Patents Examined by Richard G Hutson
  • Patent number: 10731141
    Abstract: Provided are nucleic acids encoding engineered polymerases comprising at least one modification in a motif A and/or at least one modification in a motif B of the polymerase and engineered polymerases encoded by the nucleic acids. Also provided are engineered DNA polymerases comprising a variant of SEQ ID NO:1, SEQ ID NO:2, or SEQ ID NO:3, the variant being at least 80% identical to SEQ ID NO:1, SEQ ID NO:2 or SEQ ID NO:3 and comprising an amino acid substitution at one or more positions selected from the group consisting of L408, Y409, P410, R484, A/L485, and I486. Methods, vectors, kits, and compositions comprising the nucleic acids and compositions, methods and kits comprising the engineered polymerases are also provided.
    Type: Grant
    Filed: September 11, 2019
    Date of Patent: August 4, 2020
    Assignee: OMNIOME, INC.
    Inventor: Pinar Iyidogan
  • Patent number: 10724046
    Abstract: A method of improving lipid productivity, containing the steps of: enhancing the expression of a gene encoding the following protein (A) or (B), and improving the productivity of medium-chain fatty acids or lipids containing these fatty acids as components produced in a cell of a transformant, or the total amount of all fatty acids produced in a cell of a transformant: (A) a protein consisting of the amino acid sequence set forth in SEQ ID NO: 1; and (B) a protein consisting of an amino acid sequence having 64% or more identity with the amino acid sequence of the protein (A), and having glycerol-3-phosphate dehydrogenase activity.
    Type: Grant
    Filed: September 1, 2016
    Date of Patent: July 28, 2020
    Assignee: Kao Corporation
    Inventor: Shinji Sugihara
  • Patent number: 10724016
    Abstract: Disclosed are mutant DNA polymerases having increased 3?-mismatch discrimination relative to a corresponding, unmodified polymerase. The mutant polymerases are useful in a variety of disclosed primer extension methods. Also disclosed are related compositions, including recombinant nucleic acids, vectors, and host cells, which are useful, e.g., for production of the mutant DNA polymerases.
    Type: Grant
    Filed: May 1, 2018
    Date of Patent: July 28, 2020
    Assignee: Roche Molecular Systems, Inc.
    Inventors: Fred Reichert, Keith Bauer, Thomas W. Myers, Nancy J. Schoenbrunner, Joseph San Filippo
  • Patent number: 10724015
    Abstract: The present invention relates to a mutant microorganism in which a gene that encodes phosphofructokinase-2 is disrupted or deleted to reduce glycolytic flux to thereby improve the ability of the microorganism to produce N-acetylglucosamine, and to a method of producing N-acetylglucosamine using the mutant microorganism. The mutant microorganism according to the present invention has advantages in that it has high resistance to various chemical substances, grows rapidly, is easily cultured, and produces N-acetylglucosamine with high efficiency, indicating that it is useful for production of a large amount of N-acetylglucosamine.
    Type: Grant
    Filed: May 17, 2017
    Date of Patent: July 28, 2020
    Assignee: KOREA UNIVERSITY RESEARCH AND BUSINESS FOUNDATION
    Inventors: Min-Kyu Oh, Sang-Woo Lee
  • Patent number: 10717975
    Abstract: Methods and compositions are described for selecting and identifying orthogonal aminoacyl synthetase-tRNA pairs and their use to incorporate unnatural amino acids in a site-specific manner in proteins. Specifically described is a novel E. coli tyrptophanyl synthetase-tRNA pair that functions as both an opal and amber suppressor and that incorporates tryptophan analogs into proteins.
    Type: Grant
    Filed: May 31, 2017
    Date of Patent: July 21, 2020
    Assignee: TRUSTEES OF BOSTON COLLEGE
    Inventors: Abhishek Chatterjee, James Italia
  • Patent number: 10717968
    Abstract: Compositions that include polymerases with features for improving entry of nucleotide analogues into active site regions and for coordinating with the nucleotide analogues in the active site region are provided. Methods of making the polymerases and of using the polymerases in sequencing and DNA replication and amplification as well as kinetic models of polymerase activity and computer-implemented methods of using the models are also provided.
    Type: Grant
    Filed: February 12, 2018
    Date of Patent: July 21, 2020
    Assignee: Pacific Biosciences of California, Inc.
    Inventors: David R. Rank, Paul S. Peluso, David K. Hanzel, Geoff Otto, Thang Pham, Fred Christians, Arekadiusz Bibillo, Insil Park, Sonya Clark, John Lyle
  • Patent number: 10704064
    Abstract: Provided are a recombinant yeast producing 3-hydroxypropionic acid (3-HP) and a method for producing 3-HP using the same, more particularly, a recombinant yeast producing 3-HP, comprising an exogenous AADH gene; an endogenous or exogenous ACC gene; an exogenous MCR gene; and an exogenous HPDH gene, and producing 3-HP through [Pyruvate Acetaldehyde?Acetyl-CoA Malonyl-CoA Malonate semialdehyde 3-HP] biosynthesis pathway, and a method for producing 3-HP using the same.
