Cloning, sequencing, and characterization of the Bacillus subtilis biotin biosynthetic operon

Journal of Bacteriology

Volumn 178, Issue 14, 1996, Pages 4122-4130

  Bower, Stanley ^a   Perkins, John B ^a   Rogers Yocum, R ^a   Howitt, C L ^a   Rahaim, Peter ^a   Pero, Janice ^a  

^a OmniGene Bioproducts   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BIOTIN; CYTOCHROME P450; PIMELIC ACID;

ARTICLE; BACILLUS SPHAERICUS; BACILLUS SUBTILIS; DNA SEQUENCE; ESCHERICHIA COLI; GENE MUTATION; GENOME; MOLECULAR CLONING; NONHUMAN; OPERON; PHENOTYPE; PRIORITY JOURNAL; PROMOTER REGION; SEQUENCE HOMOLOGY; VITAMIN METABOLISM;

EID: 0029974965     PISSN: 00219193     EISSN: None     Source Type: Journal    
DOI: 10.1128/jb.178.14.4122-4130.1996     Document Type: Article

References (64)

1. Abbott, J., and D. Beckett. 1993. Cooperative binding of the Escherichia coli repressor of biotin biosynthesis to the biotin operator sequence. Biochemistry 32:9649-9656.
2. Alexeev, D., S. M. Bury, C. W. G. Boys, M. A. Turner, L. Sawyer, A. J. Ramsey, H. C. Baxter, and R. L. Baxter. 1994. Sequence and crystallization of Escherichia coli dethiobiotin synthetase, the penultimate enzyme of biotin biosynthesis. J. Mol. Biol. 235:774-776.
3. Asturias, J. A., L. D. Eltis, M. Prucha, and K. N. Timmis. 1994. Analysis of three 2,3-dihydroxybiphenyl 1,2-dioxygenases found in Rhodococcus globerulus P6. J. Biol. Chem. 269:7807-7815.
4. Backman, K., Y.-M. Chen, and B. Magasanik. 1981. Physical and genetic characterization of the glnA-glnG region of the Escherichia coli chromosome. Proc. Natl. Acad. Sci. USA 78:3743-3747.
5. Barker, D. F., and A. M. Campbell. 1981. Genetic and biochemical characterization of the birA gene and its product: evidence for a direct role of biotin holoenzyme synthetase in repression of the biotin operon in Escherichia coli. J. Mol. Biol. 146:469-492.
6. Birch, O. M., M. Fuhrmann, and N. M. Shaw. 1995. Biotin synthase from Escherichia coli, an investigation of the low molecular weight and protein components required for activity in vitro. J. Biol. Chem. 270:19158-19165.
7. 6a. Bower, S. Unpublished data.
8. Bower, S., J. Perkins, R. R. Yocum, P. Serror, A. Sorokin, P. Rahaim, C. L. Howitt, N. Prasad, S. D. Ehrlich, and J. Pero. 1995. Cloning and characterization of the Bacillus subtilis birA gene encoding a repressor of the biotin operon. J. Bacteriol. 177:2572-2575.
9. Cleary, P., and A. Campbell. 1972. Deletions and complementation analysis of the biotin gene cluster of Escherichia coli. S. Bacteriol. 112:830-839.
10. Cronan, J. E., Jr. 1989. The E. coli bio operon: transcriptional repression by an essential protein modification enzyme. Cell 58:427-429.
11. Dassa, E., and M. Hofnung. 1985. Sequence of gene malG in E. coli K12: homologies between integral membrane components from binding protein-dependent transport systems. EMBO J. 4:2287-2293.
12. Donadio, S., and L. Katz. 1992. Organization of the enzymatic domains in the multifunctional polyketide synthase involved in erythromycin formation in Saccharopolyspora erythraea. Gene 111:51-60.
13. Dower, W. J., J. F. Miller, and C. R. Ragsdale. 1988. High efficiency transformation of E coli by high voltage electroporation. Nucleic Acids Res. 16: 6127-6145.
14. Dubnau, D., and R. Davidoff-Abelson. 1971. Fate of transforming DNA following uptake by competent Bacillus subtilis. J. Mol. Biol. 56:209-221.
