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41. 发明申请

WO2009045637A3 METHODS FOR THE SYNTHESIS OF ACRYLIC ACID AND DERIVATIVES FROM FUMARIC ACID 审中-公开
公开(公告)号：WO2009045637A3
公开(公告)日：2009-04-09
申请号：PCT/US2008/072679
申请日：2008-08-08
申请人： GENOMATICA, INC. , BURK, Mark, J. , PHARKYA, Priti , VAN DIEN, Stephen, J. , BURGARD, Anthony, P. , SCHILLING, Christopher, H.
发明人： BURK, Mark, J. , PHARKYA, Priti , VAN DIEN, Stephen, J. , BURGARD, Anthony, P. , SCHILLING, Christopher, H.
IPC分类号： C07C51/347 , C07C67/333 , C12P7/46 , C07C57/04 , C07C69/54
摘要： The invention provides a method of producing acrylic acid. The method includes contacting fumaric acid with a sufficient amount of ethylene in the presence of a cross-metathesis transformation catalyst to produce about two moles of acrylic acid per mole of fumaric acid. Also provided is an acrylate ester. The method includes contacting fumarate diester with a sufficient amount of ethylene in the presence of a cross-metathesis transformation catalyst to produce about two moles of acrylate ester per mole of fumarate diester. An integrated process for process for producing acrylic acid or acrylate ester is provided which couples bioproduction of fumaric acid with metathesis transformation. An acrylic acid and an acrylate ester production also is provided.

42. 发明申请

WO2008091627A2 METHODS AND ORGANISMS FOR GROWTH-COUPLED PRODUCTION OF 3-HYDROXYPROPIONIC ACID 审中-公开
标题翻译：生长3-羟基丙酸生产的方法和机理
公开(公告)号：WO2008091627A2
公开(公告)日：2008-07-31
申请号：PCT/US2008/000861
申请日：2008-01-22
申请人： GENOMATICA, INC. , BURGARD, Anthony, P. , VAN DIEN, Stephen, J.
发明人： BURGARD, Anthony, P. , VAN DIEN, Stephen, J.
IPC分类号： C12N1/00
CPC分类号： C12N15/52 , C12N9/00 , C12P7/42
摘要： The invention provides a non-naturally occurring microorganism having one or more gene disruptions, the one or more gene disruptions occurring in genes encoding an enzyme obligatory coupling 3-hydroxypropionic acid production to growth of the microorganism when the gene disruption reduces an activity of the enzyme, whereby the one or more gene disruptions confers stable growth-coupled production of 3-hydroxypropionic acid onto the non-naturally occurring microorganism. Also provided is a non-naturally occurring microorganism comprising a set of metabolic modifications obligatory coupling 3-hydroxypropionic acid production to growth of the microorganism, the set of metabolic modifications having disruption of one or more genes including: (a) the set of genes selected from: (1) adhE, ldhA, pta-ackA; (2) adhE, ldhA, frdABCD; (3) adhE, ldhA, frdABCD, ptsG; (4) adhE, ldhA, frdABCD, pntAB; (5) adhE, ldhA, fumA, fumB, fumC; (6) adhE, ldhA, fumA, fumB, fumC, pntAB; (7) pflAB, ldhA, or (8) adhE, ldhA, pgi in a microorganism utilizing an anaerobic β-alanine 3-HP precursor pathway; (b) the set of genes selected from: (1) tpi, zwf; (2) tpi, ybhE; (3) tpi, gnd; (4) fpb, gapA; (5) pgi, edd, or (6) pgi, eda in a microorganism utilizing an aerobic glycerol 3-HP precursor pathway; (c) the set of genes selected from: (1) eno ; (2) yibO ; (3) eno , atpH, or other atp subunit, or (4) yibO , atpH , or other atp subunit, in a microorganism utilizing a glycerate 3-HP precursor pathway, or an ortholog thereof, wherein the microorganism exhibits stable growth- coupled production of 3-hydroxypropionic acid. The disruptions can be complete gene disruptions and the non-naturally occurring organisms can include a variety of prokaryotic or eukaryotic microorganisms. A method of producing a non-naturally occurring microorganism having stable growth-coupled production of 3-hydroxypropionic acid is further provided. The method includes: (a) identifying in silico a set of metabolic modifications requiring 3-hydroxypropionic acid production during exponential growth, and (b) genetically modifying a microorganism to contain the set of metabolic modifications requiring 3-hydroxypropionic acid production.
摘要翻译：本发明提供了一种具有一个或多个基因破坏的非天然存在的微生物，当基因破坏降低酶的活性时，编码酶强制性偶合3-羟基丙酸产生的微生物生长的基因中发生的一种或多种基因破坏由此一个或多个基因破坏赋予非天然存在的微生物上3-羟基丙酸的稳定生长偶联产生。还提供了非天然存在的微生物，其包含一系列代谢修饰，其强制性将3-羟基丙酸生产偶联至微生物生长，该组代谢修饰具有破坏一个或多个基因，包括：（a）所选择的一组基因来自：（1）adhE，ldhA，pta-ackA; （2）adhE，ldhA，frdABCD; （3）adhE，ldhA，frdABCD，ptsG; （4）adhE，ldhA，frdABCD，pntAB; （5）adhE，ldhA，fumA，fumB，fumC; （6）adhE，ldhA，fumA，fumB，fumC，pntAB; （7）pflAB，ldhA或（8）adhE，ldhA，pgi在使用厌氧β-丙氨酸3-HP前体途径的微生物中; （b）选自以下的一组基因：（1）tpi，zwf; （2）tpi，ybhE; （3）tpi，gnd; （4）fpb，gapA; （5）pgi，edd或（6）pgi，eda在利用有氧甘油3-HP前体途径的微生物中; （c）选自以下的一组基因：（1）eno; （2）yibo; （3）eno，atpH或其他atp亚基，或（4）yibO，atpH或其他atp亚基，使用甘油3-HP前体途径的微生物或其直系同源物，其中所述微生物表现出稳定的生长耦合生产3-羟基丙酸。破坏可能是完全的基因破坏，非天然存在的生物体可以包括多种原核或真核微生物。还提供了一种生产具有稳定的3-羟基丙酸的生长偶联生产的非天然存在的微生物的方法。该方法包括：（a）在指数生长过程中，以计算机识别需要3-羟基丙酸生成的一组代谢修饰，和（b）遗传修饰微生物以包含需要3-羟基丙酸生产的一组代谢修饰。

