Relevant bibliographies by topics / Isotopes labeling

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  1. Journal articles
  2. Dissertations / Theses
  3. Books
  4. Book chapters
  5. Conference papers
  6. Reports

Academic literature on the topic 'Isotopes labeling'

Author: Grafiati
Published: 4 June 2021
Last updated: 1 February 2022

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Journal articles on the topic "Isotopes labeling"

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Kainosho, Masatsune, and Peter Güntert. "SAIL – stereo-array isotope labeling." Quarterly Reviews of Biophysics 42, no. 4 (November 2009): 247–300. http://dx.doi.org/10.1017/s0033583510000016.

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AbstractOptimal stereospecific and regiospecific labeling of proteins with stable isotopes enhances the nuclear magnetic resonance (NMR) method for the determination of the three-dimensional protein structures in solution. Stereo-array isotope labeling (SAIL) offers sharpened lines, spectral simplification without loss of information and the ability to rapidly collect and automatically evaluate the structural restraints required to solve a high-quality solution structure for proteins up to twice as large as before. This review gives an overview of stable isotope labeling methods for NMR spectroscopy with proteins and provides an in-depth treatment of the SAIL technology.
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Millard, Pierre, Baudoin Delépine, Matthieu Guionnet, Maud Heuillet, Floriant Bellvert, and Fabien Létisse. "IsoCor: isotope correction for high-resolution MS labeling experiments." Bioinformatics 35, no. 21 (March 23, 2019): 4484–87. http://dx.doi.org/10.1093/bioinformatics/btz209.

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Abstract Summary Mass spectrometry (MS) is widely used for isotopic studies of metabolism and other (bio)chemical processes. Quantitative applications in systems and synthetic biology require to correct the raw MS data for the contribution of naturally occurring isotopes. Several tools are available to correct low-resolution MS data, and recent developments made substantial improvements by introducing resolution-dependent correction methods, hence opening the way to the correction of high-resolution MS (HRMS) data. Nevertheless, current HRMS correction methods partly fail to determine which isotopic species are resolved from the tracer isotopologues and should thus be corrected. We present an updated version of our isotope correction software (IsoCor) with a novel correction algorithm which ensures to accurately exploit any chemical species with any isotopic tracer, at any MS resolution. IsoCor v2 also includes a novel graphical user interface for intuitive use by end-users and a command-line interface to streamline integration into existing pipelines. Availability and implementation IsoCor v2 is implemented in Python 3 and was tested on Windows, Unix and MacOS platforms. The source code and the documentation are freely distributed under GPL3 license at https://github.com/MetaSys-LISBP/IsoCor/ and https://isocor.readthedocs.io/.
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Rinkel, Jan, and Jeroen S. Dickschat. "Recent highlights in biosynthesis research using stable isotopes." Beilstein Journal of Organic Chemistry 11 (December 9, 2015): 2493–508. http://dx.doi.org/10.3762/bjoc.11.271.

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The long and successful history of isotopic labeling experiments within natural products research has both changed and deepened our understanding of biosynthesis. As demonstrated in this article, the usage of isotopes is not at all old-fashioned, but continues to give important insights into biosynthetic pathways of secondary metabolites. This review with 85 cited references is structured by separate discussions of compounds from different classes including polyketides, non-ribosomal peptides, their hybrids, terpenoids, and aromatic compounds formed via the shikimate pathway. The text does not aim at a comprehensive overview, but instead a selection of recent important examples of isotope usage within biosynthetic studies is presented, with a special emphasis on mechanistic surprises.
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Seeger, Stefan, and Markus Weiler. "Temporal dynamics of tree xylem water isotopes: in situ monitoring and modeling." Biogeosciences 18, no. 15 (August 12, 2021): 4603–27. http://dx.doi.org/10.5194/bg-18-4603-2021.

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Abstract. We developed a setup for a fully automated, high-frequency in situ monitoring system of the stable water isotope deuterium and 18O in soil water and tree xylem. The setup was tested for 12 weeks within an isotopic labeling experiment during a large artificial sprinkling experiment including three mature European beech (Fagus sylvatica) trees. Our setup allowed for one measurement every 12–20 min, enabling us to obtain about seven measurements per day for each of our 15 in situ probes in the soil and tree xylem. While the labeling induced an abrupt step pulse in the soil water isotopic signature, it took 7 to 10 d until the isotopic signatures at the trees' stem bases reached their peak label concentrations and it took about 14 d until the isotopic signatures at 8 m stem height leveled off around the same values. During the experiment, we observed the effects of several rain events and dry periods on the xylem water isotopic signatures, which fluctuated between the measured isotopic signatures observed in the upper and lower soil horizons. In order to explain our observations, we combined an already existing root water uptake (RWU) model with a newly developed approach to simulate the propagation of isotopic signatures from the root tips to the stem base and further up along the stem. The key to a proper simulation of the observed short-term dynamics of xylem water isotopes was accounting for sap flow velocities and the flow path length distribution within the root and stem xylem. Our modeling framework allowed us to identify parameter values that relate to root depth, horizontal root distribution and wilting point. The insights gained from this study can help to improve the representation of stable water isotopes in trees within ecohydrological models and the prediction of transit time distribution and water age of transpiration fluxes.
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Sonet, Jordan, Anne-Laure Bulteau, Zahia Touat-Hamici, Maurine Mosca, Katarzyna Bierla, Sandra Mounicou, Ryszard Lobinski, and Laurent Chavatte. "Selenoproteome Expression Studied by Non-Radioactive Isotopic Selenium-Labeling in Human Cell Lines." International Journal of Molecular Sciences 22, no. 14 (July 7, 2021): 7308. http://dx.doi.org/10.3390/ijms22147308.

