An Experimentally-Supported Genome-Scale Metabolic Network Reconstruction for Yersinia pestis CO92

Journal Article · Thu Oct 13 00:00:00 EDT 2011 · BMC Systems Biology

DOI:https://doi.org/10.1186/1752-0509-5-163· OSTI ID:1031409

Charusanti, Pep; Chauhan, Sadhana; Mcateer, Kathleen; Lerman, Joshua A; Hyduke, Daniel R; Motin, Vladimir L; Ansong, Charles; Adkins, Joshua N; Palsson, Bernhard O

Yersinia pestis is a gram-negative bacterium that causes plague, a disease linked historically to the Black Death in Europe during the Middle Ages and to several outbreaks during the modern era. Metabolism in Y. pestis displays remarkable flexibility and robustness, allowing the bacterium to proliferate in both warm-blooded mammalian hosts and cold-blooded insect vectors such as fleas. Here we report a genome-scale reconstruction and mathematical model of metabolism for Y. pestis CO92 and supporting experimental growth and metabolite measurements. The model contains 815 genes, 678 proteins, 963 unique metabolites and 1678 reactions, accurately simulates growth on a range of carbon sources both qualitatively and quantitatively, and identifies gaps in several key biosynthetic pathways and suggests how those gaps might be filled. Furthermore, our model presents hypotheses to explain certain known nutritional requirements characteristic of this strain. Y. pestis continues to be a dangerous threat to human health during modern times. The Y. pestis genome-scale metabolic reconstruction presented here, which has been benchmarked against experimental data and correctly reproduces known phenotypes, thus provides an in silico platform with which to investigate the metabolism of this important human pathogen.

• Research Organization: Pacific Northwest National Lab. (PNNL), Richland, WA (United States). Environmental Molecular Sciences Lab. (EMSL)
• Sponsoring Organization: USDOE
• DOE Contract Number: AC05-76RL01830
• OSTI ID: 1031409
• Report Number(s): PNNL-SA-83355; 33210; 42294; 44753; 400412000; TRN: US201201%%584
• Journal Information: BMC Systems Biology, Vol. 5
• Country of Publication: United States
• Language: English

Related Subjects

59 BASIC BIOLOGICAL SCIENCES
60 APPLIED LIFE SCIENCES
CARBON SOURCES
DEATH
DISEASES
EUROPE
FLEXIBILITY
GENES
INSECTS
MATHEMATICAL MODELS
METABOLISM
METABOLITES
PROTEINS
VECTORS
FATTY-ACID-COMPOSITION
LOW-CALCIUM RESPONSE
LYSINE BIOSYNTHESIS
PHYSIOLOGICAL-BASIS
SEQUENCE
LIPOPOLYSACCHARIDE
ENZYMES
PLAGUE
PSEUDOTUBERCULOSIS
TEMPERATURE
Environmental Molecular Sciences Laboratory