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. 1997 Jun;179(11):3458–3469. doi: 10.1128/jb.179.11.3458-3469.1997

Maximization of transcription of the serC (pdxF)-aroA multifunctional operon by antagonistic effects of the cyclic AMP (cAMP) receptor protein-cAMP complex and Lrp global regulators of Escherichia coli K-12.

T K Man 1, A J Pease 1, M E Winkler 1
PMCID: PMC179136  PMID: 9171388

Abstract

The arrangement of the Escherichia coli serC (pdxF) and aroA genes into a cotranscribed multifunctional operon allows coregulation of two enzymes required for the biosynthesis of L-serine, pyridoxal 5'-phosphate, chorismate, and the aromatic amino acids and vitamins. RNase T2 protection assays revealed two major transcripts that were initiated from a promoter upstream from serC (pdxF). Between 80 to 90% of serC (pdxF) transcripts were present in single-gene mRNA molecules that likely arose by Rho-independent termination between serC (pdxF) and aroA. serC (pdxF)-aroA cotranscripts terminated at another Rho-independent terminator near the end of aroA. We studied operon regulation by determining differential rates of beta-galactosidase synthesis in a merodiploid strain carrying a single-copy lambda[phi(serC [pdxF]'-lacZYA)] operon fusion. serC (pdxF) transcription was greatest in bacteria growing in minimal salts-glucose medium (MMGlu) and was reduced in minimal salts-glycerol medium, enriched MMGlu, and LB medium. serC (pdxF) transcription was increased in cya or crp mutants compared to their cya+ crp+ parent in MMGlu or LB medium. In contrast, serC (pdxF) transcription decreased in an lrp mutant compared to its lrp+ parent in MMGlu. Conclusions obtained by using the operon fusion were corroborated by quantitative Western immunoblotting of SerC (PdxF), which was present at around 1,800 dimers per cell in bacteria growing in MMGlu. RNase T2 protection assays of serC (pdxF)-terminated and serC (pdxF)-aroA cotranscript amounts supported the conclusion that the operon was regulated at the transcription level under the conditions tested. Results with a series of deletions upstream of the P(serC (pdxF)) promoter revealed that activation by Lrp was likely direct, whereas repression by the cyclic AMP (cAMP) receptor protein-cAMP complex (CRP-cAMP) was likely indirect, possibly via a repressor whose amount or activity was stimulated by CRP-cAMP.

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Selected References

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  1. Berg O. G., von Hippel P. H. Selection of DNA binding sites by regulatory proteins. II. The binding specificity of cyclic AMP receptor protein to recognition sites. J Mol Biol. 1988 Apr 20;200(4):709–723. doi: 10.1016/0022-2836(88)90482-2. [DOI] [PubMed] [Google Scholar]
  2. Bilge S. S., Apostol J. M., Jr, Fullner K. J., Moseley S. L. Transcriptional organization of the F1845 fimbrial adhesin determinant of Escherichia coli. Mol Microbiol. 1993 Mar;7(6):993–1006. doi: 10.1111/j.1365-2958.1993.tb01191.x. [DOI] [PubMed] [Google Scholar]
  3. Calvo J. M., Matthews R. G. The leucine-responsive regulatory protein, a global regulator of metabolism in Escherichia coli. Microbiol Rev. 1994 Sep;58(3):466–490. doi: 10.1128/mr.58.3.466-490.1994. [DOI] [PMC free article] [PubMed] [Google Scholar]
