CPL - Chalmers Publication Library
| Utbildning | Forskning | Styrkeområden | Om Chalmers | In English In English Ej inloggad.

Genome-Scale Model Reveals Metabolic Basis of Biomass Partitioning in a Model Diatom

Jennifer Levering ; Jared Broddrick ; Christopher L. Dupont ; Graham Peers ; Karen Beeri ; Joshua Mayers (Institutionen för biologi och bioteknik, Industriell bioteknik) ; Alessandra A. Gallina ; Andrew E. Allen ; Bernhard O. Palsson ; Karsten Zengler
PLoS ONE (1932-6203). Vol. 11 (2016), 5,
[Artikel, refereegranskad vetenskaplig]

Diatoms are eukaryotic microalgae that contain genes from various sources, including bacteria and the secondary endosymbiotic host. Due to this unique combination of genes, diatoms are taxonomically and functionally distinct from other algae and vascular plants and confer novel metabolic capabilities. Based on the genome annotation, we performed a genome-scale metabolic network reconstruction for the marine diatom Phaeodactylum tricornutum. Due to their endosymbiotic origin, diatoms possess a complex chloroplast structure which complicates the prediction of subcellular protein localization. Based on previous work we implemented a pipeline that exploits a series of bioinformatics tools to predict protein localization. The manually curated reconstructed metabolic network iLB1027_lipid accounts for 1,027 genes associated with 4,456 reactions and 2,172 metabolites distributed across six compartments. To constrain the genome-scale model, we determined the organism specific biomass composition in terms of lipids, carbohydrates, and proteins using Fourier transform infrared spectrometry. Our simulations indicate the presence of a yet unknown glutamine-ornithine shunt that could be used to transfer reducing equivalents generated by photosynthesis to the mitochondria. The model reflects the known biochemical composition of P. tricornutum in defined culture conditions and enables metabolic engineering strategies to improve the use of P. tricornutum for biotechnological applications.

Nyckelord: diatoms, chloroplasts, lipids, metabolities



Denna post skapades 2016-06-17. Senast ändrad 2016-07-05.
CPL Pubid: 237835

 

Läs direkt!

Lokal fulltext (fritt tillgänglig)

Länk till annan sajt (kan kräva inloggning)


Institutioner (Chalmers)

Institutionen för biologi och bioteknik, Industriell bioteknik

Ämnesområden

Bioinformatik och systembiologi

Chalmers infrastruktur