43. 发明申请

WO2015084633A1 MICROORGANISMS AND METHODS FOR IMPROVING PRODUCT YIELDS ON METHANOL USING ACETYL-COA SYNTHESIS 审中-公开
标题翻译：使用乙酰辅酶A合成改善甲醇产品的微生物和方法
公开(公告)号：WO2015084633A1
公开(公告)日：2015-06-11
申请号：PCT/US2014/067287
申请日：2014-11-25
申请人： GENOMATICA, INC.
发明人： OSTERHOUT, Robin, E. , BURGARD, Anthony, P. , PHARKYA, Priti , ANDRAE, Stefan
IPC分类号： C12N1/19 , C12N1/15 , C12N1/13 , C12N1/11
CPC分类号： C12P5/026 , C12N1/14 , C12N1/20 , C12N15/70 , C12N15/81 , C12P7/02 , C12P7/04 , C12P7/18 , C12P7/40 , C12P7/42 , C12P7/44 , C12P13/001 , C12P13/005 , C12P17/10 , Y02E50/343
摘要： The invention provides non-naturally occurring microbial organisms containing enzymatic pathways and/or metabolic modifications for enhancing carbon flux through acetyl-CoA. In some embodiments, the microbial organisms having such pathways also include pathways for generating reducing equivalents, formaldehyde fixation and/or formate assimilation. The enhanced carbon flux through acetyl-CoA, in combination with pathways for generating reducing equivalents, formaldehyde fixation and/or formate assimilation can, in some embodiments, be used for production of a bioderived compound. Accordingly, in some embodiments, the microbial organisms of the invention can include a pathway capable of producing a bioderived compound of the invention. The invention still further provides a bioderived compound produced by a microbial organism of the invention, culture medium having the bioderived compound of the invention, compositions having the bioderived compound of the invention, a biobased product comprising the bioderived compound of the invention, and a process for producing a bioderived compound of the invention.
摘要翻译：本发明提供了非天然存在的微生物，其含有通过乙酰辅酶A的碳通量的酶途径和/或代谢修饰。在一些实施方案中，具有这种途径的微生物生物体还包括产生还原当量的途径，甲醛固定和/或甲酸盐同化。在一些实施方案中，通过乙酰辅酶A增强的碳通量与产生还原当量的途径，甲醛固定和/或甲酸盐同化可用于生产生物活性化合物。因此，在一些实施方案中，本发明的微生物体可以包括能够产生本发明生物活性化合物的途径。本发明还提供了由本发明的微生物生物产生的生物活性化合物，具有本发明的生物活性化合物的培养基，具有本发明的生物活性化合物的组合物，包含本发明的生物活性化合物的生物基产物和一种方法用于生产本发明的生物活性化合物。

