Industrial Products – Reshma P. Shetty, Curt R. Fischer, Ginkgo Bioworks Inc
Abstract for “Methods, systems and methods for methylotrophic organic compound production”
“The present disclosure describes pathways, mechanisms and systems that can be used to produce carbon-based goods of interest such as sugars and alcohols, chemicals and amino acids as well as fatty acids and their derivatives as well as hydrocarbons and isoprenoids. These organisms are engineered or evolved methylotrophs and efficiently convert C1 compounds such as formate and formaldehyde to organic carbon-based product of interest. This includes the use of these organisms to commercially produce various carbon-based product of interest
Background for “Methods, systems and methods for methylotrophic organic compound production”
“Definitions”
“Source of C1 Compounds.”
“Organisms or host cells for engineering or evolution”
“Methods to Identify and Select Candidate Enzymes For a Metabolic Activity Of Interest”
“Methods to Design Nucleic Acids Encoding enzymes for Heterologous Expression”
“Methods to Expression Heterologous Enzymes”
“Production of Central Metabolites for the Carbon-Based Products Of Interest”
“Production Sugars as Carbon-Based Products Of Interest”
“Production of Fermentative Product as the Carbon-Based Product of Interest”
“Production and Use of Fatty Alcohols in the Carbon-Based Products Of Interest”
“Production and Use of Fatty Esters in the Carbon-Based Products Of Interest”
“Production and Use of Alkanes in the Carbon-Based Products Of Interest”
“Production and Use of Olefins in the Carbon-Based Products Interest”
“Production of Halogenated Fatty Acid Derivatives”
“Production of Isoprenoids for the Carbon-Based Products Of Interest”
“Production of Glycerol and 1,3-Propanediol in the Carbon-Based Products Of Interest”
“Production of 1,4 Butanediol and 1,3 Butadiene as Carbon-Based Products Of Interest”
“Production Polyhydroxybutyrate as the Carbon Based Products of Interest”
“Production and Use of Lysine in the Carbon-Based Products Interest”
“Production of Aromatic Compounds As the Carbon-Based Products Of Interest”
“Production of??Valerolactone as a Carbon-Based Product Of Interest”
“Genetic Engineering Methods to Optimize Metabolic Pathways”
“Growth-Based Selection Methods to Optimize Engineered Carbon Fixing Strains”
“Fermentation Conditions”
“Consolidated Methylotrophic Fermentation.”
“Processing of Carbon-Based Products of Interest”
“Detection and analysis”
“Sequences provided by the invention”
“EXAMPLES”
“Example 1 – Optimization of Growth Medium Paracoccus Sp. When using Formate as the C1 compound
“Example 2 – Automatable Protocol for Conjugative Transfusion of Plasmids From E.coli Donors to Paracoccus Sp.”
“Example 3 – Genome Sequencing Paracoccus Strains
“Example 4 – Analysis of Methylerythritol Pathway at Paracoccus”
“Example 5 – Selection for Paracoccus Versutus Populations with Improved Doubling Times On Electrolytically Generated Formate.”
“Example 6 – High Intensity Bioreactor Culture of Paracoccus On Formate Salts”
“Example 7 – Computing Mass Transfer Limitations for Synthesis Gas Versus Forme as a Feedstock
“Example 8 – Engineered Organisms That Produce Butanol”
“Example 9 – Engineered Organisms Producing Acrylate
“OTHER EMBODIMENTS”
“EQUIVALENTS”
“INCORPORATION BY RESEARCH”
“REFERENCES CITED”
Summary for “Methods, systems and methods for methylotrophic organic compound production”
“Definitions”
“Source of C1 Compounds.”
“Organisms or host cells for engineering or evolution”
“Methods to Identify and Select Candidate Enzymes For a Metabolic Activity Of Interest”
“Methods to Design Nucleic Acids Encoding enzymes for Heterologous Expression”
“Methods to Expression Heterologous Enzymes”
“Production of Central Metabolites for the Carbon-Based Products Of Interest”
“Production Sugars as Carbon-Based Products Of Interest”
“Production of Fermentative Product as the Carbon-Based Product of Interest”
“Production and Use of Fatty Alcohols in the Carbon-Based Products Of Interest”
“Production and Use of Fatty Esters in the Carbon-Based Products Of Interest”
“Production and Use of Alkanes in the Carbon-Based Products Of Interest”
“Production and Use of Olefins in the Carbon-Based Products Interest”
“Production of Halogenated Fatty Acid Derivatives”
“Production of Isoprenoids for the Carbon-Based Products Of Interest”
“Production of Glycerol and 1,3-Propanediol in the Carbon-Based Products Of Interest”
“Production of 1,4 Butanediol and 1,3 Butadiene as Carbon-Based Products Of Interest”
“Production Polyhydroxybutyrate as the Carbon Based Products of Interest”
“Production and Use of Lysine in the Carbon-Based Products Interest”
“Production of Aromatic Compounds As the Carbon-Based Products Of Interest”
“Production of??Valerolactone as a Carbon-Based Product Of Interest”
“Genetic Engineering Methods to Optimize Metabolic Pathways”
“Growth-Based Selection Methods to Optimize Engineered Carbon Fixing Strains”
“Fermentation Conditions”
“Consolidated Methylotrophic Fermentation.”
“Processing of Carbon-Based Products of Interest”
“Detection and analysis”
“Sequences provided by the invention”
“EXAMPLES”
“Example 1 – Optimization of Growth Medium Paracoccus Sp. When using Formate as the C1 compound
“Example 2 – Automatable Protocol for Conjugative Transfusion of Plasmids From E.coli Donors to Paracoccus Sp.”
“Example 3 – Genome Sequencing Paracoccus Strains
“Example 4 – Analysis of Methylerythritol Pathway at Paracoccus”
“Example 5 – Selection for Paracoccus Versutus Populations with Improved Doubling Times On Electrolytically Generated Formate.”
“Example 6 – High Intensity Bioreactor Culture of Paracoccus On Formate Salts”
“Example 7 – Computing Mass Transfer Limitations for Synthesis Gas Versus Forme as a Feedstock
“Example 8 – Engineered Organisms That Produce Butanol”
“Example 9 – Engineered Organisms Producing Acrylate
“OTHER EMBODIMENTS”
“EQUIVALENTS”
“INCORPORATION BY RESEARCH”
“REFERENCES CITED”
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