SEARCH

SEARCH BY CITATION

References

  • Altermann, E., Russell, W.M., Azcarate-Peril, M.A., Barrangou, R., Buck, B.L., McAuliffe, O., et al. (2005) Complete genome sequence of the probiotic lactic acid bacterium Lactobacillus acidophilus NCFM. Proc Natl Acad Sci USA 102: 39063912.
  • Van Baarlen, P., Troost, F.J., Van Hemert, S., Van Der Meer, C., De Vos, W.M., De Groot, P.J., et al. (2009) Differential NF-kappaB pathways induction by Lactobacillus plantarum in the duodenum of healthy humans correlating with immune tolerance. Proc Natl Acad Sci USA 106: 23712376.
  • Barrangou, R., Briczinski, E.P., Traeger, L.L., Loquasto, J.R., Richards, M., Horvath, P., et al. (2009) Comparison of the complete genome sequences of Bifidobacterium animalis subsp. lactis DSM 10140 and Bl-04. J Bacteriol 191: 41444151.
  • Brinster, S., Furlan, S., and Serror, P. (2007) C-terminal WxL domain mediates cell wall binding in Enterococcus faecalis and other gram-positive bacteria. J Bacteriol 189: 12441253.
  • Bron, P.A., Grangette, C., Mercenier, A., De Vos, W.M., and Kleerebezem, M. (2004) Identification of Lactobacillus plantarum genes that are induced in the gastrointestinal tract of mice. J Bacteriol 186: 57215729.
  • Callanan, M., Kaleta, P., O'Callaghan, J., O'Sullivan, O., Jordan, K., McAuliffe, O., et al. (2008) Genome sequence of Lactobacillus helveticus, an organism distinguished by selective gene loss and insertion sequence element expansion. J Bacteriol 190: 727735.
  • Claesson, M.J., Li, Y., Leahy, S., Canchaya, C., Van Pijkeren, J.P., Cerdeno-Tarraga, A.M., et al. (2006) Multireplicon genome architecture of Lactobacillus salivarius. Proc Natl Acad Sci USA 103: 67186723.
  • Denou, E., Pridmore, R.D., Berger, B., Panoff, J.M., Arigoni, F., and Brussow, H. (2008) Identification of genes associated with the long-gut-persistence phenotype of the probiotic Lactobacillus johnsonii strain NCC533 using a combination of genomics and transcriptome analysis. J Bacteriol 190: 31613168.
  • Gatesoupe, F.J. (2008) Updating the importance of lactic acid bacteria in fish farming: natural occurrence and probiotic treatments. J Mol Microbiol Biotechnol 14: 107114.
  • Gill, S.R., Pop, M., DeBoy, R.T., Eckburg, P.B., Turnbaugh, P.J., Samuel, B.S., et al. (2006) Metagenomic analysis of the human distal gut microbiome. Science 312: 13551359.
  • Gonzalez, R., Klaassens, E.S., Malinen, E., De Vos, W.M., and Vaughan, E.E. (2008) Differential transcriptional response of Bifidobacterium longum to human milk, formula milk, and galactooligosaccharide. Appl Environ Microbiol 74: 46864694.
  • Gordon, J.I., Ley, R.E., Wilson, R., Mardis, E.J.X., Fraser, C.M., and Relman, D.A. (2006) Extending our view of self: the Human Gut Microbiome Initiative (HGMI) [WWW document]. URL http://www.genome.gov/Pages/Research/Sequencing/SeqProposals/HGMISeq.pdf.
  • Van De Guchte, M., Penaud, S., Grimaldi, C., Barbe, V., Bryson, K., Nicolas, P., et al. (2006) The complete genome sequence of Lactobacillus bulgaricus reveals extensive and ongoing reductive evolution. Proc Natl Acad Sci USA 103: 92749279.
  • Higuchi, W., Muramatsu, M., Dohmae, S., Takano, T., Isobe, H., Yabe, S., et al. (2008) Identification of probiotic lactobacilli used for animal feeds on the basis of 16S ribosomal RNA gene sequence. Microbiol Immunol 52: 559563.
  • Kalliomaki, M., Salminen, S., and Isolauri, E. (2008) Positive interactions with the microbiota: probiotics. Adv Exp Med Biol 635: 5766.
