Introduction to the LAB

Lactic Acid Bacteria: Biodiversity and Taxonomy

Volumn 9781444333831, Issue , 2014, Pages 1-12

  Holzapfel, Wilhelm H ^a,b   Wood, Brian J B ^b  

^a Handong University   (South Korea)

^b NONE   (Germany)

Author keywords

Adaptation; Ecological niches; Firmicutes; Functional genes; Lactobacillales

Indexed keywords

ADAPTATION; ECOLOGICAL NICHE; FIRMICUTES; FUNCTIONAL GENES; LACTOBACILLALES;

LABORATORIES;

EID: 84927799465     PISSN: None     EISSN: None     Source Type: Book    
DOI: 10.1002/9781118655252.ch1     Document Type: Editorial

References (69)

1. Andersson, J.O. & Andersson, S.G.E. (2001) Pseudogenes, junk DNA, and the dynamics of rickettsia genomes. Mol. Biol. Evol. 18: 829-39.
2. Boone, D.R., Liu, Y., Zhao, Z.-J., et al. (1995) Bacillus infernus sp. nov., an Fe(III)- and Mn(IV)-reducing anaerobe from the deep terrestrial subsurface. Int. J. Syst. Bacteriol. 45: 441-8.
3. Brooijmans, R.J., Poolman, B., Schuurman-Wolters, G.K., de Vos,W.M. & Hugenholtz, J. (2007) Generation of a membrane potential by Lactococcus lactis through aerobic electron transport. J Bacteriol. 189: 5203-9.
4. Brooijmans, R., Smit, B., Santos, F., van Riel, J., de Vos, W. & Hugenholtz, J. (2009) Heme and menaquinone induced electron transport in lactic acid bacteria. Microb. Cell Fact. 8: 28; doi:10.1186/1475-2859-8-28.
5. Bryan-Jones, D.G. & Whittenbury, R. (1969) Haematin-dependent oxidative phosphorylation in Streptococcus faecalis. J. Gen. Microbiol. 58: 247-60.
6. Carr, J.G., Cutting, C.V. & Whiting, G.C. (1975) Lactic Acid Bacteria in Beverages and Food. London: Academic Press Inc.
7. Cienkowski, L. (1878) Untersuchung fiber die Gallertbildungen des Zuckerrübensaftes [Russian Summary]. Arbeit Naturforsch. Gesellsch. Univ. Charkoff. p. 12.
8. DeVecchi, E.&Drago, L. (2006) Lactobacillus sporogenes or Bacillus coagulans:misidentification ormislabelling? Int. J. Probiotics & Prebiotics 1: 3-10.
9. Entani, E., Masai, H. & Suzuki, K.I. (1986) Lactobacillus acetotolerans, a new species from fermented vinegar broth. Int. J. Syst. Bacteriol. 36: 544-9.
10. Franz, C.M.A.P. & Holzapfel, W.H. (2011) The importance of understanding the stress physiology of Lactic Acid Bacteria. In: Tsakalidou, E. & Papadimitriou, K. (eds), Stress Responses of Lactic Acid Bacteria, 3: Food Microbiology and Food Safety. Heidelberg and New York: Springer Science+Business Media, Chapter 1. doi:10.1007/978-0-387-92771-8_1.
11. Fujisawa, T., Benno, Y., Yaeshima, T. & Mitsuoka, T. (1992) Taxonomic study of the Lactobacillus acidophilus group, with recognition of Lactobacillus gallinarum sp. nov. and Lactobacillus johnsonii sp. nov. and synonymy of Lactobacillus acidophilus group-A3 (Johnson et al. 1980) with the type strain of Lactobacillus amylovorus (Nakamura 1981). Int. J. Syst. Bacteriol. 42: 487-91.
12. Garrity, G.M. & Holt, J.G. (2001) The road map to the manual. In: Boone, D.R. & Castenholz, R.W. (eds), Bergey's Manual of Systematic Bacteriology. New York: Springer Verlag, pp. 119-66.
13. Hammes, W.P. & Hertel, C. (2009) Genus I. Lactobacillus Beijerinck 1901, 212AL. In: de Vos, P., Jones, D., Rainey, F.A., Schleifer K.-H. & Tully, J. (eds), Bergey's Manual of Systematic Bacteriology, 2nd edn, vol. 3, The Firmicutes. Heidelberg: Springer Verlag, pp. 465-511.