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Selenoproteins, in which the selenium atom is present in the rare amino acid selenocysteine, are vital components of cell homeostasis, antioxidant defense, and cell signaling in mammals. The expression of the selenoproteome, composed of 25 selenoprotein genes, is strongly controlled by the selenium status of the body, which is a corollary of selenium availability in the food diet. Here, we present an alternative strategy for the use of the radioactive 75Se isotope in order to characterize the selenoproteome regulation based on (i) the selective labeling of the cellular selenocompounds with non-radioactive selenium isotopes (76Se, 77Se) and (ii) the detection of the isotopic enrichment of the selenoproteins using size-exclusion chromatography followed by inductively coupled plasma mass spectrometry detection. The reliability of our strategy is further confirmed by western blots with distinct selenoprotein-specific antibodies. Using our strategy, we characterized the hierarchy of the selenoproteome regulation in dose–response and kinetic experiments.
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Charron, Craig S., Steven J. Britz, Roman M. Mirecki, Dawn J. Harrison, Beverly A. Clevidence, and Janet A. Novotny. "Isotopic Labeling of Red Cabbage Anthocyanins with Atmospheric 13CO2." Journal of the American Society for Horticultural Science 133, no. 3 (May 2008): 351–59. http://dx.doi.org/10.21273/jashs.133.3.351.

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Isotopic labeling of plants provides a unique opportunity for understanding metabolic processes. A significant challenge of isotopic labeling during plant growth is that isotopes must be administered without disrupting plant development and at sufficient levels for mass spectral analysis. We describe a system for isotopic labeling of leafy vegetables with 13C and demonstrate successful incorporation of 13C into anthocyanins of preheading red cabbage (Brassica oleracea L. var. capitata L.). ‘Super Red’ red cabbage seedlings were grown for 34 days in an airtight acrylic labeling chamber supplied with 13CO2 to maintain 400 μL·L−1. Nutrient solution was delivered hydroponically without allowing infusion of natural CO2 into the labeling chamber. Plants were initially grown at 22 °C ± 1 °C in constant light of 228 μmol·m−2·s−1. Upon canopy closure, anthocyanin development was promoted by reducing the nutrient solution concentration and reducing the temperature to 10.5 °C ± 1.5 °C. Total shoot fresh weight (FW) was 1556 g and root FW was 491 g at harvest. Analysis of red cabbage shoot tissue by high-performance liquid chromatography/tandem mass spectrometry indicated the presence of 37 anthocyanins, of which 14 are reported here for the first time. Mass shifts representing 13C incorporation into anthocyanins were evident in mass spectra of anthocyanins from labeled tissue and demonstrate successful isotopic labeling.
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Krijgsveld, Jeroen, and Albert J. R. Heck. "Quantitative proteomics by metabolic labeling with stable isotopes." Drug Discovery Today: TARGETS 3, no. 2 (April 2004): 11–15. http://dx.doi.org/10.1016/s1741-8372(04)02420-x.

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Del Vecchio, Antonio, Gianluca Destro, Frédéric Taran, and Davide Audisio. "Recent developments in heterocycle labeling with carbon isotopes." Journal of Labelled Compounds and Radiopharmaceuticals 61, no. 13 (July 13, 2018): 988–1007. http://dx.doi.org/10.1002/jlcr.3666.

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Fernández-del-Río, Lucía, and Catherine F. Clarke. "Coenzyme Q Biosynthesis: An Update on the Origins of the Benzenoid Ring and Discovery of New Ring Precursors." Metabolites 11, no. 6 (June 14, 2021): 385. http://dx.doi.org/10.3390/metabo11060385.

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Coenzyme Q (ubiquinone or CoQ) is a conserved polyprenylated lipid essential for mitochondrial respiration. CoQ is composed of a redox-active benzoquinone ring and a long polyisoprenyl tail that serves as a membrane anchor. A classic pathway leading to CoQ biosynthesis employs 4-hydroxybenzoic acid (4HB). Recent studies with stable isotopes in E. coli, yeast, and plant and animal cells have identified CoQ intermediates and new metabolic pathways that produce 4HB. Stable isotope labeling has identified para-aminobenzoic acid as an alternate ring precursor of yeast CoQ biosynthesis, as well as other natural products, such as kaempferol, that provide ring precursors for CoQ biosynthesis in plants and mammals. In this review, we highlight how stable isotopes can be used to delineate the biosynthetic pathways leading to CoQ.
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Black, G. E., Y. C. Boller, K. A. Kennedy, P. Lecchi, and F. P. Abramson. "Labeling DNA with Stable Isotopes: Economical and Practical Considerations." BioTechniques 30, no. 1 (January 2001): 134–40. http://dx.doi.org/10.2144/01301rr01.

