公开(公告)号：US20170362565A1

公开(公告)日：2017-12-21

申请号：US15585078

申请日：2017-05-02

Applicant: Genomatica, Inc.

Inventor： Priti PHARKYA ,  Anthony P. BURGARD ,  Stephen J. VAN DIEN ,  Robin E. OSTERHOUT ,  Mark J. BURK ,  John D. TRAWICK ,  Michael P. KUCHINSKAS ,  Brian STEER

IPC: C12N1/20 ,  C12P7/18 ,  C12N15/63 ,  C12N15/52 ,  C12N9/18 ,  C07C31/20 ,  C08G63/181 ,  C08G63/16 ,  C08G63/06 ,  C08G18/32 ,  C08G18/28 ,  C07C59/01 ,  C12P7/42 ,  C08G69/02

CPC classification number: C12N1/20 ,  C07C31/207 ,  C07C59/01 ,  C08G18/284 ,  C08G18/3206 ,  C08G63/06 ,  C08G63/16 ,  C08G63/181 ,  C08G69/02 ,  C12N9/18 ,  C12N15/52 ,  C12N15/63 ,  C12P7/18 ,  C12P7/42 ,  C12Y301/01 ,  Y02P20/52

Abstract: The invention provides non-naturally occurring microbial organisms having a 4-hydroxybutyrate pathway and being capable of producing 4-hydroxybutyrate, wherein the microbial organism comprises one or more genetic modifications. The invention additionally provides methods of producing 4-hydroxybutyrate or related products using the microbial organisms.

公开(公告)号：US20170247709A1

公开(公告)日：2017-08-31

申请号：US15290895

申请日：2016-10-11

Applicant: Genomatica, Inc.

Inventor： Anthony P. BURGARD ,  Mark J. BURK ,  Robin E. OSTERHOUT ,  Priti PHARKYA ,  Jingyi LI

IPC: C12N15/52 ,  C12P7/18 ,  C12N1/20 ,  C12N1/16 ,  C12N1/14

CPC classification number: C12N15/52 ,  C08G63/16 ,  C12N1/14 ,  C12N1/16 ,  C12N1/20 ,  C12P7/18 ,  C12P19/32

Abstract: Provided herein are non-naturally occurring eukaryotic organisms that can be engineered to produce and increase the availability of cytosolic acetyl-CoA. Also provided herein are non-naturally occurring eukaryotic organisms having a 1,3-butanediol (1,3-BDO) pathway. and methods of using such organisms to produce 1,3-BDO.

公开(公告)号：US20170191085A1

公开(公告)日：2017-07-06

申请号：US15325396

申请日：2015-07-02

Applicant: Genomatica, Inc.

Inventor： Priti PHARKYA ,  Anthony P. BURGARD ,  Mark J. BURK

IPC: C12P5/02 ,  C12N9/02 ,  C12N9/12 ,  C12N9/04 ,  C08F36/14 ,  C12P3/00 ,  C12P7/40 ,  C01B3/00 ,  C08F36/06 ,  C12N15/52 ,  C12N9/10

CPC classification number: C12P5/026 ,  C01B3/00 ,  C08F36/06 ,  C08F36/14 ,  C12N9/0006 ,  C12N9/0008 ,  C12N9/0067 ,  C12N9/10 ,  C12N9/12 ,  C12N15/52 ,  C12P3/00 ,  C12P7/40 ,  C12Y101/02007 ,  C12Y101/03013 ,  C12Y102/99003 ,  Y02E50/343 ,  Y02E60/324

Abstract: The invention provides non-naturally occurring microbial organisms containing butadiene or 2,4-pentadienoate pathways comprising at least one exogenous nucleic acid encoding a butadiene or 2,4-pentadienoate pathway enzyme expressed in a sufficient amount to produce butadiene or 2,4-pentadienoate. The organism can further contain a hydrogen synthesis pathway. The invention additionally provides methods of using such microbial organisms to produce butadiene or 2,4-pentadienoate by culturing a non-naturally occurring microbial organism containing butadiene or 2,4-pentadienoate pathways as described herein under conditions and for a sufficient period of time to produce butadiene or 2,4-pentadienoate. Hydrogen can be produced together with the production of butadiene or 2,4-pentadienoate.

公开(公告)号：US20170130234A1

公开(公告)日：2017-05-11

申请号：US15184940

申请日：2016-06-16

Applicant: Genomatica, Inc.

