Patents Assigned to Ginkgo BioWorks, Inc.
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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
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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
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Publication number: 20220378072Abstract: The disclosure relates to enzymes, such as cucurbitadienol synthase (CDS), UDP-glycosyltransferase (UGT), C11 hydroxylase, epoxide hydrolase (EPH), squalene epoxidase (SQE), and/or cytochrome P450 reductase enzymes, recombinant host cells expressing the enzymes, and methods of producing mogrol precursors, mogrol, and/or mogrosides using such recombinant cells.Type: ApplicationFiled: October 23, 2020Publication date: December 1, 2022Applicant: Ginkgo Bioworks, Inc.Inventors: Jeffrey Ian Boucher, Matthew McMahon, Scott Marr, Jie Zhu
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Publication number: 20220372501Abstract: The disclosure relates to methods and compositions for the production of fructans using sucrose:sucrose 1-fructosyl-transferase (1-SST), fructan:fructan 1-fructosyltransferase (1-FFT), and/or sucrose fructan-6-fructosyltransferase (6-SFT) enzymes.Type: ApplicationFiled: September 24, 2020Publication date: November 24, 2022Applicant: Ginkgo Bioworks, Inc.Inventors: Sudeep Agarwala, Michael G. Napolitano
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Patent number: 11492647Abstract: Disclosed are methods and compositions for increasing the triacylglycerol content of a cell by increasing the activity of a type 1 diacylglycerol acyltransferase (i.e., DGA2) and increasing the activity of a type 2 diacylglycerol acyltransferase (i.e., DGA1). In some embodiments, the triacylglycerol content of a cell is also modified my decreasing the activity of a triacylglycerol lipase in the same cell. Also disclosed are methods and compositions for increasing the triacylglycerol content of a cell by increasing the activity of a type 1 diacylglycerol acyltransferase (i.e., DGA2), or by increasing the activity of a type 3 diacylglycerol acyltransferase (i.e., DGA3).Type: GrantFiled: April 5, 2019Date of Patent: November 8, 2022Assignee: Ginkgo Bioworks, Inc.Inventors: Vasiliki Tsakraklides, Elena E. Brevnova
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Publication number: 20220348889Abstract: The present invention relates to methods and compositions that include enzymes and/or binding polypeptides useful for protecting polymers from damage caused by fatty acids from secreted biological fluids such as sebum or sweat.Type: ApplicationFiled: May 13, 2022Publication date: November 3, 2022Applicant: Ginkgo Bioworks, Inc.Inventors: Patrick Magannig Boyle, Jeffery Ian Boucher, Michael Gregory Napolitano
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Publication number: 20220348933Abstract: Provided in this disclosure, in some embodiments, are methods and compositions for treating maple syrup urine disease (MSUD) and other conditions characterized by excessive branched-chain amino acids.Type: ApplicationFiled: June 19, 2020Publication date: November 3, 2022Applicants: Ginkgo Bioworks, Inc., Synlogic Operating Company, Inc.Inventors: Patrick Boyle, Dylan Alexander Carlin, Rishi Jain, Ryan Putman, Laura Stone, Alex C. Tucker, Kolea Zimmerman
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Publication number: 20220348619Abstract: Described in this disclosure are rare earth element (REE)-binding proteins (e.g., lanthanide-binding proteins), host cells expressing the REE-binding proteins, and methods of recovering REEs.Type: ApplicationFiled: June 19, 2020Publication date: November 3, 2022Applicant: Ginkgo Bioworks, Inc.Inventors: Patrick Boyle, Ramya L. Prathuri, Nathan W. Schmidt, Emily E. Wrenbeck, Mark David Simon
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Publication number: 20220340939Abstract: Disclosed herein are cells, nucleic acids, and proteins that can be used to produce branched (methyl)lipids, such as 10-methylstearic acids, and compositions that include such lipids. Cells disclosed herein comprise methyltransferase and/or reductase genes from bacteria of the class Gammaproteobacteria, which encode enzymes capable of catalyzing the production of branched (methyl)lipids from unbranched, unsaturated lipids. Saturated branched (methyl)lipids produced using embodiments of the present invention have favorable low-temperature fluidity and favorable oxidative stability, which are desirable properties for lubricants and specialty fluids.Type: ApplicationFiled: January 30, 2022Publication date: October 27, 2022Applicant: Ginkgo Bioworks, Inc.Inventors: Arthur J. Shaw, Hannah Blitzblau, Donald V. Crabtree
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Patent number: 11479777Abstract: 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: GrantFiled: March 27, 2018Date of Patent: October 25, 2022Assignee: Ginkgo Bioworks, Inc.Inventors: Reshma P. Shetty, Curt R. Fischer
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Patent number: 11479797Abstract: The present disclosure provides proteins, nucleic acids, vectors, and host molecules useful for the production of compounds of interest, and methods for their use.Type: GrantFiled: October 27, 2017Date of Patent: October 25, 2022Assignee: Ginkgo Bioworks, Inc.Inventors: Daniel C. Gray, Brian R. Bowman, Gregory L. Verdine, Mathew Edward Sowa
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Publication number: 20220306999Abstract: The disclosure relates to biosynthesis of cannabinoids and cannabinoid precursors in recombinant cells and in vitro comprising the use of disclosed prenyltransferase variants.Type: ApplicationFiled: August 18, 2020Publication date: September 29, 2022Applicant: Ginkgo Bioworks, Inc.Inventors: Kim Cecelia Anderson, Dylan Alexander Carlin, Nicholas Flores, Katrina Forrest, Ramya L. Prathuri, Gabriel Rodriguez, Michelle Spencer