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Dissertations / Theses on the topic "Isotopes labeling"

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Brahmi, Chloé. "Study of scleractinian coral biomineralization using ⁸⁶Sr-labeling and NanoSIMS ion-microprobe imaging." Paris, Muséum national d'histoire naturelle, 2012. http://www.theses.fr/2012MNHN0042.

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Les coraux Scléractiniaires produisent un exosquelette en carbonate de calcium (aragonite). Leurs processus de biominéralisation ont été étudiés chez trois espèces présentant différents taux de croissance et vivant ou non en symbiose avec les zooxanthelles. Une hétérogénéité de composition du tissu et du squelette a été mise en évidence, à différentes échelles, via des techniques d’observations et de micro-analyses, à haute résolution spatiale. Un thème central a été le développement et l’application d’une méthode de marquage de biocarbonates marins basée sur un enrichissement avec un isotope stable d’un élément trace, naturellement présent dans l’eau de mer (86Sr). Le biocarbonate formé, présentant des enrichissements isotopiques correspondants, est ensuite imagé à la NanoSIMS afin de visualiser, à l’échelle submicrométrique, les zones formées durant le marquage. Cette technique permet ainsi de résoudre les détails ultrastructuraux et accéder à la dynamique de croissance squelettique
Scleractinian corals build an aragonitic calcium carbonate exoskeleton. Their biomineralization processes have been studied in three different scleractinian species with or without zooxanthellae and with different growth rates. Heterogeneity of the tissue and the skeletal compositions was revealed at different length scales, using complementary observations and micro-analytical techniques at high spatial resolution. A central theme was the development and application of a method to label marine biocarbonates through a concentration-enrichment of a minor stable isotope of a trace element that is a natural component of seawater (86Sr), resulting in the formation of biocarbonate with corresponding isotopic enrichments. This biocarbonate was subsequently imaged with a NanoSIMS ion microprobe to visualize the locations of the isotopic marker on submicrometric length scales, permitting resolution of all ultra-structural details and access to the skeletal growth dynamics
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Sardana, Malvika. "Development of New Late-Stage Labeling Methods with Labeled Carbon and Fluorine-18." Thesis, université Paris-Saclay, 2020. http://www.theses.fr/2020UPASF001.

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Le marquage isotopique est un outil précieux pour la découverte de nouveaux médicaments. Nous présentons dans cette thèse la conception et l’application de méthodes de marquage tardif de molécules bioactives avec du carbone et du fluor. Les réactions de carbonylation utilisant le monoxide de carbone sont connues pour être compatibles avec un marquage isotopique tardif des substances bioactives dans des conditions douces. La première partie de cette thèse décrit une réaction de photocarbonylation à partir d’iodures d’alkyles catalysée par le palladium sous lumière visible. Cette réaction polyvalente utilisant le 9-methylfluorene-9-carbonyl chloride (COgen) et réalisée dans des conditions douces est compatible avec un marquage en carbone-14. La synthèse de COgen radioactif nécessitant plusieurs étapes, nos efforts ont porté sur la production de monoxyde de carbone marqué, par réduction du dioxyde de carbone correspondant avec un disilane. La dernière partie de la thèse aborde la synthèse d’un nouveau traceur marqué au fluor-18 pour la tomographie par émission de positrons, spécifique de la P-glycoprotéine (P-gp), un transporteur de la barrière hématoencéphalique. Nous avons ainsi marqué au fluor-18 le Crizotinib, anticancéreux approuvé pour le traitement du cancer du poumon non à petites cellules et qui voit son accumulation fortement diminuée par le P-gp. Les études de biodistribution et d’imagerie cérébrale chez les rongeurs sont actuellement en cours
Isotope labeling is a crucial tool in drug discovery. Therefore, expanding the toolbox of a radiochemist with methods that allow late-stage labeling is highly important. The work presented in this thesis describes the development and utilization of late-stage labeling methods with carbon and fluorine. Carbonylation reactions with carbon monoxide are particularly known as mild and compatible with the late-stage labeling. The first part of the thesis describes the development of visible-light mediated palladium-catalysis using alkyl iodides as the coupling partner for the carbonylation. The mild and versatile radical aminocarbonylation protocol has shown good substrate compatibility. The use of 9-Methylfluorene-9-carbonyl chloride (COgen) allowed easy translation between unlabeled and labeled reaction. In order to bypass the synthesis of COgen which proceeds in two steps plus one step for the liberation of CO, we focused our efforts towards the one step reduction of labeled CO₂ to labeled CO using disilanes catalyzed by fluorides. The last part of this thesis discusses the development of a new positron emission tomography (PET) radiotracer for P-glycoprotein (P-gp), an active transporter at the blood-brain barrier. Crizotinib is an approved treatment for non-small cell lung carcinoma and its brain accumulation is restricted by P-gp. Crizotinib was successfully labeled with ¹⁸F, and rodent studies to map P-gp and improve the delivery of crizotinib to the brain are ongoing
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Campanholi, Diana Ruffato Resende. "Oxidação da galactose utilizando 13C em crianças saudáveis e galactosêmicas." Universidade de São Paulo, 2014. http://www.teses.usp.br/teses/disponiveis/17/17144/tde-22042014-101217/.

