Patents by Inventor Zhixia Ye

Zhixia Ye has filed for patents to protect the following inventions. This listing includes patent applications that are pending as well as patents that have already been granted by the United States Patent and Trademark Office (USPTO).

  • Publication number: 20240035052
    Abstract: The present disclosure provides compositions and methods for rapid production of chemicals in genetically engineered microorganisms in a large scale. Also provided herein is a high-throughput metabolic engineering platform enabling the rapid optimization of microbial production strains. The platform, which bridges a gap between current in vivo and in vitro bio-production approaches, relies on dynamic minimization of the active metabolic network.
    Type: Application
    Filed: May 15, 2023
    Publication date: February 1, 2024
    Inventors: Michael David Lynch, Zhixia Ye
  • Patent number: 11746362
    Abstract: The present disclosure provides compositions and methods for rapid production of chemicals in genetically engineered microorganisms in a large scale. Also provided herein is a high-throughput metabolic engineering platform enabling the rapid optimization of microbial production strains. The platform, which bridges a gap between current in vivo and in vitro bio-production approaches, relies on dynamic minimization of the active metabolic network.
    Type: Grant
    Filed: January 14, 2022
    Date of Patent: September 5, 2023
    Assignee: DUKE UNIVERSITY
    Inventors: Michael David Lynch, Zhixia Ye
  • Publication number: 20230193264
    Abstract: CRISPR based interference has become common in various application form genetic circuits to dynamic metabolic control. In E. coli, the native CRISPR Cascade system can be utilized for silencing by deletion of the cas3 nuclease along with expression of guide RNA arrays, where multiple genes can be silenced from a single transcript.
    Type: Application
    Filed: March 16, 2021
    Publication date: June 22, 2023
    Inventors: Michael D. Lynch, Zhixia Ye, Eirik Moreb, Juliana Lebeau
  • Publication number: 20220411806
    Abstract: Improved production of recombinant proteins in E. coli, reliant on tightly controlled autoinduction, triggered by phosphate depletion in stationary phase. The process also provides an optimized autoinduction media, enabling routine batch production at various culture volumes where cells densities routinely reach ˜5-7 g cell dry weight per liter and offer protein titers above 2 g/L. The methodology has been validated with a set of diverse heterologous proteins and is of general use for the facile optimization of routine protein expression from high throughput screens to fed-batch fermentation.
    Type: Application
    Filed: October 23, 2020
    Publication date: December 29, 2022
    Inventors: Michael Lynch, Romel Menacho Melgar, Zhixia Ye, Eirik A. Moreb
  • Publication number: 20220220514
    Abstract: The present disclosure provides compositions and methods for rapid production of chemicals in genetically engineered microorganisms in a large scale. Also provided herein is a high-throughput metabolic engineering platform enabling the rapid optimization of microbial production strains. The platform, which bridges a gap between current in vivo and in vitro bio-production approaches, relies on dynamic minimization of the active metabolic network.
    Type: Application
    Filed: January 14, 2022
    Publication date: July 14, 2022
    Inventors: Michael David Lynch, Zhixia Ye
  • Publication number: 20220204969
    Abstract: This invention relates to metabolically engineered microorganisms, such as bacterial and or fungal strains, and bioprocesses utilizing such strains. These strains enable the dynamic control of metabolic pathways, which can be used to optimize production. Dynamic control over metabolism is accomplished via a combination of methodologies including but not limited to transcriptional silencing and controlled enzyme proteolysis. These microbial strains are utilized in a multi-stage bioprocess encompassing at least two stages, the first stage in which organisms are grown and metabolism can be optimized for microbial growth and at least one other stage in which growth can be slowed or stopped, and dynamic changes can be made to metabolism to improve the production of desired product, such as a chemical or fuel.
    Type: Application
    Filed: October 5, 2021
    Publication date: June 30, 2022
    Inventors: Michael David Lynch, Ashley Delanie Trahan, Daniel Rodriguez, Zhixia Ye, Charles Bridwell Cooper, Ahmet Bozdag
  • Patent number: 11339413
    Abstract: The present disclosure provides compositions and methods for rapid production of chemicals in genetically engineered microorganisms in a large scale. Also provided herein is a high-throughput metabolic engineering platform enabling the rapid optimization of microbial production strains. The platform, which bridges a gap between current in vivo and in vitro bio-production approaches, relies on dynamic minimization of the active metabolic network.
