메뉴 건너뛰기




Volumn 9, Issue 9, 2015, Pages 1908-1915

Monitoring host responses to the gut microbiota

Author keywords

[No Author keywords available]

Indexed keywords

BIOASSAY; BIOENGINEERING; COMMUNITY COMPOSITION; DEFENSE MECHANISM; GASTROENTERITIS; MICROBIAL COMMUNITY; PROTEIN; PROTEOMICS; SECRETION;

EID: 84939564256     PISSN: 17517362     EISSN: 17517370     Source Type: Journal    
DOI: 10.1038/ismej.2015.93     Document Type: Article
Times cited : (35)

References (54)
  • 1
    • 67650564834 scopus 로고    scopus 로고
    • Multi-site assessment of the precision and reproducibility of multiple reaction monitoring-based measurements of proteins in plasma
    • Addona Ta, Abbatiello SE, Schilling B, Skates SJ, Mani DR, Bunk DM et al. (2009). Multi-site assessment of the precision and reproducibility of multiple reaction monitoring-based measurements of proteins in plasma. Nat Biotechnol 27: 633-641.
    • (2009) Nat Biotechnol , vol.27 , pp. 633-641
    • Addona, T.1    Abbatiello, S.E.2    Schilling, B.3    Skates, S.J.4    Mani, D.R.5    Bunk, D.M.6
  • 2
    • 84865369416 scopus 로고    scopus 로고
    • Temporal and spatial interplay of microbiota and intestinal mucosa drive establishment of immune homeostasis in conventionalized mice
    • El Aidy S, van Baarlen P, Derrien M, Lindenbergh-Kortleve DJ, Hooiveld G, Levenez F et al. (2012). Temporal and spatial interplay of microbiota and intestinal mucosa drive establishment of immune homeostasis in conventionalized mice. Mucosal Immunol 5: 567-579.
    • (2012) Mucosal Immunol , vol.5 , pp. 567-579
    • El Aidy, S.1    Van Baarlen, P.2    Derrien, M.3    Lindenbergh-Kortleve, D.J.4    Hooiveld, G.5    Levenez, F.6
  • 3
    • 79959216454 scopus 로고    scopus 로고
    • Genomewide transcriptomic analysis of intestinal tissue to assess the impact of nutrition and a secondary nematode challenge in lactating rats
    • Athanasiadou S, Jones La, Burgess STG, Kyriazakis I, Pemberton AD, Houdijk JGM et al. (2011). Genomewide transcriptomic analysis of intestinal tissue to assess the impact of nutrition and a secondary nematode challenge in lactating rats. PLoS One 6: e20771.
    • (2011) PLoS One , vol.6 , pp. E20771
    • Athanasiadou, S.1    Jones, L.2    Burgess, S.T.G.3    Kyriazakis, I.4    Pemberton, A.D.5    Houdijk, J.G.M.6
  • 4
    • 84875521318 scopus 로고    scopus 로고
    • Byonic: Advanced peptide and protein identification software
    • Unit13.20
    • Bern M, Kil YJ, Becker C. (2012). Byonic: advanced peptide and protein identification software. Curr Protoc Bioinformatics Chapter 13: Unit13.20. doi:10.1002/04 71250953.bi1320s40.
    • (2012) Curr Protoc Bioinformatics Chapter , vol.13
    • Bern, M.1    Kil, Y.J.2    Becker, C.3
  • 5
    • 33748039462 scopus 로고    scopus 로고
    • Symbiotic bacteria direct expression of an intestinal bactericidal lectin
    • Cash H, Whitham C, Behrendt C (2006). Symbiotic bacteria direct expression of an intestinal bactericidal lectin. Science 313: 1126-1130.
    • (2006) Science , vol.313 , pp. 1126-1130
    • Cash, H.1    Whitham, C.2    Behrendt, C.3
  • 6
    • 84862276328 scopus 로고    scopus 로고
    • Structure, function and diversity of the healthy human microbiome
    • Human Microbiome Project Consorium
    • Human Microbiome Project Consorium (2012). Structure, function and diversity of the healthy human microbiome. Nature 486: 207-214.
    • (2012) Nature , vol.486 , pp. 207-214
  • 7
  • 8
    • 84870322666 scopus 로고    scopus 로고
    • Integrated metagenomics/metaproteomics reveals human hostmicrobiota signatures of Crohn's disease
