Patents Examined by Richard Hutson
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Patent number: 9714915Abstract: Methods, compositions, systems, apparatuses and kits comprising modified proteins, particularly modified nucleic acid-binding proteins with altered buffering properties are provided. For example, in some embodiments, methods of forming modified proteins including one or more amino acid modifications to achieve desired pKa values are described. Furthermore, the invention provides methods for using such modified proteins in ion-producing reactions, such as ion-based nucleic acid sequencing reactions.Type: GrantFiled: May 28, 2015Date of Patent: July 25, 2017Assignee: Life Technologies CorporationInventors: John Davidson, Wolfgang Hinz, Jonathan Rothberg, Richard Whitaker
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Patent number: 9708646Abstract: The present disclosure provides variant Csy4 endoribonucleases, nucleic acids encoding the variant Csy4 endoribonucleases, and host cells genetically modified with the nucleic acids. The variant Csy4 endoribonucleases find use in a variety of applications, which are also provided. The present disclosure also provides methods of detecting a specific sequence in a target polyribonucleotide; and methods of regulating production of a target RNA in a eukaryotic cell.Type: GrantFiled: February 10, 2017Date of Patent: July 18, 2017Assignee: The Regents of the University of CaliforniaInventors: Rachel E. Haurwitz, Jennifer A. Doudna, Blake Wiedenheft, Martin Jinek
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Patent number: 9708598Abstract: This invention provides for methods of sequencing and performing polymerase reactions using an improved generation of nucleic acid polymerases. The improvement is the fusion of a sequence-non-specific nucleic-acid-binding domain to the enzyme in a manner that enhances the processivity of the polymerase.Type: GrantFiled: August 20, 2015Date of Patent: July 18, 2017Assignee: Bio-Rad Laboratories, Inc.Inventors: Yan Wang, Peter Vander Horn, Lei Xi
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Patent number: 9695471Abstract: Provided herein are systems and methods for nucleotide incorporation reactions. The systems comprise polymerases having altered nucleotide incorporation kinetics and are linked to an energy transfer donor moiety, and nucleotide molecules linked with at least one energy transfer acceptor moiety. The donor and acceptor moieties undergo energy transfer when the polymerase and nucleotide are proximal to each other during nucleotide binding and/or nucleotide incorporation. As the donor and acceptor moieties undergo energy transfer, they generate an energy transfer signal which can be associated with nucleotide binding or incorporation. Detecting a time sequence of the generated signals, or the change in the signals, can be used to determine the order of the incorporated nucleotides, and can therefore be used to deduce the sequence of the target molecule.Type: GrantFiled: December 29, 2014Date of Patent: July 4, 2017Assignee: Life Technologies CorporationInventors: Joseph Beechem, Theo Nikiforov, Vi-En Choong, Xinzhan Peng, Guobin Luo, Cheng-Yao Chen, Michael Previte
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Patent number: 9688969Abstract: The invention provides novel compositions with polymerase activity and methods of using the compositions.Type: GrantFiled: September 3, 2015Date of Patent: June 27, 2017Assignee: Bio-Rad Laboratories, Inc.Inventors: Peter B. Vander Horn, Yan Wang
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Patent number: 9683247Abstract: The disclosure relates to a recombinant microorganism engineered to express an enzyme which catalyzes the conversion of a primary amine and an acyl thioester to a fatty amide. The disclosure further encompasses a method of producing a fatty amide by culturing the recombinant microorganism in the presence of a carbon source.Type: GrantFiled: March 12, 2013Date of Patent: June 20, 2017Assignee: REG LIFE SCIENCES, LLCInventors: Jason J. Lutes, Stephen del Cardayre
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Patent number: 9677059Abstract: The present invention relates to thermostable endoglucanases, particularly to proteins having endoglucanase activity which comprises an amino acid sequence having at least 96% identity to SEQ. ID NO.: 2, and proteins having endoglucanase activity which belongs to the GH7 class and which shows active thermostabilization.Type: GrantFiled: April 30, 2013Date of Patent: June 13, 2017Assignee: CLARIANT PRODUKTE (DEUTSCHLAND) GMBHInventors: Christoph Reisinger, Joerg Claren, Isabel Unterstrasser, Aleksandra Mitrovic, Karlheinz Flicker, Gabi Gebhardt
