Metabolomics test materials for quality control: A study of a urine materials suite

Daniel W. Bearden, David A. Sheen, Yamil Simón-Manso, Bruce A. Benner, Werickson F.C. Rocha, Niksa Blonder, Katrice A. Lippa, Richard D. Beger, Laura K. Schnackenberg, Jinchun Sun, Khyati Y. Mehta, Amrita K. Cheema, Haiwei Gu, Ramesh Marupaka, G. A. Nagana Gowda, Daniel Raftery

Research output: Contribution to journalArticle

Abstract

There is a lack of experimental reference materials and standards for metabolomics measurements, such as urine, plasma, and other human fluid samples. Reasons include difficulties with supply, distribution, and dissemination of information about the materials. Additionally, there is a long lead time because reference materials need their compositions to be fully characterized with uncertainty, a labor-intensive process for material containing thousands of relevant compounds. Furthermore, data analysis can be hampered by different methods using different software by different vendors. In this work, we propose an alternative implementation of reference materials. Instead of characterizing biological materials based on their composition, we propose using untargeted metabolomic data such as nuclear magnetic resonance (NMR) or gas and liquid chromatography-mass spectrometry (GC-MS and LC-MS) profiles. The profiles are then distributed with the material accompanying the certificate, so that researchers can compare their own metabolomic measurements with the reference profiles. To demonstrate this approach, we conducted an interlaboratory study (ILS) in which seven National Institute of Standards and Technology (NIST) urine Standard Reference Material®s (SRM®s) were distributed to participants, who then returned the metabolomic data to us. We then implemented chemometric methods to analyze the data together to estimate the uncertainties in the current measurement techniques. The participants identified similar patterns in the profiles that distinguished the seven samples. Even when the number of spectral features is substantially different between platforms, a collective analysis still shows significant overlap that allows reliable comparison between participants. Our results show that a urine suite such as that used in this ILS could be employed for testing and harmonization among different platforms. A limited quantity of test materials will be made available for researchers who are willing to repeat the protocols presented here and contribute their data.

Original languageEnglish (US)
Article number270
JournalMetabolites
Volume9
Issue number11
DOIs
StatePublished - Nov 2019

Fingerprint

Metabolomics
Quality Control
Quality control
Urine
Information Dissemination
Uncertainty
Research Personnel
Gas Chromatography-Mass Spectrometry
Magnetic Resonance Spectroscopy
Software
Technology
Liquid chromatography
Electric current measurement
Chemical analysis
Gas chromatography
Biological materials
Mass spectrometry
Nuclear magnetic resonance
Personnel
Plasmas

Keywords

  • Chromatography
  • Interlaboratory study
  • Nuclear magnetic resonance
  • Principal components analysis
  • Reproducibility

ASJC Scopus subject areas

  • Endocrinology, Diabetes and Metabolism
  • Biochemistry
  • Molecular Biology

Cite this

Bearden, D. W., Sheen, D. A., Simón-Manso, Y., Benner, B. A., Rocha, W. F. C., Blonder, N., ... Raftery, D. (2019). Metabolomics test materials for quality control: A study of a urine materials suite. Metabolites, 9(11), [270]. https://doi.org/10.3390/metabo9110270

Metabolomics test materials for quality control : A study of a urine materials suite. / Bearden, Daniel W.; Sheen, David A.; Simón-Manso, Yamil; Benner, Bruce A.; Rocha, Werickson F.C.; Blonder, Niksa; Lippa, Katrice A.; Beger, Richard D.; Schnackenberg, Laura K.; Sun, Jinchun; Mehta, Khyati Y.; Cheema, Amrita K.; Gu, Haiwei; Marupaka, Ramesh; Nagana Gowda, G. A.; Raftery, Daniel.

In: Metabolites, Vol. 9, No. 11, 270, 11.2019.

Research output: Contribution to journalArticle

Bearden, DW, Sheen, DA, Simón-Manso, Y, Benner, BA, Rocha, WFC, Blonder, N, Lippa, KA, Beger, RD, Schnackenberg, LK, Sun, J, Mehta, KY, Cheema, AK, Gu, H, Marupaka, R, Nagana Gowda, GA & Raftery, D 2019, 'Metabolomics test materials for quality control: A study of a urine materials suite', Metabolites, vol. 9, no. 11, 270. https://doi.org/10.3390/metabo9110270
Bearden DW, Sheen DA, Simón-Manso Y, Benner BA, Rocha WFC, Blonder N et al. Metabolomics test materials for quality control: A study of a urine materials suite. Metabolites. 2019 Nov;9(11). 270. https://doi.org/10.3390/metabo9110270
Bearden, Daniel W. ; Sheen, David A. ; Simón-Manso, Yamil ; Benner, Bruce A. ; Rocha, Werickson F.C. ; Blonder, Niksa ; Lippa, Katrice A. ; Beger, Richard D. ; Schnackenberg, Laura K. ; Sun, Jinchun ; Mehta, Khyati Y. ; Cheema, Amrita K. ; Gu, Haiwei ; Marupaka, Ramesh ; Nagana Gowda, G. A. ; Raftery, Daniel. / Metabolomics test materials for quality control : A study of a urine materials suite. In: Metabolites. 2019 ; Vol. 9, No. 11.
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