Substrate-driven gene expression in Roseburia inulinivorans: Importance of inducible enzymes in the utilization of inulin and starch

Proceedings of the National Academy of Sciences of the United States of America

Volumn 108, Issue SUPPL. 1, 2011, Pages 4672-4679

  Scott, Karen P ^a   Martin, Jenny C ^a   Chassard, Christophe ^a   Clerget, Marlene ^a   Potrykus, Joanna ^a   Campbell, Gill ^a   Mayer, Claus Dieter ^a   Young, Pauline ^a   Rucklidge, Garry ^a   Ramsay, Alan G ^a   Flint, Harry J ^a  

^a ROWETT RESEARCH INSTITUTE   (United Kingdom)

Author keywords

Anaerobic gut bacteria; Butyrate; Differential gene expression; Fructo oligosaccharides; Prebiotic

Indexed keywords

ABC TRANSPORTER; FRUCTOSE OLIGOSACCHARIDE; INULIN; PREBIOTIC AGENT; STARCH;

ANAEROBIC BACTERIUM; CARBOHYDRATE METABOLISM; CONFERENCE PAPER; ENZYME SUBSTRATE; FIRMICUTES; GENE EXPRESSION; INTESTINE FLORA; MICROARRAY ANALYSIS; NONHUMAN; PRIORITY JOURNAL; REAL TIME POLYMERASE CHAIN REACTION; ROSEBURIA INULINIVORANS;

BACTERIA (MICROORGANISMS); ESCHERICHIA COLI; FIRMICUTES; ROSEBURIA;

EID: 79952765513     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.1000091107     Document Type: Article

References (43)

