17 documents found, page 1 of 2

Publisher Correction: MEMOTE for standardized genome-scale metabolic model testing

An amendment to this paper has been published and can be accessed via a link at the top of the paper.

Method for n-butanol production using heterologous expression of anaerobic path...

The present invention relates to a method for the production of n-butanol using a transgenic cell with heterologous expression of 2-hydroxyglutarate dehydrogenase, glutaconate-CoA transferase, (R)-2-hydroxyglutaryl-CoA dehydrogenase, glutaryl CoA dehydrogenase, trans- 2-enoyl-CoA reductase (NAD+) and bifunctional aldehyde / alcohol dehydrogenase (NAD+).

Turnover dependent phenotypic simulation: a quantitative constraint-based simul...

The uncertain relationship between genotype and phenotype can make strain engineering an arduous trial and error process. To identify promising gene targets faster, constraint-based modelling methodologies are often used, although they remain limited in their predictive power. Even though the search for gene knock-outs is fairly established in constraint-based modelling, most strain design methods still model g...

Discovery and implementation of a novel pathway for n-butanol production via 2-...

Background One of the European Union directives indicates that 10% of all fuels must be bio-synthesized by 2020. In this regard, biobutanolnatively produced by clostridial strainsposes as a promising alternative biofuel. One possible approach to overcome the difficulties of the industrial exploration of the native producers is the expression of more suitable pathways in robust microorganisms such as Escherichia...

In silico predictions for fucoxanthin production by the diatom Phaeodactylum tr...

Diatoms and brown seaweeds are the main producers of fucoxanthin, an oxy-carotenoid with important biological functions related to its antioxidative properties. The diatom Phaeodactylum tricornutum appears in this scenario as a good source for fucoxanthin production. Its whole genome sequence was published in 2008, and some genome-scale metabolic models are currently available. This work intends to make use of ...

Development of novel genome-scale reconstruction strategies for production of t...

Genome-wide semi-automated annotation of transporter systems

Usually, transport reactions are added to genome-scale metabolic models (GSMMs) based on experimental data and literature. This approach does not allow associating specific genes with transport reactions, which impairs the ability of the model to predict effects of gene deletions. Novel methods for systematic genome-wide transporter functional annotation and their integration into GSMMs are therefore necessary....

A critical evaluation of automatic atom mapping algorithms and tools

The identification of the atoms which change their position in chemical reactions is an important knowledge within the field of Metabolic Engineering. This can lead to new advances at different levels from the reconstruction of metabolic networks to the classification of chemical reactions, through the identification of the atomic changes inside a reaction. The Atom Mapping approach was initially developed in t...

MIYeastK: The Metabolic Integrated Yeast Knowledgebase

The yeast Saccharomyces cerevisiae is one of the most widely used cell factories in industrial biotechnology. However, the development of optimized yeast strains for the production of novel compounds is a time-consuming process and represents a significant cost/time burden. Currently, genome-scale metabolic models play an important role to reduce cost and time in order to develop improved strains. Nevertheless,...

Reconstruction of a genome-scale metabolic model for Actinobacillus succinogenes