Patents Assigned to BIOWORKS, INC.
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Patent number: 11882832Abstract: 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: GrantFiled: September 8, 2022Date of Patent: January 30, 2024Assignee: CHINOVA BIOWORKS INC.Inventors: David Brown, Tanzina Huq, Natasha Dhayagude
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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
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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
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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
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Publication number: 20230406888Abstract: 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: ApplicationFiled: April 20, 2023Publication date: December 21, 2023Applicant: Sachi Bioworks Inc.Inventor: Prashant Nagpal
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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
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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
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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
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Publication number: 20230280332Abstract: 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: ApplicationFiled: May 12, 2023Publication date: September 7, 2023Applicant: Augmenta Bioworks, Inc.Inventors: Marco Antonio Mena, Christopher J. Emig, John Haliburton, Payam Shahi
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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
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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
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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
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Publication number: 20230193352Abstract: 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 acType: ApplicationFiled: July 11, 2022Publication date: June 22, 2023Applicant: FIREFLY BIOWORKS, INC.Inventors: Daniel C. PREGIBON, Isaac Stoner, Anthony FUSCO, Michael R. TACKETT
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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
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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
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Patent number: 11662341Abstract: 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: GrantFiled: October 9, 2019Date of Patent: May 30, 2023Assignee: Augmenta Bioworks, Inc.Inventors: Marco Antonio Mena, Christopher J. Emig, John Haliburton, Payam Shahi
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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
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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
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Publication number: 20230116385Abstract: A system for producing a therapeutic oligomer includes a computing device configured to design a proposed therapeutic oligomer sequence, wherein designing further comprises generating a genomic library for an organism from a gene target, initiating a sequence identification function, identifying a genomic locus that the proposed therapeutic oligomer sequence is predicted to bond to as a function of an off-target sequence function, selecting the proposed therapeutic oligomer sequence as a function of the sequence identification function, the genomic locus, and a criterion element, and synthesize a therapeutic oligomer as a function of the proposed therapeutic oligomer sequence.Type: ApplicationFiled: December 12, 2022Publication date: April 13, 2023Applicant: Sachi Bioworks Inc.Inventor: Prashant Nagpal
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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