Marion Prudent, Anne-Sophie Voisin, Dominique Rolin
Fluxes through metabolic pathways reflect the integration of genetic and metabolic regulations. While it is attractive to measure all the mRNAs (transcriptome), all the proteins (proteome), and a large number of the metabolites (metabolome) in a given cellular system, linking and integrating this information remains difficult. Measurement of metabolome-wide fluxes (termed the fluxome) provides an integrated functional output of the cell machinery and a better tool to link functional analyses to plant phenotyping...
April 22, 2017: Journal of Experimental Botany
https://www.readbyqxmd.com/read/28443130/modular-design-of-picroside-ii-biosynthesis-deciphered-through-ngs-transcriptomes-and-metabolic-intermediates-analysis-in-naturally-variant-chemotypes-of-a-medicinal-herb-picrorhiza-kurroa
#3
Varun Kumar, Ankush Bansal, Rajinder S Chauhan
Picroside-II (P-II), an iridoid glycoside, is used as an active ingredient of various commercial herbal formulations available for the treatment of liver ailments. Despite this, the knowledge of P-II biosynthesis remains scarce owing to its negligence in Picrorhiza kurroa shoots which sets constant barrier for function validation experiments. In this study, we utilized natural variation for P-II content in stolon tissues of different P. kurroa accessions and deciphered its metabolic route by integrating metabolomics of intermediates with differential NGS transcriptomes...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28443082/inbred-mouse-populations-exhibit-intergenerational-changes-in-intestinal-microbiota-composition-and-function-following-introduction-to-a-facility
#4
Jocelyn M Choo, Paul J Trim, Lex E X Leong, Guy C J Abell, Carly Brune, Nicole Jeffries, Steve Wesselingh, T N Dear, Marten F Snel, Geraint B Rogers
Inbred mice are used to investigate many aspects of human physiology, including susceptibility to disease and response to therapies. Despite increasing evidence that the composition and function of the murine intestinal microbiota can substantially influence a broad range of experimental outcomes, relatively little is known about microbiome dynamics within experimental mouse populations. We investigated changes in the intestinal microbiome between C57BL/6J mice spanning six generations (assessed at generations 1, 2, 3, and 6), following their introduction to a stringently controlled facility...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28442472/functional-and-metabolomic-consequences-of-atp-dependent-potassium-channel-inactivation-in-human-islets
#5
Changhong Li, Amanda M Ackermann, Kara E Boodhansingh, Tricia R Bhatti, Chengyang Liu, Jonathan Schug, Nicolai Doliba, Bing Han, Karen E Cosgrove, Indraneel Banerjee, Franz M Matschinsky, Itzhak Nissim, Klaus H Kaestner, Ali Naji, N Scott Adzick, Mark J Dunne, Charles A Stanley, Diva D De León
Loss-of-function mutations of β-cell KATP channels cause the most severe form of congenital hyperinsulinism (KATPHI). KATPHI is characterized by fasting and protein-induced hypoglycemia that is unresponsive to medical therapy. For a better understanding of the pathophysiology of KATPHI, we examined cytosolic calcium, insulin secretion, oxygen consumption, and [U-(13)C]glucose metabolism in islets isolated from the pancreases of children with KATPHI who required pancreatectomy. Basal cytosolic calcium ([Ca(2+)] i ) and insulin secretion were higher in KATPHI islets compared to controls...
April 25, 2017: Diabetes
https://www.readbyqxmd.com/read/28442386/arginine-deiminase-pathway-provides-atp-and-boosts-growth-of-the-gas-fermenting-acetogen-clostridium-autoethanogenum
#6
Kaspar Valgepea, Kim Q Loi, James B Behrendorff, Renato de S P Lemgruber, Manuel Plan, Mark P Hodson, Michael Köpke, Lars K Nielsen, Esteban Marcellin
Acetogens are attractive organisms for the production of chemicals and fuels from inexpensive and non-food feedstocks such as syngas (CO, CO2 and H2). Expanding their product spectrum beyond native compounds is dictated by energetics, particularly ATP availability. Acetogens have evolved sophisticated strategies to conserve energy from reduction potential differences between major redox couples, however, this coupling is sensitive to small changes in thermodynamic equilibria. To accelerate the development of strains for energy-intensive products from gases, we used a genome-scale metabolic model (GEM) to explore alternative ATP-generating pathways in the gas-fermenting acetogen Clostridium autoethanogenum...