    Type: Grant
    Filed: August 28, 2015
    Date of Patent: July 7, 2020
    Assignee: SK Innovation Co., Ltd.
    Inventors: Joong Min Park, Jae Yeon Park, Woo Chan Park, Sang Min Lee, Young Bin Seo, Merja Oja, Outi Koivistoinen, Andrew Conley, Marja Ilmen, Laura Ruohonen, Paula Jouhten
  • Patent number: 10696953
    Abstract: The present disclosure provides engineered ketoreductase enzymes having improved properties as compared to a naturally occurring wild-type ketoreductase enzyme. Also provided are polynucleotides encoding the engineered ketoreductase enzymes, host cells capable of expressing the engineered ketoreductase enzymes, and methods of using the engineered ketoreductase enzymes to synthesize a variety of chiral compounds.
    Type: Grant
    Filed: February 5, 2016
    Date of Patent: June 30, 2020
    Assignee: Codexis, Inc.
    Inventors: Oscar Alvizo, Nicholas J. Agard, Xinkai Xie, David Entwistle, Birgit Kosjek
  • Patent number: 10676512
    Abstract: The present disclosure relates to a novel modified RNA polymerase sigma factor A (SigA) polypeptide; a polynucleotide encoding the same; a microorganism containing the polypeptide; and a method for producing L-lysine using the microorganism.
    Type: Grant
    Filed: September 4, 2015
    Date of Patent: June 9, 2020
    Assignee: CJ CHEILJEDANG CORPORATION
    Inventors: Lan Huh, Kwang Ho Lee, Hyung Joon Kim, Jun Ok Moon, Song-Gi Ryu
  • Patent number: 10662413
    Abstract: A composition comprising a recombinant DNA polymerase and 3?-esterified nucleotide analogues is provided. The recombinant DNA polymerase includes an amino acid sequence that is at least 90% homology with 9° N DNA polymerase (SEQ ID NO: 1), and the recombinant DNA polymerase includes at least two mutations at the positions corresponding to amino acid residues 141 and 143 of the 9° N DNA polymerase. A recombinant DNA polymerase is further provided. The recombinant DNA polymerase includes an amino acid sequence that is at least 90% homology with 9° N-III DNA polymerase (SEQ ID NO: 3), and the recombinant DNA polymerase includes one or two mutations at the positions corresponding to amino acid residue 480 and 486 of the 9° N-III DNA polymerase. A method of performing a polymerization reaction is also provided.
    Type: Grant
    Filed: October 31, 2017
    Date of Patent: May 26, 2020
    Assignee: PERSONAL GENOMICS, INC.
    Inventors: Shiuan-Woei Lin Wu, Ching-Wei Tsai, Ting-Yueh Tsai, Jyun-Yuan Huang, Chao-Chi Pan, Li-Chi Chang, Ching-Long Hwong
  • Patent number: 10647966
    Abstract: Disclosed are mutant DNA polymerases having increased 3?-mismatch discrimination relative to a corresponding, unmodified polymerase. The mutant polymerases are useful in a variety of disclosed primer extension methods. Also disclosed are related compositions, including recombinant nucleic acids, vectors, and host cells, which are useful, e.g., for production of the mutant DNA polymerases.
    Type: Grant
    Filed: January 5, 2018
    Date of Patent: May 12, 2020
    Assignee: Roche Molecular Systems, Inc.
    Inventors: Fred Reichert, Keith Bauer, Thomas W. Myers
  • Patent number: 10647967
    Abstract: Disclosed are mutant DNA polymerases having increased 3?-mismatch discrimination relative to a corresponding, unmodified polymerase. The mutant polymerases are useful in a variety of disclosed primer extension methods. Also disclosed are related compositions, including recombinant nucleic acids, vectors, and host cells, which are useful, e.g., for production of the mutant DNA polymerases.
    Type: Grant
    Filed: January 11, 2018
    Date of Patent: May 12, 2020
    Assignee: Roche Molecular Systems, Inc.
    Inventors: Fred Reichert, Keith Bauer, Thomas W. Myers
  • Patent number: 10633641
    Abstract: The present disclosure provides compositions, methods, kits, systems and apparatus that are useful for nucleic acid polymerization. In particular, modified polymerases and biologically active fragment thereof are provided that allow for nucleic acid amplification. In one aspect, the disclosure relates to modified polymerases useful for nucleic acid sequencing, genotyping, copy number variation analysis, paired-end sequencing and other forms of genetic analysis. In some aspects, the disclosure relates to modified polymerases useful for the generation of nucleic acid libraries or nucleic acid templates for use in various downstream processes. In some aspects, the disclosure relates to the identification of homologous amino acid mutations that can be transferred across classes or families of polymerases to provide novel polymerases with altered catalytic properties. In some aspects, the disclosure provides modified polymerases having enhanced catalytic properties as compared to a reference polymerase.