Inventor： Anthony P. BURGARD ,  Priti PHARKYA ,  Robin E. OSTERHOUT

IPC: C12N15/52 ,  C12P7/62 ,  C12P17/10

CPC classification number: C12N15/52 ,  C12N9/0006 ,  C12N9/0008 ,  C12N9/001 ,  C12N9/1029 ,  C12N9/1096 ,  C12N9/80 ,  C12N9/88 ,  C12P7/44 ,  C12P7/46 ,  C12P7/62 ,  C12P13/001 ,  C12P13/005 ,  C12P13/02 ,  C12P17/10 ,  C12Y101/01035 ,  C12Y102/0101 ,  C12Y103/01031 ,  C12Y206/01 ,  C12Y402/01

Abstract: The invention provides a non-naturally occurring microbial organism having an adipate, 6-aminocaproic acid or caprolactam pathway. The microbial organism contains at least one exogenous nucleic acid encoding an enzyme in the respective adipate, 6-aminocaproic acid or caprolactam pathway. The invention additionally provides a method for producing adipate, 6-aminocaproic acid or caprolactam. The method can include culturing an adipate, 6-aminocaproic acid or caprolactam producing microbial organism, where the microbial organism expresses at least one exogenous nucleic acid encoding an adipate, 6-aminocaproic acid or caprolactam pathway enzyme in a sufficient amount to produce the respective product, under conditions and for a sufficient period of time to produce adipate, 6-aminocaproic acid or caprolactam.

公开(公告)号：US20170044572A1

公开(公告)日：2017-02-16

申请号：US15078437

申请日：2016-03-23

Applicant: Genomatica, Inc.

Inventor： Mark J. BURK ,  Anthony P. BURGARD ,  Jun SUN ,  Robin E. OSTERHOUT ,  Priti PHARKYA

IPC: C12P5/02 ,  C12N15/52

CPC classification number: C12P5/02 ,  C07C1/24 ,  C07C2521/04 ,  C07C2521/12 ,  C07C2521/16 ,  C07C2523/10 ,  C07C2523/28 ,  C07C2523/31 ,  C07C2523/745 ,  C07C2527/167 ,  C07C2527/173 ,  C12N15/52 ,  C12P5/026 ,  C12P7/04 ,  Y02E50/343 ,  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.

Abstract translation: 本发明提供具有丁二烯途径的非天然存在的微生物。 本发明另外提供了使用这些生物体来生产丁二烯的方法。

公开(公告)号：US20160326553A1

公开(公告)日：2016-11-10

申请号：US15108259

申请日：2014-12-23

Applicant: GENOMATICA, INC.

Inventor： Anthony P. BURGARD ,  Robin E. OSTERHOUT ,  Stephen J. VAN DIEN ,  Priti PHARKYA ,  Tae Hoon YANG ,  Jungik CHOI

IPC: C12P7/18 ,  C12N9/02 ,  C12N15/52 ,  C12N9/52 ,  C12N9/88 ,  C12N9/16 ,  C12N9/12

CPC classification number: C12P7/18 ,  C07K14/245 ,  C12N1/20 ,  C12N9/0036 ,  C12N9/0057 ,  C12N9/1205 ,  C12N9/16 ,  C12N9/52 ,  C12N9/88 ,  C12N9/93 ,  C12N15/52 ,  C12P7/42 ,  C12Y106/01002 ,  C12Y110/03 ,  C12Y207/0104 ,  C12Y301/00 ,  C12Y301/02 ,  C12Y301/02002 ,  C12Y304/21092 ,  C12Y401/01031 ,  C12Y401/01032

Abstract: The invention is directed to a non-naturally occurring microbial organism comprising a first attenuation of a succinyl-CoA synthetase or transferase and at least a second attenuation of a succinyl-CoA converting enzyme or a gene encoding a succinate producing enzyme within a multi-step pathway having a net conversion of succinyl-CoA to succinate.

Abstract translation: 本发明涉及一种非天然存在的微生物生物体，其包含琥珀酰-CoA合成酶或转移酶的第一次衰减，以及琥珀酰-CoA转化酶或编码多步骤中产琥珀酸酶的基因的至少第二次衰减 途径具有琥珀酰-CoA向琥珀酸盐的净转化。

公开(公告)号：US20220220511A1

公开(公告)日：2022-07-14

申请号：US17394184

申请日：2021-08-04

Applicant: Genomatica, Inc.