14. Hastings, J.W., Holzapfel, W.H. & Niemand, J.G. (1986) Radiation resistance of lactobacilli isolated from radurized meat relative to growth phase and substrate. Appl. Environ. Microbiol. 52: 898-901.
15. Heilig, H.G.H.J., Zoetendal, E.G., Vaughan, E.E., Marteau, P., Akkermans, A.D.L. & de Vos, W.M. (2002) Molecular diversity of Lactobacillus spp. and other lactic acid bacteria in the human intestine as determined by specific amplification of 16S ribosomal DNA. Appl. Environ. Microbiol. 68: 114-23.
16. Holley, R.A., Guan, T.Y., Peirson, M. & Yost, C.K. (2002) Carnobacterium viridans sp. nov., an alkaliphilic, facultative anaerobe isolated from refrigerated, vacuum-packed bologna sausage. Int. J. Syst. Evol. Microbiol. 52: 1881-5.
17. Holzapfel, W.H., Haberer, P., Geisen, R., Björkroth, J. & Schillinger, U. (2001) Taxonomy and important features of probiotic microorganisms in food nutrition. Am. J. Clin. Nutr. 73: 365S-373S.
18. Johnson, J.L., Phelps, C.F., Cummings, C.S. & London, L. (1980) Taxonomy of the Lactobacillus acidophilus group. Int. J. Syst. Bacteriol. 30: 53-68.
19. Jones, R.J. (2004) Observations on the succession dynamics of lactic acid bacteria populations in chill-stored vacuum packaged beef. Int. J. Food Microbiol. 90: 273-82.
20. Kilpper-Bälz, R., Fischer, G. & Schleifer, K.H. (1982) Nucleic acid hybridization of group N and group D streptococci. Curr.Microbiol. 7: 245-50.
21. Klein, G., Pack, A., Bonaparte, C. et al. (1998) Taxonomy and physiology of probiotic lactic acid bacteria. Int. J. Food Microbiol. 41: 103-25.
22. Kleynmans,U., Heinzl, H.-J.&Hammes,W.P. (1989) Lactobacillus suebicus sp. nov., an obligately heterofermentative Lactobacillus species isolated from fruit mashes. Syst. Appl. Microbiol. 11: 267-71.
23. Kuo, C.-H. & Ochman, H. (2001) The extinction dynamics of bacterial pseudogenes. PLoS Genet. 6: e1001050; doi:10.1371/journal.pgen.1001050.
24. Lebeer, S., Vanderleyden, J. & De Keersmaecker, S.C.J. (2008) Genes and molecules of lactobacilli supporting probiotic action. Microbiol. Mol. Biol. Rev. 72: 728-64.
25. Lerche,M. & Reuter, G. (1962) Das Vorkommen aerob wachsender Gram-positiver Stäbchen Des Genus Lactobacillus Beijerinck im Darminhalt erwachsener Menschen. Zentbl. Bakteriol. Parasitenkd. Infektionskr. Hyg. Abt. 1 185: 446-81.
26. Lister, J. (1878) On the lactic fermentation, and its bearings on pathology. Trans. Pathol. Soc. Lond. 29: 425-67.
27. Ljungh, A. & Wadström, T. (2009) Lactobacillus Molecular Biology - From Genomics to Probiotics. Caister Academic Press.
28. Ludwig,W., Seewaldt, E., Kilpper-Bälz,R. et al. (1985) The phylogenetic position of Streptococcus and Enterococcus. J. Gen. Microbiol. 131: 543-51.
29. Ludwig, W., Euzéby, J. & Whitman, W.B. (2007) Phylogenetic trees of the phylum Actinobacteria. Available online at: http://www.bergeys.org/outlines/volume_5_actinobacteria.pdf
30. Ludwig, W., Schleifer, K.H. & Whitman, W.B. (2009) Revised road map to the phylum Firmicutes. In: De Vos, P., Garrity, G.M., Jones, D. et al. (2009) Bergey's Manual of Systematic Bacteriology, 2nd edn, Vol. 3. Dordrecht, Heidelberg, London, New-York: Springer, pp. 1-13.
31. Makarova, K.S. & Koonin, E.V. (2007) Evolutionary genomics of lactic acid bacteria. J. Bacteriol. 189: 1199-208.
32. Makarova, K., Slesarev, A.,Wolf, Y. et al. (2006) Comparative genomics of the lactic acid bacteria. Proc. Natl. Acad. Sci. USA 103: 15611-16.
