Patents Assigned to BIOWORKS, INC.
  • Publication number: 20240141308
    Abstract: Aspects of the disclosure relate to phosphotriesterase (PTE) enzymes and PTE-related (PTER) enzymes and their use in hydrolyzing OPNAs.
    Type: Application
    Filed: April 15, 2022
    Publication date: May 2, 2024
    Applicant: Ginkgo Bioworks, Inc.
    Inventors: David Borhani, Dylan Alexander Carlin, Alex Tucker
  • Publication number: 20240110206
    Abstract: 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: Application
    Filed: October 12, 2021
    Publication date: April 4, 2024
    Applicant: Ginkgo Bioworks, Inc.
    Inventors: Dylan Alexander Carlin, Brian Carvalho, Nicholas Flores, Katrina Forrest, Gabriel Rodriguez, Nathan W. Schmidt, Michelle Spencer
  • Patent number: 11905523
    Abstract: 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: Grant
    Filed: October 16, 2020
    Date of Patent: February 20, 2024
    Assignee: Ginkgo Bioworks, Inc.
    Inventors: Daniel McCoy, Garrett E. Berry, David Dismuke
  • Patent number: 11882832
    Abstract: The present application is directed to antimicrobial compositions comprising chitosan polymers of at least two different average molecular weights (Mws), wherein the Mw of each different chitosan polymer is selected to target a different microorganism as well as method of making and using the compositions and product comprising the compositions.
    Type: Grant
    Filed: September 8, 2022
    Date of Patent: January 30, 2024
    Assignee: CHINOVA BIOWORKS INC.
    Inventors: David Brown, Tanzina Huq, Natasha Dhayagude
  • Publication number: 20240026392
    Abstract: 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: Application
    Filed: July 8, 2021
    Publication date: January 25, 2024
    Applicant: 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: 20240002847
    Abstract: This application describes synthetic promoters capable of facilitating the high-yield synthesis of proteins and molecules.
    Type: Application
    Filed: November 12, 2021
    Publication date: January 4, 2024
    Applicant: Ginkgo Bioworks, Inc.
    Inventors: Swaminath Srinivas, Justin Michael Gardin
  • Patent number: 11859189
    Abstract: 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: Grant
    Filed: August 11, 2022
    Date of Patent: January 2, 2024
    Assignees: 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: 20230406888
    Abstract: Compositions and methods for targeting autoimmune and inflammatory pathways using Nanoligomers are disclosed herein. Nanoligomers may include a sequence, such as a polynucleotide or a peptide nucleic acid, connected to a nanostructure, such as a nanoparticle. A nanoligomer may downregulate a component of the NLRP3 inflammasome, such as NLRP3. A nanoligomer may downregulate NF-??. Compositions comprising nanoligomers may be used to treat a variety of diseases associated with autoimmune disease and inflammation.
    Type: Application
    Filed: April 20, 2023
    Publication date: December 21, 2023
    Applicant: Sachi Bioworks Inc.
    Inventor: Prashant Nagpal
  • Publication number: 20230383318
    Abstract: 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: Application
    Filed: May 31, 2023
    Publication date: November 30, 2023
    Applicant: Ginkgo Bioworks, Inc.
    Inventors: Curt R. Fischer, Austin J. Che, Reshma P. Shetty, Jason R. Kelly
  • Publication number: 20230357728
    Abstract: 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: Application
    Filed: December 27, 2022
    Publication date: November 9, 2023
    Applicant: GINKGO BIOWORKS, INC.
    Inventors: Vasiliki TSAKRAKLIDES, Annapurna KAMINENI
  • Publication number: 20230340446
    Abstract: 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: Application
    Filed: June 17, 2021
    Publication date: October 26, 2023
    Applicant: Ginkgo Bioworks, Inc.
    Inventors: Kim Cecelia Anderson, Brian Carvalho, Nicholas Flores, Seth Ritter, Gabriel Rodriguez, Michelle Spencer, Emily E. Wrenbeck
  • Publication number: 20230280332
    Abstract: Described herein are immune binding proteins and method for obtaining immune binding proteins from genomic or other sources. Also described herein are nucleic acids encoding the immune binding proteins in which the natural multimeric association of chains is maintained in the nucleic acids and the immune binding proteins made therefrom. For example, nucleic acids encoding antibodies that are amplified from a B-cell using the methods described herein maintain the natural pairing of heavy and light chains from the B-cell. This maintenance of pairing (or multimerization) produces libraries and/or repertoires of immune binding proteins that are enriched for useful binding molecules.
