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Biotechnology and Applied Microbiology

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The Prokaryotes

Abstract

This chapter places applied microbiology and biotechnology into a historical perspective and then presents an overview of some of the general principles related to the biotechnology of prokaryotes. Topics discussed include antibiotics, biochemical engineering, applications of genetic engineering, bioremediation, bacterial pharmaceutical products, diagnostic microbiology, food microbiology, and legal protection in biotechnology. Applied microbiology is constantly expanding and new areas are being created. In the near future, the fields of prebiotics and probiotics, enzyme engineering, applied microbial ecology, and biofuels look particularly promising.

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References

  • Aharonowitz Y, Cohen G (1981) The microbiological production of pharmaceuticals. Sci Am 245:106–119

    Article  Google Scholar 

  • Baylinski DA, Wirsen CE, Jannasch HW (1989) Microbial utilization of naturally occurring hydrocarbons at the Guaymas Basin hydrothermal vent site. Appl Environ Microbiol 55:2832–2836

    Google Scholar 

  • Bengmark S (1998) Ecological control of the gastrointestinal tract. Gut 42:2–7

    Article  PubMed  CAS  Google Scholar 

  • Biello D (2010) Meet the microbes eating the gulf oil spill. Sci Am 303:14–17

    Google Scholar 

  • Cani PD, Delzenne NM (2009) The role of the gut microbiota in energy metabolism and metabolic disease. Curr Pharm Des 15:1546–1558

    Article  PubMed  CAS  Google Scholar 

  • Cases I, Lorenzo V (2005) Genetically modified organisms for the environment: stories of success and failure and what we have learned from them. Int Microbiol 8:213–222

    PubMed  CAS  Google Scholar 

  • Cernilia CE (1992) Biodegradation of polycyclic aromatic hydrocarbons. Biodegradation 3:351–368

    Article  Google Scholar 

  • Chakrabarty AM, Gunsalus IC (1971) Degradative pathways specified by extrachromosomal gene clusters. Pseudomonas Genet 68:510

    Google Scholar 

  • Chapin-Robertson K (1993) Use of molecular diagnostics in sexually transmitted diseases: critical assessment. Diagn Microbiol Infect Dis 16:173–184

    Article  PubMed  CAS  Google Scholar 

  • Chen W, Bruhlmann F, Richins RD, Mulchandani A (1999) Engineering of improved microbes and enzymes for bioremediation. Curr Opin Biotechnol 10:137–141

    Article  PubMed  CAS  Google Scholar 

  • Davis BD (1948) Isolation of biochemically deficient mutants of bacteria by penicillin. J Am Chem Soc 70:4267

    Article  PubMed  CAS  Google Scholar 

  • Demain AL, Adrio JL (2008) Strain improvement for production of pharmaceuticals and other microbial metabolites by fermentation. Prog Drug Res 6:253–289

    Google Scholar 

  • Dubos RJ (1950) Louis Pasteur: free lance of science. Little, Brown and Company, Boston

    Google Scholar 

  • Elander RP (1966) Two decades of strain development in antibiotic-producing microorganisms. Dev Ind Microbiol 7:61–73

    Google Scholar 

  • Eron JJ, Gorczyc P, Kaplan JC, D’Aquila RT (1992) Susceptibility testing by polymerase chain reaction DNA quantitation: a method to measure drug resistance of human immunodeficiency virus type 1 isolated. Proc Natl Acad Sci 89:3241–3245

    Article  PubMed  CAS  Google Scholar 

  • Fenical W (1993) Chemical studies of marine bacteria: developing a new resource. Chem Rev 93:1673–1683

    Article  CAS  Google Scholar 

  • Fenical W (1997) New pharmaceuticals from marine organisms. Trends Biotechnol 15:339–341

    Article  PubMed  CAS  Google Scholar 

  • Ferrer-Miralles N, Domingo-Espin J, Corcero JL, Vasquez E, Villaverde A (2009) Microbial factories for recombinant pharmaceuticals. Microb Cell Fact 8:17–25

    Article  PubMed  Google Scholar 

  • Gaden EL (1981) Production methods in industrial microbiology. Sci Am 245:134–145