April 22, 2017: Metabolic Engineering
https://www.readbyqxmd.com/read/28440871/effects-of-different-salt-treatments-on-the-fermentation-metabolites-and-bacterial-profiles-of-kimchi
#7
Dong Wook Kim, Bo-Min Kim, Hyeon-Jeong Lee, Gwang-Ju Jang, Seong Hwa Song, Jae-In Lee, Sang Bong Lee, Jae Min Shim, Kang Wook Lee, Jeong Hwan Kim, Kyung-Sik Ham, Feng Chen, Hyun-Jin Kim
The effects of purified salt (PS) and mineral-rich sea salt (MRS), both with different mineral profiles, on kimchi fermentation were studied using a culture-dependent 16S rRNA sequencing technique and mass-based metabolomic analysis. The different mineral profiles in the fermentation medium caused changes in the bacterial profiles of the 2 kimchi products. An increase of Leuconostoc species in MRS-kimchi decreased the Lactobacillus/Leuconostoc ratio, which led to changes in metabolites (including sugars, amino acids, organic acids, lipids, sulfur compounds, and terpenoids) associated with kimchi quality...
April 25, 2017: Journal of Food Science
https://www.readbyqxmd.com/read/28440340/comparative-genomics-and-metabolomics-analyses-of-the-adaptation-mechanism-in-ketogulonicigenium-vulgare-bacillus-thuringiensis-consortium
#8
Nan Jia, Ming-Zhu Ding, Yang Zou, Feng Gao, Ying-Jin Yuan
Adaptive evolution by serial subcultivation of co-cultured Bacillus thuringiensis and Ketogulonicigenium vulgare significantly enhanced the productivity of 2-keto-L-gulonic acid in two-step vitamin C production. The adaptation mechanism in K. vulgare-B. thuringiensis consortium was investigated in this study based on comparative genomics and metabolomics studies. It was found that the growth, anti-oxidation, transcription and regulation were significantly enhanced in the adapted consortium. The mutation of the genes, which encode amidohydrolase in adapted K...
April 25, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28440083/systems-metabolomics-for-prediction-of-metabolic-syndrome
#9
Estelle Pujos-Guillot, Marion Brandolini, Mélanie Pétéra, Dhouha Grissa, Charlotte Joly, Bernard Lyan, Eléonore Herquelot, Sébastien Czernichow, Marie Zins, Marcel Goldberg, Blandine Comte
The evolution of human health is a continuum of transitions, involving multifaceted processes at multiple levels and there is an urgent need for integrative biomarkers that can characterize and predict progression towards disease development. The objective of this work was to perform a systems metabolomics approach to predict metabolic syndrome (MetS) development. A case-control design was used within the French occupational GAZEL cohort (n=112 males: discovery study; n=94: replication/validation study). Our integrative strategy was to combine untargeted metabolomics with clinical, sociodemographic and food habit parameters to describe early phenotypes and build multidimensional predictive models...
April 25, 2017: Journal of Proteome Research
https://www.readbyqxmd.com/read/28439964/global-and-targeted-metabolomics-of-synovial-fluid-discovers-special-osteoarthritis-metabolites
#10
Kaidi Zheng, Shanmin Ni, Huaijun Chen, Shenmin Lou, Mengting Hu, Li Sun, Xinyu Yang
PURPOSE: To identify special metabolites in synovial fluid of osteoarthritis (OA) via a metabolomics approach. METHOD: Synovial fluid of 35 participants (25 OA patients and 10 controls) was detected by GC-TOF/MS and multivariate data analysis was applied to analyze correlation among the observations. Different metabolites were screened by VIP value (VIP > 1), student t test (p < 0.05), and fold change (fold > 1.5), and verified with the standard metabolites in the synovial fluid of 24 OA patients and 11 controls by LC/MS...
