公开(公告)号：US20150050708A1

公开(公告)日：2015-02-19

申请号：US14213806

申请日：2014-03-14

Applicant: Genomatica, Inc.

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

IPC: C12P5/02 ,  C12N15/81 ,  C12P7/16 ,  C12N15/70 ,  C12P7/04 ,  C12P7/18

CPC classification number: C12P5/026 ,  C12N15/52 ,  C12P7/04 ,  C12P7/16 ,  C12P7/18 ,  Y02E50/10 ,  Y02E50/343

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.

Abstract translation: 本文提供了具有甲醛固定途径和甲酸同化途径的非天然存在的微生物生物，其可以进一步包括甲醇代谢途径，甲醇氧化途径，氢化酶和/或一氧化碳脱氢酶。 这些微生物可进一步包括丁二烯，1,3-丁二醇，巴豆醇或3-丁烯-2-醇途径。 另外提供了使用这些微生物生产丁二烯，1,3-丁二醇，巴豆醇或3-丁烯-2-醇的方法。

公开(公告)号：US08940509B2

公开(公告)日：2015-01-27

申请号：US13668117

申请日：2012-11-02

Applicant: Anthony P. Burgard ,  Robin E. Osterhout ,  Priti Pharkya ,  Mark J. Burk

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

IPC: C07D313/04 ,  C12N15/63 ,  C12P17/02 ,  C12N5/00 ,  C08G18/42 ,  C12P17/08

CPC classification number: C12P17/08 ,  C07D313/04 ,  C08G18/4277 ,  C08G63/08 ,  C12N5/0018 ,  C12N15/52 ,  C12N15/63 ,  C12N15/70 ,  C12P17/02

Abstract: The invention provides non-naturally occurring microbial organisms containing caprolactone pathways having at least one exogenous nucleic acid encoding a butadiene pathway enzyme expressed in a sufficient amount to produce caprolactone. The invention additionally provides methods of using such microbial organisms to produce caprolactone by culturing a non-naturally occurring microbial organism containing caprolactone pathways as described herein under conditions and for a sufficient period of time to produce caprolactone.

Abstract translation: 本发明提供了非天然存在的含有己内酯途径的微生物，其具有至少一种编码丁二烯途径酶的外源核酸，其表达量足以产生己内酯。 本发明另外提供了使用这种微生物生物体来制备己内酯的方法，该方法是在条件和足够的时间内培养含本文所述的己内酯途径的非天然存在的微生物生物产生己内酯。

公开(公告)号：US20150024468A1

公开(公告)日：2015-01-22

申请号：US14185709

申请日：2014-02-20

Applicant: Genomatica, Inc.

Inventor： Mark J. BURK ,  Christophe H. SCHILLING ,  Anthony P. BURGARD ,  John D. TRAWICK

IPC: C12N15/70

CPC classification number: C12P7/18 ,  C12N9/0008 ,  C12N9/0036 ,  C12N9/1007 ,  C12N9/93 ,  C12N15/70 ,  C12P19/32 ,  Y02E50/343

Abstract: The invention provides a non-naturally occurring microbial organism having an acetyl-CoA pathway and the capability of utilizing syngas or syngas and methanol. In one embodiment, the invention provides a non-naturally occurring microorganism, comprising one or more exogenous proteins conferring to the microorganism a pathway to convert CO, CO2 and/or H2 to acetyl-coenzyme A (acetyl-CoA), methyl tetrahydrofolate (methyl-THF) or other desired products, wherein the microorganism lacks the ability to convert CO or CO2 and H2 to acetyl-CoA or methyl-THF in the absence of the one or more exogenous proteins. For example, the microbial organism can contain at least one exogenous nucleic acid encoding an enzyme or protein in an acetyl-CoA pathway. The microbial organism is capable of utilizing synthesis gases comprising CO, CO2 and/or H2, alone or in combination with methanol, to produce acetyl-CoA. The invention additionally provides a method for producing acetyl-CoA, for example, by culturing an acetyl-CoA producing microbial organism, where the microbial organism expresses at least one exogenous nucleic acid encoding an acetyl-CoA pathway enzyme or protein in a sufficient amount to produce acetyl-CoA, under conditions and for a sufficient period of time to produce acetyl-CoA.

