Microorganisms and methods for production of 4-hydroxybutyrate, 1,4-butanediol and related compounds

Patent metadata

Field	Value
Publication number	US-11932845-B2
Application number	US-201314405390-A
Country	US
Kind code	B2
Filing date	Jun 3, 2013
Priority date	Jun 4, 2012
Publication date	Mar 19, 2024
Grant date	Mar 19, 2024

Abstract

The invention provides non-naturally occurring microbial organisms having a 4-hydroxybutyrate, 1,4-butanediol, or other product pathway and being capable of producing 4-hydroxybutyrate, 1,4-butanediol, or other product, wherein the microbial organism comprises one or more genetic modifications. The invention additionally provides methods of producing 4-hydroxybutyrate, 1,4-butanediol, or other product or related products using the microbial organisms.

First claim

What is claimed is:

1. A non-naturally occurring microbial organism, said microbial organism having a 4-hydroxybutyrate pathway and being capable of producing 4-hydroxybutyrate, wherein said microbial organism comprises a genetic modification that increases expression of a gamma-butyrolactone esterase relative to the microbial organism in the absence of the genetic modification to increase expression of a gamma-butyrolactone esterase, wherein the gamma-butyrolactone esterase converts gamma-butyrolactone to 4-hydroxybutyrate and decreases production of gamma-butyrolactone relative to the microbial organism in the absence of the genetic modification to increase expression of a gamma-butyrolactone esterase, wherein the gamma-butyrolactone esterase is expressed in a sufficient amount to produce 4-hydroxybutyrate, and wherein the microbial organism comprises a genetic modification that decreases expression of an alcohol dehydrogenase relative to the microbial organism in the absence of the genetic modification to decrease expression of an alcohol dehydrogenase.

2. The microbial organism of claim 1 , wherein said microbial organism further comprises a genetic modification selected from:
(A) a genetic modification that increases expression of phosphoenolpyruvate carboxylase relative to the microbial organism in the absence of the genetic modification;
(B) a genetic modification that increases expression of alpha-ketoglutarate dehydrogenase relative to the microbial organism in the absence of the genetic modification;
(C) a genetic modification that increases expression of a non-phosphotransferase (PTS) glucose uptake system relative to the microbial organism in the absence of the genetic modification;
(D) a genetic modification that decreases expression of succinyl-CoA synthetase relative to the microbial organism in the absence of the genetic modification;
(E) a genetic modification that decreases expression of an acyl coenzyme A thioesterase relative to the microbial organism in the absence of the genetic modification;
(F) a genetic modification that decreases expression of a non-energy-producing NADH dehydrogenase relative to the microbial organism in the absence of the genetic modification;
(G) a genetic modification that decreases expression of a cytochrome oxidase relative to the microbial organism in the absence of the genetic modification; and
(H) a combination of two or more, three or more, four or more, five or more, six or all of the genetic modifications of parts (A)-(G).

3. The microbial organism of claim 1 , wherein said microbial organism further comprises a 4-hydroxybutyryl-CoA pathway.

4. The microbial organism of claim 1 , wherein said microbial organism further comprises a 1,4-butanediol pathway.

5. The microbial organism of claim 1 , further comprising a genetic modification selected from:
(i) a genetic modification that increases expression of pyruvate dehydrogenase relative to the microbial organism in the absence of the genetic modification;
(ii) a genetic modification that decreases expression of an aerobic respiratory control regulatory system relative to the microbial organism in the absence of the genetic modification;
(iii) a genetic modification that increases expression of an NADH insensitive citrate synthase relative to the microbial organism in the absence of the genetic modification;
(iv) a genetic modification that decreases expression of malate dehydrogenase relative to the microbial organism in the absence of the genetic modification;
(v) a genetic modification that decreases expression of lactate dehydrogenase relative to the microbial organism in the absence of the genetic modification;
(vi) a genetic modification that decreases expression of pyruvate formate lyase relative to the microbial organism in the absence of the genetic modification; and
(vii) a combination of two or more, three or more, four or more, five or all of the genetic modifications of parts (i)-(vi).

6. The microbial organism of claim 2 , wherein:
(I) the microbial organism of part (A), (B) or (C) has decreased production of ethanol, acetate, pyruvate or alanine, or a combination thereof, relative to the microbial organism in the absence of said genetic modification;
(J) the microbial organism of part (B) has decreased production of glutamate relative to the microbial organism in the absence of said genetic modification;
(K) the microbial organism of part (C) has a genetic modification comprising increased expression of a permease, glucokinase, or a glucose facilitator, or a combination thereof relative to the microbial organism in the absence of said genetic modification;
(L) the microbial organism of part (D) has increased production of 4-hydroxybutyrate relative to the microbial organism in the absence of said genetic modification;
(M) the microbial organism of part (E) has decreased production of gamma-butyrolactone relative to the microbial organism in the absence of said genetic modification;
(N) the microbial organism of part (E) has a genetic modification comprising at least two genetic modifications that decrease expression of at least two acyl coenzyme A thioesterases relative to the microbial organism in the absence of said genetic modification;
(O) the microbial organism of part (F) has suppressed depletion of the NADH pool or increased energy efficiency in the microbial organism, or a combination thereof, relative to the microbial organism in the absence of said genetic modification;
(P) the microbial organism of part (G) has increased energy efficiency relative to the microbial organism in the absence of said genetic modification; or
(Q) the microbial organism of part (G) has increased tolerance to a range of oxygen concentrations relative to the microbial organism in the absence of said genetic modification.

7. A method for producing 4-hydroxybutyrate, comprising culturing the non-naturally occurring microbial organism of claim 1 under conditions and for a sufficient period of time to produce 4-hydroxybutyrate.

8. A method for producing 1,4-butanediol, comprising culturing the non-naturally occurring microbial organism of claim 4 under conditions and for a sufficient period of time to produce 1,4-butanediol.

9. A method for producing isolated or purified 4-hydroxybutyrate or 1,4-butanediol, comprising culturing the non-naturally occurring microbial organism of claim 4 under conditions and for a sufficient period of time to produce 4-hydroxybutyrate or 1,4-butanediol, and isolating or purifying the 4-hydroxybutyrate or 1,4-butanediol.

10. The method of claim 9 , wherein the isolating or purifying comprises distillation.

11. The microbial organism of claim 1 , wherein the microbial organism has decreased backflux from a downstream product of the 4-hydroxybutyrate pathway relative to the microbial organism in the absence of said genetic modification to decrease expression of an alcohol dehydrogenase.

Assignees

• Genomatica Inc

Inventors

• Pharkya Priti
• Burgard Anthony P
• Van Dien Stephen J
• Osterhout Robin E
• Burk Mark J
• Trawick John D
• Kuchinskas Michael P
• Steer Brian

Classifications

• C12N1/20 Primary

  Bacteria; Culture media therefor · CPC title

• C07C31/207

  1,4-Butanediol; 1,3-Butanediol; 1,2-Butanediol; 2,3-Butanediol · CPC title

• C07C59/01

  Saturated compounds having only one carboxyl group and containing hydroxy or O-metal groups · CPC title

• C08G18/284

  Compounds containing ester groups, e.g. oxyalkylated monocarboxylic acids · CPC title

• C08G18/3206

  aliphatic · CPC title