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A Galactosemia é um erro inato do metabolismo da galactose que ocorre em consequência da deficiência de uma das três principais enzimas envolvidas em seu metabolismo. O tratamento da doença se faz por meio de intervenção dietética. Com a necessidade de melhorar nosso conhecimento acerca do metabolismo da galactose, isótopos estáveis estão sendo usados para mostrar o perfil de oxidação da mesma. O parâmetro bioquímico claramente correlacionado com os resultados clínicos e com o genótipo da GALT é o da oxidação da galactose em dióxido de carbono. A capacidade de determinar a oxidação com administração oral ou endovenosa de isótopos marcados (1-13C-galactose) de galactose fez deste um meio prático de se determinar a oxidação da galactose. Os objetivos do trabalho foram: 1. Avaliar a capacidade de oxidação de galactose em crianças brasileiras com o diagnóstico de galactosemia. 2 Avaliar a capacidade de oxidação da galactose em crianças brasileiras saudáveis. 3 Verificar a possibilidade de definir um ponto de corte para a detecção da galactosemia através do teste respiratório com a construção de uma curva ROC de maior sensibilidade e especificidade. A metodologia empregada foi a seguinte: Amostragem: 21 crianças saudáveis e 7 crianças com galactosemia com idade variando de 1 a 7 anos. Teste Respiratório: O teste respiratório de todas as crianças foi quantitativo para o enriquecimento de 13CO2 em ar expirado antes e depois da administração oral de 7mg/kg de uma solução aquosa de 1-13C-Galactose. As amostras foram colhidas antes da administração da solução e 30,60 e 120min após. Mensuração do 13CO2 no ar: Em cada amostra de ar duplicada a razão molar do 13CO2 e 12CO2 foi quantificado pela razão de massa/carga (m/z) dos isótopos gasosos através de um espectrômetro de massa. Análise estatística: Construção de uma curva ROC para determinar o melhor ponto de corte das diferenças em porcentagem da 1-13C-galactose recuperada em 13CO2 que forneça um teste respiratório positivo para detecção da galactosemia de maior sensibilidade e especificidade. As crianças doentes tiveram uma % acumulativa de 13C no ar expirado proveniente da galactose marcada (CUMPCD) variando em média de 0,03% no tempo de 30 minutos a 1,67% no tempo de 120 minutos. Em contrapartida, os indivíduos saudáveis apresentaram enriquecimentos e uma CUMPCD maiores, com valores de 0,4% no tempo de 30 minutos a 5,58% no tempo 120 minutos. Portanto, nesse estudo ficou evidente que há uma diferença marcante na oxidação da galactose em crianças com e sem galactosemia, logo teste respiratório é útil em discriminar crianças com deficiência na GALT.
Galactosemia is an inborn error of galactose metabolism that occurs as an outcome of an enzyme deficiency. The current treatment is based on dietary intervention. Stable isotopes have been used to assess galactoses oxidation profile due to an urgency to improve our knowledge on its metabolism. The biochemical parameter clearly correlated to clinical outcomes and to GALT genotype is the galactose oxidation process into carbon dioxide. The ability to assess galactoses oxidation after galactose labeled isotope administration (1-13C-galactose) has become a practical way of determining the metabolism of galactose. The aims of the study were: 1 Assess the galactose oxidation ability in Brazilian galactosemic children. 2 Assess the galactose oxidation ability in healthy Brazilian children. 3 Set a cut off point for detecting galactosemia through breath test by constructing a ROC curve. The methodology employed was: Sampling: 21 healthy children and 7 children with galactosemia with age ranging from 1 to 7 years. Breath test: the breath test of all the children was quantitative for 13CO2 enrichment in exhaled air before and after oral administration of 7mg/kg of 1-13C-Galactose aqueous solution. Samples were collected at baseline time, 30, 60 and 120 min after solution administration. Measurement of the 13CO2 in the air: molar ratio 13CO2 and 12CO2 were quantified by the mass/charge ratio (m/z) of stable isotopes through a mass spectrometer in every air sample. Statistical analysis: ROC curve construction in order to determine the best cutting point of differences in percentage of 1-13C-galactose recovered in 13CO2 that provides a positive breath test for galactosemia detection. Therefore, as a result, sick children had some percentage of cumulative 13C in the exhaled air from labeled galactose (CUMPCD) ranging from 0.03% in 30 minutes time to 1.67% in 120 minutes. In contrast, healthy subjects showed a CUMPCD much more expressive, with values ranging from 0.4% in 30 minutes to 5.58% in 120 minutes. Therefore, in this study has shown that there is a great difference in galactose oxidation in children with and without galactosemia, hence the breath test is useful in discriminating children with GALT deficiencies.
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Jameson, Elizabeth Frances Mary. "Development of solid phase-based PET isotope labelling methods." Thesis, University of Edinburgh, 2016. http://hdl.handle.net/1842/17973.

