Patents Assigned to Ginkgo BioWorks, Inc.
-
Publication number: 20240141308Abstract: Aspects of the disclosure relate to phosphotriesterase (PTE) enzymes and PTE-related (PTER) enzymes and their use in hydrolyzing OPNAs.Type: ApplicationFiled: April 15, 2022Publication date: May 2, 2024Applicant: Ginkgo Bioworks, Inc.Inventors: David Borhani, Dylan Alexander Carlin, Alex Tucker
-
Publication number: 20240110206Abstract: Aspects of the disclosure relate to biosynthesis of cannabinoids and cannabinoid precursors in recombinant cells and in vitro. Specifically, the disclosure is directed to a prenyltransferase variant, a chimeric prenyltransferase comprising one or more portions of at least two different prenyltransferase proteins, and a fusion polypeptide comprising a CBG-type producing prenyltransferase and farnesyl pyrophosphate synthase.Type: ApplicationFiled: October 12, 2021Publication date: April 4, 2024Applicant: Ginkgo Bioworks, Inc.Inventors: Dylan Alexander Carlin, Brian Carvalho, Nicholas Flores, Katrina Forrest, Gabriel Rodriguez, Nathan W. Schmidt, Michelle Spencer
-
Patent number: 11905523Abstract: Provided herein are gene therapy compositions and methods for treating, preventing, and/or curing NPC1. More specifically, the disclosure provides Adeno-associated virus (AAV) vectors for delivery of nucleic acids and nucleic acids (including AAV transfer cassettes) for treating, preventing, and/or curing NPC1.Type: GrantFiled: October 16, 2020Date of Patent: February 20, 2024Assignee: Ginkgo Bioworks, Inc.Inventors: Daniel McCoy, Garrett E. Berry, David Dismuke
-
Publication number: 20240026392Abstract: Aspects of the disclosure relate to biosynthesis of cannabinoids and cannabinoid precursors in recombinant cells and in vitro, and to variant terminal synthases having altered catalytic activity to synthesize THC-type, CBD-type and/or CBC-type cannabinoids.Type: ApplicationFiled: July 8, 2021Publication date: January 25, 2024Applicant: Ginkgo Bioworks, Inc.Inventors: Kim Cecelia Anderson, Jeffrey Ian Boucher, Elena Brevnova, Brian Carvalho, Nicholas Flores, Katrina Forrest, Fiona Qu, Gabriel Rodrigues, Michelle Spencer
-
Publication number: 20240002847Abstract: This application describes synthetic promoters capable of facilitating the high-yield synthesis of proteins and molecules.Type: ApplicationFiled: November 12, 2021Publication date: January 4, 2024Applicant: Ginkgo Bioworks, Inc.Inventors: Swaminath Srinivas, Justin Michael Gardin
-
Patent number: 11859189Abstract: The present disclosure provides host cells, e.g., bacterial cells, that comprise a methionine decarboxylase enzyme for the treatment of diseases and disorders associated with methionine metabolism in a subject. The disclosure further provides pharmaceutical compositions and methods of treating disorders associated with methionine metabolism, such as homocystinuria.Type: GrantFiled: August 11, 2022Date of Patent: January 2, 2024Assignees: Synlogic Operating Company, Inc., Ginkgo Bioworks, Inc.Inventors: Dylan Alexander Carlin, Vincent M. Isabella, Jonathan McMurry, Theodore Carlton Moore, III, Mylene Perreault, Nathan Schmidt, Mark Simon
-
Publication number: 20230383318Abstract: The present disclosure identifies pathways, mechanisms, systems and methods to confer chemoautotrophic production of carbon-based products of interest, such as sugars, alcohols, chemicals, amino acids, polymers, fatty acids and their derivatives, hydrocarbons, isoprenoids, and intermediates thereof, in organisms such that these organisms efficiently convert inorganic carbon to organic carbon-based products of interest using inorganic energy, such as formate, and in particular the use of organisms for the commercial production of various carbon-based products of interest.Type: ApplicationFiled: May 31, 2023Publication date: November 30, 2023Applicant: Ginkgo Bioworks, Inc.Inventors: Curt R. Fischer, Austin J. Che, Reshma P. Shetty, Jason R. Kelly
-
Publication number: 20230357728Abstract: The current methods and compositions provide for nucleotide sequences of promoters from Yarrowia lipolytica which may be used to drive gene expression in a cell. In some aspects, the promoters are useful for modulating lipid production in oleaginous organisms such as yeast.Type: ApplicationFiled: December 27, 2022Publication date: November 9, 2023Applicant: GINKGO BIOWORKS, INC.Inventors: Vasiliki TSAKRAKLIDES, Annapurna KAMINENI
