Skip to main content
Log in

Accumulation of gene-targeted Bacillus subtilis mutations that enhance fermentative inosine production

  • Applied Genetics and Molecular Biotechnology
  • Published:
Applied Microbiology and Biotechnology Aims and scope Submit manuscript

Abstract

In order to test a possible approach to enhance fermentative inosine production by Bacillus subtilis, seven gene-targeted mutations were introduced in the laboratory standard strain168 in a stepwise fashion. The mutations were employed in order to prevent inosine 5′-monophosphate (IMP) from being consumed for AMP and GMP synthesis, to minimize inosine degradation, and to expand the intracellular IMP pool. First, the genes for adenylosuccinate synthase (purA) and IMP dehydrogenase (guaB) were inactivated. Second, two genes for purine nucleoside phosphorylase, punA and deoD, were inactivated. Third, to enhance purine nucleotide biosynthesis, the pur operon repressor PurR and the 5′-UTR of the operon, containing the guanine riboswitch, were disrupted. Finally, the -10 sequence of the pur promoter was optimized to elevate its transcription level. The resulting mutant was capable of producing 6 g/L inosine from 30 g/L glucose in culture broth without the detectable by-production of hypoxanthine. This indicates the validity of this approach for the breeding of the next generation of B. subtilis strains for industrial nucleoside production.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Subscribe and save

Springer+ Basic
$34.99 /Month
  • Get 10 units per month
  • Download Article/Chapter or eBook
  • 1 Unit = 1 Article or 1 Chapter
  • Cancel anytime
Subscribe now

Buy Now

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Fig. 1
Fig. 2
Fig. 3

Similar content being viewed by others

References

  • Albertini AM, Galizzi A (1999) The sequence of the trp operon of Bacillus subtilis 168 (trpC2) revisited. Microbiology 145:3319–3320

    CAS  Google Scholar 

  • Andersen RB, Neuhard J (2001) Deoxynucleoside kinases encoded by the yaaG and yaaF genes of Bacillus subtilis. Substrate specificity and kinetic analysis of deoxyguanosine kinase with UTP as the preferred phosphate donor. J Biol Chem 276:5518–5524

    Article  CAS  Google Scholar 

  • Arnvig K, Hove-Jensen B, Switzer RL (1990) Purification and properties of phosphoribosyl-diphosphate synthetase from Bacillus subtilis. Eur J Biochem 192:195–200

    Article  CAS  Google Scholar 

  • Bower SG, Harlow KW, Switzer RL, Hove-Jensen B (1989) Characterization of the Escherichia coli prsA1-encoded mutant phosphoribosylpyrophosphate synthetase identifies a divalent cation-nucleotide binding site. J Biol Chem 264:10287–10291

    CAS  Google Scholar 

  • Chang ZY, Nygaard P, Chinault AC, Kellems RE (1991) Deduced amino acid sequence of Escherichia coli adenosine deaminase reveals evolutionarily conserved amino acid residues: implications for catalytic function. Biochemistry 30:2273–2280

    Article  CAS  Google Scholar 

  • Chen S, Chu J, Zhuang Y, Zhang S (2005) Enhancement of inosine production by Bacillus subtilis through suppression of carbon overflow by sodium citrate. Biotechnol Lett 27:689–692

    Article  CAS  Google Scholar 

  • Cornell KA, Riscoe MK (1998) Cloning and expression of Escherichia coli 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase: identification of the pfs gene product. Biochim Biophys Acta 1396:8–14

    CAS  Google Scholar 

  • Dandanell G, Szczepanowski RH, Kierdaszuk B, Shugar D, Bochtler M (2005) Escherichia coli purine nucleoside phosphorylase II, the product of the xapA gene. J Mol Biol 348:113–125

    Article  CAS  Google Scholar 

  • Datsenko KA, Wanner BL (2000) One-step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products. Proc Natl Acad Sci USA 97:6640–6645

    Article  CAS  Google Scholar 

  • Demain AL, Hendlin D (1967) Phosphohydrolases of a Bacillus subtilis mutant accumulating inosine and hypoxanthine. J Bacteriol 94:66–74

