Metabolomics method to comprehensively analyze amino acids in different domains

Haiwei Gu, Jianhai Du, Fausto Carnevale Neto, Patrick A. Carroll, Sally J. Turner, E. Gabriela Chiorean, Robert N. Eisenman, Daniel Raftery

Research output: Contribution to journalArticle

15 Citations (Scopus)

Abstract

Amino acids play essential roles in both metabolism and the proteome. Many studies have profiled free amino acids (FAAs) or proteins; however, few have connected the measurement of FAA with individual amino acids in the proteome. In this study, we developed a metabolomics method to comprehensively analyze amino acids in different domains, using two examples of different sample types and disease models. We first examined the responses of FAAs and insoluble-proteome amino acids (IPAAs) to the Myc oncogene in Tet21N human neuroblastoma cells. The metabolic and proteomic amino acid profiles were quite different, even under the same Myc condition, and their combination provided a better understanding of the biological status. In addition, amino acids were measured in 3 domains (FAAs, free and soluble-proteome amino acids (FSPAAs), and IPAAs) to study changes in serum amino acid profiles related to colon cancer. A penalized logistic regression model based on the amino acids from the three domains had better sensitivity and specificity than that from each individual domain. To the best of our knowledge, this is the first study to perform a combined analysis of amino acids in different domains, and indicates the useful biological information available from a metabolomics analysis of the protein pellet. This study lays the foundation for further quantitative tracking of the distribution of amino acids in different domains, with opportunities for better diagnosis and mechanistic studies of various diseases.

Original languageEnglish (US)
Pages (from-to)2726-2734
Number of pages9
JournalAnalyst
Volume140
Issue number8
DOIs
StatePublished - Apr 21 2015
Externally publishedYes

Fingerprint

Metabolomics
Amino acids
amino acid
Amino Acids
Proteome
Proteins
method
Logistic Models
myc Genes
Essential Amino Acids
protein
proteomics
Neuroblastoma
Metabolism
Proteomics
Colonic Neoplasms

ASJC Scopus subject areas

  • Analytical Chemistry
  • Biochemistry
  • Environmental Chemistry
  • Spectroscopy
  • Electrochemistry

Cite this

Gu, H., Du, J., Carnevale Neto, F., Carroll, P. A., Turner, S. J., Chiorean, E. G., ... Raftery, D. (2015). Metabolomics method to comprehensively analyze amino acids in different domains. Analyst, 140(8), 2726-2734. https://doi.org/10.1039/c4an02386b

Metabolomics method to comprehensively analyze amino acids in different domains. / Gu, Haiwei; Du, Jianhai; Carnevale Neto, Fausto; Carroll, Patrick A.; Turner, Sally J.; Chiorean, E. Gabriela; Eisenman, Robert N.; Raftery, Daniel.

In: Analyst, Vol. 140, No. 8, 21.04.2015, p. 2726-2734.

Research output: Contribution to journalArticle

Gu, H, Du, J, Carnevale Neto, F, Carroll, PA, Turner, SJ, Chiorean, EG, Eisenman, RN & Raftery, D 2015, 'Metabolomics method to comprehensively analyze amino acids in different domains', Analyst, vol. 140, no. 8, pp. 2726-2734. https://doi.org/10.1039/c4an02386b
Gu H, Du J, Carnevale Neto F, Carroll PA, Turner SJ, Chiorean EG et al. Metabolomics method to comprehensively analyze amino acids in different domains. Analyst. 2015 Apr 21;140(8):2726-2734. https://doi.org/10.1039/c4an02386b
Gu, Haiwei ; Du, Jianhai ; Carnevale Neto, Fausto ; Carroll, Patrick A. ; Turner, Sally J. ; Chiorean, E. Gabriela ; Eisenman, Robert N. ; Raftery, Daniel. / Metabolomics method to comprehensively analyze amino acids in different domains. In: Analyst. 2015 ; Vol. 140, No. 8. pp. 2726-2734.
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