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Patent number: 9663769Abstract: The present disclosure provide novel variants of T7 RNA polymerase. Embodiments of T7 variants, according to the instant invention, include a Cysteine-Serine substitution on position 723 of the amino acid sequence of the T7 polypeptide. Embodiments of T7 variants according to the instant invention have a DNA-dependent RNA polymerase enzymatic activity and a reduced tendency to form intramolecular homodimers by way of oxidizing thiol groups. The amino acid substitutions within the T7 variants disclosed herein impact minimally, if at all, the RNA polymerase activity of the T7 polypeptide. Further, the mutations of the disclosed embodiments may optionally be combined with mutations which provide enhanced thermostability compared to the wild-type reference.Type: GrantFiled: October 1, 2015Date of Patent: May 30, 2017Assignee: Roche Diagnostics Operations, Inc.Inventors: Michael Greif, Christian Rudolph, Manfred Schmidt, Harald Sobek, Johann-Peter Thalhofer
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Patent number: 9650656Abstract: The biosynthesis of fungal bicyclo[2.2.2]diazaoctane indole alkaloids with a wide spectrum of biological activities have attracted increasing interest. Their intriguing mode of assembly has long been proposed to feature a non-ribosomal peptide synthetase, a presumed intramolecular Diels-Alderase, a variant number of prenyltransferases, and a series of oxidases responsible for the diverse tailoring modifications of their cyclodipeptide-based structural core. Until recently, the details of these biosynthetic pathways have remained largely unknown due to lack of information on the fungal derived biosynthetic gene clusters. Herein, we report a comparative analysis of four natural product metabolic systems of a select group of bicyclo[2.2.2]diazaoctane indole alkaloids including (+)/(?)-notoamide, paraherquamide and malbrancheamide, in which we propose an enzyme for each step in the biosynthetic pathway based on deep annotation and on-going biochemical studies.Type: GrantFiled: April 3, 2013Date of Patent: May 16, 2017Assignees: THE REGENTS OF THE UNIVERSITY OF MICHIGAN, COLORADO STATE UNIVERSITY RESEARCH FOUNDATIONInventors: Shengying Li, Krithika Anand Srinivasan, Robert M. Williams, David H. Sherman
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Patent number: 9650672Abstract: Provided are compositions comprising modified DNA polymerases that exhibit improved photostability compared to the parental polymerases from which they were derived. Provided are methods for generating enzymes, such as DNA polymerases, with the aforementioned phenotype. Provided are methods of using polymerases with increased resistance to photodamage to make a DNA or to sequence a DNA template.Type: GrantFiled: August 5, 2015Date of Patent: May 16, 2017Assignee: Pacific Biosciences of California, Inc.Inventor: Keith Bjornson
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Patent number: 9644009Abstract: An L-amino acid is produced by culturing a microorganism of the family Enterobacteriaceae which has the ability to produce an L-amino acid and which has been modified so as to increase the expression of the evgA gene, the gadE gene, and/or the ydeO gene. These genes encode a transcription factor involved in the EvgAS two-component system regulon. The culture takes place in a medium, and the L-amino acid is collected from the medium or cells.Type: GrantFiled: March 26, 2008Date of Patent: May 9, 2017Assignee: AJINOMOTO CO., INC.Inventors: Shintaro Iwatani, Akira Imaizumi, Yoshihiro Usuda, Kazuhiko Matsui
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Patent number: 9637551Abstract: The present invention provides multi-component inhibitors of nucleic acid polymerases, methods of making, and methods of using same. One component of the multi-component inhibitor is a molecule that binds to a polymerase (i.e., a polymerase-binding molecule (PBM)), but does not thereby substantially inhibit its polymerase activity. Another component is a molecule or complex of molecules that binds to a PBM (i.e., a PBM-binding molecule). The combination of the PBM and PBM-binding molecule/complex substantially inhibits polymerase activity.Type: GrantFiled: December 11, 2009Date of Patent: May 2, 2017Assignee: LIFE TECHNOLOGIES CORPORATIONInventors: John D. Bishop, Jun E. Lee
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Patent number: 9631182Abstract: The invention provides nucleic acids and polypeptides for nucleic acid polymerases from a thermophilic organism, Thermus brockianus. The invention also provides methods for using these nucleic acids and polypeptides.Type: GrantFiled: September 13, 2012Date of Patent: April 25, 2017Assignee: Applied Biosystems, LLCInventors: Elena Bolchakova, James Rozzelle
