Ramon Gonzalez

Summary

Affiliation: Rice University
Country: USA

Publications

  1. pmc A novel data mining method to identify assay-specific signatures in functional genomic studies
    Derrick K Rollins
    Department of Chemical and Biological Engineering, Iowa State University, Ames, Iowa 50011, USA
    BMC Bioinformatics 7:377. 2006
  2. ncbi request reprint A new model for the anaerobic fermentation of glycerol in enteric bacteria: trunk and auxiliary pathways in Escherichia coli
    Ramon Gonzalez
    Department of Chemical and Biomolecular Engineering, Rice University, P O Box 1892, Houston, TX 77251 1892, USA
    Metab Eng 10:234-45. 2008
  3. doi request reprint Production of ethanol from thin stillage by metabolically engineered Escherichia coli
    Ramon Gonzalez
    Department of Chemical and Biomolecular Engineering, Rice University, 6100 Main Street, MS 362, Houston, TX, 77005, USA
    Biotechnol Lett 32:405-11. 2010
  4. doi request reprint Understanding and harnessing the microaerobic metabolism of glycerol in Escherichia coli
    Guyton Durnin
    Department of Chemical and Biomolecular Engineering, Rice University, 6100 Main Street, MS 362, P O Box 1892, Houston, Texas 77251 1892, USA
    Biotechnol Bioeng 103:148-61. 2009
  5. pmc Fermentative utilization of glycerol by Escherichia coli and its implications for the production of fuels and chemicals
    Abhishek Murarka
    Department of Chemical and Biomolecular Engineering, Rice University, Houston, TX 77251 1892, USA
    Appl Environ Microbiol 74:1124-35. 2008
  6. pmc Escherichia coli strains engineered for homofermentative production of D-lactic acid from glycerol
    Suman Mazumdar
    Department of Chemical and Biomolecular Engineering, Rice University, 6100 Main St, MS 362, Houston, TX 77005, USA
    Appl Environ Microbiol 76:4327-36. 2010
  7. doi request reprint A synthetic biology approach to engineer a functional reversal of the β-oxidation cycle
    James M Clomburg
    Department of Chemical and Biomolecular Engineering, Rice University, 6100 Main St, Houston, TX 77005, USA
    ACS Synth Biol 1:541-54. 2012
  8. pmc Efficient synthesis of L-lactic acid from glycerol by metabolically engineered Escherichia coli
    Suman Mazumdar
    Department of Chemical and Biomolecular Engineering, Rice University, 6100 Main Street, MS 362, Houston, TX 77005, USA
    Microb Cell Fact 12:7. 2013
  9. doi request reprint Quantitative analysis of the fermentative metabolism of glycerol in Escherichia coli
    Angela Cintolesi
    Department of Chemical and Biomolecular Engineering, Rice University, 6100 Main Street, MS 362 Houston, Texas 77005, USA
    Biotechnol Bioeng 109:187-98. 2012
  10. pmc Metabolic analysis of wild-type Escherichia coli and a pyruvate dehydrogenase complex (PDHC)-deficient derivative reveals the role of PDHC in the fermentative metabolism of glucose
    Abhishek Murarka
    Department of Chemical and Biomolecular Engineering, RiceUniversity, Houston, Texas 77005, USA
    J Biol Chem 285:31548-58. 2010