  4. Cui Y., Wang Q., Stormo G. D., Calvo J. M. A consensus sequence for binding of Lrp to DNA. J Bacteriol. 1995 Sep;177(17):4872–4880. doi: 10.1128/jb.177.17.4872-4880.1995. [DOI] [PMC free article] [PubMed] [Google Scholar]
  5. Cupples C. G., Miller J. H. A set of lacZ mutations in Escherichia coli that allow rapid detection of each of the six base substitutions. Proc Natl Acad Sci U S A. 1989 Jul;86(14):5345–5349. doi: 10.1073/pnas.86.14.5345. [DOI] [PMC free article] [PubMed] [Google Scholar]
  6. Dempsey W. B., Ito H. Characterization of pyridoxine auxotrophs of Escherichia coli: serine and pdxF mutants. J Bacteriol. 1970 Nov;104(2):658–667. doi: 10.1128/jb.104.2.658-667.1970. [DOI] [PMC free article] [PubMed] [Google Scholar]
  7. Dougan G., Hormaeche C. E., Maskell D. J. Live oral Salmonella vaccines: potential use of attenuated strains as carriers of heterologous antigens to the immune system. Parasite Immunol. 1987 Mar;9(2):151–160. doi: 10.1111/j.1365-3024.1987.tb00496.x. [DOI] [PubMed] [Google Scholar]
  8. Drewke C., Klein M., Clade D., Arenz A., Müller R., Leistner E. 4-O-phosphoryl-L-threonine, a substrate of the pdxC(serC) gene product involved in vitamin B6 biosynthesis. FEBS Lett. 1996 Jul 22;390(2):179–182. doi: 10.1016/0014-5793(96)00652-7. [DOI] [PubMed] [Google Scholar]
  9. Duncan K., Coggins J. R. The serC-aro A operon of Escherichia coli. A mixed function operon encoding enzymes from two different amino acid biosynthetic pathways. Biochem J. 1986 Feb 15;234(1):49–57. doi: 10.1042/bj2340049. [DOI] [PMC free article] [PubMed] [Google Scholar]
  10. Feng G., Winkler M. E. Single-step purifications of His6-MutH, His6-MutL and His6-MutS repair proteins of escherichia coli K-12. Biotechniques. 1995 Dec;19(6):956–965. [PubMed] [Google Scholar]
  11. Fricke J., Neuhard J., Kelln R. A., Pedersen S. The cmk gene encoding cytidine monophosphate kinase is located in the rpsA operon and is required for normal replication rate in Escherichia coli. J Bacteriol. 1995 Feb;177(3):517–523. doi: 10.1128/jb.177.3.517-523.1995. [DOI] [PMC free article] [PubMed] [Google Scholar]
  12. Gollub E., Zalkin H., Sprinson D. B. Correlation of genes and enzymes, and studies on regulation of the aromatic pathway in Salmonella. J Biol Chem. 1967 Nov 25;242(22):5323–5328. [PubMed] [Google Scholar]
  13. Griffin H. G., Griffin A. M. Cloning and DNA sequence analysis of the serC-aroA operon from Salmonella gallinarum; evolutionary relationships between the prokaryotic and eukaryotic aroA-encoded enzymes. J Gen Microbiol. 1991 Jan;137(1):113–121. doi: 10.1099/00221287-137-1-113. [DOI] [PubMed] [Google Scholar]
  14. Hama H., Sumita Y., Kakutani Y., Tsuda M., Tsuchiya T. Target of serine inhibition in Escherichia coli. Biochem Biophys Res Commun. 1990 May 16;168(3):1211–1216. doi: 10.1016/0006-291x(90)91157-n. [DOI] [PubMed] [Google Scholar]
  15. Hill R. E., Himmeldirk K., Kennedy I. A., Pauloski R. M., Sayer B. G., Wolf E., Spenser I. D. The biogenetic anatomy of vitamin B6. A 13C NMR investigation of the biosynthesis of pyridoxol in Escherichia coli. J Biol Chem. 1996 Nov 29;271(48):30426–30435. doi: 10.1074/jbc.271.48.30426. [DOI] [PubMed] [Google Scholar]