44. 发明申请

WO2014152434A2 MICROORGANISMS AND METHODS FOR PRODUCING BUTADIENE AND RELATED COMPOUNDS BY FORMATE ASSIMILATION 审中-公开
标题翻译：通过甲酸盐同化生产丁二烯及相关化合物的微生物和方法
公开(公告)号：WO2014152434A2
公开(公告)日：2014-09-25
申请号：PCT/US2014/027337
申请日：2014-03-14
申请人： GENOMATICA, INC.
发明人： BURGARD, Anthony, P. , OSTERHOUT, Robin, E. , PHARKYA, Priti , ANDRAE, Stefan , LIS, Ewa, T. , RISSO, Carla , TRAWICK, John, D.
IPC分类号： A61B17/70
CPC分类号： C12N15/63 , C07C1/24 , C07C11/167 , C07C31/207 , C07C33/025 , C07K14/195 , C09D147/00 , C09J147/00 , C12N9/1022 , C12N9/88 , C12N9/90 , C12N15/52 , C12P5/026 , C12P7/04 , C12P7/18 , Y02E50/343
摘要： Provided herein are non-naturally occurring microbial organisms having a FaldFP, a FAP and/or metabolic modifications which can further include a MMP, a MOP, a hydrogenase and/or a CODH. These microbial organisms can further include a butadiene, 13BDO, CrotOH, MVC or 3-buten-1-ol pathway. Additionally provided are methods of using such microbial organisms to produce butadiene, 13BDO, CrotOH, MVC or 3-buten-1-ol.
摘要翻译：本文提供了具有FaldFP，FAP和/或可进一步包含MMP，MOP，氢化酶和/或CODH的代谢修饰的非天然存在的微生物生物体。这些微生物可以进一步包括丁二烯，13BDO，CrotOH，MVC或3-丁烯-1-醇途径。另外提供了使用这些微生物生产丁二烯，13BDO，CrotOH，MVC或3-丁烯-1-醇的方法。

45. 发明申请

WO2014099725A1 MICROORGANISMS AND METHODS FOR ENHANCING THE AVAILABILITY OF REDUCING EQUIVALENTS IN THE PRESENCE OF METHANOL, AND FOR PRODUCING ADIPATE, 6-AMINOCAPROATE, HEXAMETHYLENEDIAMINE OR CAPROLACTAM RELATED THERETO 审中-公开
标题翻译：用于提高甲醇存在下降低等效物的可行性的微生物和方法，以及用于生产与其相关的丙氨酸，6-氨基己酸，十六烷二胺或其衍生物的微生物和方法
公开(公告)号：WO2014099725A1
公开(公告)日：2014-06-26
申请号：PCT/US2013/075287
申请日：2013-12-16
申请人： GENOMATICA, INC.
发明人： BURGARD, Anthony, P. , OSTERHOUT, Robin, E. , VAN DIEN, Stephen, J. , TRACEWELL, Cara, Ann , PHARKYA, Priti , ANDRAE, Stefan
IPC分类号： C12N1/21
CPC分类号： 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
摘要： 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.
摘要翻译：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。这样的还原当量可用于增加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产生己二酸，6-氨基己酸，六亚甲基二胺或己内酰胺的方法。

