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Journal articles on the topic '13C isotope labeling'

Author: Grafiati

Published: 5 June 2025

Last updated: 1 August 2025

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1

Sivashankari, Ramamoorthi M., Yuki Miyahara, and Takeharu Tsuge. "Poly(3-Hydroxybutyrate) Biosynthesis from [U-13C6]D-Glucose by Ralstonia eutropha NCIMB 11599 and Recombinant Escherichia coli." Microbiology Research 14, no. 4 (2023): 1894–906. http://dx.doi.org/10.3390/microbiolres14040129.

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The use of stable isotope-labeled polymers in in situ biodegradation tests provides detailed information on the degradation process. As isotope-labeled raw chemicals are generally expensive, it is desirable to prepare polymer samples with high production yields and high isotope-labeling ratios. The biodegradable plastic poly[(R)-3-hydroxybutyrate)] (P(3HB)) is produced by microorganisms. In this study, to produce carbon 13 (13C)-labeled P(3HB) from [U-13C6]D-glucose (13C-glucose), the culture conditions needed for high production yields and high 13C-labeling ratios were investigated using Rals

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2

Ali, Rustam, Lindsay D. Clark, Jacob A. Zahm, et al. "Improved strategy for isoleucine 1H/13C methyl labeling in Pichia pastoris." Journal of Biomolecular NMR 73, no. 12 (2019): 687–97. http://dx.doi.org/10.1007/s10858-019-00281-1.

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Abstract Site specific methyl labeling combined with methyl TROSY offers a powerful NMR approach to study structure and dynamics of proteins and protein complexes of high molecular weight. Robust and cost-effective methods have been developed for site specific protein 1H/13C methyl labeling in an otherwise deuterated background in bacteria. However, bacterial systems are not suitable for expression and isotope labeling of many eukaryotic and membrane proteins. The yeast Pichia pastoris (P. pastoris) is a commonly used host for expression of eukaryotic proteins, and site-specific methyl labelin

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3

Miyatake, Tetsuro, Barbara J. MacGregor, and Henricus T. S. Boschker. "Linking Microbial Community Function to Phylogeny of Sulfate-Reducing Deltaproteobacteria in Marine Sediments by Combining Stable Isotope Probing with Magnetic-Bead Capture Hybridization of 16S rRNA." Applied and Environmental Microbiology 75, no. 15 (2009): 4927–35. http://dx.doi.org/10.1128/aem.00652-09.

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ABSTRACT We further developed the stable isotope probing, magnetic-bead capture method to make it applicable for linking microbial community function to phylogeny at the class and family levels. The main improvements were a substantial decrease in the protocol blank and an approximately 10-fold increase in the detection limit by using a micro-elemental analyzer coupled to isotope ratio mass spectrometry to determine 13C labeling of isolated 16S rRNA. We demonstrated the method by studying substrate utilization by Desulfobacteraceae, a dominant group of complete oxidizing sulfate-reducing Delta

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4

Fahey, Timothy J., Kayla R. Jacobs, and Ruth E. Sherman. "Fine root turnover in sugar maple estimated by 13C isotope labeling." Canadian Journal of Forest Research 42, no. 10 (2012): 1792–95. http://dx.doi.org/10.1139/x2012-128.

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We evaluated variation in root turnover across five root orders in sugar maple ( Acer saccharum Marsh.) saplings growing in a northern hardwood forest in central New York, USA. We used a stable isotope approach in which root systems were labeled with 13C and root structural C sequentially sampled for 13C enrichment. Turnover of first- and second-order roots was apparently rapid with only about 5% of the 13C retained in living roots after two growing seasons. Although third- to fifth-order roots appeared to persist longer, differences among root orders were not statistically significant, probab

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5

Bagga, Puneet, Kevin L. Behar, Graeme F. Mason, Henk M. De Feyter, Douglas L. Rothman, and Anant B. Patel. "Characterization of Cerebral Glutamine Uptake from Blood in the Mouse Brain: Implications for Metabolic Modeling of 13C NMR Data." Journal of Cerebral Blood Flow & Metabolism 34, no. 10 (2014): 1666–72. http://dx.doi.org/10.1038/jcbfm.2014.129.

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13C Nuclear Magnetic Resonance (NMR) studies of rodent and human brain using [1-13C]/[1,6-13C2]glucose as labeled substrate have consistently found a lower enrichment (~25% to 30%) of glutamine-C4 compared with glutamate-C4 at isotopic steady state. The source of this isotope dilution has not been established experimentally but may potentially arise either from blood/brain exchange of glutamine or from metabolism of unlabeled substrates in astrocytes, where glutamine synthesis occurs. In this study, the contribution of the former was evaluated ex vivo using 1H-[13C]-NMR spectroscopy together w

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6

Jin, S. J., and K. Y. Tserng. "Biogenesis of dicarboxylic acids in rat liver homogenate studied by 13C labeling." American Journal of Physiology-Endocrinology and Metabolism 261, no. 6 (1991): E719—E724. http://dx.doi.org/10.1152/ajpendo.1991.261.6.e719.

