Integrative analyses of genetic variation in enzyme activities of primary carbohydrate metabolism reveal distinct modes of regulation in Arabidopsis thaliana

Autor: Jingyuan Fu, Joost J. B. Keurentjes, Mark Stitt, Yves Gibon, Ronan Sulpice, Maarten Koornneef, Dick Vreugdenhil, Marie-Caroline Steinhauser
Přispěvatelé: Max Planck Institute of Molecular Plant Physiology (MPI-MP), Max-Planck-Gesellschaft, Bioinformatics, Faculty of Science and Engineering, Groningen Institute for Gastro Intestinal Genetics and Immunology (3GI), Center for Liver, Digestive and Metabolic Diseases (CLDM)
Jazyk: angličtina
Rok vydání: 2008
Předmět:
0106 biological sciences
carbon metabolism
Arabidopsis
NATURAL VARIATION
01 natural sciences
SECONDARY METABOLISM
nitrogen use efficiency
Arabidopsis thaliana
natural variation
Laboratorium voor Plantenfysiologie
TRANSPIRATION EFFICIENCY
ComputingMilieux_MISCELLANEOUS
Genetics
0303 health sciences
education.field_of_study
Principal Component Analysis
biology
EPS-3
Structural gene
glucose pyrophosphorylase
Chromosome Mapping
food and beverages
Article Addendum
inbred line population
Carbohydrate Metabolism
Laboratory of Genetics
GLUCOSE PYROPHOSPHORYLASE
Laboratory of Plant Physiology
Population
Quantitative Trait Loci
Quantitative trait locus
Carbohydrate metabolism
Laboratorium voor Erfelijkheidsleer
03 medical and health sciences
CARBON METABOLISM
Genetic variation
NITROGEN USE EFFICIENCY
[SDV.BV]Life Sciences [q-bio]/Vegetal Biology
RNA
Messenger
Secondary metabolism
education
parallel analysis
030304 developmental biology
secondary metabolism
CYTOSOLIC PHOSPHOGLUCOMUTASE
Arabidopsis Proteins
INBRED LINE POPULATION
Genetic Variation
Epistasis
Genetic
biology.organism_classification
transpiration efficiency
PARALLEL ANALYSIS
quantitative trait loci
cytosolic phosphoglucomutase
Lod Score
010606 plant biology & botany
Zdroj: Genome Biology
Genome Biology, BioMed Central, 2008, 9 (8), pp.R129. ⟨10.1186/gb-2008-9-8-r129⟩
Genome Biology, 9(8)
Genome Biology, 9(8):129. BMC
Genome Biology 9 (2008) 8
ISSN: 1465-6906
1474-760X
1474-7596
DOI: 10.1186/gb-2008-9-8-r129⟩
Popis: Background: Plant primary carbohydrate metabolism is complex and flexible, and is regulated at many levels. Changes of transcript levels do not always lead to changes in enzyme activities, and these do not always affect metabolite levels and fluxes. To analyze interactions between these three levels of function, we have performed parallel genetic analyses of 15 enzyme activities involved in primary carbohydrate metabolism, transcript levels for their encoding structural genes, and a set of relevant metabolites. Quantitative analyses of each trait were performed in the Arabidopsis thaliana Ler x Cvi recombinant inbred line (RIL) population and subjected to correlation and quantitative trait locus (QTL) analysis.Results: Traits affecting primary metabolism were often correlated, possibly due to developmental control affecting multiple genes, enzymes, or metabolites. Moreover, the activity QTLs of several enzymes co-localized with the expression QTLs (eQTLs) of their structural genes, or with metabolite accumulation QTLs of their substrates or products. In addition, many trait-specific QTLs were identified, revealing that there is also specific regulation of individual metabolic traits. Regulation of enzyme activities often occurred through multiple loci, involving both cis-and trans-acting transcriptional or post-transcriptional control of structural genes, as well as independently of the structural genes.Conclusion: Future studies of the regulatory processes in primary carbohydrate metabolism will benefit from an integrative genetic analysis of gene transcription, enzyme activity, and metabolite content. The multiparallel QTL analyses of the various interconnected transducers of biological information flow, described here for the first time, can assist in determining the causes and consequences of genetic regulation at different levels of complex biological systems.
Databáze: OpenAIRE
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