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Metabolic Plasticity and Inter-Compartmental Interactions in Rice Metabolism: An Analysis from Reaction Deletion Study.
- Source :
-
PloS one [PLoS One] 2015 Jul 29; Vol. 10 (7), pp. e0133899. Date of Electronic Publication: 2015 Jul 29 (Print Publication: 2015). - Publication Year :
- 2015
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Abstract
- More than 20% of the total caloric intake of human population comes from rice. The expression of rice genes and hence, the concentration of enzymatic proteins might vary due to several biotic and abiotic stresses. It in turn, can influence the overall metabolism and survivability of rice plant. Thus, understanding the rice cellular metabolism, its plasticity and potential readjustments under different perturbations can help rice biotechnologists to design efficient rice cultivars. Here, using the flux balance analysis (FBA) method, with the help of in-silico reaction deletion strategy, we study the metabolic plasticity of genome-scale metabolic model of rice leaf. A set of 131 reactions, essential for the production of primary biomass precursors is identified; deletion of any of them can inhibit the overall biomass production. Usability Index (IU) for the rest of the reactions are estimated and based on this parameter, they are classified into three categories-maximally-favourable, quasi-favourable and unfavourable for the primary biomass production. The lower value of 1 - IU of a reaction suggests that the cell cannot easily bypass it for biomass production. While some of the alternative paths are energetically equally efficient, others demand for higher photon. The variations in (i) ATP/NADPH ratio, (ii) exchange of metabolites through chloroplastic transporters and (iii) total biomass production are also presented here. Mutual metabolic dependencies of different cellular compartments are also demonstrated.
- Subjects :
- Adenosine Triphosphate metabolism
Biomass
Chloroplasts metabolism
Chloroplasts radiation effects
Cytosol metabolism
Cytosol radiation effects
Genotype
Mitochondria metabolism
Mitochondria radiation effects
NADP metabolism
Oryza cytology
Oryza genetics
Oryza radiation effects
Photons
Photosynthesis radiation effects
Metabolic Flux Analysis
Metabolic Networks and Pathways
Oryza metabolism
Subjects
Details
- Language :
- English
- ISSN :
- 1932-6203
- Volume :
- 10
- Issue :
- 7
- Database :
- MEDLINE
- Journal :
- PloS one
- Publication Type :
- Academic Journal
- Accession number :
- 26222686
- Full Text :
- https://doi.org/10.1371/journal.pone.0133899