scholarly journals Using a genome-scale metabolic network model to elucidate the mechanism of chloroquine action in Plasmodium falciparum

2017 ◽  
Vol 7 (2) ◽  
pp. 138-146 ◽  
Author(s):  
Shivendra G. Tewari ◽  
Sean T. Prigge ◽  
Jaques Reifman ◽  
Anders Wallqvist
Keyword(s):  
Plasmodium Falciparum ◽  
Metabolic Network ◽  
Network Model ◽  
Metabolic Network Model ◽  
A Genome ◽  
Genome Scale

scholarly journals Generation and Evaluation of a Genome-Scale Metabolic Network Model of Synechococcus elongatus PCC7942

Metabolites ◽  
2014 ◽  
Vol 4 (3) ◽  
pp. 680-698 ◽  
Author(s):  
Julián Triana ◽  
Arnau Montagud ◽  
Maria Siurana ◽  
David Fuente ◽  
Arantxa Urchueguía ◽  
...  
Keyword(s):  
Metabolic Network ◽  
Network Model ◽  
Synechococcus Elongatus ◽  
Metabolic Network Model ◽  
Synechococcus Elongatus Pcc7942 ◽  
A Genome ◽  
Genome Scale

scholarly journals Integrating quantitative proteomics and metabolomics with a genome-scale metabolic network model

2010 ◽  
Vol 26 (12) ◽  
pp. i255-i260 ◽  
Author(s):  
K. Yizhak ◽  
T. Benyamini ◽  
W. Liebermeister ◽  
E. Ruppin ◽  
T. Shlomi
Keyword(s):  
Metabolic Network ◽  
Network Model ◽  
Quantitative Proteomics ◽  
Metabolic Network Model ◽  
A Genome ◽  
Genome Scale

Reconstruction and analysis of a genome-scale metabolic model for Eriocheir sinensis eyestalks

2016 ◽  
Vol 12 (1) ◽  
pp. 246-252 ◽  
Author(s):  
Bin Wang ◽  
Qianji Ning ◽  
Tong Hao ◽  
Ailing Yu ◽  
Jinsheng Sun
Keyword(s):  
Metabolic Network ◽  
Network Model ◽  
Transcriptome Sequencing ◽  
Metabolic Model ◽  
Eriocheir Sinensis ◽  
Metabolic Network Model ◽  
A Genome ◽  
Genome Scale

We reconstructed a metabolic network model for E. sinensis eyestalks based on transcriptome sequencing which contains 1304 reactions, 1381 unigenes and 1243 metabolites distributing in 98 pathways.

scholarly journals Improvement of l-arginine production by in silico genome-scale metabolic network model guided genetic engineering

3 Biotech ◽  
2020 ◽  
Vol 10 (3) ◽  
Author(s):  
Mingzhu Huang ◽  
Yue Zhao ◽  
Rong Li ◽  
Weihua Huang ◽  
Xuelan Chen
Keyword(s):  
Genetic Engineering ◽  
Metabolic Network ◽  
Network Model ◽  
In Silico ◽  
Metabolic Network Model ◽  
Genome Scale

IN SILICO GENOME-SCALE RECONSTRUCTION AND ANALYSIS OF THE SHEWANELLA LOIHICA PV-4 METABOLIC NETWORK

2018 ◽  
Vol 26 (03) ◽  
pp. 373-397
Author(s):  
ZIXIANG XU ◽  
JING GUO ◽  
YUNXIA YUE ◽  
JING MENG ◽  
XIAO SUN
Keyword(s):  
Metabolic Network ◽  
Network Model ◽  
Microbial Fuel Cells ◽  
Metabolic Networks ◽  
Acid Metabolism ◽  
Electricity Production ◽  
Nucleic Acid Metabolism ◽  
Exchange Reactions ◽  
A Genome ◽  
Genome Scale

Microbial Fuel Cells (MFCs) are devices that generate electricity directly from organic compounds with microbes (electricigens) serving as anodic catalysts. As a novel environment-friendly energy source, MFCs have extensive practical value. Since the biological features and metabolic mechanism of electricigens have a great effect on the electricity production of MFCs, it is a big deal to screen strains with high electricity productivity for improving the power output of MFC. Reconstructions and simulations of metabolic networks are of significant help in studying the metabolism of microorganisms so as to guide gene engineering and metabolic engineering to improve their power-generating efficiency. Herein, we reconstructed a genome-scale constraint-based metabolic network model of Shewanella loihica PV-4, an important electricigen, based on its genomic functional annotations, reaction databases and published metabolic network models of seven microorganisms. The resulting network model iGX790 consists of 902 reactions (including 71 exchange reactions), 798 metabolites and 790 genes, covering the main pathways such as carbon metabolism, energy metabolism, amino acid metabolism, nucleic acid metabolism and lipid metabolism. Using the model, we simulated the growth rate, the maximal synthetic rate of ATP, the flux variability analysis of metabolic network, gene deletion and so on to examine the metabolism of S. loihica PV-4.

Applications of genome-scale metabolic network model in metabolic engineering

2014 ◽  
Vol 42 (3) ◽  
pp. 339-348 ◽  
Author(s):  
Byoungjin Kim ◽  
Won Jun Kim ◽  
Dong In Kim ◽  
Sang Yup Lee
Keyword(s):  
Metabolic Engineering ◽  
Metabolic Network ◽  
Network Model ◽  
Metabolic Network Model ◽  
Genome Scale

Modeling metabolism and stage-specific growth of Plasmodium falciparum HB3 during the intraerythrocytic developmental cycle

2014 ◽  
Vol 10 (10) ◽  
pp. 2526-2537 ◽  
Author(s):  
Xin Fang ◽  
Jaques Reifman ◽  
Anders Wallqvist
Keyword(s):  
Gene Expression ◽  
Plasmodium Falciparum ◽  
Metabolic Network ◽  
Network Model ◽  
Specific Growth ◽  
Time Dependent ◽  
Developmental Cycle ◽  
Physiological Functions ◽  
Metabolic Network Model ◽  
Intraerythrocytic Developmental Cycle

We developed a metabolic network model that maps hourly gene expression to time-dependent metabolism and stage-specific growth, allowing us to link specific metabolites or pathways to specific physiological functions.

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