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Publication number: 20220307060Abstract: Aspects of the disclosure relate to biosynthesis of cannabinoids and cannabinoid precursors in recombinant cells and in vitro.Type: ApplicationFiled: March 9, 2022Publication date: September 29, 2022Applicant: Ginkgo Bioworks, Inc.Inventors: Kim Cecelia Anderson, Elena Brevnova, Dylan Alexander Carlin, Brian Carvalho, Nicholas Flores, Katrina Forrest, Matthew McMahon, Massimo Merighi, Gabriel Rodriguez, Emily E. Wrenbeck
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Patent number: 11447810Abstract: The present disclosure provides nucleic acids encoding a Large ATP-binding regulator of the LuxR family (LAL) of transcription factors, vectors and host cells including such nucleic acids, and methods for producing compounds (e.g., polyketides or ?-lactam compounds) with such nucleic acids, vectors, and/or host cells.Type: GrantFiled: January 29, 2021Date of Patent: September 20, 2022Assignee: Ginkgo Bioworks, Inc.Inventors: Brian R. Bowman, Joshua A. V. Blodgett, Gregory L. Verdine, Daniel C. Gray, Jay P. Morgenstern, Lucy Foulston, Keith Robison
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Publication number: 20220213492Abstract: Described herein are enzymes, such as for example, methanol dehydrogenase (MDH), 3-hexulose-6-phosphate isomerase (PHI), 3-hexulose-6-phosphate synthase (HPS), ribose-5-phosphate isomerase (RPI), ribulose 5-phosphate 3-epimerase (RPE), transketolase (TKT), transaldolase (TAL) enzymes, phosphofructokinase (PFK), Sedoheptulose 1,7-Bisphosphatase (GLPX), fructose-bisphosphate aldolase (FBA), 6-phosphogluconate dehydrogenase (GND), and glucose-6-phosphate dehydrogenase (ZWF); recombinant host cells expressing the enzymes; methods of producing methylotrophic cells; and methods of producing amino acids (e.g., lysine).Type: ApplicationFiled: April 17, 2020Publication date: July 7, 2022Applicant: Ginkgo Bioworks, Inc.Inventors: Hui Zhou, Massimo Merighi, Micjael G. Napolitano, Kennji Abe, Yoshihiro Ito, Takayuki Asahara, Thomas Perli, Sergio L. Florez, Ryan J. Putman, Ryo Takeshita, Yuri Uehara, Akito Chinen, Kazuteru Yamada
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Publication number: 20220195472Abstract: Aspects of the disclosure relate to biosynthesis of cannabinoids and cannabinoid precursors in recombinant cells and in vitro.Type: ApplicationFiled: February 4, 2022Publication date: June 23, 2022Applicant: Ginkgo Bioworks, Inc.Inventors: Kim Cecelia Anderson, Elena Brevnova, Dylan Alexander Carlin, Brian Carvalho, Nicholas Flores, Katrina Forrest, Massimo Merighi, Gabriel Rodriguez, Emily E. Wrenbeck
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Patent number: 11359182Abstract: The present invention relates to methods and compositions that include enzymes and/or binding polypeptides useful for protecting polymers from damage caused by fatty acids from secreted biological fluids such as sebum or sweat.Type: GrantFiled: September 12, 2018Date of Patent: June 14, 2022Assignee: Ginkgo Bioworks, Inc.Inventors: Patrick Magannig Boyle, Jeffrey Ian Boucher, Michael Gregory Napolitano
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Patent number: 11352610Abstract: DGA1 catalyzes the final enzymatic step for converting acyl-CoA and 1,2-diacylglycerol to triacylglycerols (TAG) and CoA in yeast. Disclosed are methods for expression in an oleaginous yeast host of polynucleotide sequences encoding DGA1 from Rhodosporidium toruloides, Lipomyces starkeyi, Aurantiochytrium limacinum, Aspergillus terreus, or Claviceps purpurea. Also described herein are engineered recombinant host cells of Yarrowia lipolytica comprising heterologous DGA1 polynucleotides encoding DGA1 proteins, or functionally active portions thereof, having the capability of producing increased lipid production and possessing the characteristic of enhanced glucose consumption efficiency.Type: GrantFiled: February 28, 2019Date of Patent: June 7, 2022Assignee: Ginkgo Bioworks, Inc.Inventors: Elena E. Brevnova, Arthur J. Shaw, IV, Emily H. Greenhagen
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Patent number: 11274320Abstract: Aspects of the disclosure relate to biosynthesis of cannabinoids and cannabinoid precursors in recombinant cells and in vitro.Type: GrantFiled: October 23, 2020Date of Patent: March 15, 2022Assignee: Ginkgo Bioworks, Inc.Inventors: Kim Cecelia Anderson, Elena Brevnova, Dylan Alexander Carlin, Brian Carvalho, Nicholas Flores, Katrina Forrest, Massimo Merighi, Gabriel Rodriguez, Emily E. Wrenbeck
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Patent number: 11236373Abstract: Disclosed herein are cells, nucleic acids, and proteins that can be used to produce branched (methyl)lipids, such as 10-methylstearic acids, and compositions that include such lipids. Cells disclosed herein comprise methyltransferase and/or reductase genes from bacteria of the class Gammaproteobacteria, which encode enzymes capable of catalyzing the production of branched (methyl)lipids from unbranched, unsaturated lipids. Saturated branched (methyl)lipids produced using embodiments of the present invention have favorable low-temperature fluidity and favorable oxidative stability, which are desirable properties for lubricants and specialty fluids.Type: GrantFiled: September 20, 2018Date of Patent: February 1, 2022Assignee: Ginkgo Bioworks, Inc.Inventors: Arthur J. Shaw, Hannah Blitzblau, Donald V. Crabtree