Collaborators

Detail Information

Publications27

  1. pmc A novel data mining method to identify assay-specific signatures in functional genomic studies
    Derrick K Rollins
    Department of Chemical and Biological Engineering, Iowa State University, Ames, Iowa 50011, USA
    BMC Bioinformatics 7:377. 2006
    ..This article proposes a new and powerful PCA-based method for the identification of assay-specific gene signatures in FG studies...
  2. ncbi request reprint A new model for the anaerobic fermentation of glycerol in enteric bacteria: trunk and auxiliary pathways in Escherichia coli
    Ramon Gonzalez
    Department of Chemical and Biomolecular Engineering, Rice University, P O Box 1892, Houston, TX 77251 1892, USA
    Metab Eng 10:234-45. 2008
    ..These include high concentrations of potassium and phosphate, low concentrations of glycerol, alkaline pH, and closed cultivation systems that promote the accumulation of hydrogen gas...
  3. doi request reprint Production of ethanol from thin stillage by metabolically engineered Escherichia coli
    Ramon Gonzalez
    Department of Chemical and Biomolecular Engineering, Rice University, 6100 Main Street, MS 362, Houston, TX, 77005, USA
    Biotechnol Lett 32:405-11. 2010
    ..These results, along with the comparable performance of strain EH05 (pZSKLMgldA) in 0.5 and 5 l fermenters, indicate a great potential for the adoption of this process by the biofuels industry...
  4. doi request reprint Understanding and harnessing the microaerobic metabolism of glycerol in Escherichia coli
    Guyton Durnin
    Department of Chemical and Biomolecular Engineering, Rice University, 6100 Main Street, MS 362, P O Box 1892, Houston, Texas 77251 1892, USA
    Biotechnol Bioeng 103:148-61. 2009
    ..Engineered strains efficiently produced ethanol and hydrogen and ethanol and formate from glycerol in a minimal medium without rich supplements...
  5. pmc Fermentative utilization of glycerol by Escherichia coli and its implications for the production of fuels and chemicals
    Abhishek Murarka
    Department of Chemical and Biomolecular Engineering, Rice University, Houston, TX 77251 1892, USA
    Appl Environ Microbiol 74:1124-35. 2008
    ..The implications of our findings for the production of reduced chemicals and fuels were illustrated by coproducing ethanol plus formic acid and ethanol plus hydrogen from glycerol at yields approaching their theoretical maximum...
  6. pmc Escherichia coli strains engineered for homofermentative production of D-lactic acid from glycerol
    Suman Mazumdar
    Department of Chemical and Biomolecular Engineering, Rice University, 6100 Main St, MS 362, Houston, TX 77005, USA
    Appl Environ Microbiol 76:4327-36. 2010
    ..5 g/liter/h and 1.25 g/g cell mass/h, respectively. The engineered homolactic route generates 1 to 2 mol of ATP per mol of d-lactate and is redox balanced, thus representing a viable metabolic pathway...
  7. doi request reprint A synthetic biology approach to engineer a functional reversal of the β-oxidation cycle
    James M Clomburg
    Department of Chemical and Biomolecular Engineering, Rice University, 6100 Main St, Houston, TX 77005, USA
    ACS Synth Biol 1:541-54. 2012
    ..The well-defined and self-contained nature of each functional unit makes the engineered reversal of the β-oxidation cycle "chassis neutral" and hence transferrable to the host of choice for efficient fuel or chemical production...
  8. pmc Efficient synthesis of L-lactic acid from glycerol by metabolically engineered Escherichia coli
    Suman Mazumdar
    Department of Chemical and Biomolecular Engineering, Rice University, 6100 Main Street, MS 362, Houston, TX 77005, USA
    Microb Cell Fact 12:7. 2013
    ..This work reports the engineering of E. coli for the efficient conversion of glycerol into L-lactic acid (L-lactate)...
  9. doi request reprint Quantitative analysis of the fermentative metabolism of glycerol in Escherichia coli
    Angela Cintolesi
    Department of Chemical and Biomolecular Engineering, Rice University, 6100 Main Street, MS 362 Houston, Texas 77005, USA
    Biotechnol Bioeng 109:187-98. 2012