    Type: Grant
    Filed: October 23, 2019
    Date of Patent: May 24, 2022
    Assignee: DUKE UNIVERSITY
    Inventors: Michael David Lynch, Zhixia Ye
  • Patent number: 11279956
    Abstract: The present disclosure provides compositions and methods for rapid production of chemicals in genetically engineered microorganisms in a large scale. Also provided herein is a high-throughput metabolic engineering platform enabling the rapid optimization of microbial production strains. The platform, which bridges a gap between current in vivo and in vitro bio-production approaches, relies on dynamic minimization of the active metabolic network.
    Type: Grant
    Filed: October 23, 2019
    Date of Patent: March 22, 2022
    Assignee: DUKE UNIVERSITY
    Inventors: Michael David Lynch, Zhixia Ye
  • Patent number: 11268111
    Abstract: The present disclosure provides compositions and methods for rapid production of chemicals in genetically engineered microorganisms in a large scale. Also provided herein is a high-throughput metabolic engineering platform enabling the rapid optimization of microbial production strains. The platform, which bridges a gap between current in vivo and in vitro bio-production approaches, relies on dynamic minimization of the active metabolic network.
    Type: Grant
    Filed: February 21, 2018
    Date of Patent: March 8, 2022
    Assignee: DUKE UNIVERSITY
    Inventors: Michael David Lynch, Zhixia Ye
  • Patent number: 11236370
    Abstract: The present disclosure provides compositions and methods for rapid production of chemicals in genetically engineered microorganisms in a large scale. Also provided herein is a high-throughput metabolic engineering platform enabling the rapid optimization of microbial production strains. The platform, which bridges a gap between current in vivo and in vitro bio-production approaches, relies on dynamic minimization of the active metabolic network.
    Type: Grant
    Filed: October 23, 2019
    Date of Patent: February 1, 2022
    Assignee: DUKE UNIVERSITY
    Inventors: Michael David Lynch, Zhixia Ye
  • Patent number: 11203744
    Abstract: The present disclosure is related to genetically engineered microbial strains and related bioprocesses for the production of pyruvate and related products. Specifically, the use of dynamically controlled synthetic metabolic valves to reduce the activity of enzymes known to contribute to pyruvate synthesis, leads to increased pyruvate production in a two-stage process rather than a decrease in production.
    Type: Grant
    Filed: June 21, 2019
    Date of Patent: December 21, 2021
    Assignee: DUKE UNIVERSITY
    Inventors: Michael David Lynch, Zhixia Ye
  • Patent number: 11193149
    Abstract: The present disclosure provides compositions and methods for rapid production of chemicals in genetically engineered microorganisms in a large scale. Also provided herein is a high-throughput metabolic engineering platform enabling the rapid optimization of microbial production strains. The platform, which bridges a gap between current in vivo and in vitro bio-production approaches, relies on dynamic minimization of the active metabolic network.
    Type: Grant
    Filed: October 23, 2019
    Date of Patent: December 7, 2021
    Assignee: DUKE UNIVERSITY
    Inventors: Michael David Lynch, Zhixia Ye
  • Patent number: 11142761
    Abstract: This invention relates to metabolically engineered microorganisms, such as bacterial and or fungal strains, and bioprocesses utilizing such strains. These strains enable the dynamic control of metabolic pathways, which can be used to optimize production. Dynamic control over metabolism is accomplished via a combination of methodologies including but not limited to transcriptional silencing and controlled enzyme proteolysis. These microbial strains are utilized in a multi-stage bioprocess encompassing at least two stages, the first stage in which microorganisms are grown and metabolism can be optimized for microbial growth and at least one other stage in which growth can be slowed or stopped, and dynamic changes can be made to metabolism to improve the production of desired product, such as a chemical or fuel.
    Type: Grant
    Filed: April 15, 2020
    Date of Patent: October 12, 2021
    Assignee: DUKE UNIVERSITY
    Inventors: Michael David Lynch, Ashley Trahan, Daniel Rodriguez, Zhixia Ye, Charles Cooper, Ahmet Bozdag
  • Patent number: 11098307
    Abstract: This invention relates to metabolically engineered microorganisms, such as bacterial and or fungal strains, and bioprocesses utilizing such strains. These strains enable the dynamic control of metabolic pathways, which can be used to optimize production. Dynamic control over metabolism is accomplished via a combination of methodologies including but not limited to transcriptional silencing and controlled enzyme proteolysis. These microbial strains are utilized in a multi-stage bioprocess encompassing at least two stages, the first stage in which microorganisms are grown and metabolism can be optimized for microbial growth and at least one other stage in which growth can be slowed or stopped, and dynamic changes can be made to metabolism to improve the production of desired product, such as a chemical or fuel.