46. 发明申请

WO2013067432A1 MICROORGANISMS AND METHODS FOR THE PRODUCTION OF CAPROLACTONE 审中-公开
标题翻译：用于生产CAPROLACTONE的微生物和方法
公开(公告)号：WO2013067432A1
公开(公告)日：2013-05-10
申请号：PCT/US2012/063424
申请日：2012-11-02
申请人： GENOMATICA, INC.
发明人： BURGARD, Anthony, P. , OSTERHOUT, Robin, E. , PHARKYA, Priti , BURK, Mark, J.
IPC分类号： C12P17/02
CPC分类号： C12P17/08 , C07D313/04 , C08G18/4277 , C08G63/08 , C12N5/0018 , C12N15/52 , C12N15/63 , C12N15/70 , C12P17/02
摘要： 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.
摘要翻译：本发明提供了含有己内酯途径的非天然存在的微生物，其具有至少一种编码丁二烯途径酶的外源核酸，其以足够的量表达以产生己内酯。本发明另外提供了使用这种微生物生物体制备己内酯的方法，通过在条件和足够的时间内培养含有本文所述的己内酯途径的非天然存在的微生物生物体以制备己内酯。

47. 发明申请

WO2013036764A1 EUKARYOTIC ORGANISMS AND METHODS FOR PRODUCING 1,3-BUTANEDIOL 审中-公开
标题翻译：用于生产1,3-丁二醇的原始有机体和方法
公开(公告)号：WO2013036764A1
公开(公告)日：2013-03-14
申请号：PCT/US2012/054152
申请日：2012-09-07
申请人： GENOMATICA, INC , BURGARD, Anthony, P. , BURK, Mark, J. , OSTERHOUT, Robin, E. , PHARKYA, Priti , LI, Jingyi
发明人： BURGARD, Anthony, P. , BURK, Mark, J. , OSTERHOUT, Robin, E. , PHARKYA, Priti , LI, Jingyi
IPC分类号： C12P7/04 , C12P1/00
CPC分类号： C12N15/52 , C08G63/16 , C12N1/14 , C12N1/16 , C12N1/20 , C12P7/18 , C12P19/32
摘要： 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.
摘要翻译：本文提供了非天然存在的真核生物，其可被工程化以产生和增加细胞溶质乙酰辅酶A的可用性。本文还提供具有1,3-丁二醇（1,3-BDO）途径的非天然存在的真核生物，以及使用这些生物体产生1,3-BDO的方法。

48. 发明申请

WO2013028519A1 MICROORGANISMS AND METHODS FOR PRODUCING 2,4-PENTADIENOATE, BUTADIENE, PROPYLENE, 1,3-BUTANEDIOL AND RELATED ALCOHOLS 审中-公开
标题翻译：用于生产2,4-戊二烯酸酯，丁二烯，丙烯，1,3-丁二醇和相关醇的微生物和方法
公开(公告)号：WO2013028519A1
公开(公告)日：2013-02-28
申请号：PCT/US2012/051347
申请日：2012-08-17
申请人： GENOMATICA, INC. , OSTERHOUT, Robin, E. , BURGARD, Anthony, P. , BURK, Mark, J.
发明人： OSTERHOUT, Robin, E. , BURGARD, Anthony, P. , BURK, Mark, J.
IPC分类号： C12P7/18
CPC分类号： C12P7/16 , C12N15/70 , C12P5/026 , C12P7/04 , C12P7/18 , C12P7/40 , Y02E50/10
摘要： The invention provides non-naturally occurring microbial organisms containing 2,4-pentadienoate, butadiene, propylene, 1,3-butanediol, crotyl alcohol or 3-buten-1-ol pathways comprising at least one exogenous nucleic acid encoding a butadiene pathway enzyme expressed in a sufficient amount to produce 2,4-pentadienoate, butadiene, propylene, 1,3-butanediol, crotyl alcohol or 3-buten-1-ol. The invention additionally provides methods of using such microbial organisms to produce 2,4-pentadienoate, butadiene, propylene, 1,3-butanediol, crotyl alcohol or 3-buten-1-ol, by culturing a non- naturally occurring microbial organism containing 2,4-pentadienoate, butadiene, propylene, 1,3-butanediol, crotyl alcohol or 3-buten-l-ol pathways as described herein under conditions and for a sufficient period of time to produce 2,4-pentadienoate, butadiene, propylene, 1,3-butanediol, crotyl alcohol or 3-buten-1-ol.
摘要翻译：本发明提供包含2,4-戊二烯酸，丁二烯，丙烯，1,3-丁二醇，巴豆醇或3-丁烯-1-醇途径的非天然存在的微生物生物体，其包含至少一种外源性编码丁二烯途径酶的核酸，其表达量足以产生2,4-戊二烯酸，丁二烯，丙烯，1,3-丁二醇，巴豆醇或3-丁烯-1-醇。本发明另外提供了通过培养含有2个非天然存在的微生物的微生物来生产2,4-戊二烯酸，丁二烯，丙烯，1,3-丁二醇，巴豆醇或3-丁烯-1-醇的方法，4-戊二烯酸酯，丁二烯，丙烯，1,3-丁二醇，巴豆醇或3-丁烯-1-醇途径在一定条件下和足够的时间内生成2,4-戊二烯酸，丁二烯，丙烯， 1,3-丁二醇，巴豆醇或3-丁烯-1-醇。

