Isotopic labelling stable

LC-MS/MS assays typically rely on the use of an internal standard that mimics the performance of the analyte to improve the precision, reproducibility and reliability of the assay. An ideal internal standard candidate is a stable-isotope labeled ( stable labeled ) form of the drug. Because synthesizing stable labeled chemicals can be expensive and time-consuming, it is very common to use a chemically similar structural analog of the analyte(s) as the internal standard, especially during the early phases of drug development. 

Stable isotopic labels. Stable Isotopes of zinc can also be used as labels. The primary advantage of using stable Iso-... 

The elucidation of the biosynthetic pathway for the production of various metabolites has been extensively examined through the use of techniques that use isotopic labeling (stable isotopes and radioactive isotopes). Initially, radiolabeled precursors were introduced into plants and the resultant radioactive compounds were chemically degraded to identify the positions of the label. As the development of analytical instrumentation advanced, the isotopically labeled natural products were analyzed by mass spectrometry (MS) and nuclear magnetic resonance (NMR) spectroscopy instead of chemical degradation. 

Another widely used approach to the elucidation of metabolic sequences is to feed cells a substrate or metabolic intermediate labeled with a particular isotopic form of an element that can be traced. Two sorts of isotopes are useful in this regard radioactive isotopes, such as and stable heavy isotopes, such as or (Table 18.3). Because the chemical behavior of isotopically labeled compounds is rarely distinguishable from that of their unlabeled counterparts, isotopes provide reliable tags for observing metabolic changes. The metabolic fate of a radioactively labeled substance can be traced by determining the presence and position of the radioactive atoms in intermediates derived from the labeled compound (Figure 18.13). 

The hydrazinolysis is usually conducted in refluxing ethanol, and is a fast process in many cases. Functional groups, that would be affected under hydrolytic conditions, may be stable under hydrazinolysis conditions. The primary amine is often obtained in high yield. The Gabriel synthesis is for example recommended for the synthesis of isotopically labeled amines and amino acids. a-Amino acids 9 can be prepared by the Gabriel route, if a halomalonic ester—e.g. diethyl bromomalonate 7—is employed as the starting material instead of the alkyl halide ... 

The Tools of Proteomics A variety of methods and techniques including two-dimensional gel electrophoresis (2DE), capillary liquid chromatography, stable isotope labeling, and mass spectrometry has been developed for qualitative and quantitative protein... 

The best labeling system in this regard is isotopic labeling since it involves the minimum change from the standard initiator. Methods based on radiolabeling and stable isotopes detectable by NMR are described in Sections 3.5.4.1 and 3.5.4.2 respectively. 

The chemical reactivity of the organoruthenium and -osmium porphyrin complexes varies considerably, with some complexes (M(Por)R2, M(Por)R and Os(OEP)(NO)R) at least moderately air stable, while most are light sensitive and Stability is improved by handling them in the dark. Chemical transformations directly involving the methyl group have been observed for Ru(TTP) NO)Me, which inserts SO2 to form Ru(TTP)(N0) 0S(0)Me and Ru(OEP)Me which undergoes H- atom abstraction reactions with the radical trap TEMPO in benzene solution to yield Ru(OEP)(CO)(TEMPO). Isotope labeling studies indicate that the carbonyl carbon atom is derived from the methyl carbon atom. "" Reaction of... 

Elements such as C, N, O, S, and Cl that are components of many organic compounds exist naturally as mixtures of stable isotopes. The ratios of these in a compound reflect the different rates of reaction at isotopically labeled positions, and therefore reflect the fractionation—biotic or abiotic—by which it was synthesized or to which the compound has been subjected. Techniques have been developed whereby the ratios C/ C (5 C), (5 N), (5 0),... 

Sullivan ER, X Zhang, C Phelps, LY Young (2001) Anaerobic mineralization of stable-isotope-labeled 2-methylnaphthalene. Appl Environ Microbiol 67 4353-4357. 

A phenol-degrading community was examined using phenol followed by analysis of the stable-isotope-labeled RNA by equilibrium density centrifugation, and complemented... 