公开(公告)号：US20140377820A1

公开(公告)日：2014-12-25

申请号：US14167693

申请日：2014-01-29

Applicant: Genomatica, Inc.

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

IPC: C12P7/40 ,  C12P7/18 ,  C12P7/04

CPC classification number: C12P7/40 ,  C12N15/52 ,  C12P7/04 ,  C12P7/18

Abstract: The invention provides a non-naturally occurring microbial organism having n-propanol and isopropanol pathways, 1,4-butanediol (14-BDO) and isopropanol pathways, 1,3-butanediol (13-BDO) and isopropanol pathways or methylacrylic acid (MAA) and isopropanol pathways. The microbial organism contains at least one exogenous nucleic acid encoding an enzyme in each of the respective n-propanol, 14-BDO, 13-BDO or MAA and isopropanol pathways. The invention additionally provides a method for co-producing n-propanol and isopropanol, 14-BDO and isopropanol, 13-BDO and isopropanol or MAA and isopropanol. The method can include culturing an n-propanol and an isopropanol co-producing microbial organism, where the microbial organism expresses at least one exogenous nucleic acid encoding an n-propanol, an isopropanol, a 14-BDO, a 13-BDO and/or a MAA pathway enzyme in a sufficient amount to produce each of the respective products, under conditions and for a sufficient period of time to produce each of the respective products.

Abstract translation: 本发明提供了具有正丙醇和异丙醇途径的非天然存在的微生物生物，1,4-丁二醇（14-BDO）和异丙醇途径，1,3-丁二醇（13-BDO）和异丙醇途径或甲基丙烯酸（MAA ）和异丙醇途径。 微生物生物体含有至少一种外源核酸，其编码在各自的正丙醇，14-BDO，13-BDO或MAA和异丙醇途径中的酶。 本发明另外提供了共同生产正丙醇和异丙醇，14-BDO和异丙醇，13-BDO和异丙醇或MAA和异丙醇的方法。 该方法可以包括培养正丙醇和异丙醇共同生产的微生物，其中微生物生物体表达至少一种编码正丙醇，异丙醇，14-BDO，13-BDO和/或 足够量的MAA途径酶，以在条件下和足够的时间内产生各个产物中的每一种以产生各个产物。

公开(公告)号：US20140363864A1

公开(公告)日：2014-12-11

申请号：US14152799

申请日：2014-01-10

Applicant: Genomatica, Inc.

Inventor： Priti Pharkya ,  Mark J. Burk

IPC: C12P7/02 ,  C12N15/81 ,  C12N15/78 ,  C12N15/75 ,  C12N15/76 ,  C12N15/74 ,  C12N15/70

CPC classification number: C12P7/02 ,  C12N15/52 ,  C12N15/70 ,  C12N15/74 ,  C12N15/75 ,  C12N15/76 ,  C12N15/78 ,  C12N15/81 ,  C12N15/815 ,  C12P7/18

Abstract: A non-naturally occurring microbial organism includes a microbial organism having a 1,4-cyclohexanedimethanol pathway that includes at least one exogenous nucleic acid encoding a 1,4-cyclohexanedimethanol pathway enzyme expressed in a sufficient amount to produce 1,4-cyclohexanedimethanol. A method for producing 1,4-cyclohexanedimethanol includes culturing a non-naturally occurring microbial organism having a 1,4-cyclohexanedimethanol pathway. The pathway includes at least one exogenous nucleic acid encoding a 1,4-cyclohexanedimethanol pathway enzyme expressed in a sufficient amount to produce 1,4-cyclohexanedimethanol, under conditions and for a sufficient period of time to produce 1,4-cyclohexanedimethanol.