15. Eisenberg, M. A. 1987. Biosynthesis of biotin and lipoic acid, p. 544-550. In F. C. Neidhardt, J. L. Ingraham, B. Magasanik, K. B. Low, M. Schacchter, and H. E. Umbarger (ed.), Escherichia coli and Salmonella typhimurium: cellular and molecular biology. American Society for Microbiology, Washington, D.C.
16. Florentin, D., B. T. S. Bui, A. Marquet, T. Ohshiro, and Y. Izumi. 1994. On the mechanism of biotin synthetase of Bacillus sphaericus. C. R. Acad. Sci. Ser. III 317:485-488.
17. Gibson, K. J., G. H. Lorimer, A. R. Rendina, W. S. Taylor, G. Cohen, A. A. Gatenby, W. G. Payne, D. C. Roe, B. A. Lockett, A. Nudelman, D. Marcovici, A. Nachum, B. A. Wexler, E. L. Marsilii, S. I. M. Turner, L. D. Howe, C. E. Kalbach, and H. Chi. 1995. Dethiobiotin synthetase: the carbonylation of 7,8-diaminononanoic acid proceeds regiospecifically via the N7-carbamate. Biochemistry 34:10976-10984.
18. Gloeckler, R., I. Ohsawa, D. Speck, C. Ledoux, S. Bernard, M. Zinsius, D. Villeval, T. Kisou, K. Kamogawa, and Y. Lemoine. 1990. Cloning and characterization of the Bacillus sphaericus genes controlling the bioconversion of pimelate into dethiobiotin. Gene 87:63-70.
19. Gomez, A., D. Ramon, and P. Sanz. 1993. GenBank accession no. L19164.
20. Hatfield, D., M. Hofnung, and M. Schwartz. 1969. Genetic analysis of the maltose A region in Escherichia coli. J. Bacteriol. 98:559-567.
21. Haydock, S., J. A. Dowson, N. Dhillon, G. A. Roberts, J. Cortes, and P. F. Leadlay. 1991. Cloning and sequence analysis of genes involved in erythromycin biosynthesis in Saccharopolyspora erythraea: sequence similarities between EryG and a family of S-adenosylmethionine-dependent methyltransferases. Mol. Gen. Genet. 230:120-128.
22. BM-1 from Bacillus megaterium. Biochim. Biophys. Acta 109:301-303.
23. Horinouchi, S., and B. Weisblum. 1982. Nucleotide sequence and functional map of pC194, a plasmid that specifies inducible chloramphenicol resistance. J. Bacteriol. 150:815-825.
24. Huang, W., J. Jia, K. J. Gibson, W. S. Taylor, A. R. Rendina, G. Schneider, and Y. Lindqvist. 1995. Mechanism of an ATP-depcndent carboxylase, dethiobiotin synthetase, based on crystallographic studies of complexes with substrates and a reaction intermediate. Biochemistry 34:10985-10995.
25. Hueck, C. J., and W. Hillen. 1995. Catabolite repression in Bacillus subtilis: a global regulatory mechanism for the gram-positive bacteria? Mol. Microbiol. 15:395-401.
26. Ifuku, O., J. Kishimoto, S. Haze, M. Yanagi, and S. Fukushima. 1992. Conversion of dethiobiotin to biotin in cell-free extracts of Escherichia coli. Biosci. Biotechnol. Biochem. 56:1780-1785.
27. Ifuku, O., N. Koga, S. Haze, J. Kishimoto, and Y. Wachi. 1994. Flavodoxin is required for conversion of dethiobiotin to biotin in Escherichia coli. Eur. J. Biochem. 224:173-178.
28. 13C-NMR studies on biotin biosynthesis in Escherichia coli. Eur. J. Biochem. 220:585-591.
29. Inoue, H., H. Nojima, and H. Okayama. 1990. High efficiency transformation of Escherichia coli with plasmids. Gene 96:23-28.
30. Izumi, Y., Y. Kano, K. Inagaski, N. Kawase, Y. Tani, and H. Yamada. 1981. Characterization of biotin biosynthetic enzymes of Bacillus sphaericus: a desthiobiotin producing bacterium. Agric. Biol. Chem. 45:1983-1989.
