公开(公告)号：US11708589B2

公开(公告)日：2023-07-25

申请号：US16894600

申请日：2020-06-05

Applicant: Genomatica, Inc.

Inventor： Anthony P. Burgard ,  Mark J. Burk ,  Robin E. Osterhout ,  Jun Sun ,  Priti Pharkya

IPC: C12P7/18 ,  C12N15/52

CPC classification number: C12P7/18 ,  C12N15/52

Abstract: Provided herein is a non-naturally occurring microbial organism having a 1,3-butanediol (1,3-BDO) pathway and comprising at least one exogenous nucleic acid encoding a 1,3-BDO pathway enzyme expressed in a sufficient amount to produce 1,3-BDO. In some embodiments, the pathway includes reducing equivalents from CO or hydrogen. In certain embodiments, a 1,3-BDO pathway proceeds by way of central metabolites pyruvate, succinate or alpha-ketoglutarate. Also provided herein is a method for producing 1,3-BDO, includes culturing such microbial organisms under conditions and for a sufficient period of time to produce 1,3-BDO.

公开(公告)号：US20190085363A1

公开(公告)日：2019-03-21

申请号：US15960410

申请日：2018-04-23

Applicant: Genomatica, Inc.

Inventor： Anthony P. Burgard ,  Mark J. Burk ,  Robin E. Osterhout ,  Jun Sun ,  Priti Pharkya

IPC: C12P7/18 ,  C12N15/52

Abstract: Provided herein is a non-naturally occurring microbial organism having a 1,3-butanediol (1,3-BDO) pathway and comprising at least one exogenous nucleic acid encoding a 1,3-BDO pathway enzyme expressed in a sufficient amount to produce 1,3-BDO. In some embodiments, the pathway includes reducing equivalents from CO or hydrogen. In certain embodiments, a 1,3-BDO pathway proceeds by way of central metabolites pyruvate, succinate or alpha-ketoglutarate. Also provided herein is a method for producing 1,3-BDO, includes culturing such microbial organisms under conditions and for a sufficient period of time to produce 1,3-BDO.

公开(公告)号：US20190048366A1

公开(公告)日：2019-02-14

申请号：US15917411

申请日：2018-03-09

Applicant: Genomatica, Inc.

Inventor： Mark J. Burk ,  Anthony P. Burgard ,  Jun Sun ,  Robin E. Osterhout ,  Priti Pharkya

IPC: C12P5/02 ,  C07C1/24 ,  C12P7/04 ,  C12N15/52 ,  C07C11/167

Abstract: The invention provides non-naturally occurring microbial organisms having a butadiene pathway. The invention additionally provides methods of using such organisms to produce butadiene.

公开(公告)号：US20200299736A1

公开(公告)日：2020-09-24

申请号：US16664648

申请日：2019-10-25

Applicant: Genomatica, Inc.

Inventor： Mark J. Burk ,  Anthony P. Burgard ,  Jun Sun ,  Robin E. Osterhout ,  Priti Pharkya

IPC: C12P5/02 ,  C12N15/52 ,  C07C11/16 ,  C08F136/06

Abstract: The invention provides non-naturally occurring microbial organisms having a butadiene pathway. The invention additionally provides methods of using such organisms to produce butadiene.

公开(公告)号：US20180312883A1

公开(公告)日：2018-11-01

申请号：US16032772

申请日：2018-07-11

Applicant: GENOMATICA, INC.