Abstract translation: 非天然存在的微生物体包括具有1,4-环己烷二甲醇途径的微生物生物体，其包含至少一种编码1,4-环己烷二甲醇途径酶的外源核酸，其以足以产生1,4-环己烷二甲醇的量表达。 生产1,4-环己烷二甲醇的方法包括培养具有1,4-环己烷二甲醇途径的非天然存在的微生物。 该途径包括至少一种编码1,4-环己烷二甲醇途径酶的外源核酸，其在足以在足够的时间内产生1,4-环己烷二甲醇以足够量产生1,4-环己烷二甲醇。

公开(公告)号：US08900837B2

公开(公告)日：2014-12-02

申请号：US13531377

申请日：2012-06-22

Applicant: Anthony P. Burgard ,  Mark J. Burk ,  Robin E. Osterhout ,  Priti Pharkya

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

IPC: C12P7/40 ,  C12P7/52 ,  C12P7/42 ,  C12N9/00 ,  C12N1/20 ,  C12N15/00 ,  C07H21/04

CPC classification number: C12P7/42 ,  C12N9/0008 ,  C12N9/1096 ,  C12N9/88 ,  C12N9/90 ,  C12P7/40 ,  C12Y102/01 ,  C12Y206/01022 ,  C12Y403/01 ,  C12Y504/99002

Abstract: The invention provides a non-naturally occurring microbial organism having a 2-hydroxyisobutyric acid, 3-hydroxyisobutyric acid or methacrylic acid pathway. The microbial organism contains at least one exogenous nucleic acid encoding an enzyme in a 2-hydroxyisobutyric acid, 3-hydroxyisobutyric acid or methacrylic acid pathway. The invention additionally provides a method for producing 2-hydroxyisobutyric acid, 3-hydroxyisobutyric acid or methacrylic acid. The method can include culturing a 2-hydroxyisobutyric acid, 3-hydroxyisobutyric acid or methacrylic acid producing microbial organism expressing at least one exogenous nucleic acid encoding a 2-hydroxyisobutyric acid, 3-hydroxyisobutyric acid or methacrylic acid pathway enzyme in a sufficient amount and culturing under conditions and for a sufficient period of time to produce 2-hydroxyisobutyric acid, 3-hydroxyisobutyric acid or methacrylic acid.

Abstract translation: 本发明提供了具有2-羟基异丁酸，3-羟基异丁酸或甲基丙烯酸途径的非天然存在的微生物生物。 微生物生物体含有编码2-羟基异丁酸，3-羟基异丁酸或甲基丙烯酸途径中的酶的至少一种外源核酸。 本发明还提供了2-羟基异丁酸，3-羟基异丁酸或甲基丙烯酸的制备方法。 该方法可以包括培养足够量的表达至少一种编码2-羟基异丁酸，3-羟基异丁酸或甲基丙烯酸途径酶的外源核酸的2-羟基异丁酸，3-羟基异丁酸或产生甲基丙烯酸的微生物，并培养 在条件下和足够的时间内产生2-羟基异丁酸，3-羟基异丁酸或甲基丙烯酸。

公开(公告)号：US20140329916A1

公开(公告)日：2014-11-06

申请号：US14107832

申请日：2013-12-16

Applicant: Genomatica, Inc.

Inventor： Anthony P. Burgard ,  Robin E. Osterhout ,  Stephen J. Van Dien ,  Cara Ann Tracewell ,  Priti Pharkya ,  Stefan Andrae

IPC: C12P17/10 ,  C12P13/02 ,  C12P7/24 ,  C12P19/02 ,  A23L1/221 ,  C12P7/28 ,  C12P9/00 ,  C12P13/00 ,  A23L1/054 ,  C12P7/44 ,  C12N15/70

CPC classification number: C12P17/10 ,  A23L29/065 ,  C08G63/78 ,  C08G69/08 ,  C08G69/16 ,  C08G73/0213 ,  C12N9/0006 ,  C12N15/52 ,  C12P7/24 ,  C12P7/44 ,  C12P13/001 ,  C12P13/005 ,  C12Y101/01244

Abstract: Provided herein is a non-naturally occurring microbial organism having a methanol metabolic pathway that can enhance the availability of reducing equivalents in the presence of methanol. Such reducing equivalents can be used to increase the product yield of organic compounds produced by the microbial organism, such as adipate, 6-aminocaproate, hexamethylenediamine or caprolactam. Also provided herein are methods for using such an organism to produce adipate, 6-aminocaproate, hexamethylenediamine or caprolactam.