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The aim of this investigation is to assess whether long-chain fatty acids can be a substrate for omega-oxidation and the subsequent beta-oxidation to produce medium-chain dicarboxylic acids normally found in urine. Isolated rat liver 10,000 g supernatant and pellet fractions were used as the source of enzymes. The metabolism of palmitate was studied using [1,2,3,4-13C4]hexadecanoic acid as tracer. Selected ion monitoring mass spectrometry was utilized for the determination of isotope enrichments in precursor and products. Palmitate was found to be a good substrate for omega-oxidation; the rate

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7

Kim, Hee-Youn, Eun-Mi Hong, and Weon-Tae Lee. "Cost-effective isotope labeling technique developed for15N/13C-labeled proteins." Journal of the Korean Magnetic Resonance Society 15, no. 2 (2011): 115–27. http://dx.doi.org/10.6564/jkmrs.2011.15.2.115.

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8

Robins, Richard, Katarzyna Romek, Mathilde Grand, et al. "Difficulties in Differentiating Natural from Synthetic Alkaloids by Isotope Ratio Monitoring using 13C Nuclear Magnetic Resonance Spectrometry." Planta Medica 84, no. 12/13 (2018): 935–40. http://dx.doi.org/10.1055/a-0601-7157.

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AbstractWithin the food and pharmaceutical industries, there is an increasing legislative requirement for the accurate labeling of the productʼs origin. A key feature of this is to indicate whether the product is of natural or synthetic origin. With reference to this context, we have investigated three alkaloids commonly exploited for human use: nicotine, atropine, and caffeine. We have measured by 13C nuclear magnetic resonance spectrometry the position-specific distribution of 13C at natural abundance within several samples of each of these target molecules. This technique is well suited to

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9

Novotny, Jessie Lanterman, and Karen Goodell. "Utility of carbon and nitrogen stable isotopes for inferring wild bee (Hymenoptera: Apoidea) use of adjacent foraging habitats." PLOS ONE 17, no. 7 (2022): e0271095. http://dx.doi.org/10.1371/journal.pone.0271095.

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Isotope analysis has proven useful for understanding diets of animals that are difficult to track for extended periods. Bees are small yet highly mobile and often forage from multiple habitats. However, current methods of assessing diet are limited in scope. Efficient methods of tracking bee diets that integrate across life stages, distinguish habitat use, and are sensitive to taxonomic differences will inform conservation strategies. We evaluated the utility of stable isotope analysis for estimating contributions of adjacent habitats to bees’ diets. We also investigated taxonomic variation in

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10

Takeda, Mitsuhiro, Yohei Miyanoiri, Tsutomu Terauchi, and Masatsune Kainosho. "Conformational features and ionization states of Lys side chains in a protein studied using the stereo-array isotope labeling (SAIL) method." Magnetic Resonance 2, no. 1 (2021): 223–37. http://dx.doi.org/10.5194/mr-2-223-2021.

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Abstract. Although both the hydrophobic aliphatic chain and hydrophilic ζ-amino group of the Lys side chain presumably contribute to the structures and functions of proteins, the dual nature of the Lys residue has not been fully investigated using NMR spectroscopy, due to the lack of appropriate methods to acquire comprehensive information on its long consecutive methylene chain. We describe herein a robust strategy to address the current situation, using various isotope-aided NMR technologies. The feasibility of our approach is demonstrated for the Δ+PHS/V66K variant of staphylococcal nucleas

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11

Del Vecchio, Antonio, Alex Talbot, Fabien Caillé, et al. "Carbon isotope labeling of carbamates by late-stage [11C], [13C] and [14C]carbon dioxide incorporation." Chemical Communications 56, no. 78 (2020): 11677–80. http://dx.doi.org/10.1039/d0cc05031h.

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A procedure which allows labelling cyclic carbamates with all carbon isotopes has been developed. This protocol valorizes carbon dioxide, the universal building block for radiolabeling. A series of pharmaceuticals were obtained and a disconnection/reconnection strategy was implemented.

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12

Liu, Liang, and Shoushan Fan. "Isotope Labeling of Carbon Nanotubes and Formation of12C−13C Nanotube Junctions." Journal of the American Chemical Society 123, no. 46 (2001): 11502–3. http://dx.doi.org/10.1021/ja0167304.

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13

Auclair, Julie, François Lépine, and Richard Villemur. "A liquid chromatography – mass spectrometry method to measure 13C-isotope enrichment for DNA stable-isotope probing." Canadian Journal of Microbiology 58, no. 3 (2012): 287–92. http://dx.doi.org/10.1139/w11-133.