    Type: Application
    Filed: May 12, 2023
    Publication date: September 7, 2023
    Applicant: Augmenta Bioworks, Inc.
    Inventors: Marco Antonio Mena, Christopher J. Emig, John Haliburton, Payam Shahi
  • Publication number: 20230257793
    Abstract: 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: Application
    Filed: September 5, 2021
    Publication date: August 17, 2023
    Applicant: Ginkgo Bioworks, Inc.
    Inventors: Nikos Reppas, Swaminath Srinivas, Adam Meyer, Alex Tucker, Punita Manga, Sneha Srikrishnan
  • Patent number: 11702665
    Abstract: 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: Grant
    Filed: March 30, 2021
    Date of Patent: July 18, 2023
    Assignee: Ginkgo Bioworks, Inc.
    Inventors: Damian Curtis, Benjamin L. Golomb, Dilara Ally, Florencia A. Ficarra, Rauf Salamzade, Bjorn A. Traag
  • Patent number: 11697829
    Abstract: 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: Grant
    Filed: July 30, 2020
    Date of Patent: July 11, 2023
    Assignee: Ginkgo Bioworks, Inc.
    Inventors: Curt R. Fischer, Austin J. Che, Reshma P. Shetty, Jason R. Kelly
  • Publication number: 20230193352
    Abstract: The present invention provides, among other things, methods of detecting target nucleic acid, comprising steps of: a) contacting a sample with one or more capturing probes, each comprising at least one target capturing sequence, under conditions that permit the one or more capturing probes to capture one or more target nucleic acids in the sample; b) amplifying the captured one or more target nucleic acids in a reaction mixture comprising a detectable entity such that the amplified one or more target nucleic acids are labeled with the detectable entity; c) incubating amplification product with a plurality of re-capturing probes such that the amplified one or more target nucleic acids are re-captured by the plurality of the re-capturing probes; and d) detecting signal generated by detectable entity associated with the re-captured amplified one or more target nucleic acids, wherein the presence and/or abundance of the detectable signal indicates the presence and/or abundance of the one or more target nucleic ac
    Type: Application
    Filed: July 11, 2022
    Publication date: June 22, 2023
    Applicant: FIREFLY BIOWORKS, INC.
    Inventors: Daniel C. PREGIBON, Isaac Stoner, Anthony FUSCO, Michael R. TACKETT
  • Patent number: 11674162
    Abstract: 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: Grant
    Filed: April 8, 2015
    Date of Patent: June 13, 2023
    Assignee: Ginkgo Bioworks, Inc.
    Inventors: Emily H. Greenhagen, Maureen Hamilton, William G. LaTouf, Andrew L. Consiglio, Kyle M. MacEwen, Arthur J. Shaw, IV
  • Publication number: 20230174993
    Abstract: 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: Application
    Filed: May 13, 2021
    Publication date: June 8, 2023
    Applicant: Ginkgo Bioworks, Inc.
    Inventors: Jeffrey Ian Boucher, Justin Michael Gardin, Scott Marr, Matthew McMahon, Krishnaben S. Patel, Jie Zhu
  • Patent number: 11662341
    Abstract: Described herein are immune binding proteins and method for obtaining immune binding proteins from genomic or other sources. Also described herein are nucleic acids encoding the immune binding proteins in which the natural multimeric association of chains is maintained in the nucleic acids and the immune binding proteins made therefrom. For example, nucleic acids encoding antibodies that are amplified from a B-cell using the methods described herein maintain the natural pairing of heavy and light chains from the B-cell. This maintenance of pairing (or multimerization) produces libraries and/or repertoires of immune binding proteins that are enriched for useful binding molecules.
    Type: Grant
    Filed: October 9, 2019
    Date of Patent: May 30, 2023
    Assignee: Augmenta Bioworks, Inc.
    Inventors: Marco Antonio Mena, Christopher J. Emig, John Haliburton, Payam Shahi
  • Publication number: 20230137139
    Abstract: Aspects of the disclosure relate to biosynthesis of cannabinoids and cannabinoid precursors in recombinant cells and in vitro.
    Type: Application
    Filed: March 26, 2021
    Publication date: May 4, 2023
    Applicant: 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