-
Publication number: 20230340446Abstract: Aspects of the disclosure relate to biosynthesis of cannabinoids and cannabinoid precursors in recombinant cells and in vitro. In particular, the disclosure relates to variants of olivetolic acid cyclase.Type: ApplicationFiled: June 17, 2021Publication date: October 26, 2023Applicant: Ginkgo Bioworks, Inc.Inventors: Kim Cecelia Anderson, Brian Carvalho, Nicholas Flores, Seth Ritter, Gabriel Rodriguez, Michelle Spencer, Emily E. Wrenbeck
-
Publication number: 20230257793Abstract: This application describes transcriptional units, synthetic expression systems, and host cells comprising transcriptional units and synthetic expression systems, wherein the synthetic expression system is capable of expressing a gene of interest. Also described are methods for the production of bioproducts (including, but not limited to, proteins or RNA expressed from the gene of interest). In some embodiments, bioproducts are produced from host cells under culture conditions without addition of methanol.Type: ApplicationFiled: September 5, 2021Publication date: August 17, 2023Applicant: Ginkgo Bioworks, Inc.Inventors: Nikos Reppas, Swaminath Srinivas, Adam Meyer, Alex Tucker, Punita Manga, Sneha Srikrishnan
-
Patent number: 11702665Abstract: Signal sequences useful for targeting proteins and peptides to the surface of endospores produced by Paenibacillus family members and methods of using the same are provided. The display of heterologous molecules, such as peptides, polypeptides and other recombinant constructs, on the spore surface of Paenibacillus family members, using particular N-terminal targeting sequences and derivatives of the same, are also provided.Type: GrantFiled: March 30, 2021Date of Patent: July 18, 2023Assignee: Ginkgo Bioworks, Inc.Inventors: Damian Curtis, Benjamin L. Golomb, Dilara Ally, Florencia A. Ficarra, Rauf Salamzade, Bjorn A. Traag
-
Patent number: 11697829Abstract: The present disclosure identifies pathways, mechanisms, systems and methods to confer chemoautotrophic production of carbon-based products of interest, such as sugars, alcohols, chemicals, amino acids, polymers, fatty acids and their derivatives, hydrocarbons, isoprenoids, and intermediates thereof, in organisms such that these organisms efficiently convert inorganic carbon to organic carbon-based products of interest using inorganic energy, such as formate, and in particular the use of organisms for the commercial production of various carbon-based products of interest.Type: GrantFiled: July 30, 2020Date of Patent: July 11, 2023Assignee: Ginkgo Bioworks, Inc.Inventors: Curt R. Fischer, Austin J. Che, Reshma P. Shetty, Jason R. Kelly
-
Patent number: 11674162Abstract: Disclosed are transformed cells and related nucleotide and protein sequences, and fermentation compositions and methods, all of which are related to providing selective advantage in fermentation. For example, a selective advantage results from transformation of a cell with a nucleic acid that allows a transformed cell to metabolize one or more nitrogen-, phosphorous-, and/or sulfur-containing compounds that a native cell of the same species as the transformed cell cannot metabolize, and from fermentation of the transformed cell using one or more feedstocks, such as fractioned grain, which are depleted in or free of conventional nitrogen-, phosphorous-, and/or sulfur-containing compounds that a native cell of the same species as the transformed cell can metabolize. Also disclosed are methods for improved oxygen transfer in an aerobic or microaerobic fermentation.Type: GrantFiled: April 8, 2015Date of Patent: June 13, 2023Assignee: Ginkgo Bioworks, Inc.Inventors: Emily H. Greenhagen, Maureen Hamilton, William G. LaTouf, Andrew L. Consiglio, Kyle M. MacEwen, Arthur J. Shaw, IV
-
