A genomics and multi-platform metabolomics approach to identify new traits of rice quality in traditional and improved varieties

Calingacion, M. N., Boualaphanh, C., Daygon, V. D., Anacleto, R., Sackville Hamilton, R., Biais, B., Deborde, C., Maucourt, M., Moing, A., Mumm, R., de Vos, R. C. H., Erban, A., Kopka, J., Hansen, T. H., Laursen, K. H., Schjoerring, J. K., Hall, R. D. and Fitzgerald, M. A. (2012) A genomics and multi-platform metabolomics approach to identify new traits of rice quality in traditional and improved varieties. Metabolomics, 8 5: 771-783. doi:10.1007/s11306-011-0374-4


Author Calingacion, M. N.
Boualaphanh, C.
Daygon, V. D.
Anacleto, R.
Sackville Hamilton, R.
Biais, B.
Deborde, C.
Maucourt, M.
Moing, A.
Mumm, R.
de Vos, R. C. H.
Erban, A.
Kopka, J.
Hansen, T. H.
Laursen, K. H.
Schjoerring, J. K.
Hall, R. D.
Fitzgerald, M. A.
Title A genomics and multi-platform metabolomics approach to identify new traits of rice quality in traditional and improved varieties
Journal name Metabolomics   Check publisher's open access policy
ISSN 1573-3882
1573-3890
Publication date 2012-10-01
Sub-type Article (original research)
DOI 10.1007/s11306-011-0374-4
Volume 8
Issue 5
Start page 771
End page 783
Total pages 13
Place of publication New York, United States
Publisher Springer
Language eng
Subject 1303 Specialist Studies in Education
1308 Clinical Biochemistry
2712 Endocrinology, Diabetes and Metabolism
Abstract Using a novel approach combining four complementary metabolomic and mineral platforms with genome-wide genotyping at 1536 single nucleotide polymorphism (SNP) loci, we have investigated the extent of biochemical and genetic diversity in three commercially-relevant waxy rice cultivars important to food production in the Lao People's Democratic Republic (PDR). Following cultivation with different nitrogen fertiliser regimes, multiple metabolomic data sets, including minerals, were produced and analysed using multivariate statistical methods to reveal the degree of similarity between the genotypes and to identify discriminatory compounds supported by multiple technology platforms. Results revealed little effect of nitrogen supply on metabolites related to quality, despite known yield differences. All platforms revealed unique metabolic signatures for each variety and many discriminatory compounds could be identified as being relevant to consumers in terms of nutritional value and taste or flavour. For each platform, metabolomic diversity was highly associated with genetic distance between the varieties. This study demonstrates that multiple metabolomic platforms have potential as phenotyping tools to assist breeders in their quest to combine key yield and quality characteristics. This better enables rice improvement programs to meet different consumer and farmer needs, and to address food security in rice-consuming countries.
Keyword Rice
Volatile compounds
Primary polar compounds
Minerals
Q-Index Code C1
Q-Index Status Provisional Code
Institutional Status Non-UQ

Document type: Journal Article
Sub-type: Article (original research)
Collections: Non HERDC
School of Agriculture and Food Sciences
 
Versions
Version Filter Type
Citation counts: TR Web of Science Citation Count  Cited 17 times in Thomson Reuters Web of Science Article | Citations
Scopus Citation Count Cited 21 times in Scopus Article | Citations
Google Scholar Search Google Scholar
Created: Sat, 22 Mar 2014, 02:53:51 EST by Melissa Fitzgerald on behalf of School of Agriculture and Food Sciences