    ....
  10. pmc Metabolic analysis of wild-type Escherichia coli and a pyruvate dehydrogenase complex (PDHC)-deficient derivative reveals the role of PDHC in the fermentative metabolism of glucose
    Abhishek Murarka
    Department of Chemical and Biomolecular Engineering, RiceUniversity, Houston, Texas 77005, USA
    J Biol Chem 285:31548-58. 2010
    ..A stoichiometric analysis of CO(2) generation via PDHC and ox-PPP revealed that the PDHC route is more carbon- and energy-efficient, in agreement with its beneficial role in cell growth...
  11. ncbi request reprint Anaerobic fermentation of glycerol by Escherichia coli: a new platform for metabolic engineering
    Yandi Dharmadi
    Department of Chemical and Biomolecular Engineering, Rice University, Houston, TX 77251 1892, USA
    Biotechnol Bioeng 94:821-9. 2006
    ..coli-based platform for the anaerobic production of reduced chemicals from glycerol at yields higher than those obtained from common sugars, such as glucose...
  12. pmc Anaerobic fermentation of glycerol in Paenibacillus macerans: metabolic pathways and environmental determinants
    Ashutosh Gupta
    Department of Chemical and Biomolecular Engineering, Rice University, 6100 Main Street, MS 362, Houston, TX 77005, USA
    Appl Environ Microbiol 75:5871-83. 2009
    ..Given the availability, low price, and high degree of reduction of glycerol, the high metabolic rates exhibited by P. macerans N234A are of paramount importance for the production of fuels and chemicals...
  13. ncbi request reprint Metabolic flux analysis of wild-type Escherichia coli and mutants deficient in pyruvate-dissimilating enzymes during the fermentative metabolism of glucuronate
    Abhishek Murarka
    Department of Chemical and Biomolecular Engineering, Rice University, Houston, TX, USA
    Microbiology 156:1860-72. 2010
    ..Secondly, the NADH generated by PDH can be converted to NADPH by the action of transhydrogenases, thus serving as biosynthetic reducing power in the synthesis of building blocks and macromolecules...
  14. ncbi request reprint Engineering Escherichia coli for the efficient conversion of glycerol to ethanol and co-products
    Syed Shams Yazdani
    Department of Chemical and Biomolecular Engineering, Rice University, Houston, TX, USA
    Metab Eng 10:340-51. 2008
    ..These yields and productivities are superior to those reported for the conversion of glycerol to ethanol-H(2) or ethanol-formate by other organisms and equivalent to those achieved in the production of ethanol from sugars using E. coli...
  15. ncbi request reprint Engineered reversal of the β-oxidation cycle for the synthesis of fuels and chemicals
    Clementina Dellomonaco
    Department of Chemical and Biomolecular Engineering, Rice University, Houston, Texas 77005, USA
    Nature 476:355-9. 2011
    ..The ubiquitous nature of β-oxidation, aldehyde/alcohol dehydrogenase and thioesterase enzymes has the potential to enable the efficient synthesis of these products in other industrial organisms...
  16. doi request reprint Metabolic engineering of Escherichia coli for the production of succinate from glycerol
    Matthew D Blankschien
    Department of Chemical and Biomolecular Engineering, Rice University, 6100 Main Street, MS 362, P O Box 1892, Houston, TX 77005, USA
    Metab Eng 12:409-19. 2010
    ..g. antibiotics). Our biocatalysts demonstrated a maximum specific productivity of approximately 400 mg succinate/g cell/h and a yield of 0.69 g succinate/g glycerol, on par with the use of glucose as a feedstock...
  17. doi request reprint Anaerobic fermentation of glycerol: a platform for renewable fuels and chemicals
    James M Clomburg
    Department of Chemical and Biomolecular Engineering, Rice University, 6100 Main Street, MS 362, Houston, TX 77005, USA
    Trends Biotechnol 31:20-8. 2013
    ..This review focuses on current engineering efforts as well as the challenges involved in the utilization of glycerol as a carbon source for the production of fuels and chemicals...
  18. doi request reprint Metabolic engineering of Escherichia coli for the production of 1,2-propanediol from glycerol