    Type: Grant
    Filed: April 23, 2018
    Date of Patent: April 28, 2020
    Assignee: Life Technologies Corporation
    Inventors: Peter Vander Horn, Theo Nikiforov, Guobin Luo, Mindy Landes, Daniel Mazur, Eileen Tozer, Tommie Lloyd Lincecum
  • Patent number: 10626383
    Abstract: This disclosure relates to thermophilic family B DNA polymerases comprising a neutral amino acid residue at a certain position near the C-terminus of the catalytic domain, which corresponds to a position occupied by a basic amino acid residue in wild-type Pfu polymerase. Related uses, methods, and compositions are also provided. In some embodiments, the polymerases comprise a 3?-5? exonuclease domain and/or a sequence non-specific dsDNA binding domain.
    Type: Grant
    Filed: January 13, 2017
    Date of Patent: April 21, 2020
    Assignee: THERMO FISHER SCIENTIFIC BALTICS UAB
    Inventors: Remigijus Skirgaila, Renata Rimseliene, Rasa Sukackaite, Martyna Simutyte, Skaiste Valinskyte, Karolis Matjosaitis, Mindaugas Ukanis
  • Patent number: 10626456
    Abstract: Provided are compositions comprising recombinant DNA polymerases that include amino acid substitutions, insertions, deletions, and/or exogenous features that confer modified properties upon the polymerase for enhanced single molecule sequencing or nucleic acid amplification. Such properties include enhanced performance with large nucleotide analogs, increased stability, increased readlength, and improved detection of modified bases, and can also include resistance to photodamage, enhanced metal ion coordination, reduced exonuclease activity, reduced reaction rates at one or more steps of the polymerase kinetic cycle, decreased branching fraction, altered cofactor selectivity, increased yield, increased accuracy, altered speed, increased cosolvent resistance, and the like. Also provided are nucleic acids which encode the polymerases with the aforementioned phenotypes, as well as methods of using such polymerases to make a DNA or to sequence a DNA template.
    Type: Grant
    Filed: December 14, 2017
    Date of Patent: April 21, 2020
    Assignee: Pacific Biosciences of California, Inc.
    Inventors: Satwik Kamtekar, Erik Miller
  • Patent number: 10626390
    Abstract: Provided herein are compositions, systems, and methods using multiple ligases, wherein at least one of the ligases is an adenylation-deficient ATP-dependent ligase or an un-adenylated ATP-dependent ligase (e.g., present in an ATP free mixture). In certain embodiments, multiple ligases are used to ligate a pre-adenylated double stranded sequence to a non-adenylated double stranded sequence (e.g., the adenylation-deficient ATP-dependent ligase or un-adenylated ATP-dependent ligase ligates the first strand, and a second ligase ligates the second strand). In other embodiments, provided herein are mutant T4 ligases (e.g., K159S mutant or K159C mutant).
    Type: Grant
    Filed: February 7, 2017
    Date of Patent: April 21, 2020
    Assignee: RGENE, INC.
    Inventors: Yu Zheng, Manqing Hong
  • Patent number: 10590400
    Abstract: Disclosed are mutant DNA polymerases having increased 3?-mismatch discrimination relative to a corresponding, unmodified polymerase. The mutant polymerases are useful in a variety of disclosed primer extension methods. Also disclosed are related compositions, including recombinant nucleic acids, vectors, and host cells, which are useful, e.g., for production of the mutant DNA polymerases.
    Type: Grant
    Filed: January 4, 2018
    Date of Patent: March 17, 2020
    Assignee: Roch Molecular Systems, Inc.
    Inventors: Keith Bauer, Fred Reichert, Thomas W. Myers
  • Patent number: 10577593
    Abstract: The invention provides novel compositions with polymerase activity and methods of using the compositions.
    Type: Grant
    Filed: June 26, 2017
    Date of Patent: March 3, 2020
    Assignee: Bio-Rad Laboratories, Inc.
    Inventors: Peter B. Vander Horn, Yan Wang
  • Patent number: 10563182
    Abstract: Disclosed are mutant DNA polymerases having increased 3?-mismatch discrimination relative to a corresponding, unmodified polymerase. The mutant polymerases are useful in a variety of disclosed primer extension methods. Also disclosed are related compositions, including recombinant nucleic acids, vectors, and host cells, which are useful, e.g., for production of the mutant DNA polymerases.
    Type: Grant
    Filed: November 22, 2017
    Date of Patent: February 18, 2020
    Assignee: Roche Molecular Systems, Inc.
    Inventors: Fred Reichert, Keith Bauer, Thomas W. Myers
  • Patent number: 10544404
    Abstract: Disclosed are mutant DNA polymerases having increased 3?-mismatch discrimination relative to a corresponding, unmodified polymerase. The mutant polymerases are useful in a variety of disclosed primer extension methods. Also disclosed are related compositions, including recombinant nucleic acids, vectors, and host cells, which are useful, e.g., for production of the mutant DNA polymerases.
    Type: Grant
    Filed: December 6, 2017
    Date of Patent: January 28, 2020
    Assignee: Roche Molecular Systems, Inc.
    Inventors: Keith Bauer, Fred Reichert, Thomas W. Myers