    • Erickson AR, Cantarel BL, Lamendella R, Darzi Y, Mongodin EF, Pan C et al. (2012). Integrated metagenomics/metaproteomics reveals human hostmicrobiota signatures of Crohn's disease. PLoS One 7: e49138.
    • (2012) PLoS One , vol.7 , pp. E49138
    • Erickson, A.R.1    Cantarel, B.L.2    Lamendella, R.3    Darzi, Y.4    Mongodin, E.F.5    Pan, C.6
  • 9
    • 80052481927 scopus 로고    scopus 로고
    • Metabolomics of fecal extracts detects altered metabolic activity of gut microbiota in ulcerative colitis and irritable bowel syndrome
    • Le Gall G, Noor SO, Ridgway K, Scovell L, Jamieson C, Johnson IT et al. (2011). Metabolomics of fecal extracts detects altered metabolic activity of gut microbiota in ulcerative colitis and irritable bowel syndrome. J Proteome Res 10: 4208-4218.
    • (2011) J Proteome Res , vol.10 , pp. 4208-4218
    • Le Gall, G.1    Noor, S.O.2    Ridgway, K.3    Scovell, L.4    Jamieson, C.5    Johnson, I.T.6
  • 10
    • 84861860481 scopus 로고    scopus 로고
    • Targeted data extraction of the MS/MS spectra generated by data-independent acquisition: A new concept for consistent and accurate proteome analysis
    • Gillet LC, Navarro P, Tate S, Röst H, Selevsek N, Reiter L et al. (2012). Targeted data extraction of the MS/MS spectra generated by data-independent acquisition: a new concept for consistent and accurate proteome analysis. Mol Cell Proteomics 11: 016717.
    • (2012) Mol Cell Proteomics , vol.11 , pp. 016717
    • Gillet, L.C.1    Navarro, P.2    Tate, S.3    Röst, H.4    Selevsek, N.5    Reiter, L.6
  • 11
    • 0033016717 scopus 로고    scopus 로고
    • Correlation between protein and mRNA abundance in yeast correlation between protein and mRNA abundance in yeast
    • Gygi SP, Rochon Y, Franza BR, Aebersold R. (1999). Correlation between protein and mRNA abundance in yeast correlation between protein and mRNA abundance in yeast. Mol Cell Biol 19: 1720-1730.
    • (1999) Mol Cell Biol , vol.19 , pp. 1720-1730
    • Gygi, S.P.1    Rochon, Y.2    Franza, B.R.3    Aebersold, R.4
  • 12
    • 84862743498 scopus 로고    scopus 로고
    • Overlap of endocrine hormone expression in the mouse intestine revealed by transcriptional profiling and flow cytometry
    • Habib AM, Richards P, Cairns LS, Rogers GJ, Bannon CAM, Parker HE et al. (2012). Overlap of endocrine hormone expression in the mouse intestine revealed by transcriptional profiling and flow cytometry. Endocrinology 153: 3054-3065.
    • (2012) Endocrinology , vol.153 , pp. 3054-3065
    • Habib, A.M.1    Richards, P.2    Cairns, L.S.3    Rogers, G.J.4    Bannon, C.A.M.5    Parker, H.E.6
  • 14
    • 84894118144 scopus 로고    scopus 로고
    • Microbiota modulate behavioral and physiological abnormalities associated with neurodevelopmental disorders
    • Hsiao EY, McBride SW, Hsien S, Sharon G, Hyde ER, McCue T et al. (2013). Microbiota modulate behavioral and physiological abnormalities associated with neurodevelopmental disorders. Cell 155: 1451-1463.
    • (2013) Cell , vol.155 , pp. 1451-1463
    • Hsiao, E.Y.1    McBride, S.W.2    Hsien, S.3    Sharon, G.4    Hyde, E.R.5    McCue, T.6
  • 15
    • 0348014635 scopus 로고    scopus 로고
    • Stableisotope dimethyl labeling for quantitative proteomics
    • Hsu JL, Huang SY, Chow NH, Chen SH. (2003). Stableisotope dimethyl labeling for quantitative proteomics. Anal Chem 75: 6843-6852.
    • (2003) Anal Chem , vol.75 , pp. 6843-6852
    • Hsu, J.L.1    Huang, S.Y.2    Chow, N.H.3    Chen, S.H.4
  • 17
    • 0035805255 scopus 로고    scopus 로고