  16. Hoiseth S. K., Stocker B. A. Genes aroA and serC of Salmonella typhimurium constitute an operon. J Bacteriol. 1985 Jul;163(1):355–361. doi: 10.1128/jb.163.1.355-361.1985. [DOI] [PMC free article] [PubMed] [Google Scholar]
  17. Ishizuka H., Hanamura A., Kunimura T., Aiba H. A lowered concentration of cAMP receptor protein caused by glucose is an important determinant for catabolite repression in Escherichia coli. Mol Microbiol. 1993 Oct;10(2):341–350. doi: 10.1111/j.1365-2958.1993.tb01960.x. [DOI] [PubMed] [Google Scholar]
  18. Kolb A., Busby S., Buc H., Garges S., Adhya S. Transcriptional regulation by cAMP and its receptor protein. Annu Rev Biochem. 1993;62:749–795. doi: 10.1146/annurev.bi.62.070193.003533. [DOI] [PubMed] [Google Scholar]
  19. Kröger M., Wahl R. Compilation of DNA sequences of Escherichia coli K12 (ECD and ECDC; update 1995). Nucleic Acids Res. 1996 Jan 1;24(1):29–31. doi: 10.1093/nar/24.1.29. [DOI] [PMC free article] [PubMed] [Google Scholar]
  20. Laemmli U. K. Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature. 1970 Aug 15;227(5259):680–685. doi: 10.1038/227680a0. [DOI] [PubMed] [Google Scholar]
  21. Lam H. M., Tancula E., Dempsey W. B., Winkler M. E. Suppression of insertions in the complex pdxJ operon of Escherichia coli K-12 by lon and other mutations. J Bacteriol. 1992 Mar;174(5):1554–1567. doi: 10.1128/jb.174.5.1554-1567.1992. [DOI] [PMC free article] [PubMed] [Google Scholar]
  22. Lam H. M., Winkler M. E. Metabolic relationships between pyridoxine (vitamin B6) and serine biosynthesis in Escherichia coli K-12. J Bacteriol. 1990 Nov;172(11):6518–6528. doi: 10.1128/jb.172.11.6518-6528.1990. [DOI] [PMC free article] [PubMed] [Google Scholar]
  23. Landgraf J. R., Wu J., Calvo J. M. Effects of nutrition and growth rate on Lrp levels in Escherichia coli. J Bacteriol. 1996 Dec;178(23):6930–6936. doi: 10.1128/jb.178.23.6930-6936.1996. [DOI] [PMC free article] [PubMed] [Google Scholar]
  24. Lange R., Barth M., Hengge-Aronis R. Complex transcriptional control of the sigma s-dependent stationary-phase-induced and osmotically regulated osmY (csi-5) gene suggests novel roles for Lrp, cyclic AMP (cAMP) receptor protein-cAMP complex, and integration host factor in the stationary-phase response of Escherichia coli. J Bacteriol. 1993 Dec;175(24):7910–7917. doi: 10.1128/jb.175.24.7910-7917.1993. [DOI] [PMC free article] [PubMed] [Google Scholar]
  25. Lim C. J., Hwang W., Park E. H., Fuchs J. A. Cyclic AMP-dependent expression of the Escherichia coli serC-aroA operon. Biochim Biophys Acta. 1994 Jun 21;1218(2):250–253. doi: 10.1016/0167-4781(94)90024-8. [DOI] [PubMed] [Google Scholar]
  26. Man T. K., Zhao G., Winkler M. E. Isolation of a pdxJ point mutation that bypasses the requirement for the PdxH oxidase in pyridoxal 5' -phosphate coenzyme biosynthesis in Escherichia coli K-12. J Bacteriol. 1996 Apr;178(8):2445–2449. doi: 10.1128/jb.178.8.2445-2449.1996. [DOI] [PMC free article] [PubMed] [Google Scholar]