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DNA stable-isotope probing (DNA-SIP) is a cultivation-independent technique that makes it possible to associate metabolic function and taxonomic identity in a wide range of terrestrial and aquatic environments. In DNA-SIP, DNA is labeled via the assimilation of a labeled growth substrate that is subsequently used to identify microorganisms involved in assimilation of the substrate. However, the labeling time has to be sufficient to obtain labeled DNA but not so long such that cross-feeding of 13C-labeled metabolites from the primary consumers to nontarget species can occur. Confirmation that t

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14

Gebbing, Thomas, and Hans Schnyder. "13C Labeling kinetics of sucrose in glumes indicates significant refixation of respiratory CO2 in the wheat ear." Functional Plant Biology 28, no. 10 (2001): 1047. http://dx.doi.org/10.1071/pp01072.

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Photosynthesis by the vegetative structures of the ear (i.e. glumes) of wheat (Triticum aestivum L.) may draw on two sources of CO2: atmospheric CO2 and CO2 originating from respiration within the ear. We exposed wheat plants to a changed C isotope composition (δ) of one of the two sources, atmospheric CO2, to assess the contributions of atmospheric and respiratory CO2 to ear photosynthesis by following the labeling kinetics of water-soluble carbohydrates (WSC; fructose, glucose, sucrose, fructan) in glumes. Experiments included sampling during diurnal cycles and after extended exposures (7 an

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15

Malloy, C. R., A. D. Sherry, and F. M. Jeffrey. "Analysis of tricarboxylic acid cycle of the heart using 13C isotope isomers." American Journal of Physiology-Heart and Circulatory Physiology 259, no. 3 (1990): H987—H995. http://dx.doi.org/10.1152/ajpheart.1990.259.3.h987.

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13C-nuclear magnetic resonance (NMR) spectroscopy provides a new approach to the analysis of metabolic pathways, because it detects an interaction between adjacent 13C nuclei. Previous models of isotope distribution in the tricarboxylic acid cycle were designed for analysis of radioisotope data and did not consider the information provided by 13C-13C coupling. A mathematical model of the tricarboxylic acid cycle was developed that preserves all isotope isomer (isotopomer) information and yields simple relationships between 13C-NMR spectra of glutamate and metabolic parameters under steady-stat

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16

Cï¿½bron, Aurï¿½lie, Levente Bodrossy, Nancy Stralis-Pavese, et al. "Nutrient Amendments in Soil DNA Stable Isotope Probing Experiments Reduce the Observed Methanotroph Diversity." Applied and Environmental Microbiology 73, no. 3 (2006): 798–807. http://dx.doi.org/10.1128/aem.01491-06.

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ABSTRACT Stable isotope probing (SIP) can be used to analyze the active bacterial populations involved in a process by incorporating 13C-labeled substrate into cellular components such as DNA. Relatively long incubation times are often used with laboratory microcosms in order to incorporate sufficient 13C into the DNA of the target organisms. Addition of nutrients can be used to accelerate the processes. However, unnatural concentrations of nutrients may artificially change bacterial diversity and activity. In this study, methanotroph activity and diversity in soil was examined during the cons

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17

Yagi, Hirokazu, Saeko Yanaka, Rina Yogo, et al. "Silkworm Pupae Function as Efficient Producers of Recombinant Glycoproteins with Stable-Isotope Labeling." Biomolecules 10, no. 11 (2020): 1482. http://dx.doi.org/10.3390/biom10111482.

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Baculovirus-infected silkworms are promising bioreactors for producing recombinant glycoproteins, including antibodies. Previously, we developed a method for isotope labeling of glycoproteins for nuclear magnetic resonance (NMR) studies using silkworm larvae reared on an artificial diet containing 15N-labeled yeast crude protein extract. Here, we further develop this method by introducing a technique for the expression of isotope-labeled glycoproteins by silkworm pupae, which has several potential advantages relative to larvae-based techniques in terms of production yield, ease of handling, an

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18

Nogués, Salvador, Guillaume Tcherkez, Gabriel Cornic, and Jaleh Ghashghaie. "Respiratory Carbon Metabolism following Illumination in Intact French Bean Leaves Using 13C/12C Isotope Labeling." Plant Physiology 136, no. 2 (2004): 3245–54. http://dx.doi.org/10.1104/pp.104.048470.

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19

Hemmerling, Christin, Zhipeng Li, Lingling Shi, Johanna Pausch, and Liliane Ruess. "Flux of Root-Derived Carbon into the Nematode Micro-Food Web: A Comparison of Grassland and Agroforest." Agronomy 12, no. 4 (2022): 976. http://dx.doi.org/10.3390/agronomy12040976.