    CAS  Google Scholar 

  • Doroshenko V, Airich L, Vitushkina M, Kolokolova A, Livshits V, Mashko S (2007) YddG from Escherichia coli promotes export of aromatic amino acids. FEMS Microbiol Lett 275:312–318

    Article  CAS  Google Scholar 

  • Dubnau D, Davidoff-Abelson R (1971) Fate of transforming DNA following uptake by competent Bacillus subtilis. I. Formation and properties of the donor-recipient complex. J Mol Biol 56:209–221

    Article  CAS  Google Scholar 

  • Ebbole DJ, Zalkin H (1987) Cloning and characterization of a 12-gene cluster from Bacillus subtilis encoding nine enzymes for de novo purine nucleotide synthesis. J Biol Chem 262:8274–8287

    CAS  Google Scholar 

  • Ebbole DJ, Zalkin H (1988) Detection of pur operon-attenuated mRNA and accumulated degradation intermediates in Bacillus subtilis. J Biol Chem 263:10894–10902

    CAS  Google Scholar 

  • Endo T, Uratani B, Freese E (1983) Purine salvage pathways of Bacillus subtilis and effect of guanine on growth of GMP reductase mutants. J Bacteriol 155:169–179

    CAS  Google Scholar 

  • Fouet A, Sonenshein AL (1990) A target for carbon source-dependent negative regulation of the citB promoter of Bacillus subtilis. J Bacteriol 172:835–844

    CAS  Google Scholar 

  • Franklin TJ, Cook JM (1969) The inhibition of nucleic acid synthesis by mycophenolic acid. Biochem J 113:515–524

    CAS  Google Scholar 

  • Hershfield MS, Chaffee S, Koro-Johnson L, Mary A, Smith AA, Short SA (1991) Use of site-directed mutagenesis to enhance the epitope-shielding effect of covalent modification of proteins with polyethylene glycol. Proc Natl Acad Sci USA 88:7185–7189

    Article  CAS  Google Scholar 

  • Higuchi R (1990) Recombinant PCR. In: Innis MA, Gelfand DH, Sninsky JJ, White TJ (eds) PCR protocols: a guide to methods and applications. Academic Press, San Diego, pp 177–183

    Google Scholar 

  • Hilden I, Krath BN, Hove-Jensen B (1995) Tricistronic operon expression of the genes gcaD (tms), which encodes N-acetylglucosamine 1-phosphate uridyltransferase, prs, which encodes phosphoribosyl diphosphate synthetase, and ctc in vegetative cells of Bacillus subtilis. J Bacteriol 177:7280–7284

    CAS  Google Scholar 

  • Ishii K, Shiio I (1972) Improved inosine production and derepression of purine nucleotide biosynthetic enzymes in 8-azaguanine resistant mutants of Bacillus subtilis. Agric Biol Chem 36:1511–1522

    CAS  Google Scholar 

  • Jensen KF, Nygaard P (1975) Purine nucleoside phosphorylase from Escherichia coli and Salmonella typhimurium. Purification and some properties. Eur J Biochem 51:253–265

    Article  CAS  Google Scholar 

  • Johansen LE, Nygaard P, Lassen C, Agerso Y, Saxild HH (2003) Definition of a second Bacillus subtilis pur regulon comprising the pur and xpt-pbuX operons plus pbuG, nupG (yxiA), and pbuE (ydhL). J Bacteriol 185:5200–5209

    Article  CAS  Google Scholar 

  • Kotani Y, Yamaguchi K, Kato F, Furuya A (1978) Inosine accumulation by mutants of Brevibacterium ammoniagenes: strain improvement and culture conditions. Agric Biol Chem 42:399–405

    CAS  Google Scholar 

  • Mandal M, Boese B, Barrick JE, Winkler WC, Breaker RR (2003) Riboswitches control fundamental biochemical pathways in Bacillus subtilis and other bacteria. Cell 113:577–586