Abstract translation: 本文提供了具有甲醇代谢途径的非天然存在的微生物生物，其可以在甲醇存在下增强还原当量的可用性。 这样的还原当量可以用于提高微生物生物体如己二酸，6-氨基己酸，六亚甲基二胺或己内酰胺产生的有机化合物的产物产率。 本文还提供了使用这种生物体生产己二酸，6-氨基己酸酯，六亚甲基二胺或己内酰胺的方法。

公开(公告)号：US08865439B2

公开(公告)日：2014-10-21

申请号：US13545880

申请日：2012-07-10

Applicant: Anthony P. Burgard ,  Mark J. Burk ,  Robin E. Osterhout ,  Priti Pharkya

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

IPC: C12P7/40 ,  C12P7/52 ,  C12P7/42 ,  C12N9/00 ,  C12N1/20 ,  C07H21/04

CPC classification number: C12P7/42 ,  C12N9/0008 ,  C12N9/1096 ,  C12N9/88 ,  C12N9/90 ,  C12P7/40 ,  C12Y102/01 ,  C12Y206/01022 ,  C12Y403/01 ,  C12Y504/99002

Abstract: The invention provides a non-naturally occurring microbial organism having a 2-hydroxyisobutyric acid, 3-hydroxyisobutyric acid or methacrylic acid pathway. The microbial organism contains at least one exogenous nucleic acid encoding an enzyme in a 2-hydroxyisobutyric acid, 3-hydroxyisobutyric acid or methacrylic acid pathway. The invention additionally provides a method for producing 2-hydroxyisobutyric acid, 3-hydroxyisobutyric acid or methacrylic acid. The method can include culturing a 2-hydroxyisobutyric acid, 3-hydroxyisobutyric acid or methacrylic acid producing microbial organism expressing at least one exogenous nucleic acid encoding a 2-hydroxyisobutyric acid, 3-hydroxyisobutyric acid or methacrylic acid pathway enzyme in a sufficient amount and culturing under conditions and for a sufficient period of time to produce 2-hydroxyisobutyric acid, 3-hydroxyisobutyric acid or methacrylic acid.

Abstract translation: 本发明提供了具有2-羟基异丁酸，3-羟基异丁酸或甲基丙烯酸途径的非天然存在的微生物生物。 微生物生物体含有编码2-羟基异丁酸，3-羟基异丁酸或甲基丙烯酸途径中的酶的至少一种外源核酸。 本发明还提供了2-羟基异丁酸，3-羟基异丁酸或甲基丙烯酸的制备方法。 该方法可以包括培养足够量的表达至少一种编码2-羟基异丁酸，3-羟基异丁酸或甲基丙烯酸途径酶的外源核酸的2-羟基异丁酸，3-羟基异丁酸或产生甲基丙烯酸的微生物，并培养 在条件下和足够的时间内产生2-羟基异丁酸，3-羟基异丁酸或甲基丙烯酸。

公开(公告)号：US20140288254A1

公开(公告)日：2014-09-25

申请号：US14071339

申请日：2013-11-04

Applicant: Genomatica, Inc.

Inventor： Anthony P. Burgard ,  Robin E. Osterhout ,  Stephen J. Van Dien ,  Cara Ann Tracewell ,  Priti Pharkya ,  Stefan Andrae

IPC: C12P7/42 ,  C08F120/06 ,  C12P7/24 ,  C08G63/664 ,  C12N15/63 ,  C12P7/40

CPC classification number: C12N15/52 ,  C08F120/06 ,  C08G63/664 ,  C12N9/0006 ,  C12N9/0028 ,  C12N9/1007 ,  C12N15/63 ,  C12P7/24 ,  C12P7/40 ,  C12P7/42 ,  C12P7/62 ,  C12Y101/01244 ,  C12Y105/0102 ,  C12Y201/0109

Abstract: Provided herein is a non-naturally occurring microbial organism having a methanol metabolic pathway that can enhance the availability of reducing equivalents in the presence of methanol. Such reducing equivalents can be used to increase the product yield of organic compounds produced by the microbial organism, such as 3-hydroxyisobutyrate or MAA. Also provided herein are methods for using such an organism to produce 3-hydroxyisobutyrate or MAA.

