As a common mutation trait in plants, leaf colour is related to the degree of chlorophyll and anthocyanin changes destruction chloroplast structure. This study summarizes latest research progress mechanism, including metabolic basis plant mutation, caused by gene metabolism pathway, blocked development, controlled key transcription factors non-coding RNAs, environmental factors, due involvement...

A computational method to compare organisms based on genomewide metabolic pathway analysis was developed. Using the WIT database, a metabolic pathway profile for each completed genome is generated. These profiles are records of the presence and absence of the various metabolic pathways, and constitute the basis for a comparison of organisms. A scoring scheme and an algorithm were developed to e...

Background: Metabolic and genomic informatics integrations in organism-specific databases require comprehensive intensive efforts. PathoLogic, a component of the Pathway Tools software package can create complete Pathway/Genome Databases (PGDBs) from sequence annotation files for any organism. This tool predict metabolic pathways using MetaCyc as reference knowledge base. work aimed to apply bi...

Evolution or engineering of novel metabolic pathways can endow microbes with new abilities to degrade anthropogenic pollutants or synthesize valuable chemicals. Most studies of the evolution of new pathways have focused on the origins and quality of function of the enzymes involved. However, there is an additional layer of complexity that has received less attention. Introduction of a novel pat...

This thesis presents Pathway Informed Analysis (PIA), a classification method for predicting disease states (diagnosis) from metabolic profile measurements that incorporates biological knowledge in the form of metabolic pathways. A metabolic pathway describes a set of chemical reactions that perform a specific biological function. A significant amount of biological knowledge produced by efforts...

MOTIVATION A number of metabolic databases are available electronically, some with features for querying and visualizing metabolic pathways and regulatory networks. We present a unifying, systematic approach based on PETRI nets for storing, displaying, comparing, searching and simulating such nets from a number of different sources. RESULTS Information from each data source is extracted and c...

The intracellular metabolic fluxes can be calculated by metabolic flux analysis, which uses a stoichiometric model for the intracellular reactions along with mass balances around the intracellular metabolites. In this study, we have constructed in silico metabolic pathway network of Escherichia coli consisting of 301 reactions and 294 metabolites. Metabolic flux analyses were carried out to est...