IP Library Granted Patent US 11,932,893
Granted Patent B2
US 11,932,893 · App. 15/971,977 · Granted Mar 19, 2024

Microorganisms and methods for producing alkenes

Inventors: Mark J. Burk (San Diego, CA); Robin E. Osterhout (San Diego, CA)
Assignee: Genomatica, Inc.
C12P5/026C12N9/1205C12N9/1229C12N9/1235C12N9/88C12N15/52C12P5/002C12Y402/03Y02E50/30
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Quick Facts
Patent No.
US 11,932,893
App. No.
15/971,977
Granted
Mar 19, 2024
Kind
B2
Abstract

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

Claims (38)

1. A method for producing an alkene comprising culturing a non-naturally occurring microbial organism having an alkene pathway under conditions and for a sufficient period of time to produce said alkene, wherein said non-naturally occurring microbial organism comprises at least one exogenous nucleic acid encoding a alkene pathway enzyme expressed in sufficient amount to convert an alcohol to said alkene, wherein said alkene pathway comprises alkene pathway enzymes selected from:

(1) an alcohol kinase that transfers a phosphate group to a hydroxyl group, and a phosphate lyase that converts an alkyl-phosphate to an alkene, wherein the alcohol kinase is selected from enzymes having an E.C. number selected from the group consisting of 2.7.1.30 (glycerol kinase), 2.7.1.36 (mevalonate kinase), or 2.7.1.39 (homoserine kinase);

(2) a diphosphokinase that transfers a di-phosphate group to a hydroxyl group and a diphosphate lyase that converts an alkyl di-phosphate to an alkene, wherein the diphosphokinase is selected from enzymes having an E.C. number selected from the group consisting of, 2.7.6.1 (ribose-phosphate diphosphokinase) or 2.7.6.2 (thiamine diphosphokinase); and

(3) an alcohol kinase that transfers a phosphate group to a hydroxyl group, an alkyl phosphate kinase that transfers a phosphate group to a phosphate group of an alkyl-phosphate, and a diphosphate lyase that converts an alkyl di-phosphate to an alkene, wherein:

(i) the alcohol kinase is selected from enzymes having an E.C. number selected from the group consisting of 2.7.1.30 (glycerol kinase), 2.7.1.36 (mevalonate kinase), or 2.7.1.39 (homoserine kinase);

(ii) the alkyl phosphate kinase is selected from enzymes having an E.C. number selected from the group consisting of 2.7.4.2 (phosphomevalonate kinase), 2.7.4.18 (farnesyl-diphosphate kinase); and

(iii) the diphosphate lyase is selected from enzymes having an E.C. number selected from the group consisting of 4.2.3.5 (Chorismate synthase), 4.2.3.15 (Myrcene synthase), 4.2.3.36 (Terpentriene synthase), 4.2.3.46 ((E, E)-alpha-Farnesene synthase), or 4.2.3.47 (Beta-Farnesene synthase);

wherein said alcohol is a compound of Formula (I)

wherein said alkene is a compound of Formula (II)

wherein,

(a) R 1 , R 2 , R 3 , and R 4 of Formula I and R 1 , R 2 , R 3 , and R 4 of Formula II are the same and are independently hydrogen, methyl, ethyl, or ethenyl, and

(b) wherein R 1 , R 2 , R 3 , and R 4 are selected such that the compound of Formula (II) is a C 4 alkene.

2. The method of claim 1 , wherein said alkene is selected from, But-1-ene, Isobutylene, but-2-ene, and 1,3-Butadiene.

3. The method of claim 1 , wherein the non-naturally occurring microbial organism comprises two exogenous nucleic acids each encoding an alkene pathway enzyme when the microbial organism comprises an alkene pathway selected from (1) or (2) and the microbial organism comprises two or three exogenous nucleic acids each encoding an alkene pathway enzyme when the microbial organism comprises an alkene pathway selected from (3).

4. The method of claim 3 , wherein said two exogenous nucleic acids encode an alcohol kinase and a phosphate lyase.

5. The method of claim 3 , wherein said two exogenous nucleic acids encode a diphosphokinase and a diphosphate lyase.

6. The method of claim 3 , wherein said three exogenous nucleic acids encode an alcohol kinase, an alkyl phosphate kinase and a diphosphate lyase.

7. The method of claim 1 , wherein said at least one exogenous nucleic acid is a heterologous nucleic acid.

8. The method of claim 1 , wherein said non-naturally occurring microbial organism is cultured in a substantially anaerobic culture medium.

9. The method of claim 1 , wherein said microbial organism converts n-butanol to but-1-ene, isobutanol to isobutylene, tert-butanol to isobutylene, butan-2-ol to but-1-ene or but-2-ene, but-3-en-1-ol to 1,3-butadiene, but-3-en-2-ol to 1,3-butadiene, or but-2-en-1-ol to 1,3-butadiene.

10. The method of claim 1 , wherein the alcohol kinase is:

(1) a mevalonate kinase from Saccharomyces cerevisiae, Methanocaldococcus jannaschi, Homo sapiens, Arabidopsis thaliana coli, Methanosarcina mazei or Streptococcus pneumonia;

(2) a glycerol kinase from Escherichia coli, Saccharomyces cerevisiae , or Thermotoga maritime; or

(3) a homoserine kinase from Escherichia coli, Saccharomyces cerevisiae or Streptomyces sp. ACT-1.

11. The method of claim 1 , wherein the phosphate lyase is:

(1) a chorismate synthase from Escherichia coli, Streptococcus pneumoniae, Neurospora crassa , or Saccharomyces cerevisiae;

(2) a myrcene synthase from Solanum lvcopersicum, Picea abies, Abies grandis , or Arabidopsis thaliana ; or

(3) a farnesyl diphosphate from Arabidopsis thaliana, Picea abies, Cucumis sativus, Matus x domestica , or Zea mays.

12. The method of claim 1 , wherein the diphosphate lyase is:

(1) a chorismate synthase from Escherichia coli, Streptococcus pneumoniae, Neurospora crassa , or Saccharomyces cerevisiae;

(2) a myrcene synthase from Solanum lvcopersicum, Picea abies, Abies Grandis , or Arabidopsis thaliana ; or

(3) a farnesyl diphosphate from Arabidopsis thaliana, Picea abies, Cucumis sativus, Matus x domestica , or Zea mays.

13. The method of claim 1 , wherein the alkyl phosphate kinase is:

(1) a phosphomevalonate kinase from Saccharomyces cerevisiae, Staphylococcus aureus, Streptococcus pneumoniae , or Enterococcus faecalis ; or

(2) a farnesyl monophosphate kinase from Nicotiana tabacum.

14. The method of claim 1 , wherein the diphosphokinase is

(1) a ribose-phosphate diphosphokinase from Escherichia coli and Mycoplasma pneumoniae M129; or

(2) a thiamine diphosphokinase from Arabidopsis thaliana.

Assignments (1)
SECURITY INTEREST Recorded Feb 10, 2026
From: GENOMATICA, INC.
To: AGAIN BIO APS
Reel/Frame 074708/0001 →
Continuity (3)
Continuation 13619284 · Sep 14, 2012
Provisional Application 61535893 · Sep 16, 2011
Related Publication 20190085360A1 · Mar 21, 2019