Differential metabolomics software for capillary electrophoresis-mass spectrometry data analysis

Sugimoto, Masahiro; Hirayama, Akiyoshi; Ishikawa, Takamasa; Robert, Martin; Baran, Richard; Uehara, Keizo; Kawai, Katsuya; Soga, Tomoyoshi; Tomita, Masaru

doi:10.1007/s11306-009-0175-1

Cited by 50 publications

(29 citation statements)

References 57 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…3 80 cm total length), with Anion Buffer Solution (Human Metabolome Technologies) as the electrolyte (Soga et al, 2007). Raw data obtained by CE-TOFMS were processed with MasterHands (Sugimoto et al, 2010). Signal peaks corresponding to isotopomers of 108 compounds including intermediates of the glycolytic system, intermediates of the TCA cycle, and AAs were extracted.…”

Section: Measurement Of Ionic Metabolites By Ce-tofmsmentioning

confidence: 99%

Autophagy Contributes to Nighttime Energy Availability for Growth in Arabidopsis

et al. 2013

View full text Add to dashboard Cite

Autophagy is an intracellular process leading to the vacuolar degradation of cytoplasmic components. Autophagic degradation of chloroplasts is particularly activated in leaves under conditions of low sugar availability. Here, we investigated the importance of autophagy in the energy availability and growth of Arabidopsis (Arabidopsis thaliana). autophagy-deficient (atg) mutants showed reduced growth under short-day conditions. This growth inhibition was largely relieved under continuous light or under short-day conditions combined with feeding of exogenous sucrose, suggesting that autophagy is involved in energy production at night for growth. Arabidopsis accumulates starch during the day and degrades it for respiration at night. Nighttime energy availability is perturbed in starchless mutants, in which a lack of starch accumulation causes a transient sugar deficit at night. We generated starchless and atg double mutants and grew them under different photoperiods. The double mutants showed more severe phenotypes than did atg or starchless single mutants: reduced growth and early cell death in leaves were observed when plants were grown under 10-h photoperiods. Transcript analysis of dark-inducible genes revealed that the sugar starvation symptoms observed in starchless mutants became more severe in starchless atg double mutants. The contents of free amino acids (AAs) increased, and transcript levels of several genes involved in AA catabolism were elevated in starchless mutant leaves. The increases in branched-chain AA and aromatic AA contents were partially compromised in starchless atg double mutants. We conclude that autophagy can contribute to energy availability at night by providing a supply of alternative energy sources such as AAs.

show abstract

Section: Measurement Of Ionic Metabolites By Ce-tofmsmentioning

confidence: 99%

Autophagy Contributes to Nighttime Energy Availability for Growth in Arabidopsis

et al. 2013

View full text Add to dashboard Cite

show abstract

“…Glutathione, γ-Glu-Val, and γ-Glu-Val-Gly were analyzed by Agilent CE-TOFMS system (Agilent Technologies; Waldbronn, Germany) equipped with Agilent 6210 time of flight mass spectrometer, Agilent 1100 isocratic HPLC pump, Agilent G1603A CE-MS adapter kit, and Agilent G1607A CE-ESI-MS sprayer kit, as described previously (Sugimoto et al, 2010). The system was controlled by Agilent G2201AA ChemStation software version B.03.01 for CE.…”

Section: Identification and Measurement Of Kokumi Substances In "Tamari"mentioning

confidence: 99%

Increase of “Umami” and “Kokumi” Compounds in Miso, Fermented Soybeans, by the Addition of Bacterial γ-Glutamyltranspeptidase

Suzuki

2013

Int. J. Food Stud.

View full text Add to dashboard Cite

γ-Glutamyltranspeptidase (GGT) hydrolyzes γ-glutamyl compounds and transfers their γ-glutamyl moieties to amino acids and peptides. We previously showed that the "umami" taste of soy sauce could be improved by the addition of salt-tolerant Bacillus subtilis GGT to the fermentation mixture, "moromi". Although miso fermentation is a semi-solid fermentation, unlike soy sauce fermentation, this was also the case. When 15 units of purified B. subtilis GGT were added to 418 g miso "moromi" (fermentation mixture), the glutamate concentration in "moromi" became 20 mM higher and the "umami" taste became stronger than without the addition of GGT after 2 to 6 months of fermentation. In addition, γ-Glu-Val and γ-Glu-Val-Gly, which are known as "kokumi" peptides, were identified in "tamari", and the concentrations of these γ-glutamyl peptides in "tamari" fermented by the addition of GGT were significantly higher than those of "moromi" without the addition of GGT. These results indicate that B. subtilis GGT is able to improve the taste of miso.

show abstract

“…Other conditions were described in the previous report (Soga et al 2006). Data analysis was performed on the raw CE-TOFMS data using our proprietary software called MasterHands (Sugimoto et al 2009(Sugimoto et al , 2010a. Briefly, the peaks were detected from sliced electropherograms (m/z 0 .…”

Section: Ce-tofms Conditions For Cationic Metabolite Analysismentioning

confidence: 99%

Sex-dependent hepatic transcripts and metabolites in the development of glucose intolerance and insulin resistance in Zucker diabetic fatty rats

Gustavsson

Soga²,

Wahlström

et al. 2011

Journal of Molecular Endocrinology

Self Cite

View full text Add to dashboard Cite

Male Zucker diabetic fatty (mZDF) rats spontaneously develop type 2 diabetes, whereas females only become diabetic when fed a diabetogenic high-fat diet (high-fat-fed female ZDF rat, HF-fZDF). The aim of this study was to investigate if differences in liver functions could provide clues to this sex difference. Non-diabetic obese fZDF rats were compared with either mZDF or HF-fZDF regarding hepatic molecular profiles, to single out those components that might be protective in the females. High-fat feeding in fZDF led to enhanced weight gain, increased blood glucose and insulin levels, reduced insulin sensitivity and a trend towards reduced glucose tolerance, indicative of a prediabetic state. mZDF rats were diabetic, with low levels of insulin, high levels of glucose, reduced insulin sensitivity and impaired glucose tolerance. Transcript profiling and capillary electrophoresis time-of-flight mass spectrometry were used to indentify hepatic transcripts and metabolites that might be related to this. Many diet-induced alterations in transcript and metabolite levels in female rats were towards a 'male-like' phenotype, including reduced lipogenesis, increased fatty acid (FA) oxidation and increased oxidative stress responses. Alterations detected at the level of hepatic metabolites, indicated lower capacity for glutathione (GSH) production in male rats, and higher GSH turnover in females. Taken together, this could be interpreted as if anabolic pathways involving lipogenesis and lipid output might limit the degree of FA oxidation and oxidative stress in female rats. Together with a greater capacity to produce GSH, these hepatic sex differences might contribute to the sex-different development of diabetes in ZDF rats.

show abstract

Differential metabolomics software for capillary electrophoresis-mass spectrometry data analysis

Cited by 50 publications

References 57 publications

Autophagy Contributes to Nighttime Energy Availability for Growth in Arabidopsis

Autophagy Contributes to Nighttime Energy Availability for Growth in Arabidopsis

Increase of “Umami” and “Kokumi” Compounds in Miso, Fermented Soybeans, by the Addition of Bacterial γ-Glutamyltranspeptidase

Sex-dependent hepatic transcripts and metabolites in the development of glucose intolerance and insulin resistance in Zucker diabetic fatty rats

Contact Info

Product

Resources

About