April 25, 2017: Journal of Orthopaedic Research: Official Publication of the Orthopaedic Research Society
https://www.readbyqxmd.com/read/28439260/intriguing-interaction-of-bacteriophage-host-association-an-understanding-in-the-era-of-omics
#11
REVIEW
Krupa M Parmar, Saurabh L Gaikwad, Prashant K Dhakephalkar, Ramesh Kothari, Ravindra Pal Singh
Innovations in next-generation sequencing technology have introduced new avenues in microbial studies through "omics" approaches. This technology has considerably augmented the knowledge of the microbial world without isolation prior to their identification. With an enormous volume of bacterial "omics" data, considerable attempts have been recently invested to improve an insight into virosphere. The interplay between bacteriophages and their host has created a significant influence on the biogeochemical cycles, microbial diversity, and bacterial population regulation...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28438675/integrating-cell-biology-and-proteomic-approaches-in-plants
#12
Tomáš Takáč, Olga Šamajová, Jozef Šamaj
Significant improvements of protein extraction, separation, mass spectrometry and bioinformatics nurtured advancements of proteomics during the past years. The usefulness of proteomics in the investigation of biological problems can be enhanced by integration with other experimental methods from cell biology, genetics, biochemistry, pharmacology, molecular biology and other omics approaches including transcriptomics and metabolomics. This review aims to summarize current trends integrating cell biology and proteomics in plant science...
April 21, 2017: Journal of Proteomics
https://www.readbyqxmd.com/read/28437718/nontargeted-metabolomics-approach-for-the-differentiation-of-cultivation-ages-of-mountain-cultivated-ginseng-leaves-using-uhplc-qtof-ms
#13
Xiangwei Chang, Juanjuan Zhang, Dekun Li, Dazheng Zhou, Yuling Zhang, Jincheng Wang, Bing Hu, Aichun Ju, Zhengliang Ye
The adulteration or falsification of the cultivation age of mountain cultivated ginseng (MCG) has been a serious problem in the commercial MCG market. To develop an efficient discrimination tool for the cultivation age and to explore potential age-dependent markers, an optimized ultra high-performance liquid chromatography/quadrupole time-of-flight mass spectrometry (UHPLC/QTOF-MS)-based metabolomics approach was applied in the global metabolite profiling of 156 MCG leaf (MGL) samples aged from 6 to 18 years...
April 13, 2017: Journal of Pharmaceutical and Biomedical Analysis
https://www.readbyqxmd.com/read/28437060/high-throughput-and-quantitative-measurement-of-microbial-metabolome-by-gas-chromatography-mass-spectrometry-using-automated-alkyl-chloroformate-derivatization
#14
Linjing Zhao, Yan Ni, Mingming Su, Hongsen Li, Fangcong Dong, Wenlian Chen, Runmin Wei, Lulu Zhang, Seu-Ping Guiraud, François-Pierre J Martin, Cynthia Rajani, Guoxiang Xie, Wei Jia
The ability to identify and quantify small molecule metabolites derived from gut microbial-mammalian co-metabolism is essential for the understanding of the distinct metabolic functions of the microbiome. To date, analytical protocols that quantitatively measure a complete panel of microbial metabolites in biological samples have not been established, but urgently needed by the microbiome research community. Here, we report an automated high-throughput quantitative method using a gas chromatography/time-of-flight mass spectrometry (GC/TOFMS) platform to simultaneously measure over one hundred microbial metabolites in human serum, urine, feces and Escherichia coli cell samples within 15 minutes per sample...
April 24, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28436590/identification-of-small-molecules-using-accurate-mass-ms-ms-search
#15
REVIEW
Tobias Kind, Hiroshi Tsugawa, Tomas Cajka, Yan Ma, Zijuan Lai, Sajjan S Mehta, Gert Wohlgemuth, Dinesh Kumar Barupal, Megan R Showalter, Masanori Arita, Oliver Fiehn
Tandem mass spectral library search (MS/MS) is the fastest way to correctly annotate MS/MS spectra from screening small molecules in fields such as environmental analysis, drug screening, lipid analysis, and metabolomics. The confidence in MS/MS-based annotation of chemical structures is impacted by instrumental settings and requirements, data acquisition modes including data-dependent and data-independent methods, library scoring algorithms, as well as post-curation steps. We critically discuss parameters that influence search results, such as mass accuracy, precursor ion isolation width, intensity thresholds, centroiding algorithms, and acquisition speed...