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Positron Emission Tomography (PET) has great value in research and clinical applications from oncology to neurodegenerative disorders. However, there is a barrier in translating biological knowledge into new PET applications due in part to the lack of efficient, widely applicable methods for labelling compounds with PET radioisotopes. Herein, a generic approach to radiolabelling is presented which is direct, broadly applicable and potentially adaptable to either of the two most commonly used PET radioisotopes, 11C and 18F. This approach employs the advantages of solid phase synthesis to achieve selective release of only the desired radiolabelled product from a solid support in a single step, simplifying purification and hence improving synthetic efficiency. Polystyrene resin was functionalised with a 1,2-diol group; this allowed the covalent attachment of compounds bearing boronic acid groups via formation of a boronate ester linkage. A Suzuki-Miyaura reaction with methyl iodide was used to cleave a model compound from the resin in 61% conversion after five minutes. This reaction was adapted to develop a fully automated radiosynthesis with [11C]- methyl iodide which generated a radiolabelled model compound in 2 – 7% non-decay-corrected radiochemical yield. This provided proof of concept for the simultaneous cleavage of compounds from the resin and radiolabelling with 11C. A boronic acid precursor of the known radiotracer [11C]-M-MTEB was attached to the resin and successfully radiolabelled with 11C in 2.4% non-decay-corrected radiochemical yield and 96 – 100% radiochemical purity under the same conditions. Furthermore, the potential adaptability of this solid phase approach to 18F radiolabelling was demonstrated by treatment of the resin-bound small molecules and peptides with potassium bifluoride, which released the compounds rapidly as trifluoroborate salts.
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Khaw, Lake Ee. "Isotopic labelling of dihydrofolate reductase for NMR studies." Thesis, Georgia Institute of Technology, 1991. http://hdl.handle.net/1853/25179.

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Smyth, Patrick. "Studying the Temporal Dynamics of the Gut Microbiota Using Metabolic Stable Isotope Labeling and Metaproteomics." Thesis, Université d'Ottawa / University of Ottawa, 2021. http://hdl.handle.net/10393/42344.

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The gut microbiome and its metabolic processes are dynamic systems. Surprisingly, our understanding of gut microbiome dynamics is limited. Here we report a metaproteomic workflow that involves protein stable isotope probing (protein-SIP) and identification/quantification of partially labeled peptides. We also developed a package, which we call MetaProfiler, that corrects for false identifications and performs phylogenetic and time series analysis for the study of microbiome dynamics. From the stool sample of five mice that were fed with 15-N hydrolysate from Ralstonia eutropha, we identified 15,297 non-redundant unlabeled peptides of which 10,839 of their heavy counterparts were quantified. These peptides revealed incorporation profiles over time that were different between and within taxa, as well as between and within clusters of orthologous groups (COGs). Our study helps unravel the complex dynamics of protein synthesis and bacterial dynamics in the mouse gut microbiome.
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Castleberry, Colette M. "Quantitative Identification of Non-coding RNAs by Isotope Labeling and LC-MS/MS." University of Cincinnati / OhioLINK, 2009. http://rave.ohiolink.edu/etdc/view?acc_num=ucin1258474676.

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Alghamdi, Waleed. "New isotopic labelling methodology and its application in phosphoproteomics." Thesis, University of Manchester, 2012. https://www.research.manchester.ac.uk/portal/en/theses/new-isotopic-labelling-methodology-and-its-application-in-phosphoproteomics(7d39b2dd-14aa-47f5-a4fa-0228b83b5a3d).html.

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The kinetics of protein phosphorylation and dephosphorylation are tightly controlled by specific kinases and phosphatases; disturbances are often disease-causing. Phosphorylation kinetics are normally monitored using radioactive isotopes of phosphorus, or by using stop-flow techniques. Approaches using mass spectrometry are severely limited by the lack of a stable isotope of phosphorus (other than 31P). The principal aim of this study is to develop a new method to incorporate 18O label into phosphorylation sites of phosphoproteins with a view of applying this method to enhance the detection of phosphorylation by mass spectrometry and to analyze the phosphorylation kinetics of proteins. Aurora-A kinase was selected to explore the possibility of using 18O-labelling to monitor phosphorylation kinetics. The kinase is well characterized, phosphorylated both in human cells and when expressed in recombinant form in E. coli and it contributes to development of some cancers when deregulated. Applying different mass spectrometric approaches resulted in the identification of 19 phosphorylation sites of Aurora-A including five new sites. Using H3P18O4 as a label donor to incorporate 18O into Aurora-A phosphorylation sites showed partial and inconsistent label incorporation. Alternatively, H218O was used to investigate the possibility of label incorporation. Preliminary results, however, showed high complex data which hampered precise identification of phosphopeptides and their labelling state. The labelling experiment was then redesigned in which induction took place in label free medium to allow the light version of the kinase to accumulate, before chasing with 18O label. This design successfully introduced fully labelled P18O3 into Aurora-A phosphorylation sites. LC ESI Q-ToF analysis of 18O labelled Aurora-A sample isolated according to this protocol identified 30 phosphopeptides showing label incorporation, which is double the number of phosphopeptides identified by MASCOT using the same MS analysis. The method was also used to investigate phosphorylation kinetics of Aurora-A. The results suggested differential regulation of phosphorylation sites of Aurora-A as some sites showed early phosphorylation while others were phosphorylated at later stages. Overall, a new approach was developed for enhanced detection of phosphorylation sites and analysis of phosphorylation kinetics.
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Li, Siwei. "High Throughput Automated Comparative Analysis of RNAs Using Isotope Labeling and LC-MS/MS." University of Cincinnati / OhioLINK, 2014. http://rave.ohiolink.edu/etdc/view?acc_num=ucin1384427990.