31. Jiang, X. M., B. Neal, F. Santiago, S. J. Lee, L. K. Romana, and P. R. Reeves. 1991. Structure and sequence of the rfb (O antigen) gene cluster of Salmonella serovar typhimurium (strain LT2). Mol. Microbiol. 5:695-713.
32. Lauer, G., E. A. Rudd, D. L. McKay, A. Ally, D. Ally, and K. C. Backman. 1991. Cloning, nucleotide sequence, and engineered expression of Thermus thermophilus DNA ligase, a homolog of Escherichia coli DNA ligase. J. Bacteriol. 173:5047-5053.
33. Lemoine, Y., A. Wach, and J. M. Jeltsch. 1996. To be free or not: the fate of pimelate in Bacillus sphaericus and in Escherichia coli. Mol. Microbiol. 19: 645-647.
34. Lerner, C. G., and M. Inouye. 1990. Low copy number plasmids for regulated low-level expression of cloned genes in Escherichia coli with blue/white insert screening capability. Nucleic Acids Res. 18:4631.
35. Lopilato, J., S. Bortner, and J. Beckwith. 1986. Mutations in a new chromosomal gene of Escherichia coli K-12, pcnB, reduce plasmid copy number of pBR322 and its derivatives. Mol. Gen. Genet. 205:285-290.
36. Miller, J. H. 1972. Experiments in molecular genetics, p. 352-355. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
37. Moran, C. P., Jr., N. Lang, S. F. J. LeGrice, G. Lee, M. Stephens, A. L. Sonenshein, J. Pero, and R. Losick. 1982. Nucleotide sequences that signal the initiation of transcription and translation in Bacillus subtilis. Mol. Gen. Genet. 186:339-346.
38. Ohshiro, T., M. Yamamoto, Y. Izumi, B. T. S. Bui, D. Florentin, and A. Marquet. 1994. Enzymatic conversion of dethiobiotin to biotin in cell-free extracts of a Bacillus sphaericus bioB transformant. Biosci. Biotechnol. Biochem. 58:1738-1741.
39. Otsuka, A. J., M. R. Buoncristiani, P. K. Howard, J. Flamm, C. Johnson, R. Yamamoto, K. Uchida, C. Cook, J. Ruppert, and J. Matsuzaki. 1988. The Escherichia coli biotin biosynthetic enzyme sequences predicted from the nucleotide sequence of the bio operon. J. Biol. Chem. 263:19577-19585.
40. Overduin, P., W. Boos, and J. Tommassen. 1988. Nucleotide sequence of the ugp genes of Escherichia coli K12: homology to the maltose system. Mol. Microbiol. 2:767-775.
41. Pai, C. H. 1975. Genetics of biotin biosynthesis in Bacillus subtilis. J. Bacteriol. 121:1-8.
42. Perkins, J. B., S. Bower, C. L. Howitt, R. R. Yocum, and J. Pero. Unpublished data.
43. Ploux, O., and A. Marquet. 1992. The 8-amino-7-oxoate pelargon synthase from Bacillus sphaericus. Purification and preliminary characterization of the cloned enzyme overproduced in Escherichia coli. Biochem. J. 283:327-321.
44. Ploux, O., P. Soularue, A. Marquet, R. Gloeckler, and Y. Lemoine. 1992. Investigations of the first step of biotin biosynthesis in Bacillus sphaericus. Purification and characterization of the pimeloyl-CoA synthetase, and uptake of pimelate. Biochem. J. 287:685-690.
45. Reed, K. E., and J. J. E. Cronan. 1993. Lipoic acid metabolism in Escherichia coli: sequencing and functional characterization of the lipA and lipB genes. J. Bacteriol. 175:1325-1336.
46. Rolfes, R. J., and H. Zalkin. 1988. Escherichia coli gene purR encoding a repressor protein for purine nucleotide synthesis: cloning, nucleotide sequence, and interaction with the purF operator. J. Mol. Biol. 263:19653-19661.
47. Sanyal, I, G. Cohen, and D. H. Flint. 1995. Biotin synthase: purification, characterization as a [2Fe-2S] cluster protein, and in vitro activity of the Escherichia coli bioB gene product. Biochemistry 33:3625-3631.