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Carbon (C) cycling is crucial to agroecosystem functioning. Important determinants for the belowground C flow are soil food webs, with microorganisms and microfaunal grazers, i.e., nematodes, as key biota. The present study investigates the incorporation of plant-derived C into the nematode micro-food web under two different cropping systems, grassland (ryegrass (Lolium perenne L.) and white clover (Trifolium repens L.)) and agroforest (willow (Salix schwerinii Wolf and Salix viminalis L)). To quantify the C flux from the plant into the soil micro-food web, grass and willow were pulse-labeled

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20

Couté, Yohann, Céline Hernandez, Ron D. Appel, Jean-Charles Sanchez, and Abelardo Margolles. "Labeling of Bifidobacterium longum Cells with 13C-Substituted Leucine for Quantitative Proteomic Analyses." Applied and Environmental Microbiology 73, no. 17 (2007): 5653–56. http://dx.doi.org/10.1128/aem.00667-07.

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ABSTRACT Stable isotope labeling of amino acids in cell culture was used for Bifidobacterium longum. A comprehensive proteomic strategy was developed and validated by designing an appropriate semidefined medium that allows stable replacement of natural leucine by [13C6]leucine. Using this strategy, proteins having variations of at least 50% in their expression rates can be quantified with great confidence.

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21

Brossard, N., M. Croset, J. Lecerf, et al. "Metabolic fate of an oral tracer dose of [13C]docosahexaenoic acid triglycerides in the rat." American Journal of Physiology-Regulatory, Integrative and Comparative Physiology 270, no. 4 (1996): R846—R854. http://dx.doi.org/10.1152/ajpregu.1996.270.4.r846.

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The appearance of 13C in rat lipoprotein, blood cells, and brain lipids was followed as a function of time after the ingestion of triglycerides (TG) containing [13C]22:6n-3. The time course of 13C abundance in 22:6n-3 of various lipid pools, measured by gas chromatography combustion-isotope mass spectrometry, established precursor-product relationships within lipids. The [13C]22:6n-3 was rapidly incorporated into very low density lipoprotein-chylomicron-TG and unesterified fatty acids bound to albumin, with a concomitant maximal appearance at 3 h and further decline. Lysophosphatidylcholines (

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22

Sitarska, Agnieszka, Lukasz Skora, Julia Klopp, et al. "Affordable uniform isotope labeling with 2H, 13C and 15N in insect cells." Journal of Biomolecular NMR 62, no. 2 (2015): 191–97. http://dx.doi.org/10.1007/s10858-015-9935-6.

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23

Maxfield, P. J., E. R. C. Hornibrook, and R. P. Evershed. "Estimating High-Affinity Methanotrophic Bacterial Biomass, Growth, and Turnover in Soil by Phospholipid Fatty Acid 13C Labeling." Applied and Environmental Microbiology 72, no. 6 (2006): 3901–7. http://dx.doi.org/10.1128/aem.02779-05.

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ABSTRACT A time series phospholipid fatty acid (PLFA) 13C-labeling study was undertaken to determine methanotrophic taxon, calculate methanotrophic biomass, and assess carbon recycling in an upland brown earth soil from Bronydd Mawr (Wales, United Kingdom). Laboratory incubations of soils were performed at ambient CH4 concentrations using synthetic air containing 2 parts per million of volume of 13CH4. Flowthrough chambers maintained a stable CH4 concentration throughout the 11-week incubation. Soils were analyzed at weekly intervals by gas chromatography (GC), GC-mass spectrometry, and GC-com

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Hungate, Bruce A., Rebecca L. Mau, Egbert Schwartz, et al. "Quantitative Microbial Ecology through Stable Isotope Probing." Applied and Environmental Microbiology 81, no. 21 (2015): 7570–81. http://dx.doi.org/10.1128/aem.02280-15.

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ABSTRACTBacteria grow and transform elements at different rates, and as yet, quantifying this variation in the environment is difficult. Determining isotope enrichment with fine taxonomic resolution after exposure to isotope tracers could help, but there are few suitable techniques. We propose a modification tostableisotopeprobing (SIP) that enables the isotopic composition of DNA from individual bacterial taxa after exposure to isotope tracers to be determined. In our modification, after isopycnic centrifugation, DNA is collected in multiple density fractions, and each fraction is sequenced s

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MacGregor, Barbara J., Henricus T. S. Boschker, and Rudolf Amann. "Comparison of rRNA and Polar-Lipid-Derived Fatty Acid Biomarkers for Assessment of 13C-Substrate Incorporation by Microorganisms in Marine Sediments." Applied and Environmental Microbiology 72, no. 8 (2006): 5246–53. http://dx.doi.org/10.1128/aem.00423-06.

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ABSTRACT We determined whether a recently developed method to isolate specific small-subunit (SSU) rRNAs can be used in 13C-labeling studies to directly link community structure and function in natural ecosystems. Replicate North Sea sediment cores were incubated at the in situ temperature following addition of 13C-labeled acetate, propionate, amino acids, or glucose. Eukaryotic and bacterial SSU rRNAs were separated from total RNA by means of biotin-labeled oligonucleotide probes and streptavidin-coated paramagnetic beads, and the 13C content of the isolated rRNA was determined by elemental a

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Zou, J., L. Zhao, S. Xu, et al. "Livestock exclosure with consequent vegetation changes alters photo-assimilated carbon cycling in a <i>Kobresia</i> meadow." Biogeosciences Discussions 10, no. 11 (2013): 17633–61. http://dx.doi.org/10.5194/bgd-10-17633-2013.