Characterization of various types of damage to DNA by oxygen-derived species can be achieved by the technique of gas chromatography-mass spectrometry (GC-MS), which may be applied to DNA itself or to DNA-protein complexes such as chromatin (Dizdaroglu, 1991). For GC-MS, the DNA or chromatin is hydrolysed (usually by heating with formic acid) and the products are converted to volatile derivatives, which are separated by gas chromatography and conclusively identified by the structural evidence provided by a mass spectrometer. Stable isotope-labelled bases may be used as internal standards... 

Figure 3.2. Stable isotope labeling for quantifying differential protein expression. Cell populations are grown in either 14N or 15N containing medium. Protein lysates are fractionated and separated by 2D gel electrophoresis. Protein spots are excised, digested with trypsin and the mass of the resulting peptides is determined by mass spectrometry. The presence of 15N results in a shift and creates two peaks for each peptide. The ratio of intensities of the peaks is indicative of the relative expression levels of the proteins. Spot A contains a protein that is expressed at similar levels in both cell pools. Spot B contains a protein that is expressed at higher levels in cell pool 2. Figure adapted from Oda et al. (1999).

Regnier, F. E. Riggs, L. Zhang, R. Xiong, L. Liu, P. Chakraborty A. Seeley E. Sioma, C. Thompson, R. A. Comparative proteomics based on stable isotope labeling and affinity selection. J. Mass. Spectrom. 2002,37,133-145. 

Czerwieniec, G. A. Russell, S. C. Tobias, H. J. Fergenson, D. P. Steele, P Pitesky, M. E. Horn, J. M. Frank, M. Gard, E. E. Lebrilla, C. B. Stable isotope labeling of entire Bacillus atrophaeus spores and vegetative cells using bio-aerosol mass spectrometry. Anal. Chem. 2005, 77,1081-1087. 

Kigawa, T., Yabuki, T., Yoshida, Y. et al. (1999) Cell-free production and stable-isotope labeling of milligram quantities of proteins. FEBS Letters, 442 (1), 15-19. 

The approach recruited to chemical proteomics in Reference [17] is called SILAC (stable isotope labeling with amino acids in cell culture) and is important in comparative proteomics (Figure 1). SILAC works well with cultured mammalian cells, but prokaryotes defeat it by metabolizing the label (usually supplied in lysine and arginine) into other amino acids. For applications beyond cultured eukaryotic cells, the reductive methylation route to differential labeling [18] is among the alternatives [15]-... 

Although use of radio and stable isotope labels involving the trio of covalently-bonded nitrogenous functions in 3 and in 78, provided evidence that isocyano is the precursor of the isothiocyano and formamido groups [30, 81], it remains to be shown that a biosynthetic equivalent of the in vitro chemically-proven fusion process between isocyano and free sulfur (e.g., cf. Introduction) exists in the cells of sponges. In marine biota, various ionic forms of sulfur in a number of oxidation states, as well as organo-polysulfides are known. However, any association with the isonitrile group and a sulfated species has yet to be established. 

Figure 16.6 The solid phase ICAT reagent provides a thiol-reactive iodoacetyl group to capture cysteine peptides, a spacer containing stable isotopic labels, and a photo-cleavable group that can release the captured peptides for mass spec analysis. The VICAT mass tag is a solution phase labeling agent that also has a photo-cleavable site to release isolated peptides from a (strept)avidin affinity resin. This compound adds a fluorescent group to better detect labeled peptides as they are being isolated from a sample.

Guerrero et al. (2006) used this technique along with the quantitative mass spec strategy called SILAC (stable isotope labeling of amino acids in cell culture Ong et al., 2002) to identify the yeast proteins that interact with the 26 S proteasome. 

Ong, S.-E., Blagoev, B., Kratchmarova, I., Kristensen, D.B., Steen, H., Pandey, A., and Mann, M. (2002) Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics. Mol. Cell. Proteomics 1, 376-386. 

Elucidation of the physiological role of arachidonic acid 13 and other polyunsaturated fatty acids, particularly the role of all Z-4,7,10,13,16,19-decosahexaenoic acid 14, found in brain, required the corresponding stable-isotope labelled material1011. The deuteriated phosphonium salt 15, the key intermediate used in the synthesis of title compound 16 (equation 8), has been prepared in 19% overall yield12 starting with ethanol-D6 (equation 7). 

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