33. McCleskey, C.S., Faville, L.W. & Barnett, R.O. (1947) Characteristics of Leuconostoc mesenteroides from cane juice. J. Bact. 54: 697-708.
34. Müller-Thurgau, H. (1908) Bakterienblasen (Bakteriocysten). Centr. Bakt. Parasitenk., II Abt., 20: 353-400, 449-68.
35. Nakamura, L.K. (1981) Lactobacillus amylovorus, a new starch hydrolyzing species from cattle waste-corn fermentations. Int. J. Syst. Bacteriol. 31: 56-63.
36. Nazina, T.N., Tourova, T.P., Poltaraus,A.B. et al. (2001) Taxonomic study of aerobic thermophilic bacilli: descriptions of Geobacillus subterraneus gen. nov., sp. nov. and Geobacillus uzenensis sp. nov. from petroleum reservoirs and transfer of Bacillus stearothermophilus, Bacillus thermocatenulatus, Bacillus thermoleovorans, Bacillus kaustophilus, Bacillus thermoglucosidasius and Bacillus thermodenitrificans to Geobacillus as the new combinations G. stearothermophilus, G. thermocatenulatus, G. thermoleovorans, G. kaustophilus, G. thermoglucosidasius and G. thermodenitrificans. Int. J. System. Evol. Microbiol. 51: 433-46.
37. Niven, C.F. Jr, Catellani A.G.&Allanson, V. (1949)Astudy of the lactic acid bacteria that cause surface discolorations of sausages. J. Bact. 58: 633-41.
38. Orla-Jensen, S. (1919) The lactic acid bacteria. Mém. Acad. Roy. Sci. Denmark Sect. Sci. 8me, ser. 5: 181-96.
39. Orla-Jensen, S. (1942) The lactic acid bacteria. In: Munksgaard, E. (ed.), The Lactic Acid Bacteria, 2nd edn. Copenhagen.
40. Orla-Jensen, S.,Orla-Jensen,A.D.&Winter, 0. (1936) Bacterium bifidum und Thermobacterium intestinale. Zentr. Bakt. Parasitenk., II Abt., 93: 321-43.
41. O'Sullivan, O., O'Callaghan, J., Sangrador-Vegas, A. et al. (2009) BMC Microbiol. 9: 50; doi:10.1186/1471-2180-9-50.
42. Payot, T., Chemaly, Z. & Fick,M. (1999) Lactic acid production by Bacillus coagulans - kinetic studies and optimization of culture medium for batch and continuous fermentations. Enzyme and Microbial Technology 24: 191-9.
43. Pederson, C.S. (1945) The fermentation of glucose by certain gram-positive non-sporeforming anaerobic bacteria. J. Bact. 50: 475-9.
44. Pederson, C.S.&Ward, L.M. (1949) The effect of salt upon the bacteriological and chemical changes in fermenting cucumbers. N.Y. State Agr. Expt. Sta. Tech. Bull. No. 288.
45. Pennisi, E. (2010) Body's hardworking microbes get some overdue respect. Science 330: 1619.
46. Pot, B. & Tsakalidou, E. (2009) Taxonomy and metabolism of Lactobacillus. In: Ljungh, A. & Wadström, T. (eds), Lactobacillus Molecular Biology. Caister Academic Press, pp. 3-58.
47. Reuter, G. (1965a) Das Vorkommen von Laktobazillen in Lebensmitteln und ihr Verhalten im menschlichen Intestinaltrakt. Zbl. Bakt. I Orig. 197: 468-87.
48. Reuter,G. (1965b) Untersuchungen über die Zusammensetzung und die Beeinflußbarkeit der menschlichenMagen undDarmflora unter besonderer Berücksichtigung der Laktobazillen. Ernährungs-forschung 10: 429-35.
49. Reuter, G. (2001) The Lactobacillus and Bifidobacterium microflora of the human intestine: composition and succession. Curr. Issues Intest. Microbiol. 2: 43-53.
50. Satomi,M., Kimura, B.,Mizoi,M., Sato, T. & Fujii, T. (1997) Tetragenococcus muriaticus sp. nov., a new moderately halophilic lactic acid bacterium isolated from fermented squid liver sauce. Int. J. Syst. Bacteriol. 47: 832-6.