Publication number: 20230174993Abstract: Described in this application are UDP-glycosyltransferases (UGT) enzymes, host cells expressing the UGTs, and methods of producing mogrol precursors, mogrol, and/or mogrosides using such host cells.Type: ApplicationFiled: May 13, 2021Publication date: June 8, 2023Applicant: Ginkgo Bioworks, Inc.Inventors: Jeffrey Ian Boucher, Justin Michael Gardin, Scott Marr, Matthew McMahon, Krishnaben S. Patel, Jie Zhu
-
Publication number: 20230137139Abstract: Aspects of the disclosure relate to biosynthesis of cannabinoids and cannabinoid precursors in recombinant cells and in vitro.Type: ApplicationFiled: March 26, 2021Publication date: May 4, 2023Applicant: Ginkgo Bioworks, Inc.Inventors: Kim Cecelia Anderson, Jeffrey lan Boucher, Elena Brevnova, Dylan Alexander Carlin, Brian Carvalho, Nicholas Flores, Katrina Forrest, Gabriel Rodriguez, Michelle Spencer
-
Patent number: 11634737Abstract: Disclosed are transformed cells comprising one or more genetic modifications that affect the lipid content of the cell, e.g., by increasing the concentration of oleic acid in the cell relative to an unmodified cell of the same type. Also disclosed are methods for modifying the lipid content of a cell by increasing the activity of one or more proteins in the cell and/or by decreasing the activity of one or more proteins in the same cell.Type: GrantFiled: December 9, 2015Date of Patent: April 25, 2023Assignee: Ginkgo Bioworks, Inc.Inventors: Vasiliki Tsakraklides, Elena E. Brevnova, Jonathan Friedlander, Annapurna Kamineni, Arthur J. Shaw, IV
-
Publication number: 20230107986Abstract: The present disclosure identifies pathways, mechanisms, systems and methods to confer production of carbon-based products of interest, such as sugars, alcohols, chemicals, amino acids, polymers, fatty acids and their derivatives, hydrocarbons, isoprenoids, and intermediates thereof, in engineered and/or evolved methylotrophs such that these organisms efficiently convert C1 compounds, such as formate, formic acid, formaldehyde or methanol, to organic carbon-based products of interest, and in particular the use of organisms for the commercial production of various carbon-based products of interest.Type: ApplicationFiled: September 30, 2022Publication date: April 6, 2023Applicant: Ginkgo Bioworks, Inc.Inventors: Reshma P. Shetty, Curt R. Fischer
-
Publication number: 20230065419Abstract: Aspects of the disclosure relate to biosynthesis of histidine in host cells. For example, host cells may comprise: a promoter; a ribosome binding site (RBS); and a nucleic acid comprising: hisG; hisD; hisC hisB; hisH; hisA; hisF; and/or hisI. Host cells may further comprise a nucleic acid encoding a ribose phosphate pyrophosphokinase (RPPK), optionally comprising one or more amino acid substitutions relative to the sequence of wildtype E. coli RPPK. Host cells of the disclosure may comprise a nucleic acid encoding a 5,10-methylene-tetrahydrofolate dehydrogenase/5,10-methylene-tetrahydrofolate cyclohydrolase (MTHFDC) enzyme. Further aspects of the disclosure relate to production of purine pathway metabolites and/or plasmid DNA in host cells.Type: ApplicationFiled: December 16, 2020Publication date: March 2, 2023Applicant: Ginkgo Bioworks, Inc.Inventors: Alkiviadis Orfefs Chatzivasileiou, Jason King, Huey-Ming Mak, Gabriel Rodriguez, Emily E. Wrenbeck, David Young
-
Patent number: 11572546Abstract: The current methods and compositions provide for nucleotide sequences of promoters from Yarrowia lipolytica which may be used to drive gene expression in a cell. In some aspects, the promoters are useful for modulating lipid production in oleaginous organisms such as yeast.Type: GrantFiled: July 29, 2020Date of Patent: February 7, 2023Assignee: GINKGO BIOWORKS, INC.Inventors: Vasiliki Tsakraklides, Annapurna Kamineni
-
Patent number: 11535829Abstract: Disclosed are genetically engineered organisms, such as yeast and bacteria, that have the ability to metabolize atypical phosphorus or sulfur sources. Fermentation methods using the genetically engineered organisms are also described. The fermentation methods are robust processes for the industrial bioproduction of a variety of compounds, including commodities, fine chemicals, an pharmaceuticals.Type: GrantFiled: November 27, 2018Date of Patent: December 27, 2022Assignee: Ginkgo Bioworks, Inc.Inventors: Arthur J. Shaw, IV, Colin R. South, Johannes P. Van Dijken