Natural abundance stable isotopes and dual isotope tracer additions help to resolve resources supporting a saltmarsh food web

2011 ◽  
Vol 410 ◽  
pp. 1-11 ◽  
Author(s):  
Kari Galván ◽  
John W. Fleeger ◽  
Bruce Peterson ◽  
D. Drake ◽  
Linda A. Deegan ◽  
...  
2021 ◽  
Author(s):  
Yujue Wang ◽  
Lance Parsons ◽  
Xiaoyang Su

Stable isotope labeling techniques have been widely applied in the field of metabolomics and proteomics. Before the measured mass spectrum data can be used for quantitative analysis, it must be accurately corrected for isotope natural abundance and tracer isotopic impurity. Despite the increasing popularity of dual-isotope tracing strategy such as <sup>13</sup>C-<sup>15</sup>N or <sup>13</sup>C-<sup>2</sup>H, there is no accurate tool for correcting isotope natural abundance for such experiments. Here, we present AccuCor2 as an R-based tool to perform the correction for <sup>13</sup>C-<sup>15</sup>N or <sup>13</sup>C-<sup>2</sup>H labeling experiments. Our results show that the dual-isotope experiments often require a mass resolution that is high enough to resolve <sup>13</sup>C and <sup>15</sup>N or <sup>13</sup>C and <sup>2</sup>H.Otherwise the labeling pattern is not solvable. However, this mass resolution may not be sufficiently high to resolve other non-tracer elements such as oxygen or sulfur from the tracer elements. Therefore, we design AccuCor2 to perform the correction based on the actual mass resolution of the measurements. Using both simulated and experimental data, we show that AccuCor2 performs accurate and resolution dependent correction for dual-isotope tracer data.


2021 ◽  
Author(s):  
Yujue Wang ◽  
Lance Parsons ◽  
Xiaoyang Su

Stable isotope labeling techniques have been widely applied in the field of metabolomics and proteomics. Before the measured mass spectrum data can be used for quantitative analysis, it must be accurately corrected for isotope natural abundance and tracer isotopic impurity. Despite the increasing popularity of dual-isotope tracing strategy such as <sup>13</sup>C-<sup>15</sup>N or <sup>13</sup>C-<sup>2</sup>H, there is no accurate tool for correcting isotope natural abundance for such experiments. Here, we present AccuCor2 as an R-based tool to perform the correction for <sup>13</sup>C-<sup>15</sup>N or <sup>13</sup>C-<sup>2</sup>H labeling experiments. Our results show that the dual-isotope experiments often require a mass resolution that is high enough to resolve <sup>13</sup>C and <sup>15</sup>N or <sup>13</sup>C and <sup>2</sup>H.Otherwise the labeling pattern is not solvable. However, this mass resolution may not be sufficiently high to resolve other non-tracer elements such as oxygen or sulfur from the tracer elements. Therefore, we design AccuCor2 to perform the correction based on the actual mass resolution of the measurements. Using both simulated and experimental data, we show that AccuCor2 performs accurate and resolution dependent correction for dual-isotope tracer data.


2018 ◽  
Vol 146 ◽  
pp. 30-36 ◽  
Author(s):  
Takashi Onodera ◽  
Gen Kanaya ◽  
Masashi Hatamoto ◽  
Ayato Kohzu ◽  
Akinori Iguchi ◽  
...  

2020 ◽  
Vol 154 ◽  
pp. 111053 ◽  
Author(s):  
Hyun Je Park ◽  
Jung Hyun Kwak ◽  
Hee Yoon Kang ◽  
Kee-Young Kwon ◽  
Weolae Lim ◽  
...  

2019 ◽  
Vol 110 (4) ◽  
pp. 873-882 ◽  
Author(s):  
Sindhu Kashyap ◽  
Aneesia Varkey ◽  
Nirupama Shivakumar ◽  
Sarita Devi ◽  
Rajashekar Reddy B H ◽  
...  

ABSTRACTBackgroundGood-quality plant protein sources are important for protein adequacy in a balanced diet. Legumes are known to be a source of good quality plant protein, but the true ileal digestibility of indispensable amino acids (IAAs) of commonly consumed legumes is not known in humans.ObjectivesIn this study we measured the true ileal IAA digestibility of 2H-intrinsically labeled chickpea, yellow pea, and mung bean (hulled and dehulled) protein, using the dual-isotope tracer technique referenced to a standard protein ([U-13C] spirulina). The study also aimed to validate the use of [U-13C] spirulina as a reference protein in this method.Methods2H-intrinsically labeled legumes, obtained by watering plants with deuterium oxide (2H2O), were administered in a plateau feeding method to healthy Indian adults to measure their true ileal IAA digestibility with the dual-isotope tracer technique, using [U-13C] spirulina protein or a 13C-algal IAA mixture as the standard.ResultThe true ileal IAA digestibilities (mean ± SD) of chickpea, yellow pea, and mung bean were 74.6 ± 0.8%, 71.6 ± 1.3%, and 63.2 ± 1.5%, respectively. The true mean ileal IAA digestibility of mung bean when referenced to [U-13C] spirulina protein or a 13C-algal IAA mixture did not differ significantly (63.2 ± 1.5% versus 64.0 ± 2.4%, P > 0.05). The true ileal IAA digestibility of mung bean improved to 70.9 ± 2.1% after dehulling.ConclusionsThe true mean ileal IAA digestibility of legumes in healthy Indian adults was lower than expected. Traditional processing techniques such as dehulling improve protein digestibility by about 8%. This study was registered in the Clinical Trials Registry of India (CTRI): CTRI/2017/11/010468 (http://ctri.nic.in, accessed on 28/03/2019).


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