Programmable balancing of growth and formation of poyhydroxyalkanoates in Escherichia coli

• Grant number: 13/50357-2
• Support Opportunities: Regular Research Grants
• Start date: February 01, 2014
• End date: October 31, 2018
• Field of knowledge: Biological Sciences - Microbiology - Applied Microbiology
• Agreement: Netherlands Organisation for Scientific Research (NWO)
• Principal Investigator: José Gregório Cabrera Gomez
• Grantee: José Gregório Cabrera Gomez
• Principal researcher abroad: Walter M. van Gulik
• Institution abroad: Delft University of Technology (TU Delft), Netherlands
• Host Institution: Instituto de Ciências Biomédicas (ICB). Universidade de São Paulo (USP). São Paulo , SP, Brazil

Abstract

The replacement of petrochemical products such as plastics by renewable, bio-based substitutes is a first-order priority in the technological agendas of our countries. For a successful transition, efficient design-based cell factories are required. While decades of research have increased our knowledge in metabolic network function, the quantitative understanding of the regulatory mechanisms is still far from being complete. With this project, we intend to develop quantitative models to design a 'programmable' balancing between growth and product formation. Using as a case study the production of a bio-plastic (polyhydroxyalkanoate) in Escherichia coli, we want to address the following questions: Which metabolites from central carbon metabolism are the signals that determine the growth rate? Can we reprogram the allocation of cellular resourcesbetween the generation of a product of interest and biomass formation by altering these signals andjor altering the signaling routes? To identify and study the roles of these "signaling metabolites" in the interaction between the metabolic and regulatory networks, we will manipulate the nature and availability of the nutrients and we will change the net stoichiometry of the glycolysis. To get insight into the systemic changes after the proposed manipulations, we will obtain quantitative data on the growth rates, the metabolic fluxes, transcriptional changes, proteomic profiles and concentrations of intracellular metabolites. We intend to develop a comprehensive model able to describe the observed changes and predict the outcome of similar metabolic interventions. With the collaboration between our laboratories at the Delft University of Technology and the University of Sao Paulo, we will have a multidisciplinary team with expertise in molecular biology, polyhydroxyalkanoate synthesis, quantitative proteomics and metabolomics, fluxomics and metabolic modeling. To exchange knowledge and divulge our results, we plan a joint advanced course in Brazil entitled 'Microbial Systems Biology'; half-yearly meetings, and an open workshop at the end of this project. (AU)

Scientific publications

(5)

(References retrieved automatically from Web of Science and SciELO through information on FAPESP grants and their corresponding numbers as mentioned in the publications by the authors)

OLAVARRIA, KAREL; CARNET, ALEXANDRE; VAN RENSELAAR, JOACHIM; QUAKKELAAR, CASPAR; CABRERA, RICARDO; DA SILVA, LEONOR GUEDES; SMIDS, ARON L.; ANDRES VILLALOBOS, PABLO; VAN LOOSDRECHT, MARK C. M.; WAHL, S. ALJOSCHA. An NADH preferring acetoacetyl-CoA reductase is engaged in poly-3-hydroxybutyrate accumulation in Escherichia coli. Journal of Biotechnology, v. 325, p. 215-224, JAN 10 2021. (13/50357-2)

CARDINALI-REZENDE, JULIANA; RADUAN ALEXANDRINO, PAULO MOISES; PEREIRA DE SOUZA NAHAT, RAFAEL AUGUSTO THEODORO; VIEIRA SANT'ANA, DEBORA PARRINE; SILVA, LUIZIANA FERREIRA; CABRERA GOMEZ, JOSE GREGORIO; TACIRO, MARILDA KEICO. Draft Genome Sequence of Pseudomonas sp. Strain LFM046, a Producer of Medium-Chain-Length Polyhydroxyalkanoate. MICROBIOLOGY RESOURCE ANNOUNCEMENTS, v. 3, n. 4, JUL-AUG 2015. (10/51692-1, 13/50357-2, 14/08061-1)

OLAVARRIA, KAREL; MARONE, MARINA PUPKE; OLIVEIRA, HENRIQUE DA COSTA; RONCALLO, JUAN CAMILO; DA COSTA VASCONCELOS, FERNANDA NOGALES; DA SILVA, LUIZIANA FERREIRA; CABRERA GOMEZ, JOSE GREGRIO. Quantifying NAD(P)H production in the upper Entner-Doudoroff pathway from Pseudomonas putida KT2440. FEBS OPEN BIO, v. 5, p. 908-915, 2015. (13/24087-8, 13/50357-2)

DE OLIVEIRA, RAFAEL DAVID; NOVELLO, VANIA; DA SILVA, LUIZIANA FERREIRA; CABRERA GOMEZ, JOSE GREGORIO; CARRILLO LE ROUX, GALO ANTONIO. Glucose metabolism in Pseudomonas aeruginosa is cyclic when producing Polyhydroxyalkanoates and Rhamnolipids. Journal of Biotechnology, v. 342, p. 54-63, DEC 10 2021. (13/50357-2)

CARDINALI-REZENDE, JULIANA; RADUAN ALEXANDRINO, PAULO MOISES; PEREIRA DE SOUZA NAHAT, RAFAEL AUGUSTO THEODORO; VIEIRA SANT'ANA, DEBORA PARRINE; SILVA, LUIZIANA FERREIRA; CABRERA GOMEZ, JOSE GREGORIO; TACIRO, MARILDA KEICO. Draft Genome Sequence of Pseudomonas sp. Strain LFM046, a Producer of Medium-Chain-Length Polyhydroxyalkanoate. GENOME ANNOUNCEMENTS, v. 3, n. 4, p. 2-pg., 2015-07-01. (10/51692-1, 13/50357-2, 14/08061-1)