Exploring QSTR modeling and toxicophore mapping for identification of important molecular features contributing to the chemical toxicity in Escherichia coli.
Biodiversity deprivation can affect functions and services of the ecosystem. Changes in biodiversity alter ecosystem processes and change the resilience of ecosystems to ecological changes. Bacterial communities are the main form of biomass in the ecosystem and one of largest populations on the planet. Bacterial communities provide important services to biodiversity. They break down pollutants, municipal waste and ingested food, and they are the primary route for recycling of organic matter to plants and other autotrophs, conversion of inorganic matter into new biological tissue using sunlight, management of energy crisis through use of biofuel. In the present study, computational chemistry and statistical modeling have been used to develop mathematical equations which can be applied to calculate toxicity of new/unknown chemicals/biofuels/metabolites in Escherichia coli. 2D and 3D descriptors were generated from molecular structure of compounds and mathematical models have been developed using genetic function approximation followed by multiple linear regression (GFA-MLR) method. Model validity was checked through defined internal (R(2)=0.751 and Q(2)=0.711), and external (Rpred(2)=0.773) statistical parameters. Molecular features responsible for toxicity were also assessed through 3D toxicophore study. The toxicophore-based model was validated (R=0.785) using qualitative statistical metrics and randomization test (Fischer validation).
Drug Theoretics and Cheminformatics Laboratory, Division of Medicinal and Pharmaceutical Chemistry, Department of Pharmaceutical Technology, Jadavpur University, Kolkata 700 032, India.
Subrata
S
Pramanik
Drug Theoretics and Cheminformatics Laboratory, Division of Medicinal and Pharmaceutical Chemistry, Department of Pharmaceutical Technology, Jadavpur University, Kolkata 700 032, India. Electronic address: kunalroy_in@yahoo.com.
Kunal
K
Roy
D000465:Algorithms; D001427:Bacterial Toxins / Q000737:chemistry* / Q000633:toxicity; D044822:Biodiversity; D016208:Databases, Factual; D004926:Escherichia coli / Q000737:chemistry*; D057927:Hydrophobic and Hydrophilic Interactions; D021621:Imaging, Three-Dimensional; D008954:Models, Biological; D008956:Models, Chemical; D008958:Models, Molecular; D015233:Models, Statistical; D008962:Models, Theoretical; D021281:Quantitative Structure-Activity Relationship; D015203:Reproducibility of Results; D012984:Software
D001427:Bacterial Toxins
Biodiversity; Chemical toxicity; Escherichia coli; QSTR; Statistical modeling; Toxicophore