  • Kankainen, M., Paulin, L., Tynkkynen, S., Von Ossowski, I., Reunanen, J., Partanen, P., et al. (2009) Comparative genomic analysis of Lactobacillus rhamnosus GG reveals pili containing a human-mucus binding protein. Proc Natl Acad Sci USA 106: 1719317198.
  • Kim, J.F., Jeong, H., Lee, J.S., Choi, S.H., Ha, M., Hur, C.G., et al. (2008a) Complete genome sequence of Leuconostoc citreum KM20. J Bacteriol 190: 30933094.
  • Kim, J.F., Jeong, H., Yu, D.S., Choi, S.H., Hur, C.G., Park, M.S., et al. (2009) Genome sequence of the probiotic bacterium Bifidobacterium animalis subsp. lactis AD011. J Bacteriol 191: 678679.
  • Kim, J.Y., Choi, Y.O., and Ji, G.E. (2008b) Effect of oral probiotics (Bifidobacterium lactis AD011 and Lactobacillus acidophilus AD031) administration on ovalbumin-induced food allergy mouse model. J Microbiol Biotechnol 18: 13931400.
  • Klaassens, E.S., Boesten, R.J., Haarman, M., Knol, J., Schuren, F.H., Vaughan, E.E., and De Vos, W.M. (2009) Mixed-species genomic microarray analysis of fecal samples reveals differential transcriptional responses of bifidobacteria in breast- and formula-fed infants. Appl Environ Microbiol 75: 26682676.
  • Kleerebezem, M., and Vaughan, E.E. (2009) Probiotic and gut lactobacilli and bifidobacteria: molecular approaches to study diversity and activity. Ann Rev Microbiol 63: 269290.
  • Kleerebezem, M., Boekhorst, J., Van Kranenburg, R., Molenaar, D., Kuipers, O.P., Leer, R., et al. (2003) Complete genome sequence of Lactobacillus plantarum WCFS1. Proc Natl Acad Sci USA 100: 19901995.
  • Krutmann, J. (2009) Pre- and probiotics for human skin. J Dermatol Sci 54: 15.
  • Kurokawa, K., Itoh, T., Kuwahara, T., Oshima, K., Toh, H., Toyoda, A., et al. (2007) Comparative metagenomics revealed commonly enriched gene sets in human gut microbiomes. DNA Res 14: 169181.
  • Leahy, S.C., Higgins, D.G., Fitzgerald, G.F., and Van Sinderen, D. (2005) Getting better with bifidobacteria. J Appl Microbiol 98: 13031315.
  • Lebeer, S., Vanderleyden, J., and De Keersmaecker, S.C. (2008) Genes and molecules of lactobacilli supporting probiotic action. Microbiol Mol Biol Rev 72: 728764.
  • Lee, J.H., Karamychev, V.N., Kozyavkin, S.A., Mills, D., Pavlov, A.R., Pavlova, N.V., et al. (2008) Comparative genomic analysis of the gut bacterium Bifidobacterium longum reveals loci susceptible to deletion during pure culture growth. BMC Genomics 9: 247.
  • Makarova, K., Slesarev, A., Wolf, Y., Sorokin, A., Mirkin, B., Koonin, E., et al. (2006) Comparative genomics of the lactic acid bacteria. Proc Natl Acad Sci USA 103: 1561115616.
  • Marco, M.L., Pavan, S., and Kleerebezem, M. (2006) Towards understanding molecular modes of probiotic action. Curr Opin Biotechnol 17: 204210.
  • Marco, M.L., Peters, T.H., Bongers, R.S., Molenaar, D., Van Hemert, S., Sonnenburg, J.L., et al. (2009) Lifestyle of Lactobacillus plantarum in the mouse caecum. Environ Microbiol 11: 27472757.
  • Mayo, B., Van Sinderen, D., and Ventura, M. (2008) Genome analysis of food grade lactic acid-producing bacteria: from basics to applications. Curr Genomics 9: 169183.
  • Metchnikoff, E. (1907) Essais Optimistes. The Prolongation of Life Optimistic Studies. London, UK: Heinemann.
  • Morita, H., Toh, H., Fukuda, S., Horikawa, H., Oshima, K., Suzuki, T., et al. (2008) Comparative genome analysis of Lactobacillus reuteri and Lactobacillus fermentum reveal a genomic island for reuterin and cobalamin production. DNA Res 15: 151161.