Inventor： Mark J. Burk ,  Robin E. Osterhout ,  Jun Sun

IPC: C12P7/44 ,  C12N9/88

CPC classification number: C12P7/44 ,  C12N9/88 ,  C12Y402/01002

Abstract: The invention provides a non-naturally occurring microbial organism having a muconate pathway having at least one exogenous nucleic acid encoding a muconate pathway enzyme expressed in a sufficient amount to produce muconate. The muconate pathway including an enzyme selected from the group consisting of a beta-ketothiolase, a beta-ketoadipyl-CoA hydrolase, a beta-ketoadipyl-CoA transferase, a beta-ketoadipyl-CoA ligase, a 2-fumarylacetate reductase, a 2-fumarylacetate dehydrogenase, a trans-3-hydroxy-4-hexendioate dehydratase, a 2-fumarylacetate aminotransferase, a 2-fumarylacetate aminating oxidoreductase, a trans-3-amino-4-hexenoate deaminase, a beta-ketoadipate enol-lactone hydrolase, a muconolactone isomerase, a muconate cycloisomerase, a beta-ketoadipyl-CoA dehydrogenase, a 3-hydroxyadipyl-CoA dehydratase, a 2,3-dehydroadipyl-CoA transferase, a 2,3-dehydroadipyl-CoA hydrolase, a 2,3-dehydroadipyl-CoA ligase, a muconate reductase, a 2-maleylacetate reductase, a 2-maleylacetate dehydrogenase, a cis-3-hydroxy-4-hexendioate dehydratase, a 2-maleylacetate aminoatransferase, a 2-maleylacetate aminating oxidoreductase, a cis-3-amino-4-hexendioate deaminase, and a muconate cis/trans isomerase. Other muconate pathway enzymes also are provided. Additionally provided are methods of producing muconate.

公开(公告)号：US10041093B2

公开(公告)日：2018-08-07

申请号：US15383593

申请日：2016-12-19

Applicant: GENOMATICA, INC.

Inventor： Mark J. Burk ,  Robin E. Osterhout ,  Jun Sun

IPC: C12N1/20 ,  C12P7/44 ,  C12N9/88

CPC classification number: C12P7/44 ,  C12N9/88 ,  C12Y402/01002

Abstract: The invention provides a non-naturally occurring microbial organism having a muconate pathway having at least one exogenous nucleic acid encoding a muconate pathway enzyme expressed in a sufficient amount to produce muconate. The muconate pathway including an enzyme selected from the group consisting of a beta-ketothiolase, a beta-ketoadipyl-CoA hydrolase, a beta-ketoadipyl-CoA transferase, a beta-ketoadipyl-CoA ligase, a 2-fumarylacetate reductase, a 2-fumarylacetate dehydrogenase, a trans-3-hydroxy-4-hexendioate dehydratase, a 2-fumarylacetate aminotransferase, a 2-fumarylacetate aminating oxidoreductase, a trans-3-amino-4-hexenoate deaminase, a beta-ketoadipate enol-lactone hydrolase, a muconolactone isomerase, a muconate cycloisomerase, a beta-ketoadipyl-CoA dehydrogenase, a 3-hydroxyadipyl-CoA dehydratase, a 2,3-dehydroadipyl-CoA transferase, a 2,3-dehydroadipyl-CoA hydrolase, a 2,3-dehydroadipyl-CoA ligase, a muconate reductase, a 2-maleylacetate reductase, a 2-maleylacetate dehydrogenase, a cis-3-hydroxy-4-hexendioate dehydratase, a 2-maleylacetate aminoatransferase, a 2-maleylacetate aminating oxidoreductase, a cis-3-amino-4-hexendioate deaminase, and a muconate cis/trans isomerase. Other muconate pathway enzymes also are provided. Additionally provided are methods of producing muconate.

公开(公告)号：US20140302573A1

公开(公告)日：2014-10-09

申请号：US14308292

申请日：2014-06-18

Applicant: Genomatica, Inc.

Inventor： Mark J. Burk ,  Robin E. Osterhout ,  Jun Sun

IPC: C12P7/44

CPC classification number: C12P7/44 ,  C12N9/88 ,  C12Y402/01002

Abstract: The invention provides a non-naturally occurring microbial organism having a muconate pathway having at least one exogenous nucleic acid encoding a muconate pathway enzyme expressed in a sufficient amount to produce muconate. The muconate pathway including an enzyme selected from the group consisting of a beta-ketothiolase, a beta-ketoadipyl-CoA hydrolase, a beta-ketoadipyl-CoA transferase, a beta-ketoadipyl-CoA ligase, a 2-fumarylacetate reductase, a 2-fumarylacetate dehydrogenase, a trans-3-hydroxy-4-hexendioate dehydratase, a 2-fumarylacetate aminotransferase, a 2-fumarylacetate aminating oxidoreductase, a trans-3-amino-4-hexenoate deaminase, a beta-ketoadipate enol-lactone hydrolase, a muconolactone isomerase, a muconate cycloisomerase, a beta-ketoadipyl-CoA dehydrogenase, a 3-hydroxyadipyl-CoA dehydratase, a 2,3-dehydroadipyl-CoA transferase, a 2,3-dehydroadipyl-CoA hydrolase, a 2,3-dehydroadipyl-CoA ligase, a muconate reductase, a 2-maleylacetate reductase, a 2-maleylacetate dehydrogenase, a cis-3-hydroxy-4-hexendioate dehydratase, a 2-maleylacetate aminoatransferase, a 2-maleylacetate aminating oxidoreductase, a cis-3-amino-4-hexendioate deaminase, and a muconate cis/trans isomerase. Other muconate pathway enzymes also are provided. Additionally provided are methods of producing muconate.