  27. Mathew E., Zhi J., Freundlich M. Lrp is a direct repressor of the dad operon in Escherichia coli. J Bacteriol. 1996 Dec;178(24):7234–7240. doi: 10.1128/jb.178.24.7234-7240.1996. [DOI] [PMC free article] [PubMed] [Google Scholar]
  28. McKitrick J. C., Pizer L. I. Regulation of phosphoglycerate dehydrogenase levels and effect on serine synthesis in Escherichia coli K-12. J Bacteriol. 1980 Jan;141(1):235–245. doi: 10.1128/jb.141.1.235-245.1980. [DOI] [PMC free article] [PubMed] [Google Scholar]
  29. Menzel R. A microtiter plate-based system for the semiautomated growth and assay of bacterial cells for beta-galactosidase activity. Anal Biochem. 1989 Aug 15;181(1):40–50. doi: 10.1016/0003-2697(89)90391-6. [DOI] [PubMed] [Google Scholar]
  30. Morse D. E., Yanofsky C. Amber mutants of the trpR regulatory gene. J Mol Biol. 1969 Aug 28;44(1):185–193. doi: 10.1016/0022-2836(69)90413-6. [DOI] [PubMed] [Google Scholar]
  31. Morse D. E., Yanofsky C. The internal low-efficiency promoter of the tryptophan operon of Escherichia coli. J Mol Biol. 1968 Dec;38(3):447–451. doi: 10.1016/0022-2836(68)90401-4. [DOI] [PubMed] [Google Scholar]
  32. Newman E. B., Lin R. Leucine-responsive regulatory protein: a global regulator of gene expression in E. coli. Annu Rev Microbiol. 1995;49:747–775. doi: 10.1146/annurev.mi.49.100195.003531. [DOI] [PubMed] [Google Scholar]
  33. O'Gaora P., Maskel D., Coleman D., Cafferkey M., Dougan G. Cloning and characterisation of the serC and aroA genes of Yersinia enterocolitica, and construction of an aroA mutant. Gene. 1989 Dec 7;84(1):23–30. doi: 10.1016/0378-1119(89)90135-2. [DOI] [PubMed] [Google Scholar]
  34. PIZER L. I., POTOCHNY M. L. NUTRITIONAL AND REGULATORY ASPECTS OF SERINE METABOLISM IN ESCHERICHIA COLI. J Bacteriol. 1964 Sep;88:611–619. doi: 10.1128/jb.88.3.611-619.1964. [DOI] [PMC free article] [PubMed] [Google Scholar]
  35. PIZER L. I. THE PATHWAY AND CONTROL OF SERINE BIOSYNTHESIS IN ESCHERICHIA COLI. J Biol Chem. 1963 Dec;238:3934–3944. [PubMed] [Google Scholar]
  36. Pastan I., Adhya S. Cyclic adenosine 5'-monophosphate in Escherichia coli. Bacteriol Rev. 1976 Sep;40(3):527–551. doi: 10.1128/br.40.3.527-551.1976. [DOI] [PMC free article] [PubMed] [Google Scholar]
  37. Powell B. S., Rivas M. P., Court D. L., Nakamura Y., Turnbough C. L., Jr Rapid confirmation of single copy lambda prophage integration by PCR. Nucleic Acids Res. 1994 Dec 25;22(25):5765–5766. doi: 10.1093/nar/22.25.5765. [DOI] [PMC free article] [PubMed] [Google Scholar]
  38. Rex J. H., Aronson B. D., Somerville R. L. The tdh and serA operons of Escherichia coli: mutational analysis of the regulatory elements of leucine-responsive genes. J Bacteriol. 1991 Oct;173(19):5944–5953. doi: 10.1128/jb.173.19.5944-5953.1991. [DOI] [PMC free article] [PubMed] [Google Scholar]
  39. Simons R. W., Houman F., Kleckner N. Improved single and multicopy lac-based cloning vectors for protein and operon fusions. Gene. 1987;53(1):85–96. doi: 10.1016/0378-1119(87)90095-3. [DOI] [PubMed] [Google Scholar]
  40. Stewart V., Yanofsky C. Role of leader peptide synthesis in tryptophanase operon expression in Escherichia coli K-12. J Bacteriol. 1986 Jul;167(1):383–386. doi: 10.1128/jb.167.1.383-386.1986. [DOI] [PMC free article] [PubMed] [Google Scholar]