April 24, 2017: Mass Spectrometry Reviews
https://www.readbyqxmd.com/read/28436551/genomics-and-metabolomics-of-post-weaning-return-to-estrus
#16
REVIEW
Lea A Rempel, Gary A Rohrer, Danny J Nonneman
The weaning-to-estrus interval is a multifaceted trait that has the potential to substantially improve production efficiency in today's global swine industry, if variation in this measure can be reduced. Systems-biology approaches should help close the knowledge gap and increase selection tools and management strategies - such as gilt development programs, farrowing, and lactation feeding programs - to decrease the weaning-to-estrus interval. Metabolomics, the study of small compounds within biofluids and tissues, provides links between genotype and phenotype...
April 24, 2017: Molecular Reproduction and Development
https://www.readbyqxmd.com/read/28436478/tissue-accumulation-of-microplastics-in-mice-and-biomarker-responses-suggest-widespread-health-risks-of-exposure
#17
Yongfeng Deng, Yan Zhang, Bernardo Lemos, Hongqiang Ren
Microplastics (MPs) are a significant environmental health issue and increasingly greater source of concern. MPs have been detected in oceans, rivers, sediments, sewages, soil and even table salts. MPs exposure on marine organisms and humans has been documented, but information about the toxicity of MPs in mammal is limited. Here we used fluorescent and pristine polystyrene microplastics (PS-MPs) particles with two diameters (5 μm and 20 μm) to investigate the tissue distribution, accumulation, and tissue-specific health risk of MPs in mice...
April 24, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28436314/metabolomic-approaches-in-the-discovery-of-potential-urinary-biomarkers-of-drug-induced-liver-injury-dili
#18
Ana Margarida Araújo, Márcia Carvalho, Félix Carvalho, Maria de Lourdes Bastos, Paula Guedes de Pinho
Drug-induced liver injury (DILI) is a major safety issue during drug development, as well as the most common cause for the withdrawal of drugs from the pharmaceutical market. The identification of DILI biomarkers is a labor-intensive area. Conventional biomarkers are not specific and often only appear at significant levels when liver damage is substantial. Therefore, new biomarkers for early identification of hepatotoxicity during the drug discovery process are needed, thus resulting in lower development costs and safer drugs...
April 24, 2017: Critical Reviews in Toxicology
https://www.readbyqxmd.com/read/28434923/deciphering-the-mechanism-of-huang-lian-jie-du-decoction-on-the-treatment-of-sepsis-by-formula-decomposition-and-metabolomics-enhancement-of-cholinergic-pathways-and-inhibition-of-hmgb-1-tlr4-nf-%C3%AE%C2%BAb-signaling
#19
Dingqiao Xu, Yan Lv, Junsong Wang, Minghua Yang, Lingyi Kong
Sepsis is the major cause of morbidity and mortality in surgical patients. Huang-Lian-Jie-Du-Decoction (HLJDD), a well-known Chinese herb formula, has long been used for the treatment of sepsis. In this investigation, by leaving one herb out each time, the four component herbs of HLJDD were reformulated to four HLJDD variants Form1-4, corresponding to the removal of Phellodendri Chinensis Cortex, Scutellariae Radix, Gardeniae Fructu and Coptidis Rhizoma, respectively. Metabolomics approach combined with histological inspection, biochemical measurement and molecular biology was used to investigate the treatment effects of HLJDD and its four variants on cecal ligation and puncture (CLP) model of sepsis, which were compared to decipher the formulating principles of HLJDD...
April 20, 2017: Pharmacological Research: the Official Journal of the Italian Pharmacological Society
https://www.readbyqxmd.com/read/28434226/in-situ-microprobe-single-cell-capillary-electrophoresis-mass-spectrometry-metabolic-reorganization-in-single-differentiating-cells-in-the-live-vertebrate-x-laevis-embryo
#20
Rosemary M Onjiko, Erika P Portero, Sally A Moody, Peter Nemes
Knowledge of single-cell metabolism would provide a powerful window to cell activity changes as cells differentiate to all the tissues of the vertebrate embryo. However, single-cell mass spectrometry technologies have not yet been made compatible with complex three-dimensional changes and rapidly decreasing cell sizes during early development of the embryo. Here, we bridge this technological gap by integrating capillary microsampling, microscale metabolite extraction, and capillary electrophoresis electrospray ionization mass spectrometry (CE-ESI-MS) to enable direct metabolic metabolic analysis of identified cells in the live frog embryo (Xenopus laevis)...
April 22, 2017: Analytical Chemistry
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