Abstract translation: 本发明提供了一种非天然存在的微生物，其具有一种具有至少一种外源核酸的粘蛋白途径的微生物生物，所述外源核酸编码以足够量表达的粘蛋白途径酶以产生粘蛋白。 所述粘蛋白途径包括选自β-酮硫解酶，β-酮己二酰辅酶A水解酶，β-酮己二酰辅酶A转移酶，β-酮己二酰辅酶A连接酶，2-富马酰乙酸酯还原酶，2- 富马酰乙酸脱氢酶，反式-3-羟基-4-己二酸脱水酶，2-富马酸乙酯氨基转移酶，2-富马酸乙酯胺化氧化还原酶，反式-3-氨基-4-己烯酸脱氨酶，β-酮己二酸烯醇内酯水解酶， 粘蛋白内酯异构酶，粘蛋白环异构酶，β-酮己二酰辅酶A脱氢酶，3-羟基己二酰辅酶A脱水酶，2,3-脱氢阿迪普基-CoA转移酶，2,3-脱氢阿迪普基-CoA水解酶，2,3-脱氢阿迪普酯 - CoA连接酶，粘蛋白还原酶，2-马来酰乙酸酯还原酶，2-马来酰乙酸酯脱氢酶，顺式-3-羟基-4-己二酸脱水酶，2-马来酰乙酸氨基转移酶，2-马来酰乙酸胺胺化氧化还原酶，顺式-3-氨基 -4-十六酸脱氨酶和粘蛋白顺式/反式异构酶。 还提供了其它粘蛋白途径酶。 另外提供了生产粘蛋白的方法。

公开(公告)号：US20140011249A1

公开(公告)日：2014-01-09

申请号：US13889056

申请日：2013-05-07

Applicant: Genomatica, Inc.

Inventor： Anthony P. BURGARD ,  Robin E. Osterhout ,  Jun Sun ,  Priti Pharkya

IPC: C12P7/42 ,  C12P7/04 ,  C12P7/18

CPC classification number: C12P7/42 ,  C12N9/0008 ,  C12N9/0095 ,  C12P7/04 ,  C12P7/16 ,  C12P7/18 ,  C12P7/52 ,  Y02E50/10

Abstract: A non-naturally occurring microbial organism includes a microbial organism having a reductive TCA or Wood-Ljungdahl pathway in which at least one exogenous nucleic acid encoding these pathway enzymes is expressed in a sufficient amount to enhance carbon flux through acetyl-CoA. A method for enhancing carbon flux through acetyl-CoA includes culturing theses non-naturally occurring microbial organisms under conditions and for a sufficient period of time to produce a product having acetyl-CoA as a building block. Another non-naturally occurring microbial organism includes at least one exogenous nucleic acid encoding an enzyme expressed in a sufficient amount to enhance the availability of reducing equivalents in the presence of carbon monoxide or hydrogen, thereby increasing the yield of redox-limited products via carbohydrate-based carbon feedstock. A method for enhancing the availability of reducing equivalents in the presence of carbon monoxide or hydrogen includes culturing this organism for a sufficient period of time to produce a product.

Abstract translation: 非天然存在的微生物体包括具有还原性TCA或Wood-Ljungdahl途径的微生物生物体，其中至少一种编码这些途径酶的外源核酸以足够的量表达以增强通过乙酰辅酶A的碳通量。 通过乙酰辅酶A增强碳通量的方法包括在条件和足够的时间段内培养这些非天然存在的微生物，以产生具有乙酰辅酶A作为结构单元的产物。 另一种非天然存在的微生物生物体包括至少一种编码以足够量表达的酶的外源核酸，以增强在一氧化碳或氢气存在下还原当量的可用性，从而通过碳水化合物 - 碳原料。 在一氧化碳或氢气存在下增强还原当量的可用性的方法包括在足够的时间内培养该生物体以产生产物。