1. Gibson GR, Probert HM, Loo JV, Rastall RA, Roberfroid MB (2004) Dietary modulation of the human colonic microbiota: Updating the concept of prebiotics. Nutr Res Rev 17:259-275.
2. Van Loo JA (2004) The specificity of the interaction with intestinal bacterial fermentation by prebiotics determines their physiological efficacy. Nutr Res Rev 17:89-98.
3. Duncan SH, et al. (2003) Effects of alternative dietary substrates on competition between human colonic bacteria in an anaerobic fermentor system. Appl Environ Microbiol 69:1136-1142. (Pubitemid 36204845)
4. Rossi M, et al. (2005) Fermentation of fructooligosaccharides and inulin by bifidobacteria: A comparative study of pure and fecal cultures. Appl Environ Microbiol 71:6150-6158. (Pubitemid 41456913)
5. Falony G, Vlachou A, Verbrugghe K, De Vuyst L (2006) Cross-feeding between Bifidobacterium longum BB536 and acetate-converting, butyrate-producing colon bacteria during growth on oligofructose. Appl Environ Microbiol 72:7835-7841. (Pubitemid 44927691)
6. Flint HJ, Duncan SH, Scott KP, Louis P (2007) Interactions and competition within the microbial community of the human colon: Links between diet and health. Environ Microbiol 9:1101-1111. (Pubitemid 46697267)
7. Kolida S, Meyer D, Gibson GR (2007) A double-blind placebo-controlled study to establish the bifidogenic dose of inulin in healthy humans. Eur J Clin Nutr 61:1189-1195. (Pubitemid 47521550)
8. Belenguer A, et al. (2006) Two routes of metabolic cross-feeding between Bifidobacterium adolescentis and butyrate-producing anaerobes from the human gut. Appl Environ Microbiol 72:3593-3599. (Pubitemid 43728015)
9. Walker AW, Duncan SH, McWilliam Leitch EC, Child MW, Flint HJ (2005) pH and peptide supply can radically alter bacterial populations and short-chain fatty acid ratios within microbial communities from the human colon. Appl Environ Microbiol 71:3692-3700. (Pubitemid 40980536)
10. Kleessen B, Hartmann L, BlautM (2001) Oligofructose and long-chain inulin: Influence on the gut microbial ecology of rats associated with a human faecal flora. Br J Nutr 86:291-300.
11. Barcenilla A, et al. (2000) Phylogenetic relationships of butyrate-producing bacteria from the human gut. Appl Environ Microbiol 66:1654-1661. (Pubitemid 30185646)
12. Ramirez-Farias C, et al. (2009) Effect of inulin on the human gut microbiota: Stimulation of Bifidobacterium adolescentis and Faecalibacterium prausnitzii. Br J Nutr 101:541-550.
13. van de Wiele T, Boon N, Possemiers S, Jacobs H, Verstraete W (2007) Inulin-type fructans of longer degree of polymerization exert more pronounced in vitro prebiotic effects. J Appl Microbiol 102:452-460. (Pubitemid 46115012)
14. Barrangou R, Altermann E, Hutkins R, Cano R, Klaenhammer TR (2003) Functional and comparative genomic analyses of an operon involved in fructooligosaccharide utilization by Lactobacillus acidophilus. Proc Natl Acad Sci USA 100:8957-8962. (Pubitemid 36899205)
15. Yuan XL, et al. (2006) Database mining and transcriptional analysis of genes encoding inulin-modifying enzymes of Aspergillus niger. Microbiology 152:3061-3073.
16. Naumoff DG (2001) β-fructosidase superfamily: Homology with some β-L-arabinases and β-D-xylosidases. Proteins 42:66-76.
17. Ricca E, Calabrò V, Curcio S, Iorio G (2007) The state of the art in the production of fructose from inulin enzymatic hydrolysis. Crit Rev Biotechnol 27:129-145. (Pubitemid 47396422)
18. Warchol M, Perrin S, Grill JP, Schneider F (2002) Characterization of a purified β-fructofuranosidase from Bifidobacterium infantis ATCC 15697. Lett Appl Microbiol 35:462-467. (Pubitemid 41724399)
19. Schell MA, et al. (2002) The genome sequence of Bifidobacterium longum reflects its adaptation to the human gastrointestinal tract. Proc Natl Acad Sci USA 99:14422-14427. (Pubitemid 35257687)
20. Ryan SM, Fitzgerald GF, van Sinderen D (2005) Transcriptional regulation and characterization of a novel β-fructofuranosidase-encoding gene from Bifidobacterium breve UCC2003. Appl Environ Microbiol 71:3475-3482. (Pubitemid 40980510)
21. Janer C, et al. (2004) Hydrolysis of oligofructoses by the recombinant β-fructofuranosidase from Bifidobacterium lactis. Syst Appl Microbiol 27:279-285. (Pubitemid 38724488)
22. Ehrmann MA, Korakli M, Vogel RF (2003) Identification of the gene for β-fructofuranosidase of Bifidobacterium lactis DSM10140(T) and characterization of the enzyme expressed in Escherichia coli. Curr Microbiol 46:391-397. (Pubitemid 36918046)
23. Saulnier DMA, Molenaar D, de Vos WM, Gibson GR, Kolida S (2007) Identification of prebiotic fructooligosaccharide metabolism in Lactobacillus plantarum WCFS1 through microarrays. Appl Environ Microbiol 73:1753-1765. (Pubitemid 46449056)
24. Duncan SH, et al. (2006) Proposal of Roseburia faecis sp. nov., Roseburia hominis sp. nov. and Roseburia inulinivorans sp. nov., based on isolates from human faeces. Int J Syst Evol Microbiol 56:2437-2441. (Pubitemid 44566821)
25. Eckburg PB, et al. (2005) Diversity of the human intestinal microbial flora. Science 308:1635-1638. (Pubitemid 40807514)
26. Ramsay AG, Scott KP, Martin JC, Rincon MT, Flint HJ (2006) Cell-associated α-amylases of butyrate-producing Firmicute bacteria from the human colon. Microbiology 152:3281-3290. (Pubitemid 44734332)
27. Scott KP, Martin JC, Campbell G, Mayer CD, Flint HJ (2006) Whole-genome transcription profiling reveals genes up-regulated by growth on fucose in the human gut bacterium "Roseburia inulinivorans.". J Bacteriol 188:4340-4349.
28. Goda SK, Eissa O, Akhtar M, Minton NP (1997) Molecular analysis of a Clostridium butyricum NCIMB 7423 gene encoding 4-α-glucanotransferase and characterization of the recombinant enzyme produced in Escherichia coli. Microbiology 143:3287-3294. (Pubitemid 27470177)
29. Barrangou R, et al. (2006) Global analysis of carbohydrate utilization by Lactobacillus acidophilus using cDNA microarrays. Proc Natl Acad Sci USA 103:3816-3821. (Pubitemid 43376638)
30. Reid SJ, Rafudeen MS, Leat NG (1999) The genes controlling sucrose utilization in Clostridium beijerinckii NCIMB 8052 constitute an operon. Microbiology 145:1461-1472. (Pubitemid 29294932)
31. Reizer J, et al. (1999) Novel phosphotransferase system genes revealed by genome analysis - the complete complement of PTS proteins encoded within the genome of Bacillus subtilis. Microbiology 145:3419-3429. (Pubitemid 30018786)
32. Tangney M, Mitchell WJ (2000) Analysis of a catabolic operon for sucrose transport and metabolism in Clostridium acetobutylicum ATCC 824. J Mol Microbiol Biotechnol 2:71-80. (Pubitemid 30125163)
33. Falony G, Calmeyn T, Leroy F, De Vuyst L (2009) Coculture fermentations of Bifidobacterium species and Bacteroides thetaiotaomicron reveal a mechanistic insight into the prebiotic effect of inulin-type fructans. Appl Environ Microbiol 75:2312-2319.
34. Aminov RI, et al. (2006) Molecular diversity, cultivation, and improved detection by fluorescent in situ hybridization of a dominant group of human gut bacteria related to Roseburia spp. or Eubacterium rectale. Appl Environ Microbiol 72:6371-6376. (Pubitemid 44414672)
35. Suau A, et al. (2001) Fusobacterium prausnitzii and related species represent a dominant group within the human fecal flora. Syst Appl Microbiol 24:139-145. (Pubitemid 32433703)
36. Turroni F, et al. (2009) Exploring the diversity of the bifidobacterial population in the human intestinal tract. Appl Environ Microbiol 75:1534-1545.
37. Fuller R, Gibson GR (1997) Modification of the intestinal microflora using probiotics and prebiotics. Scand J Gastroenterol Suppl 222:28-31. (Pubitemid 27196256)
38. Gibson GR (2004) Fibre and effects on probiotics (the prebiotic concept). Clin Nutr Suppl 1:25-31.
39. Miyazaki K, Martin JC, Marinsek-Logar R, Flint HJ (1997) Degradation and utilization of xylans by the rumen anaerobe Prevotella bryantii (formerly P. ruminicola subsp. brevis) B(1)4. Anaerobe 3:373-381.
40. Hancock LE, Shepard BD, Gilmore MS (2003) Molecular analysis of the Enterococcus faecalis serotype 2 polysaccharide determinant. J Bacteriol 185:4393-4401. (Pubitemid 36890485)
41. Bradford MM (1976) A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal Biochem 72:248-254.
42. Anderson NL (1991) Two Dimensional Gel Electrophoresis: Operation of the ISO-DALT System, 2nd Ed. (Large Scale Biology Press Rockville, MD).
43. Choe LH, Lee KH (2003) Quantitative and qualitative measure of intralaboratory two-dimensional protein gel reproducibility and the effects of sample preparation, sample load, and image analysis. Electrophoresis 24:3500-3507. (Pubitemid 38089154)