Abstract translation: 本文提供了具有甲醇代谢途径的非天然存在的微生物生物，其可以在甲醇存在下增强还原当量的可用性。 这种还原当量可用于增加由微生物生物体如3-羟基异丁酸酯或MAA产生的有机化合物的产物产率。 本文还提供了使用这种生物体产生3-羟基异丁酸酯或MAA的方法。

公开(公告)号：US08691553B2

公开(公告)日：2014-04-08

申请号：US12863978

申请日：2009-01-22

Applicant: Mark J. Burk ,  Christophe H. Schilling ,  Anthony P. Burgard ,  John D. Trawick

Inventor： Mark J. Burk ,  Christophe H. Schilling ,  Anthony P. Burgard ,  John D. Trawick

IPC: C12N1/20 ,  C12N9/00 ,  C12N1/00 ,  C12P7/42 ,  C12P7/20 ,  C07H21/04

CPC classification number: C12P7/18 ,  C12N9/0008 ,  C12N9/0036 ,  C12N9/1007 ,  C12N9/93 ,  C12N15/70 ,  C12P19/32 ,  Y02E50/343

Abstract: The invention provides a non-naturally occurring microbial organism having an acetyl-CoA pathway and the capability of utilizing syngas or syngas and methanol. In one embodiment, the invention provides a non-naturally occurring microorganism, comprising one or more exogenous proteins conferring to the microorganism a pathway to convert CO, CO2 and/or H2 to acetyl-coenzyme A (acetyl-CoA), methyl tetrahydrofolate (methyl-THF) or other desired products, wherein the microorganism lacks the ability to convert CO or CO2 and H2 to acetyl-CoA or methyl-THF in the absence of the one or more exogenous proteins. For example, the microbial organism can contain at least one exogenous nucleic acid encoding an enzyme or protein in an acetyl-CoA pathway. The microbial organism is capable of utilizing synthesis gases comprising CO, CO2 and/or H2, alone or in combination with methanol, to produce acetyl-CoA. The invention additionally provides a method for producing acetyl-CoA, for example, by culturing an acetyl-CoA producing microbial organism, where the microbial organism expresses at least one exogenous nucleic acid encoding an acetyl-CoA pathway enzyme or protein in a sufficient amount to produce acetyl-CoA, under conditions and for a sufficient period of time to produce acetyl-CoA.

Abstract translation: 本发明提供具有乙酰-CoA途径的非天然存在的微生物生物体，以及利用合成气或合成气和甲醇的能力。 在一个实施方案中，本发明提供非天然存在的微生物，其包含一种或多种外源蛋白质，赋予微生物将CO，CO 2和/或H 2转化为乙酰辅酶A（乙酰辅酶A），甲基四氢叶酸（甲基 -THF）或其它所需产物，其中微生物缺乏在不存在一种或多种外源蛋白的情况下将CO或CO 2和H 2转化为乙酰辅酶A或甲基-THF的能力。 例如，微生物生物体可以含有至少一种编码乙酰辅酶A途径中的酶或蛋白质的外源核酸。 微生物生物能够单独或与甲醇组合使用包含CO，CO 2和/或H 2的合成气体，以产生乙酰辅酶A。 本发明另外提供了生产乙酰辅酶A的方法，例如通过培养产生乙酰辅酶A的微生物，其中微生物生物体表达至少一种编码乙酰辅酶A途径酶或蛋白质的外源核酸，其量足够 在条件下和足够的时间内产生乙酰辅酶A产生乙酰辅酶A。