    Article  Google Scholar 

  • Gerhardt P (ed) (1981) Manual of methods for general bacteriology. ASM, Washington, DC

    Google Scholar 

  • Glazer AN, Nikaido H (1995) Microbial biotechnology: fundamentals of applied microbiology. W. H. Freeman, New York

    Google Scholar 

  • Godfrey T, West S (1996) Industrial enzymology. In: Godfrey T, West S (eds) The application of enzymes in industry, 2nd edn. Stockton, New York

    Google Scholar 

  • Guarino A (1997) Oral bacterial therapy reduces the duration of symptoms and of viral excretion in children with milk diarrhea. J Pediatr Gastroenterol Nutr 25:516–519

    Article  PubMed  CAS  Google Scholar 

  • Guerreiro MA, Andrietta SR, Maugeri F (1997) Expert system for the design of an industrial fermentation plant for the production of alcohol. J Chem Technol Biot 68:163–170

    Article  CAS  Google Scholar 

  • Hagedom S, Kaphammer B (1994) Microbial biocatalysis in the generation of flavor and fragrance chemicals. Annu Rev Microbiol 48:773–800

    Article  Google Scholar 

  • Hale YM, Melton ME, Lewis JS, Willis DE (1993) Evaluation of PACE 2 Neiseria gonorrhoeae assay by three public health laboratories. J Clin Microbiol 31:451–453

    PubMed  CAS  Google Scholar 

  • Hammes BD, Higgins SJ (1995) Gene probes: a practical approach. Oxford University Press, New York, pp 1–288

    Google Scholar 

  • Hapfelmeier S, Lawson MAE, Slack E et al (2010) Reversible microbial colonization of germ-free mice reveals the dynamics of IgA immune responses. Science 328:1705–1709

    Article  PubMed  CAS  Google Scholar 

  • Hill RT, Fenical W (2010) Pharmaceuticals from marine natural products: surge or ebb? Curr Opin Biotechnol 6:777–779

    Article  Google Scholar 

  • Holzapfel HH (1998) Overview of gut flora and probiotics. Int Food Microbiol 41:85–101

    Article  CAS  Google Scholar 

  • Hutchinson CR (1998) Combinational biosynthesis for new drug discovery. Curr Opin Microbiol 1:319–329

    Article  PubMed  CAS  Google Scholar 

  • Hutchinson CR, Fujii I (1995) Polyketide synthase gene manipulation: a structure-function approach in engineering novel antibiotics. Annu Rev Microbiol 49:201–238

    Article  PubMed  CAS  Google Scholar 

  • Ivanov II, Littman DR (2011) Modulation of immune homeostasis by commensal bacteria. Curr Opin Microbiol 14:106–114

    Article  PubMed  CAS  Google Scholar 

  • Jones D, Krieg NR (1984) Seriology and chemotaxonomy. In: Krieg NR, Holt JC (eds) Bergey’s manual of systematic bacteriology. Williams and Wilkins, Baltimore, pp 15–18

    Google Scholar 

  • Keller AP, Beggs ML, Amthor B, Bruns F, Meissner P, Haas WH (2002) Evidence of the presence of IS1245 and IS1311 or closely related insertion elements in nontuberculous mycobacteria outside of the Mycobacterium avium complex. J Clin Microbiol 40:1869–1872

    Article  PubMed  CAS  Google Scholar 

  • Knezevich V, Koren O, Ron EZ, Rosenberg E (2006) Petroleum bioremediation in seawater using guano as the fertilizer. Bioremed J 10:83–91

    Article  CAS  Google Scholar 

  • Koneman EW, Allen SD, Janda WM, Schreckenberger PC, Winn WC Jr (1992) Diagnostic microbiology. 4th ed. Philadelphia: JB Lippincott

    Google Scholar 

  • Koren O, Knezvic V, Ron EZ, Rosenberg E (2003) Petroleum bioremediation using water insoluble uric acid as the nitrogen source. Appl Environ Microbiol 69:6337–6339

    Article  PubMed  CAS  Google Scholar 

  • Kreig NR (1981) Enrichment and isolation. In: Gerhardt P (ed) Manual of methods for general bacteriology. ASM, Washington, DC, pp 112–142