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Jagdeo, Julienne. "Identification of novel picornavirus proteinase substrates using terminal amine isotopic labeling of substrates." Thesis, University of British Columbia, 2017. http://hdl.handle.net/2429/61277.

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Viruses have exploited strategies of proteolysis for the purposes of processing viral proteins and manipulating cellular processes to direct synthesis of new virions and subvert host antiviral responses. Many viruses encode proteases within their genome, of which many have been well studied among the family of positive-sense single-stranded RNA picornaviruses. A subset of host proteins have already been identified as targets of picornaviral proteinases; however, the full repertoire of targets is not known. In this thesis, a novel proteomics-based approach termed terminal amine isotopic labeling of substrates (TAILS) was used to conduct a global analysis of protease-generated N-terminal peptides by mass spectrometry and identify novel substrates of the 3C (3Cpro) and 2A (2Apro) proteinases from poliovirus and coxsackievirus type B3 (CVB3). TAILS was performed on HeLa cell extracts subjected to purified poliovirus 3Cpro or CVB3 2Apro, and on mouse HL-1 cardiomyocyte extracts subjected to purified CVB3 3Cpro. A list of high confidence candidate substrates for all three proteinases was generated, which included a peptide corresponding to the known poliovirus 3Cpro substrate polypyrimide tract binding protein at a known cleavage site, thus validating this approach. Furthermore, three identical peptides in both the poliovirus and CVB3 3Cpro list of high confidence substrates were identified, suggesting that cleavage of these substrates may contribute to general strategy of picornaviral infection. A total of seven high confidence substrates were validated as novel targets of 3Cpro in vitro and during virus infection. Moreover, mutations in the TAILS-identified cleavage sites for these candidates blocked cleavage in vitro and during infection. Depletion of these proteins by siRNAs modulated virus infection, suggesting that cleavage of these substrates either promotes or inhibits virus infection. In summary, an in vitro TAILS assay can be utilized to identify novel substrates of viral proteinases that are cleave during infection. Moreover, TAILS can identify common substrates of viral proteinases between different viral species, revealing general strategies of infection utilized by related viruses. Finally, the identification of novel host substrates provides new insights the viral-host interactions mediated by viral proteinases that are required for successful infection.
Medicine, Faculty of
Biochemistry and Molecular Biology, Department of
Graduate
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Books on the topic "Isotopes labeling"

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Krumbiegel, Peter. Stable isotope pharmaceuticals: For clinical research and diagnosis. Jena: Gustav Fischer Verlag, 1991.

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Atreya, Hanudatta S., ed. Isotope labeling in Biomolecular NMR. Dordrecht: Springer Netherlands, 2012. http://dx.doi.org/10.1007/978-94-007-4954-2.

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The organic chemistry of isotopic labelling. Cambridge: RSC Pub., 2011.

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Warscheid, Bettina, ed. Stable Isotope Labeling by Amino Acids in Cell Culture (SILAC). New York, NY: Springer New York, 2014. http://dx.doi.org/10.1007/978-1-4939-1142-4.

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Wang, Fangjun. Applications of Monolithic Column and Isotope Dimethylation Labeling in Shotgun Proteome Analysis. Berlin, Heidelberg: Springer Berlin Heidelberg, 2014. http://dx.doi.org/10.1007/978-3-642-42008-5.

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Shotgun proteomics: Methods and protocols. New York: Humana Press, 2014.

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Nieuwenhuis, Saskia Apollonia Maria. Investigation of the oxygenic photosynthetic reaction centre photosystem II with specific isotope labelling: Synthesis and incorporation of stable-isotope labelled (S)-phenylalanine and (S)-tyrosine. [Leiden: S.A.M. Nieuwenhuis, 1998.

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1965-, Chinkes David L., and Wolfe Robert R, eds. Isotope tracers in metabolic research: Principles and practice of kinetic analysis. 2nd ed. Hoboken, N.J: Wiley-Liss, 2005.

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R, Wolfe Robert, ed. Radioactive and stable isotope tracers in biomedicine: Principles and practice of kinetic analysis. New York: Wiley-Liss, 1992.

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NATO Advanced Study Institute on Radiolabeled Cellular Blood Elements (1983 Maratea, Italy). Radiolabeled cellular blood elements ; pathophysiology, techniques, and scintigraphic applications. Edited by Thakur M. L, Ezikowitz M. D, Hardeman Max R, and North Atlantic Treaty Organization. Scientific Affairs Division. New York: Plenum, 1985.