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Abstract. Livestock exclosure has been widely used as an approach for grassland restoration. However, the effects of exclosure on grassland are controversial and can depend on many factors, such as the grassland ecosystem types, evolutionary history and so on. In this study, we conduct field experiments to investigate the variations of ecosystem function in response to livestock exclosure in a Kobresia humilis meadow under six years grazing exclosure on the Qinghai-Tibetan plateau. We focused on two ecosystem functions: plant community structure and ecosystem carbon cycling. The plant abovegro

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27

Azemtsop Matanfack, Georgette, Aikaterini Pistiki, Petra Rösch, and Jürgen Popp. "Raman Stable Isotope Probing of Bacteria in Visible and Deep UV-Ranges." Life 11, no. 10 (2021): 1003. http://dx.doi.org/10.3390/life11101003.

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Raman stable isotope probing (Raman-SIP) is an excellent technique that can be used to access the overall metabolism of microorganisms. Recent studies have mainly used an excitation wavelength in the visible range to characterize isotopically labeled bacteria. In this work, we used UV resonance Raman spectroscopy (UVRR) to evaluate the spectral red-shifts caused by the uptake of isotopes (13C, 15N, 2H(D) and 18O) in E. coli cells. Moreover, we present a new approach based on the extraction of labeled DNA in combination with UVRR to identify metabolically active cells. The proof-of-principle st

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28

Wang, Shizong, Anja Miltner, and Karolina M. Nowak. "Identification of degradation routes of metamitron in soil microcosms using 13C-isotope labeling." Environmental Pollution 220 (January 2017): 927–35. http://dx.doi.org/10.1016/j.envpol.2016.10.078.

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29

Pan, Xinli, Nicole Domin, Sebastian Schieferdecker, Hirokazu Kage, Martin Roth, and Markus Nett. "Herpetopanone, a diterpene from Herpetosiphon aurantiacus discovered by isotope labeling." Beilstein Journal of Organic Chemistry 13 (November 17, 2017): 2458–65. http://dx.doi.org/10.3762/bjoc.13.242.

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The genome of the predatory bacterium Herpetosiphon aurantiacus 114-95T harbors a number of biosynthesis genes, including four terpene cyclase genes. To identify the terpenes biosynthesized from H. aurantiacus 114-95T, we fed the strain with 13C-labeled glucose and, subsequently, searched for characteristic mass shifts in its metabolome. This approach led to the discovery of a new natural product, of which the isotope pattern is indicative for a diterpene originating from the methylerythritol phosphate pathway. After large-scale fermentation of H. aurantiacus 114-95T, the putative diterpene wa

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30

Lamichhane, Hari Prasad. "Intensity Revival of Weak Symmetric Infrared Band is Possible in Ubiquinone Molecules through the Asymmetric Site-specific Isotope Labeling." Himalayan Physics 5 (July 1, 2015): 39–46. http://dx.doi.org/10.3126/hj.v5i0.12838.

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Modifications of Infrared (IR) spectral bands of ubiquinone molecule (UQ1) upon site-specific 13C labeling at the C5 or C6 position are studied in CCl4 using Gaussian 03. Polarizable continuum model (PCM) has been used to optimize the UQ1 molecule in solvent. The unlabeled neutral ubiquinone molecule consists of three intense IR bands in the frequency region between 1700 cm-1 to 1550 cm-1. The symmetric fourth band in this spectral region does not appear in the spectrum because of very weak intensity. However, site-specific 13C labeling at C5 or C6 position removes the molecular symmetry and h

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Kimura, Yukihiro, Michie Imanishi, Yong Li, et al. "Identification of metal-sensitive structural changes in the Ca²⁺-binding photocomplex from Thermochromatium tepidum by isotope-edited vibrational spectroscopy." Journal of Chemical Physics 156, no. 10 (2022): 105101. http://dx.doi.org/10.1063/5.0075600.

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Calcium ions play a dual role in expanding the spectral diversity and structural stability of photocomplexes from several Ca2+-requiring purple sulfur phototrophic bacteria. Here, metal-sensitive structural changes in the isotopically labeled light-harvesting 1 reaction center (LH1-RC) complexes from the thermophilic purple sulfur bacterium Thermochromatium ( Tch.) tepidum were investigated by perfusion-induced attenuated total reflection (ATR) Fourier transform infrared (FTIR) spectroscopy. The ATR-FTIR difference spectra induced by exchanges between native Ca2+ and exogenous Ba2+ exhibited i

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32

Zou, J., L. Zhao, S. Xu, et al. "Field <sup>13</sup>CO<sub>2</sub> pulse labeling reveals differential partitioning patterns of photoassimilated carbon in response to livestock exclosure in a <i>Kobresia</i> meadow." Biogeosciences 11, no. 16 (2014): 4381–91. http://dx.doi.org/10.5194/bg-11-4381-2014.