    Google Scholar 

  • Kumar R (1995) Recombinant hemoglobins as blood substitutes: a biotechnology perspective. Proc Soc Exp Biol 208:150–158

    Article  PubMed  CAS  Google Scholar 

  • Kumaravel S, Hema R, Lakshmi R (2010) Production of polyhydroxybutyrate (bioplastic) and its biodegradation by Pseudomonas lemoignei and Aspergillus niger. E-J Chem 7(S1):S536–S542

    Article  CAS  Google Scholar 

  • Lawrence S (2006) Biotech blockbusters consolidate markets. Nat Biotechnol 24:1466

    Article  PubMed  CAS  Google Scholar 

  • Leiberman DG, Fink R, Schaffer F (1986) Biosafety in biotechnology. In: Demain AL, Solomon NA (eds) Industrial microbiology and biotechnology. ASM, Washington, DC, pp 402–409

    Google Scholar 

  • Ley RE, Turnbaugh PJ, Klein S, Gordon JI (2006) Human gut microbes associated with obesity. Nature 444:1022–1023

    Article  PubMed  CAS  Google Scholar 

  • Lloyd A (1998) High-throughput screening. Drug Discov Today 3:566–569

    Article  Google Scholar 

  • Mai V, Ukhanova M, Baer DJ (2010) Understanding the extent and sources of variation in gut microbiota studies; a prerequisite for establishing associations with disease. Diversity 2:1085–1096

    Article  Google Scholar 

  • McDaniel R, Ebert-Khosla S, Hopwood DA, Khosla C (1993) Engineered biosynthesis of novel polyketides. Science 262:1546–1550

    Article  PubMed  CAS  Google Scholar 

  • O’Hara AM, Shanahan F (2006) The gut flora as a forgotten organ. EMBO Rep 7:688–693

    Article  PubMed  Google Scholar 

  • Prescott SC, Dunn CG (1940) Industrial microbiology. McGraw-Hill, New York

    Google Scholar 

  • Price KE, Buck RE, Lein J (1964) System for detecting inducers of lysogenic Escherichia coli W1709 (gamma) and its applicability as a screen for antineoplastic antibiotics. Appl Microbiol 12:428–435

    PubMed  CAS  Google Scholar 

  • Queener SW, Lively DH (1986) Screening and selection for strain improvement. In: Demain AL, Solomon NA (eds) Industrial microbiology and biotechnology. ASM, Washington, DC, pp 155–169

    Google Scholar 

  • Reineke W (1998) Development of hybrid strains for the mineralization of chloroaromatics by patchwork assembly. Annu Rev Microbiol 52:287–332

    Article  PubMed  CAS  Google Scholar 

  • Reisman HB (1993) Problems in scale-up of biotechnology production processes. Crit Rev Biotechnol 13:195–253

    Article  PubMed  CAS  Google Scholar 

  • Relman DA, Schmidt TM, MacDermott RP, Falkow S (1992) Identification of the uncultured bacillus of Whipple’s disease. N Eng J Med 327:293–301

    Article  CAS  Google Scholar 

  • Ron EZ, Rosenberg E (2009) Role of biosurfactants. In: Timmis KN (ed) Handbook of hydrocarbon and lipid microbiology. Springer, Heidelberg

    Google Scholar 

  • Rosenberg E (1991) Hydrocarbon-oxidizing bacteria. In: Balows A, Truper HG, Dworkin M, Harder W, Schleifer K-H (eds) The prokaryotes, 2nd edn. Springer, New York, pp 446–459

    Google Scholar 

  • Rosenberg E, Ron EZ (1996) Bioremediation of petroleum contamination. In: Crawford RL, Crawford DL (eds) Bioremediation: principles and applications. Cambridge University Press, New York, pp 100–124

    Chapter  Google Scholar 

  • Rosenberg E, Legmann R, Kushmaro A, Adler E, Abir H, Ron EZ (1996) Oil bioremediation using insoluble nitrogen source. J Biotechnol 51:273–278

    Article  PubMed  CAS  Google Scholar 

  • Saliwanchik R (1986) Legal protection for biotechnology. In: Demain AL, Solomon NA (eds) Industrial microbiology and biotechnology. ASM, Washington, DC, pp 389–401