  41. Stocker B. A., Hoiseth S. K., Smith B. P. Aromatic-dependent "Salmonella sp." as live vaccine in mice and calves. Dev Biol Stand. 1983;53:47–54. [PubMed] [Google Scholar]
  42. Sugimoto E., Pizer L. I. The mechanism of end product inhibition of serine biosynthesis. I. Purification and kinetics of phosphoglycerate dehydrogenase. J Biol Chem. 1968 May 10;243(9):2081–2089. [PubMed] [Google Scholar]
  43. Sugimoto E., Pizer L. I. The mechanism of end product inhibition of serine biosynthesis. II. Optical studies of phosphoglycerate dehydrogenase. J Biol Chem. 1968 May 10;243(9):2090–2098. [PubMed] [Google Scholar]
  44. Tribe D. E., Camakaris H., Pittard J. Constitutive and repressivle enzymes of the common pathway of aromatic biosynthesis in Escherichia coli K-12: regulation of enzyme synthesis at different growth rates. J Bacteriol. 1976 Sep;127(3):1085–1097. doi: 10.1128/jb.127.3.1085-1097.1976. [DOI] [PMC free article] [PubMed] [Google Scholar]
  45. Tuan L. R., D'Ari R., Newman E. B. The leucine regulon of Escherichia coli K-12: a mutation in rblA alters expression of L-leucine-dependent metabolic operons. J Bacteriol. 1990 Aug;172(8):4529–4535. doi: 10.1128/jb.172.8.4529-4535.1990. [DOI] [PMC free article] [PubMed] [Google Scholar]
  46. Yang Y., Zhao G., Winkler M. E. Identification of the pdxK gene that encodes pyridoxine (vitamin B6) kinase in Escherichia coli K-12. FEMS Microbiol Lett. 1996 Jul 15;141(1):89–95. doi: 10.1111/j.1574-6968.1996.tb08368.x. [DOI] [PubMed] [Google Scholar]
  47. Zhao G., Pease A. J., Bharani N., Winkler M. E. Biochemical characterization of gapB-encoded erythrose 4-phosphate dehydrogenase of Escherichia coli K-12 and its possible role in pyridoxal 5'-phosphate biosynthesis. J Bacteriol. 1995 May;177(10):2804–2812. doi: 10.1128/jb.177.10.2804-2812.1995. [DOI] [PMC free article] [PubMed] [Google Scholar]
  48. Zhao G., Winkler M. E. 4-Phospho-hydroxy-L-threonine is an obligatory intermediate in pyridoxal 5'-phosphate coenzyme biosynthesis in Escherichia coli K-12. FEMS Microbiol Lett. 1996 Jan 15;135(2-3):275–280. doi: 10.1111/j.1574-6968.1996.tb08001.x. [DOI] [PubMed] [Google Scholar]
  49. Zhao G., Winkler M. E. A novel alpha-ketoglutarate reductase activity of the serA-encoded 3-phosphoglycerate dehydrogenase of Escherichia coli K-12 and its possible implications for human 2-hydroxyglutaric aciduria. J Bacteriol. 1996 Jan;178(1):232–239. doi: 10.1128/jb.178.1.232-239.1996. [DOI] [PMC free article] [PubMed] [Google Scholar]
  50. Zhao G., Winkler M. E. An Escherichia coli K-12 tktA tktB mutant deficient in transketolase activity requires pyridoxine (vitamin B6) as well as the aromatic amino acids and vitamins for growth. J Bacteriol. 1994 Oct;176(19):6134–6138. doi: 10.1128/jb.176.19.6134-6138.1994. [DOI] [PMC free article] [PubMed] [Google Scholar]
  51. Zhao G., Winkler M. E. Kinetic limitation and cellular amount of pyridoxine (pyridoxamine) 5'-phosphate oxidase of Escherichia coli K-12. J Bacteriol. 1995 Feb;177(4):883–891. doi: 10.1128/jb.177.4.883-891.1995. [DOI] [PMC free article] [PubMed] [Google Scholar]

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