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Abstract. Livestock exclosure has been widely used as an approach for grassland restoration. However, the effects of exclosures on grasslands are controversial and can depend on many factors, such as the grassland ecosystem types, evolutionary history and so on. In this study, we conduct field experiments to investigate the variations of the ecosystem function in response to livestock exclosure in a Kobresia humilis meadow with 6 years of grazing exclosure on the Qinghai–Tibetan Plateau. We focused on two ecosystem functions: plant community structure and ecosystem carbon cycling. The plant ab

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33

Olenginski, Lukasz T., and Theodore K. Dayie. "Quantifying the effects of long-range 13C-13C dipolar coupling on measured relaxation rates in RNA." Journal of Biomolecular NMR 75, no. 4-5 (2021): 203–11. http://dx.doi.org/10.1007/s10858-021-00368-8.

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AbstractSelective stable isotope labeling has transformed structural and dynamics analysis of RNA by NMR spectroscopy. These methods can remove 13C-13C dipolar couplings that complicate 13C relaxation analyses. While these phenomena are well documented for sites with adjacent 13C nuclei (e.g. ribose C1′), less is known about so-called isolated sites (e.g. adenosine C2). To investigate and quantify the effects of long-range (> 2 Å) 13C-13C dipolar interactions on RNA dynamics, we simulated adenosine C2 relaxation rates in uniformly [U-13C/15N]-ATP or selectively [2-13C]-ATP labeled RNAs. Our

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Dusny, Christian, and Andreas Schmid. "The Metabolic Flux Probe (MFP)—Secreted Protein as a Non-Disruptive Information Carrier for 13C-Based Metabolic Flux Analysis." International Journal of Molecular Sciences 22, no. 17 (2021): 9438. http://dx.doi.org/10.3390/ijms22179438.

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Novel cultivation technologies demand the adaptation of existing analytical concepts. Metabolic flux analysis (MFA) requires stable-isotope labeling of biomass-bound protein as the primary information source. Obtaining the required protein in cultivation set-ups where biomass is inaccessible due to low cell densities and cell immobilization is difficult to date. We developed a non-disruptive analytical concept for 13C-based metabolic flux analysis based on secreted protein as an information carrier for isotope mapping in the protein-bound amino acids. This “metabolic flux probe” (MFP) concept

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Zorn, H., M. Fischer-Zorn, and R. G. Berger. "A Labeling Study To Elucidate the Biosynthesis of 4-(4-Hydroxyphenyl)-Butan-2-one (Raspberry Ketone) by Nidula niveo-tomentosa." Applied and Environmental Microbiology 69, no. 1 (2003): 367–72. http://dx.doi.org/10.1128/aem.69.1.367-372.2003.

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ABSTRACT Submerged cells of the basidiomycete Nidula niveo-tomentosa, a microbial producer of 4-(4-hydroxyphenyl)-butan-2-one, were supplemented with 13C-labeled l-phenylalanines and with [1-13C]glucose. Labeled transformation products were detected by a novel method of analyzing stable isotope-labeled metabolites, gas chromatography (GC) coupled to an atomic emission detector, and by GC-mass spectrometry. A benzoate moiety was side chain elongated according to the poly-β-keto scheme. The presence of an acetyl coenzyme A-carboxylase inhibitor shifted the spectrum of products to benzyl compound

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Hasenour, Clinton M., Martha L. Wall, D. Emerson Ridley, et al. "Mass spectrometry-based microassay of 2H and 13C plasma glucose labeling to quantify liver metabolic fluxes in vivo." American Journal of Physiology-Endocrinology and Metabolism 309, no. 2 (2015): E191—E203. http://dx.doi.org/10.1152/ajpendo.00003.2015.

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Mouse models designed to examine hepatic metabolism are critical to diabetes and obesity research. Thus, a microscale method to quantitatively assess hepatic glucose and intermediary metabolism in conscious, unrestrained mice was developed. [13C3]propionate, [2H2]water, and [6,6-2H2]glucose isotopes were delivered intravenously in short- (9 h) and long-term-fasted (19 h) C57BL/6J mice. GC-MS and mass isotopomer distribution (MID) analysis were performed on three 40-μl arterial plasma glucose samples obtained during the euglycemic isotopic steady state. Model-based regression of hepatic glucose

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Tang, Yinjie J., Adam L. Meadows, James Kirby, and Jay D. Keasling. "Anaerobic Central Metabolic Pathways in Shewanella oneidensis MR-1 Reinterpreted in the Light of Isotopic Metabolite Labeling." Journal of Bacteriology 189, no. 3 (2006): 894–901. http://dx.doi.org/10.1128/jb.00926-06.

