Reconstruction of the Fatty Acid Biosynthetic Pathway of Exiguobacterium antarcticum B7 Based on Genomic and Bibliomic Data

• Published in: BioMed research international Vol. 2016; no. 2016; pp. 1 - 9
• Main Authors: Schneider, Maria P. C., Marques, Rodolfo, Oliveira, Rui, Carepo, Marta S. P., Silva, Artur, Baraúna, Rafael A., Kawasaki, Regiane, Ramos, Rommel
• Format: Journal Article
• Language: English
• Published: Cairo, Egypt Hindawi Publishing Corporation 01.01.2016; John Wiley & Sons, Inc; Hindawi Limited
• Subjects: Adaptation; Amino acids; Analysis; Bacillales - genetics; Bacillales - metabolism; Bacteria; Biosynthesis; Cold; Computational Biology - methods; Databases, Genetic; Enzymes; Exiguobacterium antarcticum; Fatty acids; Fatty Acids - biosynthesis; Fatty Acids - metabolism; Gene expression; Genes; Genetic engineering; Genome, Bacterial; Genomes; Genomics; Linear programming; Metabolic Networks and Pathways - genetics; Metabolism; Metabolites; Methods; Microorganisms; Organisms; Physiology; Software; United States > US
• ISSN: 2314-6133; 2314-6141
• DOI: 10.1155/2016/7863706

Exiguobacterium antarcticum B7 is extremophile Gram-positive bacteria able to survive in cold environments. A key factor to understanding cold adaptation processes is related to the modification of fatty acids composing the cell membranes of psychrotrophic bacteria. In our study we show the in silico reconstruction of the fatty acid biosynthesis pathway of E. antarcticum B7. To build the stoichiometric model, a semiautomatic procedure was applied, which integrates genome information using KEGG and RAST/SEED. Constraint-based methods, namely, Flux Balance Analysis (FBA) and elementary modes (EM), were applied. FBA was implemented in the sense of hexadecenoic acid production maximization. To evaluate the influence of the gene expression in the fluxome analysis, FBA was also calculated using the log2⁡FC values obtained in the transcriptome analysis at 0°C and 37°C. The fatty acid biosynthesis pathway showed a total of 13 elementary flux modes, four of which showed routes for the production of hexadecenoic acid. The reconstructed pathway demonstrated the capacity of E. antarcticum B7 to de novo produce fatty acid molecules. Under the influence of the transcriptome, the fluxome was altered, promoting the production of short-chain fatty acids. The calculated models contribute to better understanding of the bacterial adaptation at cold environments.