    Type: Grant
    Filed: April 15, 2020
    Date of Patent: August 24, 2021
    Assignee: DUKE UNIVERSITY
    Inventors: Michael David Lynch, Ashley Trahan, Daniel Rodriguez, Zhixia Ye, Charles Cooper, Ahmet Bozdag
  • Publication number: 20200347388
    Abstract: This invention relates to metabolically engineered microorganisms, such as bacterial and or fungal strains, and bioprocesses utilizing such strums. These strains enable the dynamic control of metabolic pathways, which can be used to optimize production. Dynamic control over metabolism is accomplished via a combination of methodologies including but not limited to transcriptional silencing and controlled enzyme proteolysis. These microbial strains are utilized in a multi-stage bioprocess encompassing at least two stages, the first stage in which microorganisms are grown and metabolism can be optimized for microbial growth and at least one other stage in which growth can be slowed or stopped, and dynamic changes can be made to metabolism to improve the production of desired product, such as a chemical or fuel.
    Type: Application
    Filed: April 15, 2020
    Publication date: November 5, 2020
    Inventors: Michael David Lynch, Ashley Trahan, Daniel Rodriguez, Zhixia Ye, Charles Cooper, Ahmet Bozdag
  • Publication number: 20200325501
    Abstract: The present disclosure provides compositions and methods for rapid production of chemicals in genetically engineered microorganisms in a large scale. Also provided herein is a high-throughput metabolic engineering platform enabling the rapid optimization of microbial production strains. The platform, which bridges a gap between current in vivo and in vitro bio-production approaches, relies on dynamic minimization of the active metabolic network.
    Type: Application
    Filed: October 23, 2019
    Publication date: October 15, 2020
    Inventors: Michael David Lynch, Zhixia Ye
  • Publication number: 20200299687
    Abstract: This invention relates to metabolically engineered microorganisms, such as bacterial and or fungal strains, and bioprocesses utilizing such strains. These strains enable the dynamic control of metabolic pathways, which can be used to optimize production. Dynamic control over metabolism is accomplished via a combination of methodologies including but not limited to transcriptional silencing and controlled enzyme proteolysis. These microbial strains are utilized in a multi-stage bioprocess encompassing at least two stages, the first stage in which microorganisms are grown and metabolism can be optimized for microbial growth and at least one other stage in which growth can be slowed or stopped, and dynamic changes can be made to metabolism to improve the production of desired product, such as a chemical or fuel.
    Type: Application
    Filed: April 15, 2020
    Publication date: September 24, 2020
    Inventors: Michael David Lynch, Ashley Trahan, Daniel Rodriguez, Zhixia Ye, Charles Cooper, Ahmet Bozdag
  • Publication number: 20200248212
    Abstract: The present disclosure provides compositions and methods for rapid production of chemicals in genetically engineered microorganisms in a large scale. Also provided herein is a high-throughput metabolic engineering platform enabling the rapid optimization of microbial production strains. The platform, which bridges a gap between current in vivo and in vitro bio-production approaches, relies on dynamic minimization of the active metabolic network.
    Type: Application
    Filed: October 23, 2019
    Publication date: August 6, 2020
    Inventors: Michael David Lynch, Zhixia Ye
  • Publication number: 20200248211
    Abstract: The present disclosure provides compositions and methods for rapid production of chemicals in genetically engineered microorganisms in a large scale. Also provided herein is a high-throughput metabolic engineering platform enabling the rapid optimization of microbial production strains. The platform, which bridges a gap between current in vivo and in vitro bio-production approaches, relies on dynamic minimization of the active metabolic network.
    Type: Application
    Filed: October 23, 2019
    Publication date: August 6, 2020
    Inventors: Michael David Lynch, Zhixia Ye
  • Patent number: 10662426
    Abstract: This invention relates to metabolically engineered microorganisms, such as bacterial and or fungal strains, and bioprocesses utilizing such strains. These strains enable the dynamic control of metabolic pathways, which can be used to optimize production. Dynamic control over metabolism is accomplished via a combination of methodologies including but not limited to transcriptional silencing and controlled enzyme proteolysis. These microbial strains are utilized in a multi-stage bioprocess encompassing at least two stages, the first stage in which microorganisms are grown and metabolism can be optimized for microbial growth and at least one other stage in which growth can be slowed or stopped, and dynamic changes can be made to metabolism to improve the production of desired product, such as a chemical or fuel.
    Type: Grant
    Filed: June 11, 2015
    Date of Patent: May 26, 2020
    Assignee: DUKE UNIVERSITY
    Inventors: Michael David Lynch, Ashley Delanie Trahan, Daniel Rodriguez, Zhixia Ye, Charles Bridwell Cooper, Ahmet Bozdag