    Google Scholar 

  • Schmid I, Sattler I, Grabley S et al (1999) Natural products in high throughput screening: automatic high-quality sample preparation. J Biomol Screen 4:15–25

    Article  PubMed  CAS  Google Scholar 

  • Silverman L, Campbell R, Broach JR (1998) New assay technologies for high-throughput screening. Curr Opin Chem Biol 2:397–403

    Article  PubMed  CAS  Google Scholar 

  • Song HG, Bartha R (1990) Effects of jet fuel spills on the microbial community in soil. Appl Environ Microbiol 56:646–651

    PubMed  CAS  Google Scholar 

  • Stappenbeck TS, Hooper LV, Gordon JI (2002) Developmental regulation of intestinal angiogenesis by Peneth cells. Proc Natl Acad Sci USA 99:15451–15455

    Article  PubMed  CAS  Google Scholar 

  • Steele DB, Stowers MD (1991) Techniques for selection of industrially important microorganisms. Annu Rev Microbiol 45:89–106

    Article  PubMed  CAS  Google Scholar 

  • Tang YW, Stratton CW (2011) Advanced techniques in diagnostic microbiology overview. Springer, New York

    Google Scholar 

  • Timmis KW, Steffan RJ, Unterman R (1994) Designing microorganisms for the treatment of toxic wastes. Annu Rev Microbiol 48:525–557

    Article  PubMed  CAS  Google Scholar 

  • Trilli A (1981) Scale-up of fermentation. In: Demain AL, Solomon NA (eds) Industrial microbiology and biotechnology. ASM, Washington, DC, pp 277–307

    Google Scholar 

  • Turnbaugh PJ, Ley RE, Mahowald MA et al (2006) An obesity-associated gut microbiome with increased capacity for energy harvest. Nature 444:1027–1031

    Article  PubMed  Google Scholar 

  • Veldamp H (1970) Enrichment cultures of prokaryotic organisms. In: Noris JR, Ribbons DW (eds) Methods in microbiology, vol 6. Academic, New York, p 305

    Google Scholar 

  • Wang HY (1981) Bioinstrumentation and computer control of fermentation processes. In: Demain AL, Solomon NA (eds) Industrial microbiology and biotechnology. ASM, Washington, DC, pp 308–320

    Google Scholar 

  • Whelen AC, Persing DH (1996) The role of nucleic acid amplification and detection in the clinical microbiology laboratory. Annu Rev Microbiol 50:349–373

    Article  PubMed  CAS  Google Scholar 

  • Whitcombe D, Newton CR, Little S (1998) DNA-based diagnostics. Curr Opin Biotechnol 9:602–608

    Article  PubMed  CAS  Google Scholar 

  • White RJ, Maiese WM, Greenstein M (1986) In: Demain AL, Solomon NA (eds) Industrial microbiology and biotechnology. ASM Press, Washington, DC, pp 24–31

    Google Scholar 

  • Zhang XHD (2011) Optimal high-throughput screening: practical experimental design and data analysis for genome-scale RNAi research. Cambridge University Press, Cambridge

    Book  Google Scholar 

  • Zhang YX, Perry K, Vinci VA et al (2002) Genome shuffling leads to rapid phenotype improvement in bacteria. Nature 415:644–646

    Article  PubMed  CAS  Google Scholar 

  • Zilber-Rosenberg I, Rosenberg E (2008) Role of microorganisms in the evolution of animals and plants: the hologenome theory of evolution. FEMS Microbiol Rev 32:723–735

    Article  PubMed  CAS  Google Scholar 

  • Zilber-Rosenberg I, Rosenberg E (2011) Prebiotics and probiotics within the framework of the hologenome concept. J Microbial Biochem, doi:10.4172/1948-5948.S1-001

    Google Scholar 

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Correspondence to Eugene Rosenberg .

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Rosenberg, E. (2013). Biotechnology and Applied Microbiology. In: Rosenberg, E., DeLong, E.F., Lory, S., Stackebrandt, E., Thompson, F. (eds) The Prokaryotes. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-642-30194-0_13

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