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Patent number: 9631213Abstract: The present invention relates to methods for degrading or converting a cellulose-containing material, comprising: treating the cellulose-containing material with an effective amount of a cellulolytic enzyme composition comprising a polypeptide having cellulolytic enhancing activity, and one or more (several) components selected from the group consisting of a CEL7 polypeptide having endoglucanase activity, a CEL12 polypeptide having endoglucanase activity, a CEL45 polypeptide having endoglucanase activity, a CEL7 polypeptide having cellobiohydrolase activity with a cellulose binding domain, and a CEL7 polypeptide having cellobiohydrolase activity without a cellulose binding domain. The present invention also relates to such cellulolytic enzyme compositions.Type: GrantFiled: March 27, 2015Date of Patent: April 25, 2017Assignee: Novozymes, Inc.Inventor: Keith McFarland
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Patent number: 9631057Abstract: In one embodiment the instant invention generally pertains to a method for producing glucose for fermentation. The method comprises first treating a biomass with acid and heat under conditions sufficient to produce a composition mixture comprising cellulose suitable for enzymatic hydrolysis. Next, at least a portion of the cellulose of step (a) is enzymatically hydrolyzed under conditions sufficient to form a composition comprising glucose. The glucose is then fermented. Advantageously, one or more reaction conditions are more efficient because they are selected by first measuring an initial hydrolysis rate of said biomass and then selecting one or more appropriate reaction conditions based upon said initial hydrolysis rate.Type: GrantFiled: November 9, 2010Date of Patent: April 25, 2017Assignees: Texaco Inc., Georgia Tech Research CorporationInventors: Matthew James Realff, Ronald W. Smith, Prabuddha Bansal, Andreas Sebastian Bommarius, Melanie Hall, Jay Hyung Lee
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Patent number: 9617588Abstract: Polymorphisms are present throughout an organism's genome, and understanding which alleles are present in a particular organism's genome can be advantageous. When probing the identity of these alleles, one must minimize incorrect readings due to inefficiencies in the system. In hydrolysis probe applications, these inefficiencies may be due to over-activity of an exonuclease functionality that excises nucleotides from probes that are only partially, complementary to a region of a target. The present invention provides a mixture that contains a plurality of polymerases including one that has a 5??3? exonuclease functionality and one that lacks or substantially lacks it, each in a sufficient relative amount and concentration to increase efficiencies of the system.Type: GrantFiled: October 4, 2011Date of Patent: April 11, 2017Assignee: Thermo Fisher Scientific Baltics UABInventor: Jaakko Kurkela
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Patent number: 9605284Abstract: A microorganism with improved acid-resistance. A microorganism capable of efficiently producing 3-HP, and methods for producing an organic acid.Type: GrantFiled: November 3, 2014Date of Patent: March 28, 2017Assignee: SAMSUNG ELECTRONICS CO., LTD.Inventors: Juyoung Lee, Hyunmin Koo, Jaechan Park, Jieun Kim, Jinha Kim, Joonsong Park, Soonchun Chung, Byungkwan Cho
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Patent number: 9605246Abstract: The present disclosure provides variant Csy4 endoribonucleases, nucleic acids encoding the variant Csy4 endoribonucleases, and host cells genetically modified with the nucleic acids. The variant Csy4 endoribonucleases find use in a variety of applications, which are also provided. The present disclosure also provides methods of detecting a specific sequence in a target polyribonucleotide; and methods of regulating production of a target RNA in a eukaryotic cell.Type: GrantFiled: June 10, 2015Date of Patent: March 28, 2017Assignee: The Regents of the University of CaliforniaInventors: Rachel E. Haurwitz, Jennifer A. Doudna, Blake Wiedenheft, Martin Jinek
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Patent number: 9598679Abstract: A composition having nucleic acid polymerase activity, which comprises an active nucleic acid polymerase and an excess amount of a non-functional mutant nucleic acid polymerase protein, wherein the non-functional mutant nucleic acid polymerase protein stabilizes the active nucleic acid polymerase against loss of polymerase activity.Type: GrantFiled: September 9, 2010Date of Patent: March 21, 2017Assignee: Thermo Fisher Scientific Baltics UABInventors: Arunas Lagunavicius, Arvydas Janulaitis
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Patent number: 9593315Abstract: Provided herein are mutant DNA-dependent polymerases which are derived from, or otherwise related to, wild type RB69 DNA polymerase. These mutant polymerases are capable of selectively binding labeled nucleotides. These mutant polymerases are also capable of incorporating a variety of naturally occurring and modified nucleotides, including, for example, terminator nucleotides.Type: GrantFiled: July 1, 2016Date of Patent: March 14, 2017Assignee: Life Technologies CorporationInventors: Marian Peris, Michael Phelan, Barnett Rosenblum, Stephen Hendricks