48. Sanyal, I., K. Gibson, and D. Flint. 1996. Escherichia coli biotin synthase: an investigation into the factors required for its activity and its sulfur donor. Arch. Biochem. Biophys. 326:48-56.
49. 13C-labeling studies. J. Am. Chem. Soc. 116:2637-2638.
50. Sloma, A., A. Ally, D. Ally, and J. Pero. 1988. Gene encoding a minor extracellular protease in Bacillus subtilis. J. Bacteriol. 170:5556-5563.
51. Sloma, A., G. A. Rufo, Jr., K. A. Theriault, M. Dwyer, S. W. Wilson, and J. Pero. 1991. Cloning and characterization of the gene for an additional extracellular serine protease of Bacillus subtilis. J. Bacteriol. 173:6889-6895.
52. Speck, D., I. Ohsawa, R. Gloeckler, M. Zinsius, S. Bernard, C. Ledoux, T. Kisou, K. Kamogawa, and Y. Lemoine. 1991. Isolation of Bacillus sphaericus biotin synthesis control mutants: evidence for transcriptional regulation of the 610 genes. Gene 108:39-45.
53. Spizizen, J. 1958. Transformation of biochemically deficient strains of Bacillus subtilis by deoxyribonucleate. Proc. Natl. Acad. Sci. USA 44:1072-1078.
54. Stassi, D., S. Donadio, M. J. Staver, and L. Katz. 1993. Identification of a Sacchampolyspora erythraea gene required for the final hydroxylation step in erythromycin biosynthesis. J. Bacteriol. 175:182-189.
55. Stokes, H. W., and B. G. Hall. 1985. Sequence of the ebgR gene of Escherichia coli: evidence that the EBG and LAC operons are descended from a common ancestor. Mol. Biol. Evol. 2:478-483.
56. Taira, K., J. Hirose, S. Hayashida, and K. Furukawa. 1992. Analysis of bph operon from the polychlorinated biphenyl-degrading strain of Pseudomonas pseudoalcaligenes KF707. J. Biol. Chem. 267:4844-4853.
57. Tinoco, I., Jr., P. N. Borer, B. Dengler, M. D. Levine, O. C. Uhlenbeck, D. M. Crothers, and J. Gralia. 1973. Improved estimation of secondary structure in ribonucleic acids. Nalure (London) New Biol. 246:40-41.
58. Vieira, J., and J. Messing. 1982. The pUC plasmids, an M13mp7-derived system for insertion mutagenesis and sequencing with synthetic universal primers. Gene 19:259-268.
59. Weickert, M. J., and G. H. Chambliss. 1990. Site-directed mutagenesis of a catabolite repression operator sequence in Bacillus subtilis. Proc. Natl. Acad. Sci. USA 87:6238-6242.
60. Wen, L.-P., and A. Fulco. 1987. Cloning of the gene encoding a catalytically self-sufficient cytochrome P-450 fatty acid monooxygenase induced by barbiturates in Bacillus megaterium. J. Biol. Chem. 262:6676-6682.
61. Wierenga, R. K., P. Terpstra, and W. G. J. Hol. 1986. Prediction of the occurrence of the ADP-binding βaαβ-fold in proteins, using an amino acid sequence fingerprint. J. Mol. Biol. 187:101-107.
62. Yanisch-Perron, C., J. Vieira, and J. Messing. 1985. Improved M13 phage cloning vectors and host strains: nucleotide sequences of the M13mp18 and pUC19 vectors. Gene 33:103-119.
63. Youngman, P. J., J. B. Perkins, and R. Losick. 1984. Construction of a cloning site near one end of Tn917 into which foreign DNA may be inserted without affecting transposition in Bacillus subtilis or expression of the transposon-borne erm gene. Plasmid 12:1-9.
64. Zuber, P., and R. Losick. 1987. Role of AbrB in Spo0A- and Spo0B-dependent utilization of a sporulation promoter in Bacillus subtilis. J. Bacteriol. 169:2223-2230.