Biomarker metabolites capturing the metabolite variance present in a rice plant developmental period View Full Text


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Article Info

DATE

2005-05-31

AUTHORS

Lee Tarpley, Anthony L Duran, Tesfamichael H Kebrom, Lloyd W Sumner

ABSTRACT

BACKGROUND: This study analyzes metabolomic data from a rice tillering (branching) developmental profile to define a set of biomarker metabolites that reliably captures the metabolite variance of this plant developmental event, and which has potential as a basis for rapid comparative screening of metabolite profiles in relation to change in development, environment, or genotype. Changes in metabolism, and in metabolite profile, occur as a part of, and in response to, developmental events. These changes are influenced by the developmental program, as well as external factors impinging on it. Many samples are needed, however, to characterize quantitative aspects of developmental variation. A biomarker metabolite set could benefit screening of quantitative plant developmental variation by providing some of the advantages of both comprehensive metabolomic studies and focused studies of particular metabolites or pathways. RESULTS: An appropriate set of biomarker metabolites to represent the plant developmental period including the initiation and early growth of rice tillering (branching) was obtained by: (1) determining principal components of the comprehensive metabolomic profile, then (2) identifying clusters of metabolites representing variation in loading on the first three principal components, and finally (3) selecting individual metabolites from these clusters that were known to be common among diverse organisms. The resultant set of 21 biomarker metabolites was reliable (P = 0.001) in capturing 83% of the metabolite variation in development. Furthermore, a subset of the biomarker metabolites was successful (P = 0.05) in correctly predicting metabolite change in response to environment as determined in another rice metabolomics study. CONCLUSION: The ability to define a set of biomarker metabolites that reliably captures the metabolite variance of a plant developmental event was established. The biomarker metabolites are all commonly present in diverse organisms, so studies of their quantitative relationships can provide comparative information concerning metabolite profiles in relation to change in plant development, environment, or genotype. More... »

PAGES

8-8

References to SciGraph publications

  • 2002-01. Metabolomics – the link between genotypes and phenotypes in PLANT MOLECULAR BIOLOGY
  • 2000-11. Metabolite profiling for plant functional genomics in NATURE BIOTECHNOLOGY
  • Identifiers

    URI

    http://scigraph.springernature.com/pub.10.1186/1471-2229-5-8

    DOI

    http://dx.doi.org/10.1186/1471-2229-5-8

    DIMENSIONS

    https://app.dimensions.ai/details/publication/pub.1043932932

    PUBMED

    https://www.ncbi.nlm.nih.gov/pubmed/15927065


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