    James M Clomburg
    Department of Chemical and Biomolecular Engineering, Rice University, 6100 Main Street, MS 362, Houston, Texas 77005, USA
    Biotechnol Bioeng 108:867-79. 2011
    ..The titer and yield achieved in this study were favorable to those obtained with the use of E. coli for the production of 1,2-PDO from common sugars...
  19. pmc Engineered respiro-fermentative metabolism for the production of biofuels and biochemicals from fatty acid-rich feedstocks
    Clementina Dellomonaco
    Department of Chemical and Biomolecular Engineering, Rice University, 6100 Main Street, MS 362, Houston, TX 77005, USA
    Appl Environ Microbiol 76:5067-78. 2010
    ..coli. Finally, the synthesis of isopropanol and succinate was also demonstrated. The work reported here represents the first effort toward engineering microorganisms for the conversion of FAs to the aforementioned products...
  20. ncbi request reprint Anaerobic fermentation of glycerol: a path to economic viability for the biofuels industry
    Syed Shams Yazdani
    Department of Chemical and Biomolecular Engineering, Rice University, 6100 Main Street, MS 362, Houston, TX 77005, USA
    Curr Opin Biotechnol 18:213-9. 2007
    ..Special attention is given to products whose synthesis from glycerol would be advantageous when compared with their production from common sugars...
  21. doi request reprint Elementary network reconstruction: a framework for the analysis of regulatory networks in biological systems
    Yandi Dharmadi
    Department of Chemical and Biomolecular Engineering, Rice University, 6100 Main Street, MS 362, Houston, TX 77005, USA
    J Theor Biol 263:499-509. 2010
    ..Since functional genomics studies are mainly concerned with redistribution of species abundances in perturbed systems, ENR could be exploited in the system-level analysis of biological systems...
  22. doi request reprint Fatty acid oxidation: systems analysis and applications
    Angela Cintolesi
    Department of Chemical and Biomolecular Engineering, Rice University, Houston, TX, USA
    Wiley Interdiscip Rev Syst Biol Med 5:575-85. 2013
    ..This article presents a comparison of the three main FA oxidative routes, systems biology analyses that have been used to study FA metabolism, and engineering efforts performed on microbial systems...
  23. doi request reprint Biofuel production in Escherichia coli: the role of metabolic engineering and synthetic biology
    James M Clomburg
    Department of Chemical and Biomolecular Engineering, Rice University, 6100 Main Street, MS 362, Houston, TX 77005, USA
    Appl Microbiol Biotechnol 86:419-34. 2010
    ....
  24. doi request reprint Synthesis of methyl ketones by metabolically engineered Escherichia coli
    John Park
    Department of Chemical and Biomolecular Engineering, Rice University, Houston, TX 77005, USA
    J Ind Microbiol Biotechnol 39:1703-12. 2012
    ..Through the establishment of optimal operating conditions and by executing rational metabolic engineering strategies, we were able to increase methyl ketone concentrations by almost 75-fold from the initial confirmatory levels...
  25. ncbi request reprint In silico assessment of the metabolic capabilities of an engineered functional reversal of the β-oxidation cycle for the synthesis of longer-chain (C≥4) products
    Angela Cintolesi
    Department of Chemical and Biomolecular Engineering, Rice University, USA
    Metab Eng 23:100-15. 2014
    ....
  26. doi request reprint Light-triggered biocatalysis using thermophilic enzyme-gold nanoparticle complexes
    Matthew D Blankschien
    Department of Chemical and Biomolecular Engineering, Rice University, 6100 Main Street, Houston, Texas 77005 1892, USA
    ACS Nano 7:654-63. 2013
    ..This approach could significantly improve how biochemical pathways are controlled for in vitro and, quite possibly, in vivo use...
  27. pmc The path to next generation biofuels: successes and challenges in the era of synthetic biology
    Clementina Dellomonaco
    Department of Chemical and Biomolecular Engineering, Rice University, Houston, TX, USA
    Microb Cell Fact 9:3. 2010
    ....