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Book chapters on the topic "Isotopes labeling"

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Karanikas, G., Margarida Rodrigues, Susanne Granegger, E. Havlik, and H. Sinzinger. "Platelet Labeling with 67Ga (67Ga-Oxine, -Tropolone, -MPO)." In Radioactive Isotopes in Clinical Medicine and Research, 427–31. Basel: Birkhäuser Basel, 1997. http://dx.doi.org/10.1007/978-3-0348-7772-5_68.

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Otto, Andreas. "Metabolic Labeling of Microorganisms with Stable Heavy Nitrogen Isotopes (15N)." In Methods in Molecular Biology, 175–88. New York, NY: Springer New York, 2018. http://dx.doi.org/10.1007/978-1-4939-8695-8_13.

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Lauterbach, H., A. Voigt, H. Carlsohn, A. Berndt, M. Hüller, D. Gottschild, and F. Zintl. "Labeling of Antineuroblastoma Monoclonal Antibody (MoAb) and First Results of In-Vivo Distribution in SCID-Mice." In Radioactive Isotopes in Clinical Medicine and Research, 491–94. Basel: Birkhäuser Basel, 1997. http://dx.doi.org/10.1007/978-3-0348-7772-5_81.

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Sobal, G., and E. J. Menzel. "Oxidative Stress and Free Radical Formation: Modification of Proteins and Their Glycosylated Products during Oxidative Conditions. Labeling of Age-Albumin with 125-Iodine." In Radioactive Isotopes in Clinical Medicine and Research, 507–11. Basel: Birkhäuser Basel, 1997. http://dx.doi.org/10.1007/978-3-0348-7772-5_85.

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Takeda, Mitsuhiro, and Masatsune Kainosho. "Isotope Labelling." In Protein NMR Spectroscopy: Practical Techniques and Applications, 23–53. Chichester, UK: John Wiley & Sons, Ltd, 2011. http://dx.doi.org/10.1002/9781119972006.ch2.

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Dannenmaier, Stefan, Silke Oeljeklaus, and Bettina Warscheid. "2nSILAC for Quantitative of Prototrophic Baker’s Yeast." In Methods in Molecular Biology, 253–70. New York, NY: Springer US, 2021. http://dx.doi.org/10.1007/978-1-0716-1024-4_18.

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Abstract:
AbstractStable isotope labeling by amino acids in cell culture (SILAC) combined with high-resolution mass spectrometry is a quantitative strategy for the comparative analysis of (sub)proteomes. It is based on the metabolicincorporation of stable isotope-coded amino acids during growth of cells or organisms. Here, complete labeling of proteins with the amino acid(s) selected for incorporation needs to be guaranteed to enable accurate quantification on a proteomic scale. Wild-type strains of baker’s yeast (Saccharomyces cerevisiae), which is a widely accepted and well-studied eukaryotic model organism, are generally able to synthesize all amino acids on their own (i.e., prototrophic). To render them amenable to SILAC, auxotrophies are introduced by genetic manipulations. We addressed this limitation by developing a generic strategy for complete “native” labeling of prototrophic S. cerevisiae with isotope-coded arginine and lysine, referred to as “2nSILAC”. It allows for directly using and screening several genome-wide yeast mutant collections that are easily accessible to the scientific community for functional proteomic studies but are based on prototrophic variants of S. cerevisiae.
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Saxena, Krishna, Arpana Dutta, Judith Klein-Seetharaman, and Harald Schwalbe. "Isotope Labeling in Insect Cells." In Methods in Molecular Biology, 37–54. Totowa, NJ: Humana Press, 2011. http://dx.doi.org/10.1007/978-1-61779-480-3_3.

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Dutta, Arpana, Krishna Saxena, Harald Schwalbe, and Judith Klein-Seetharaman. "Isotope Labeling in Mammalian Cells." In Methods in Molecular Biology, 55–69. Totowa, NJ: Humana Press, 2011. http://dx.doi.org/10.1007/978-1-61779-480-3_4.

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Brown, Kristy J., and Catherine Fenselau. "Isotope Labeling in Quantitative Proteomics." In Proteomics for Biological Discovery, 47–61. Hoboken, NJ, USA: John Wiley & Sons, Inc., 2006. http://dx.doi.org/10.1002/0470007745.ch3.

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Gossert, Alvar D., and Wolfgang Jahnke. "Isotope Labeling in Insect Cells." In Advances in Experimental Medicine and Biology, 179–96. Dordrecht: Springer Netherlands, 2012. http://dx.doi.org/10.1007/978-94-007-4954-2_10.

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Conference papers on the topic "Isotopes labeling"

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Surber, Bruce, Shomir Ghosh, Anne-Laure Grillot, Jyoti Patel, Charlotte Woodall, Yuanwei Chen, Lin Yi, Irini Zanze, and Ye Yao. "Uniform Tritium Labeling of Combinatorial Libraries for Affinity Selection Screening." In Proceedings of the 3rd International Conference on Isotopes. WORLD SCIENTIFIC, 2000. http://dx.doi.org/10.1142/9789812793867_0109.