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ABSTRACT It has been proposed that during growth under anaerobic or oxygen-limited conditions, Shewanella oneidensis MR-1 uses the serine-isocitrate lyase pathway common to many methylotrophic anaerobes, in which formaldehyde produced from pyruvate is condensed with glycine to form serine. The serine is then transformed through hydroxypyruvate and glycerate to enter central metabolism at phosphoglycerate. To examine its use of the serine-isocitrate lyase pathway under anaerobic conditions, we grew S. oneidensis MR-1 on [1-13C]lactate as the sole carbon source, with either trimethylamine N-oxid

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Seemann, Janina. "The use of 13C and 15N isotope labeling techniques to assess heterotrophy of corals." Journal of Experimental Marine Biology and Ecology 442 (April 2013): 88–95. http://dx.doi.org/10.1016/j.jembe.2013.01.004.

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McAtee, Allison G., Lara J. Jazmin, and Jamey D. Young. "Application of isotope labeling experiments and 13C flux analysis to enable rational pathway engineering." Current Opinion in Biotechnology 36 (December 2015): 50–56. http://dx.doi.org/10.1016/j.copbio.2015.08.004.

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Guthertz, Nicolas, Julia Klopp, Aurélie Winterhalter, César Fernández, and Alvar D. Gossert. "Auto-inducing media for uniform isotope labeling of proteins with 15N, 13C and 2H." Journal of Biomolecular NMR 62, no. 2 (2015): 169–77. http://dx.doi.org/10.1007/s10858-015-9931-x.

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Moiz, Bilal, Jonathan Garcia, Sarah Basehore, et al. "13C Metabolic Flux Analysis Indicates Endothelial Cells Attenuate Metabolic Perturbations by Modulating TCA Activity." Metabolites 11, no. 4 (2021): 226. http://dx.doi.org/10.3390/metabo11040226.

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Disrupted endothelial metabolism is linked to endothelial dysfunction and cardiovascular disease. Targeted metabolic inhibitors are potential therapeutics; however, their systemic impact on endothelial metabolism remains unknown. In this study, we combined stable isotope labeling with 13C metabolic flux analysis (13C MFA) to determine how targeted inhibition of the polyol (fidarestat), pentose phosphate (DHEA), and hexosamine biosynthetic (azaserine) pathways alters endothelial metabolism. Glucose, glutamine, and a four-carbon input to the malate shuttle were important carbon sources in the ba

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Blackwell, Barbara A., J. David Miller, and Marc E. Savard. "Production of Carbon 14-Labeled Fumonisin in Liquid Culture." Journal of AOAC INTERNATIONAL 77, no. 2 (1994): 506–11. http://dx.doi.org/10.1093/jaoac/77.2.506.

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Abstract A method for the production and purification of radiolabeled fumonisin that involves the addition of 14C-acetate to liquid cultures of Fusarium moniliforme in shake flasks is reported. Stable isotope 13C labeling studies were carried out using specifically enriched acetate and several amino acids to determine the location of labeled carbon atoms in the radiolabeled fumonisin that was also produced (650 μCi/mmol). These experiments determined that the 14C was distributed throughout the molecule making it useful for studies of fumonisin residues in animal products. Additionally, the 13C

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Poeaknapo, Chotima, Ursula Fisinger, Meinhart H. Zenk, and Jürgen Schmidt. "Evaluation of the mass spectrometric fragmentation of codeine and morphine after 13C-isotope biosynthetic labeling." Phytochemistry 65, no. 10 (2004): 1413–20. http://dx.doi.org/10.1016/j.phytochem.2004.05.005.

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Zhou, Mingxin, and Yibo Li. "Long-Term Nitrogen Addition Regulates Plant-Soil 15N–13C Coupling Through Species Traits and Temporal-Spatial Dynamics in a Temperate Forest." Forests 16, no. 7 (2025): 1046. https://doi.org/10.3390/f16071046.

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Nitrogen deposition is a critical driver of plant-soil interactions in forest ecosystems. However, the species-specific coordination of nitrogen uptake and carbon assimilation—traced using 15N- and 13C-labeled compounds—under varying nitrogen forms, depths, and time points remains poorly understood. We conducted a dual-isotope (15NH4Cl, K15NO3, and Na213CO3) labeling experiment in a temperate secondary forest to investigate nutrient uptake and carbon assimilation in three understory species—Carex siderosticta, Maianthemum bifolium, and Oxalis acetosella—across three nitrogen treatments (contro

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Habib, El-Sayed E., J. Neel Scarsdale, and Kevin A. Reynolds. "Biosynthetic Origin of Hygromycin A." Antimicrobial Agents and Chemotherapy 47, no. 7 (2003): 2065–71. http://dx.doi.org/10.1128/aac.47.7.2065-2071.2003.

