Fully automated software solution for protein quantitation by global metabolic labeling with stable isotopes

2011 ◽  
Vol 25 (11) ◽  
pp. 1461-1471 ◽  
Author(s):  
L. V. Bindschedler ◽  
R. Cramer
Keyword(s):  
Stable Isotopes ◽  
Metabolic Labeling ◽  
Protein Quantitation ◽  
Automated Software

scholarly journals High-Resolution Mass Spectrometry for In Vivo Proteome Dynamics using Heavy Water Metabolic Labeling

2020 ◽  
Vol 21 (21) ◽  
pp. 7821
Author(s):  
Rovshan G. Sadygov
Keyword(s):  
Stable Isotopes ◽  
Heavy Water ◽  
Large Scale ◽  
High Resolution Mass Spectrometry ◽  
Mass Resolution ◽  
Mass Analyzer ◽  
Metabolic Labeling ◽  
Spectral Accuracy ◽  
Mass Spectrometers ◽  
Modern Mass

Cellular proteins are continuously degraded and synthesized. The turnover of proteins is essential to many cellular functions. Combined with metabolic labeling using stable isotopes, LC–MS estimates proteome dynamics in high-throughput and on a large scale. Modern mass spectrometers allow a range of instrumental settings to optimize experimental output for specific research goals. One such setting which affects the results for dynamic proteome studies is the mass resolution. The resolution is vital for distinguishing target species from co-eluting contaminants with close mass-to-charge ratios. However, for estimations of proteome dynamics from metabolic labeling with stable isotopes, the spectral accuracy is highly important. Studies examining the effects of increased mass resolutions (in modern mass spectrometers) on the proteome turnover output and accuracy have been lacking. Here, we use a publicly available heavy water labeling and mass spectral data sets of murine serum proteome (acquired on Orbitrap Fusion and Agilent 6530 QToF) to analyze the effect of mass resolution of the Orbitrap mass analyzer on the proteome dynamics estimation. Increased mass resolution affected the spectral accuracy and the number acquired tandem mass spectra.

Metabolic Labeling of Mammalian Organisms with Stable Isotopes for Quantitative Proteomic Analysis

2004 ◽  
Vol 76 (17) ◽  
pp. 4951-4959 ◽  
Author(s):  
Christine C. Wu ◽  
Michael J. MacCoss ◽  
Kathryn E. Howell ◽  
Dwight E. Matthews ◽  
John R. Yates
Keyword(s):  
Stable Isotopes ◽  
Proteomic Analysis ◽  
Metabolic Labeling ◽  
Quantitative Proteomic Analysis

Stable isotope metabolic labeling of a mouse model reveals synaptic biomarkers for anxiety disorders

2009 ◽  
Vol 42 (05) ◽  
Author(s):  
MD Filiou ◽  
YY Zhang ◽  
B Bisle ◽  
E Frank ◽  
MS Kessler ◽  
...  
Keyword(s):  
Stable Isotope ◽  
Mouse Model ◽  
Anxiety Disorders ◽  
Metabolic Labeling

Disentangling the role of shared ancestry and the environment on leaf stable isotopes

2019 ◽  
Author(s):  
Marko J. Spasojevic ◽  
Sören Weber1
Keyword(s):  
Stable Isotopes ◽  
Environmental Conditions ◽  
Evolutionary History ◽  
Environmental Control ◽  
Phylogenetic Signal ◽  
Individual Species ◽  
Habitat Types ◽  
Δ13c And Δ15n ◽  
Environmental Controls ◽  
Shared Ancestry

Stable carbon (C) and nitrogen (N) isotopes in plants are important indicators of plant water use efficiency and N acquisition strategies. While often regarded as being under environmental control, there is growing evidence that evolutionary history may also shape variation in stable isotope ratios (δ13C and δ15N) among plant species. Here we examined patterns of foliar δ13C and δ15N in alpine tundra for 59 species in 20 plant families. To assess the importance of environmental controls and evolutionary history, we examined if average δ13C and δ15N predictably differed among habitat types, if individual species exhibited intraspecific trait variation (ITV) in δ13C and δ15N, and if there were a significant phylogenetic signal in δ13C and δ15N. We found that variation among habitat types in both δ13C and δ15N mirrored well-known patterns of water and nitrogen limitation. Conversely, we also found that 40% of species exhibited no ITV in δ13C and 35% of species exhibited no ITV in δ15N, suggesting that some species are under stronger evolutionary control. However, we only found a modest signal of phylogenetic conservatism in δ13C and no phylogenetic signal in δ15N suggesting that shared ancestry is a weaker driver of tundra wide variation in stable isotopes. Together, our results suggest that both evolutionary history and local environmental conditions play a role in determining variation in δ13C and δ15N and that considering both factors can help with interpreting isotope patterns in nature and with predicting which species may be able to respond to rapidly changing environmental conditions.

LBA-ECO CD-02 CARBON, NITROGEN, OXYGEN STABLE ISOTOPES IN ORGANIC MATERIAL, BRAZIL

2010 ◽  
Author(s):  
J. BERRY, ◽  
C. COOK, ◽  
T.F. DOMINGUES, ◽  
J. EHLERINGER, ◽  
L. FLANAGAN, ◽  
...  
Keyword(s):  
Stable Isotopes ◽  
Organic Material ◽  
Oxygen Stable Isotopes
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