  • Morita, H., Toh, H., Oshima, K., Murakami, M., Taylor, T.D., Igimi, S., and Hattori, M. (2009) Complete genome sequence of probiotic Lactobacillus rhamnosus ATCC 53103. J Bacteriol [Epub ahead of print.
  • O'Sullivan, D.J. (2008) Genomics can advance the potential for probiotic cultures to improve liver and overall health. Curr Pharm Des 14: 13761381.
  • Ouwehand, A.C., Salminen, S., and Isolauri, E. (2002) Probiotics: an overview of beneficial effects. Antonie Van Leeuwenhoek 82: 279289.
  • Pridmore, R.D., Berger, B., Desiere, F., Vilanova, D., Barretto, C., Pittet, A.C., et al. (2004) The genome sequence of the probiotic intestinal bacterium Lactobacillus johnsonii NCC 533. Proc Natl Acad Sci USA 101: 25122517.
  • Reid, G. (2008) Probiotic lactobacilli for urogenital health in women. J Clin Gastroenterol 42 (Suppl. 3 Part 2): S234S236.
  • Schell, M.A., Karmirantzou, M., Snel, B., Vilanova, D., Berger, B., Pessi, G., et al. (2002) The genome sequence of Bifidobacterium longum reflects its adaptation to the human gastrointestinal tract. Proc Natl Acad Sci USA 99: 1442214427.
  • Sela, D.A., Chapman, J., Adeuya, A., Kim, J.H., Chen, F., Whitehead, T.R., et al. (2008) The genome sequence of Bifidobacterium longum subsp. infantis reveals adaptations for milk utilization within the infant microbiome. Proc Natl Acad Sci USA 105: 1896418969.
  • Siezen, R., Boekhorst, J., Muscariello, L., Molenaar, D., Renckens, B., and Kleerebezem, M. (2006) Lactobacillus plantarum gene clusters encoding putative cell-surface protein complexes for carbohydrate utilization are conserved in specific gram-positive bacteria. BMC Genomics 7: 126.
  • Tissier, H. (1900) Recherchers sur la flora intestinale normale et pathologique du nourisson. Paris, France: University of Paris.
  • Troost, F.J., Van Baarlen, P., Lindsey, P., Kodde, A., De Vos, W.M., Kleerebezem, M., and Brummer, R.J. (2008) Identification of the transcriptional response of human intestinal mucosa to Lactobacillus plantarum WCFS1 in vivo. BMC Genomics 9: 374.
  • UBIC-Consulting (2008) The World Probiotic Ingredient Market 2005–2007 [WWW document]. URL http://www.ubic-consulting.com/template/fs/documents/Nutraceuticals/Probiotic-synbiotic-Ingredient-Market.pdf.
  • Ventura, M., O'Connell-Motherway, M., Leahy, S., Moreno-Munoz, J.A., Fitzgerald, G.F., and Van Sinderen, D. (2007) From bacterial genome to functionality; case bifidobacteria. Int J Food Microbiol 120: 212.
  • Ventura, M., O'Flaherty, S., Claesson, M.J., Turroni, F., Klaenhammer, T.R., Van Sinderen, D., and O'Toole, P.W. (2009) Genome-scale analyses of health-promoting bacteria: probiogenomics. Nat Rev Microbiol 7: 6171.
  • Wegmann, U., Overweg, K., Horn, N., Goesmann, A., Narbad, A., Gasson, M.J., and Shearman, C. (2009) The complete genome sequence of Lactobacillus johnsonii FI9785, a competitive exclusion agent against pathogens in poultry. J Bacteriol 191: 71427143.
  • Whitehead, K., Versalovic, J., Roos, S., and Britton, R.A. (2008) Genomic and genetic characterization of the bile stress response of probiotic Lactobacillus reuteri ATCC 55730. Appl Environ Microbiol 74: 18121819.
  • Wynn, S.G. (2009) Probiotics in veterinary practice. J Am Vet Med Assoc 234: 606613.
  • Zhang, Z.Y., Liu, C., Zhu, Y.Z., Zhong, Y., Zhu, Y.Q., Zheng, H.J., et al. (2009) Complete genome sequence of Lactobacillus plantarum JDM1. J Bacteriol 191: 50205021.