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ABSTRACT Hygromycin A, an antibiotic produced by Streptomyces hygroscopicus, is an inhibitor of bacterial ribosomal peptidyl transferase. The antibiotic binds to the ribosome in a distinct but overlapping manner with other antibiotics and offers a different template for generation of new agents effective against multidrug-resistant pathogens. Reported herein are the results from a series of stable-isotope-incorporation studies demonstrating the biosynthetic origins of the three distinct structural moieties which comprise hygromycin A. Incorporation of [1-13C]mannose and intact incorporation of

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Dai, Charles, Yoon-Mi Chung, Eric A. Klein, and Nima Sharifi. "A dual stable isotope method by LC-MS/MS to define patterns of androgen metabolism in localized versus advanced prostate cancer." Journal of Clinical Oncology 34, no. 2_suppl (2016): 40. http://dx.doi.org/10.1200/jco.2016.34.2_suppl.40.

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40 Background: Prior work has shown that androstenedione (AD) rather than testosterone (T) is the preferred substrate of 5α-reductase for dihydrotestosterone (DHT) synthesis in castration-resistant prostate cancer. However, patterns of metabolism in hormone-naive prostate cancer are still poorly defined. Previously, we reported on the utility of dual radioisotope labeling of steroid precursors to characterize androgen metabolism in localized prostate tissue. We now describe an alternative approach via stable isotope labeling and analysis by liquid chromatography-tandem mass spectrometry (LC-MS

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Bontes, B. M., R. Pel, B. W. Ibelings, H. T. S. Boschker, J. J. Middelburg, and E. Van Donk. "The effects of biomanipulation on the biogeochemistry, carbon isotopic composition and pelagic food web relations of a shallow lake." Biogeosciences 3, no. 1 (2006): 69–83. http://dx.doi.org/10.5194/bg-3-69-2006.

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Abstract. In this study we investigated the effects of experimental biomanipulation on community structure, ecosystem metabolism, carbon biogeochemistry and stable isotope composition of a shallow eutrophic lake in the Netherlands. Three different biomanipulation treatments were applied. In two parts of the lake, isolated from the rest, fish was removed and one part was used as a reference treatment in which no biomanipulation was applied. Stable isotopes have proved useful to trace trophic interactions at higher food web levels but until now methodological limitations have restricted species

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Stuani, Lucille, Fabien Riols, Pierre Millard, et al. "Stable Isotope Labeling Highlights Enhanced Fatty Acid and Lipid Metabolism in Human Acute Myeloid Leukemia." International Journal of Molecular Sciences 19, no. 11 (2018): 3325. http://dx.doi.org/10.3390/ijms19113325.

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Background: In Acute Myeloid Leukemia (AML), a complete response to chemotherapy is usually obtained after conventional chemotherapy but overall patient survival is poor due to highly frequent relapses. As opposed to chronic myeloid leukemia, B lymphoma or multiple myeloma, AML is one of the rare malignant hemopathies the therapy of which has not significantly improved during the past 30 years despite intense research efforts. One promising approach is to determine metabolic dependencies in AML cells. Moreover, two key metabolic enzymes, isocitrate dehydrogenases (IDH1/2), are mutated in more

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Pervushin, Konstantin. "Impact of Transverse Relaxation Optimized Spectroscopy (TROSY) on NMR as a technique in structural biology." Quarterly Reviews of Biophysics 33, no. 2 (2000): 161–97. http://dx.doi.org/10.1017/s0033583500003619.

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1. Transverse relaxation and the molecular size limit in liquid state NMR 1612. TROSY: how does it work? 1632.1 Transverse relaxation in coupled spin systems 1632.2 The TROSY effect, relaxation due to remote protons and 2H isotope labeling 1653. Direct heteronuclear chemical shift correlations 1683.1 Single-Quantum [15N,1H]-TROSY 1683.2 Zero-Quantum [15N,1H]-TROSY 1713.3 Single-Quantum TROSY with aromatic 13C–1H moieties 1764. Resonance assignment and NOE spectroscopy of large biomolecules 1804.1 TROSY-based triple resonance experiments for 13C, 15N and 1HN backbone resonance assignment in uni

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Wang, Hehua, Juan Wang, Chaorong Ge, and Huaiying Yao. "Fungi Dominated the Incorporation of 13C-CO2 into Microbial Biomass in Tomato Rhizosphere Soil under Different CO2 Concentrations." Microorganisms 9, no. 10 (2021): 2121. http://dx.doi.org/10.3390/microorganisms9102121.

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An elevated CO2 (eCO2) fumigation experiment was carried out to study the influence of various CO2 concentrations on microorganisms involved in the incorporation of root-derived C in greenhouse soil systems. In this study, 400 and 800 µmol·mol−1 CO2 fumigation treatments were conducted during tomato planting. Phospholipid fatty acid (PLFA) profiling based on the stable isotope probing (SIP) technique was applied to trace active microorganisms. The absolute total abundance of 13C-PLFAs was much higher under eCO2 treatment. Most of the 13C-CO2 was incorporated into the 13C-PLFAs 18:2ω6,9 (fungi)

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