    Article  CAS  Google Scholar 

  • Matsui H, Sato K, Enei H, Hirose Y (1977) Mutation of an inosine-producing strain of Bacillus subtilis to DL-methionine sulfoxide resistant for guanosine production. Appl Environ Microbiol 34:337–341

    CAS  Google Scholar 

  • Matsui H, Sato K, Enei H, Takinami K (1982) 5′-Nucleotidase activity in improved inosine-producing mutants of Bacillus subtilis. Agric Biol Chem 46:2347–2352

    CAS  Google Scholar 

  • Matsui H, Kawasaki H, Shimaoka M, Kurahashi O (2001a) Investigation of various genotype characteristics for inosine accumulation in Escherichia coli W3110. Biosci Biotechnol Biochem 65:570–578

    Article  CAS  Google Scholar 

  • Matsui H, Shimaoka M, Kawasaki H, Takenaka Y, Kurahashi O (2001b) Adenine deaminase activity of the yicP gene product of Escherichia coli. Biosci Biotechnol Biochem 65:1112–1118

    Article  CAS  Google Scholar 

  • Matsuno K, Mori Y, Asahara T (2008) Purine-derived substance-producing bacterium and a method for producing purine-derived substance. US Patent 7326546

  • Meng LM, Nygaard P (1990) Identification of hypoxanthine and guanine as the co-repressors for the purine regulon genes of Escherichia. Mol Microbiol 4:2187–2192

    Article  CAS  Google Scholar 

  • Messenger LJ, Zalkin H (1979) Glutamine phosphoribosylpyrophosphate amidotransferase from Escherichia coli. Purification and properties. J Biol Chem 254:3382–3392

    CAS  Google Scholar 

  • Meyer E, Switzer RL (1979) Regulation of Bacillus subtilis glutamine phosphoribosylpyrophosphate amidotransferase activity by end products. J Biol Chem 254:5397–5402

    CAS  Google Scholar 

  • Mihara Y, Utagawa T, Yamada H, Asano Y (2000) Phosphorylation of nucleosides by the mutated acid phosphatase from Morganella morganii. Appl Environ Microbiol 66:2811–2816

    Article  CAS  Google Scholar 

  • Mori H, Iida A, Fujio T, Teshiba S (1997) A novel process of inosine 5′-monophosphate production using overexpressed guanosine/inosine kinase. Appl Microbiol Biotechnol 48:693–698

    Article  CAS  Google Scholar 

  • Mueller JP, Bukusoglu G, Sonenshein AL (1992) Transcriptional regulation of Bacillus subtilis glucose starvation-inducible genes: control of gsiA by the ComP-ComA signal transduction system. J Bacteriol 174:4361–4373

    CAS  Google Scholar 

  • Nygaard P, Saxild HH (2005) The purine efflux pump PbuE in Bacillus subtilis modulates expression of the PurR and G-box (XptR) regulons by adjusting the purine base pool size. J Bacteriol 187:791–794

    Article  CAS  Google Scholar 

  • Rolfes RJ, Zalkin H (1990) Purification of the Escherichia coli purine regulon repressor and identification of corepressors. J Bacteriol 172:5637–5642

    CAS  Google Scholar 

  • Sambrook J, Fritsch EF, Maniatis T (1989) Molecular cloning: a laboratory manual, 2nd edn. Cold Spring Harbor Laboratory, Cold Spring Harbor

    Google Scholar 

  • Saxild HH, Nygaard P (1987) Genetic and physiological characterization of Bacillus subtilis mutants resistant to purine analogs. J Bacteriol 169:2977–2983

    CAS  Google Scholar 

  • Saxild HH, Nygaard P (2000) The yexA gene product is required for phosphoribosylformylglycinamidine synthetase activity in Bacillus subtilis. Microbiology 146:807–814

    CAS  Google Scholar 

  • Schuch R, Garibian A, Saxild HH, Piggot PJ, Nygaard P (1999) Nucleosides as a carbon source in Bacillus subtilis: characterization of the drm-pupG operon. Microbiology 145:2957–2966