49. 发明申请

WO2012177943A1 MICROORGANISMS FOR PRODUCING 1,4-BUTANEDIOL AND METHODS RELATED THERETO 审中-公开
标题翻译：用于生产1,4-丁二醇的微生物及其相关方法
公开(公告)号：WO2012177943A1
公开(公告)日：2012-12-27
申请号：PCT/US2012/043638
申请日：2012-06-21
申请人： GENOMATICA, INC. , BURGARD, Anthony, P. , OSTERHOUT, Robin, E. , SUN, Jun , PHARKYA, Priti
发明人： BURGARD, Anthony, P. , OSTERHOUT, Robin, E. , SUN, Jun , PHARKYA, Priti
IPC分类号： C12P7/04 , C12N1/12
CPC分类号： C12N15/52 , C12N9/0008 , C12P7/16 , C12P7/18 , C12P7/42 , C12Y102/99006 , Y02E50/10
摘要： The invention provides non-naturally occurring microbial organisms comprising a 1,4-butanediol (BDO), 4-hydroxybutyryl-CoA, 4-hydroxybutanal or putrescine pathway comprising at least one exogenous nucleic acid encoding a BDO, 4-hydroxybutyryl-CoA, 4- hydroxybutanal or putrescine pathway enzyme expressed in a sufficient amount to produce BDO, 4-hydroxybutyryl-CoA, 4-hydroxybutanal or putrescine and further optimized for expression of BDO. The invention additionally provides methods of using such microbial organisms to produce BDO, 4-hydroxybutyryl-CoA, 4-hydroxybutanal or putrescine.
摘要翻译：本发明提供了包含1,4-丁二醇（BDO），4-羟基丁酰辅酶A，4-羟基丁醛或腐胺途径的非天然存在的微生物，其包含至少一种编码BDO，4-羟基丁酰辅酶A， - 羟基丁醛或腐胺通路酶以足够的量表达以产生BDO，4-羟基丁酰辅酶A，4-羟基丁醛或腐胺，并进一步优化BDO的表达。本发明另外提供了使用这些微生物生产BDO，4-羟基丁酰辅酶A，4-羟基丁醛或腐胺的方法。

50. 发明申请

WO2012106516A1 MICROORGANISMS AND METHODS FOR THE BIOSYNTHESIS OF BUTADIENE 审中-公开
标题翻译：二苯乙烯生物合成的微生物和方法
公开(公告)号：WO2012106516A1
公开(公告)日：2012-08-09
申请号：PCT/US2012/023632
申请日：2012-02-02
申请人： GENOMATICA, INC. , BURK, Mark, J. , BURGARD, Anthony, P. , SUN, Jun , OSTERHOUT, Robin, E. , PHARKYA, Priti
发明人： BURK, Mark, J. , BURGARD, Anthony, P. , SUN, Jun , OSTERHOUT, Robin, E. , PHARKYA, Priti
IPC分类号： C12P5/02
CPC分类号： 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
摘要： The invention provides non-naturally occurring microbial organisms having a butadiene pathway. The invention additionally provides methods of using such organisms to produce butadiene. In some aspects, embodiments disclosed herein relate to a process for the production of butadiene that includes (a) culturing by fermentation in a sufficient amount of nutrients and media a non-naturally occurring microbial organism that produces crotyl alcohol; and (b) converting crotyl alcohol, produced by culturing the non-naturally occurring microbial organism, to butadiene.
摘要翻译：本发明提供了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。在一些方面，本文公开的实施方案涉及生产丁二烯的方法，其包括（a）通过发酵培养足量的营养物和培养基，产生产生巴豆醇的非天然存在的微生物; 和（b）将通过培养非天然存在的微生物生物产生的巴豆醇转化为丁二烯。

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