Control of biofilm dispersal for the production of amino acids or amino acid-derived products
Provided herein is a genetically modified host cell comprising a heterologous nucleic acid encoding a biofilm dispersal polypeptide that decreases intracellular c-di-GMP levels and enhances the production of lysine and lysine derivatives. Further provided are methods of generating such cell and producing lysine and lysine derivatives using the genetically modified host cell.
1. A genetically modified host cell comprising a heterologous nucleic acid encoding a biofilm dispersal polypeptide that decreases intracellular c-di-GMP levels, wherein the host cell overexpresses the biofilm dispersal polypeptide relative to a counterpart host cell that has not been modified to express the heterologous nucleic acid; and has at least one additional genetic modification to increase production of an amino acid or an amino acid derivative compared to a wildtype host cell,
wherein the host cell is of the genus Escherichia, Hafnia or Corynebacterium , the amino acid is lysine and the amino acid derivative is cadaverine.
2. The genetically modified host cell of claim 1 , wherein the biofilm dispersal polypeptide is a BdcA or YahA polypeptide.
3. The genetically modified host cell of claim 2 , wherein the biofilm dispersal polypeptide has at least 70% identity, or at least 75%, 80%, 85%, 90%, or 95% identity to a biofilm dispersal polypeptide having a sequence set forth in SEQ ID NO: 4 or SEQ ID NO:6.
4. The genetically modified host cell of claim 1 , wherein the biofilm dispersal polypeptide is exogenous to the host cell.
5. The genetically modified host cell of claim 1 , wherein the heterologous nucleic acid encoding the biofilm dispersal polypeptide is encoded by an expression vector introduced into the cell, wherein the expression vector comprises the heterologous nucleic acid operably linked to a promoter.
6. The genetically modified host cell of claim 1 , wherein the heterologous nucleic acid is integrated into the host chromosome.
7. The genetically modified host cell of claim 1 , wherein the host cell overexpresses a lysine decarboxylase.
8. The genetically modified host cell of claim 1 , wherein the host cell overexpresses one or more lysine biosynthesis polypeptides.
9. The genetically modified host cell of claim 1 , wherein the host cell overexpresses a TetA polypeptide.
10. The genetically modified host cell of claim 1 , wherein the host cell is Escherichia coli, Hafnia alvei , or Corynebacterium glutamicum.
11. The genetically modified host cell of claim 10 , wherein the host cell is Escherichia coli.
12. The genetically modified host cell of claim 11 , wherein the biofilm dispersal polypeptide is a BdcA or YahA polypeptide.
13. The genetically modified host cell of claim 12 , wherein the host cell overexpresses a LysC, DapA, LysA, Asd, DapB, AspC, and TetA polypeptide.
14. The genetically modified host cell of claim 13 , wherein the host cell overexpresses a lysine decarboxylase polypeptide.
15. The genetically modified host cell of claim 12 , wherein the biofilm dispersal polypeptide is exogenous to the host cell.
16. The genetically modified host cell of claim 12 , wherein the heterologous nucleic acid encoding the biofilm dispersal polypeptide is encoded by an expression vector introduced into the cell, wherein the expression vector comprises the heterologous nucleic acid operably linked to a promoter.
17. The genetically modified host cell of claim 12 , wherein the heterologous nucleic acid is integrated into the host chromosome.
18. A method of producing an amino acid or an amino acid derivative, the method comprising culturing a host cell of claim 1 under conditions in which the biofilm dispersal polypeptide is overexpressed.
19. A method of engineering a host cell to increase production of an amino acid or an amino acid derivative, the method comprising introduce a heterologous nucleic acid encoding an biofilm dispersal polypeptide that decreases intracellular c-di-GMP levels into the host cell, wherein the host cell has at least one additional genetic modification to increase production of an amino acid or an amino acid derivative compared to a wildtype host cell; and
culturing the host cell under conditions in which the heterologous biofilm dispersal polypeptide is expressed, wherein expression of the biofilm dispersal polypeptide increases the production of an amino acid or an amino acid derivative relative to a counterpart control host cell that has not been modified to express the heterologous nucleic acid,
wherein the host cell is of the genus Escherichia, Hafnia or Corynebacterium , the amino acid is lysine and the amino acid derivative is cadaverine.
20. The method of claim 19 , wherein the biofilm dispersal polypeptide is exogenous to the host cell.
21. The method of claim 19 , wherein the heterologous nucleic acid encoding the biofilm dispersal polypeptide is encoded by an expression vector introduced into the cell, wherein the expression vector comprises the heterologous nucleic acid operably linked to a promoter.
22. The method of claim 19 , wherein the heterologous nucleic acid is integrated into the host chromosome.
23. The method of claim 19 , wherein the biofilm dispersal polypeptide is a BdcA or YahA polypeptide.
24. The method of claim 23 , wherein the biofilm dispersal polypeptide has at least 70% identity, or at least 75%, 80%, 85%, 90%, or 95% identity to the region of SEQ ID NO: 4 or 6 that encodes the biofilm dispersal polypeptide.
25. The method of claim 19 , wherein the host cell overexpresses one or more lysine biosynthesis polypeptides.
26. The method of claim 19 , wherein the host cell overexpresses a TetA polypeptide.
27. The method of claim 19 , wherein the host cell overexpresses a lysine decarboxylase.
28. The method of claim 19 , wherein the host cell is Escherichia coli, Hafnia alvei , or Corynebacterium glutamicum.
29. The method of claim 28 , wherein the host cell is Escherichia coli.
30. The method of claim 29 , wherein the biofilm dispersal polypeptide is BdcA or YahA polypeptide.
31. The method of claim 30 , wherein the host cell overexpresses a LysC, DapA, LysA, Asd, DapB, AspC, and TetA polypeptide.
32. The method of claim 31 , wherein the host cell overexpresses a lysine decarboxylase polypeptide.
33. The genetically modified host cell of claim 2 , wherein the biofilm dispersal polypeptide BdcA is an Escherichia coli BdcA polypeptide having the amino acid sequence set forth in SEQ ID NO:4 or the biofilm dispersal polypeptide YahA is an Escherichia coli YahA polypeptide having the amino acid sequence set forth in SEQ ID NO:6.
34. The genetically modified host cell of claim 12 , wherein the biofilm dispersal polypeptide BdcA is an Escherichia coli BdcA polypeptide having the amino acid sequence set forth in SEQ ID NO:4 or the biofilm dispersal polypeptide YahA is an Escherichia coli YahA polypeptide having the amino acid sequence set forth in SEQ ID NO:6.
35. The genetically modified host cell of claim 23 , wherein the biofilm dispersal polypeptide BdcA is an Escherichia coli BdcA polypeptide having the amino acid sequence set forth in SEQ ID NO:4 or the biofilm dispersal polypeptide YahA is an Escherichia coli YahA polypeptide having the amino acid sequence set forth in SEQ ID NO:6.
36. The genetically modified host cell of claim 30 , wherein the biofilm dispersal polypeptide BdcA is an Escherichia coli BdcA polypeptide having the amino acid sequence set forth in SEQ ID NO:4 or the biofilm dispersal polypeptide YahA is an Escherichia coli YahA polypeptide having the amino acid sequence set forth in SEQ ID NO:6.