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LUKASHINA, E. V., G. A. BADUN, V. M. FEDOSEEV, E. N. DOBROV, and L. A. BARATOVA. "TRITIUM LABELING FOR INVESTIGATION OF STRUCTURE-FUNCTION RELATIONSHIP IN TOBACCO MOSAIC VIRUS." In Proceedings of the 3rd International Conference on Isotopes. WORLD SCIENTIFIC, 2000. http://dx.doi.org/10.1142/9789812793867_0108.

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ROBERTS, P. B., and K. KIM. "CARBON-14 LABELLING STUDIES AT ULTRA-HIGH SENSITIVITY IN AGRICULTURAL AND HORTICULTURAL RESEARCH." In Proceedings of the 3rd International Conference on Isotopes. WORLD SCIENTIFIC, 2000. http://dx.doi.org/10.1142/9789812793867_0067.

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Lakhani, Ahmed, Anjan Roy, Marcelo Nakaema, Matteo di Poli, Fernando Formaggio, Claudio Toniolo, Timothy A. Keiderling, P. M. Champion, and L. D. Ziegler. "Raman Scattering Investigation of 3[sub 10] Helical Peptides Using Isotopic Labeling." In XXII INTERNATIONAL CONFERENCE ON RAMAN SPECTROSCOPY. AIP, 2010. http://dx.doi.org/10.1063/1.3482740.

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Johansson, Oskar, Emma Åhrman, Catharina Müller, Linda Elowsson, Leif Eriksson, Xiao-Hong Zhou, Oskar Hallgren, et al. "Proteome turnover analysis in human lung scaffold cultures with stable isotope labelling." In ERS International Congress 2017 abstracts. European Respiratory Society, 2017. http://dx.doi.org/10.1183/1393003.congress-2017.pa3472.

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Norrman, Kion, and Frederik C. Krebs. "Chemical degradation mechanisms of organic photovoltaics studied by TOF-SIMS and isotopic labeling." In Optics & Photonics 2005, edited by Zakya H. Kafafi and Paul A. Lane. SPIE, 2005. http://dx.doi.org/10.1117/12.613433.

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Murphy, Michael, Steven Grzeskowiak, Jacob Sitterly, Greg H. Denbeaux, and Robert L. Brainard. "Mechanisms of photodecomposition of metal-containing EUV photoresists: isotopic labelling studies." In Advances in Patterning Materials and Processes XXXV, edited by Christoph K. Hohle and Roel Gronheid. SPIE, 2018. http://dx.doi.org/10.1117/12.2298418.

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He, Yi-Wu, Mark P. Krebs, Judy Herzfeld, H. G. Khorana, and Kenneth J. Rothschild. "FTIR spectroscopy, site-directed mutagenesis, and isotope labeling: a new approach for studying membrane proteins." In Luebeck - DL tentative, edited by Herbert M. Heise, Ernst H. Korte, and Heinz W. Siesler. SPIE, 1992. http://dx.doi.org/10.1117/12.56283.

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Liu, G. Y., H. Y. Li, S. H. Xia, J. G. Zhang, and Y. G. Ding. "Isotope labeling of the uniformity for Ba active composition in a dispenser cathode powder during grinding." In 2010 8th International Vacuum Electron Sources Conference and Nanocarbon (IVESC). IEEE, 2010. http://dx.doi.org/10.1109/ivesc.2010.5644135.

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Taylor, Sally Vann. "Stable isotope labeling gives insight into strategies for managing resistance in western corn rootworm,Diabrotica virgifera virgiferaLeConte." In 2016 International Congress of Entomology. Entomological Society of America, 2016. http://dx.doi.org/10.1603/ice.2016.108416.

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Reports on the topic "Isotopes labeling"

1

Unkefer, C. J., L. A. III Silks, and R. A. Martinez. Stable isotope labeling of oligosaccharide cell surface antigens. Office of Scientific and Technical Information (OSTI), December 1998. http://dx.doi.org/10.2172/562619.

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Unkefer, C., G. Hernandez, P. Springer, J. Trewhella, D. Blumenthal, and M. Lidstrom. Structural determination of larger proteins using stable isotope labeling and NMR spectroscopy. Office of Scientific and Technical Information (OSTI), April 1996. http://dx.doi.org/10.2172/212499.

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Kini, A. M., H. H. Wang, and J. A. Schlueter. Isotope effect study of {kappa}-(BEDT-TTF){sub 2}Cu(NCS){sub 2}: Labeling in the anion. Office of Scientific and Technical Information (OSTI), December 1995. http://dx.doi.org/10.2172/212465.

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Mark E. Fuller and Tullis C. Onstott. Development And Evaluation Of Stable Isotope And Fluorescent Labeling And Detection Methodologies For Tracking Injected Bacteria During In Situ Bioremediation. Office of Scientific and Technical Information (OSTI), December 2003. http://dx.doi.org/10.2172/820180.

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Kim, Kilsun. Investigations of Electronic Cigarette Chemistry: 1. Formation Pathways for Degradation Products using Isotopic Labeling; and 2. Gas/Particle Partitioning of Nicotine and Flavor Related Chemicals in Electronic Cigarette Fluids. Portland State University Library, January 2000. http://dx.doi.org/10.15760/etd.5828.

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