51. Schleifer, K.H. & Kilpper-Bälz, R. (1984) Transfer of Streptococcus faecalis and Streptococcus faecium to the genus Enterococcus nom. rev. as Enterococcus faecalis comb. nov. and Enterococcus faecium comb. nov. Int. J. Syst. Bacteriol. 34: 31-4.
52. Schleifer, K.H. & Kilpper-Bälz, R. (1987) Molecular and chemotaxonomic approaches to the classification of streptococci, enterococci and lactococci: a review. Syst. Appl. Microbiol. 10: 1-19.
53. Schleifer, K.H., Kraus, J., Dvorak, C., Kilpper-Bälz, R., Collins, M.D. & Fischer, W. (1985) Transfer of Streptococcus lactis and related streptococci to the genus Lactococcus gen. nov. Syst. Appl. Microbiol. 6: 183-95.
54. Schroeter, J. & Klaenhammer, T.R. (2009) Genomics of lactic acid bacteria - mini review. FEMS Microbiol. Lett. 292: 1-6.
55. Shaw, B.G. & Harding, C.D. (1989) Leuconostoc gelidum sp. nov. and Leuconostoc gelidum sp. nov. from chill-stored meats. Int. J. Syst. Bacteriol. 39: 217-23.
56. Stackebrandt, E. & Goebel, B.M. (1994) Taxonomic note: A place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int. J. Syst. Bacteriol. 44: 846-9.
57. Stiles, M.E. & Holzapfel,W.H. (1997) Lactic acid bacteria of foods and their current taxonomy. Int. J. Food Microbiol. 36: 1-29.
58. Tissier, H. (1899) La reaction chromophile d'Escherich et le Bacterium coli. Compt. rend. soc. biol. 51: 943-5.
59. Tittsler, R.P., Pederson, C.S., Snell, E.E., Hendlin, D. & Niven, C.F. (1952) Symposium on the lactic acid bacteria. Bacteriol. Rev. 16: 227-60.
60. Van de Guchte, M., Penaud, S., Grimaldi, C. et al. (2006) The complete genome sequence of Lactobacillus bulgaricus reveals extensive and ongoing reductive evolution. Proc. Natl. Acad. Sci. USA 103: 9274-9.
61. Vanin, E.F. (1985) Processed pseudogenes: characteristics and evolution. Annu. Rev. Genet. 19: 253-72.
62. Van Tieghem, P.E.L. (1878) Sur la gomme de sucrerie (Leuconostoc mesenteroides). Ann. sci. nat. Botan., Ser. 6, 7: 180-202.
63. Ventura, M., Canchaya, C., Tauch, A., Chandra, G., Fitzgerald, G.F., Chater K. & van Sinderen, D. (2007) Genomics of Actinobacteria: tracing the evolutionary history of an ancient phylum. Microbiol. Mol. Biol Rev. 71: 495-548.
64. Wayne, L.G., Brenner, D.J., Colwell, R.R. et al. (1987) Report of the Ad Hoc Committee on Reconciliation of Approaches to Bacterial Systematics. Int. J. System. Bacteriol. 37: 463-4.
65. Wegmann, U., Connell-Motherway, M., Zomer, A. et al. (2007) Complete genome sequence of the prototype lactic acid bacterium Lactococcus lactis subsp. cremoris MG1363. J. Bacteriol. 189: 3256-70.
66. Whittenbury, R. (1964) Hydrogen peroxide formation and catalase activity in the lactic acid bacteria. J. Gen. Microbiol. 35: 13-26.
67. Wood, B.J.B. & Holzapfel, W.H. (1995) The Genera of Lactic Acid Bacteria. Glasgow: Blackie Academic and Professional.
68. Zoetendal, E.G., Akkermans, A.D.L. & de Vos,W.M. (1998) Temperature gradient gel electrophoresis analysis of 16S rRNA from human fecal samples reveals stable and host specific communities of active bacteria. Appl. Environ. Microbiol. 64: 3854-9.
69. Zoetendal, E.G., von Wright, A., Vilpponen-Salmela, T., Ben-Amor, K., Akkermans, A.D.L. & de Vos, W.M. (2002) Mucosaassociated bacteria in the human gastrointestinal tract are uniformly distributed along the colon and differ from the community recovered from feces. Appl. Environ. Microbiol. 68: 3401-7.