Inventor： Anthony P. BURGARD ,  Robin E. OSTERHOUT ,  Priti PHARKYA ,  Stefan ANDRAE

IPC: C12P5/02 ,  C12P7/04 ,  C12P7/18 ,  C12P7/16 ,  C12N15/52

Abstract: Provided herein are non-naturally occurring microbial organisms having a formaldehyde fixation pathway and a formate assimilation pathway, which can further include a methanol metabolic pathway, a methanol oxidation pathway, a hydrogenase and/or a carbon monoxide dehydrogenase. These microbial organisms can further include a butadiene, 1,3-butanediol, crotyl alcohol or 3-buten-2-ol pathway. Additionally provided are methods of using such microbial organisms to produce butadiene, 1,3-butanediol, crotyl alcohol or 3-buten-2-ol.

公开(公告)号：US20190264242A1

公开(公告)日：2019-08-29

申请号：US16137264

申请日：2018-09-20

Applicant: Genomatica, Inc.

Inventor： Anthony P. BURGARD ,  Robin E. OSTERHOUT ,  Jun SUN ,  Priti PHARKYA

IPC: C12P7/42 ,  C12P7/18 ,  C12P7/16 ,  C12P7/52 ,  C12N9/02 ,  C12P7/04

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.

公开(公告)号：US20180237847A1

公开(公告)日：2018-08-23

申请号：US15752884

申请日：2016-08-19

Applicant: GENOMATICA, INC.

Inventor： Stephanie CULLER ,  Ihsiung Brandon CHEN ,  Priti PHARKYA ,  Steve VAN DIEN ,  Nelson BARTON

IPC: C12Q1/6869 ,  C12N15/09 ,  C12N5/16 ,  A61K36/02 ,  A61K35/66 ,  A61K36/06 ,  C40B40/04

CPC classification number: C12Q1/6869 ,  A61K35/66 ,  A61K36/02 ,  A61K36/06 ,  A61K2236/15 ,  A61K2236/30 ,  C12N5/16 ,  C12N15/09 ,  C12N2330/50 ,  C12P19/34 ,  C12P21/02 ,  C40B40/04 ,  Y02A50/409 ,  Y02A50/469 ,  A61K35/12

Abstract: In alternative embodiments, provided herein are transcription/translation (TX-TL) systems and methods of using them for use as rapid prototyping platforms for the synthesis, modification and identification of natural products (NPs), and natural product analogs (NPAs) and secondary metabolites, from biosynthetic gene cluster pipelines. In alternative embodiments, exemplary TX-TL systems as provided herein are used for the combinatorial biosynthesis of natural products (NPs), natural product analogs (NPAs) and secondary metabolites. In alternative embodiments, exemplary TX-TL systems as provided herein are used for the rapid prototyping of complex biosynthetic pathways as a way to rapidly assess combinatorial and biosynthetic designs before moving to cellular hosts. In alternative embodiments, these exemplary TX-TL systems are multiplexed for high-throughput (HT) automation and for prototyping engineered platforms for the synthesis or modification of natural products (NPs), and natural product analogs (NPAs) and secondary metabolites analogs.

公开(公告)号：US20170183694A1

公开(公告)日：2017-06-29

申请号：US15191421

申请日：2016-06-23

Applicant: Genomatica, Inc.

Inventor： Priti PHARKYA ,  Anthony P. BURGARD ,  Stephen J. VAN DIEN ,  Robin E. OSTERHOUT ,  Mark J. BURK ,  John D. TRAWICK ,  Michael P. KUCHINSKAS ,  Brian STEER ,  Stefan ANDRAE ,  Amit SHAH

IPC: C12P7/18 ,  C12P7/42 ,  C12N1/20 ,  C12P17/04 ,  C07C211/09 ,  C12P13/00 ,  C07C47/19 ,  C07C31/20 ,  C07D307/33 ,  C12N15/52 ,  C12N9/10

CPC classification number: C12P7/18 ,  C07C31/207 ,  C07C47/19 ,  C07C211/09 ,  C07D307/33 ,  C12N1/20 ,  C12N9/0006 ,  C12N9/13 ,  C12N15/52 ,  C12P7/24 ,  C12P7/42 ,  C12P7/62 ,  C12P13/001 ,  C12P13/005 ,  C12P17/04 ,  C12P19/32 ,  C12Y208/03

Abstract: The invention provides non-naturally occurring microbial organisms having a 4-hydroxybutyrate, gamma-butyrolactone, 1,4-butanediol, 4-hydroxybutanal, 4-hydroxybutyryl-CoA and/or putrescine pathway and being capable of producing 4-hydroxybutyrate, wherein the microbial organism comprises one or more genetic modifications. The invention additionally provides methods of producing 4-hydroxybutyrate, gamma-butyrolactone, 1,4-butanediol, 4-hydroxybutanal, 4-hydroxybutyryl-CoA and/or putrescine or related products using the microbial organisms.