    CAS  Google Scholar 

  • Sekowska A, Danchin A (1999) Identification of yrrU as the methylthioadenosine nucleosidase gene in Bacillus subtilis. DNA Res 6:255–264

    Article  CAS  Google Scholar 

  • Shimaoka M, Kawasaki H, Takenaka Y, Kurahashi O, Matsui H (2005) Effects of edd and pgi disruptions on inosine accumulation in Escherichia coli. Biosci Biotechnol Biochem 69:1248–1255

    Article  CAS  Google Scholar 

  • Shimaoka M, Takenaka Y, Mihara Y, Kurahashi O, Kawasaki H, Matsui H (2006) Effects of xapA and guaA disruption on inosine accumulation in Escherichia coli. Biosci Biotechnol Biochem 70:3069–3072

    Article  CAS  Google Scholar 

  • Shimaoka M, Takenaka Y, Kurahashi O, Kawasaki H, Matsui H (2007) Effect of amplification of desensitized purF and prs on inosine accumulation in Escherichia coli. J Biosci Bioeng 103:255–261

    Article  CAS  Google Scholar 

  • Sonenshein AL, Roscoe DH (1969) The course of phage phi-e infection in sporulating cells of Bacillus subtilis strain 3610. Virology 2:265–275

    Article  Google Scholar 

  • Teshiba S, Furuya A (1982) Mechanisms of 5′-inosinic acid accumulation by permeability mutants of Brevibacterium ammoniagenes. I. Genetical improvement of 5′-IMP productivity of a permeability mutant of B. ammoniagenes. Agric Biol Chem 46:2257–2263

    CAS  Google Scholar 

  • Tominaga M, Shimazaki K, Matsuno K, Yamashita M (2004) Inosine producing bacterium belonging to the genus Bacillus and method for producing inosine. US Patent Application 20040166575

  • Vagner V, Dervyn E, Ehrlich SD (1998) A vector for systematic gene inactivation in Bacillus subtilis. Microbiology 144:3097–3104

    Article  CAS  Google Scholar 

  • Weng M, Nagy PL, Zalkin H (1995) Identification of the Bacillus subtilis pur operon repressor. Proc Natl Acad Sci USA 92:7455–7459

    Article  CAS  Google Scholar 

  • Yanisch-Perron C, Vieira J, Messing J (1985) Improved M13 phage cloning vectors and host strains: nucleotide sequences of the M13mp18 and pUC19 vectors. Gene 33:103–119

    Article  CAS  Google Scholar 

  • Yoshikawa M, Kato T, Takenishi T (1969) Studies of phosphorylation. III. Selective phosphorylation of unprotected nucleosides. Bull Chem Soc Jpn 42:3505–3508

    Article  CAS  Google Scholar 

  • Zakataeva NP, Gronskiy SV, Sheremet AS, Kutukova EA, Novikova AE, Livshits VA (2007) A new function for the Bacillus PbuE purine base efflux pump: efflux of purine nucleosides. Res Microbiol 158:659–665

    Article  CAS  Google Scholar 

  • Zhou G, Smith JL, Zalkin H (1994) Binding of purine nucleotides to two regulatory sites results in synergistic feedback inhibition of glutamine 5-phosphoribosylpyrophosphate amidotransferase. J Biol Chem 269:6784–6789

    CAS  Google Scholar 

Download references

Acknowledgements

We are grateful to S. Kondo for technical assistance, including construction of plasmids and strains, and A. L. Sonenshein for careful reading of the manuscript and valuable comments.

Author information

Authors and Affiliations

Authors

Corresponding authors

Correspondence to Takayuki Asahara or Kiyoshi Matsuno.

Rights and permissions

Reprints and permissions

About this article

Cite this article

Asahara, T., Mori, Y., Zakataeva, N.P. et al. Accumulation of gene-targeted Bacillus subtilis mutations that enhance fermentative inosine production. Appl Microbiol Biotechnol 87, 2195–2207 (2010). https://doi.org/10.1007/s00253-010-2646-8

Download citation

  • Received:

  • Revised:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s00253-010-2646-8

Keywords

Navigation