    • Integrated genomic and proteomic analyses of a systematically perturbed metabolic network
    • Ideker T, Thorsson V, Ranish Ja, Christmas R, Buhler J, Eng JK et al. (2001). Integrated genomic and proteomic analyses of a systematically perturbed metabolic network. Science 292: 929-934.
    • (2001) Science , vol.292 , pp. 929-934
    • Ideker, T.1    Thorsson, V.2    Ranish, J.3    Christmas, R.4    Buhler, J.5    Eng, J.K.6
  • 18
    • 70350343544 scopus 로고    scopus 로고
    • Induction of intestinal Th17 cells by segmented filamentous bacteria
    • Ivanov II, Atarashi K, Manel N, Brodie EL, Shima T, Karaoz U et al. (2009). Induction of intestinal Th17 cells by segmented filamentous bacteria. Cell 139: 485-498.
    • (2009) Cell , vol.139 , pp. 485-498
    • Ivanov, I.I.1    Atarashi, K.2    Manel, N.3    Brodie, E.L.4    Shima, T.5    Karaoz, U.6
  • 19
    • 84895072645 scopus 로고    scopus 로고
    • Demonstrating the feasibility of large-scale development of standardized assays to quantify human proteins
    • Kennedy J, Abbatiello S, Kim K. (2014). Demonstrating the feasibility of large-scale development of standardized assays to quantify human proteins. Nat Methods 11: 149-155.
    • (2014) Nat Methods , vol.11 , pp. 149-155
    • Kennedy, J.1    Abbatiello, S.2    Kim, K.3
  • 20
    • 77958170401 scopus 로고    scopus 로고
    • Intestinal goblet cells and mucins in health and disease: Recent insights and progress
    • Kim YS, Ho SB. (2010). Intestinal goblet cells and mucins in health and disease: recent insights and progress. Curr Gastroenterol Rep 12: 319-330.
    • (2010) Curr Gastroenterol Rep , vol.12 , pp. 319-330
    • Kim, Y.S.1    Ho, S.B.2
  • 21
    • 33847177982 scopus 로고    scopus 로고
    • Metaproteomics approach to study the functionality of the microbiota in the human infant gastrointestinal tract
    • Klaassens ES, de Vos WM, Vaughan EE. (2007). Metaproteomics approach to study the functionality of the microbiota in the human infant gastrointestinal tract. Appl Environ Microbiol 73: 1388-1392.
    • (2007) Appl Environ Microbiol , vol.73 , pp. 1388-1392
    • Klaassens, E.S.1    De Vos, W.M.2    Vaughan, E.E.3
  • 22
    • 84877331372 scopus 로고    scopus 로고
    • Intestinal microbiota metabolism of L-carnitine, a nutrient in red meat, promotes atherosclerosis
    • Koeth Ra, Wang Z, Levison BS, Buffa Ja, Org E, Sheehy BT et al. (2013). Intestinal microbiota metabolism of L-carnitine, a nutrient in red meat, promotes atherosclerosis. Nat Med 19: 576-585.
    • (2013) Nat Med , vol.19 , pp. 576-585
    • Koeth, R.1    Wang, Z.2    Levison, B.S.3    Buffa, J.4    Org, E.5    Sheehy, B.T.6
  • 23
    • 0027185696 scopus 로고
    • Function tests in the diagnosis of chronic pancreatitis Critical evaluation
    • Lankisch PG (1993). Function tests in the diagnosis of chronic pancreatitis. Critical evaluation. Int J Pancreatol 14: 9-20.
    • (1993) J Pancreatol , vol.14 , pp. 9-20
    • Lankisch, P.G.1
  • 26
    • 84905730165 scopus 로고    scopus 로고
    • An integrated catalog of reference genes in the human gut microbiome
    • Li J, Jia H, Cai X, Zhong H, Feng Q, Sunagawa S et al. (2014). An integrated catalog of reference genes in the human gut microbiome. Nat Biotechnol 32: 834-841.
    • (2014) Nat Biotechnol , vol.32 , pp. 834-841
    • Li, J.1    Jia, H.2    Cai, X.3    Zhong, H.4    Feng, Q.5    Sunagawa, S.6
  • 27
    • 84887096280 scopus 로고    scopus 로고
    • Host-centric proteomics of stool: A novel strategy focused on intestinal responses to the gut microbiota
    • Lichtman JS, Marcobal A, Sonnenburg JL, Elias JE. (2013). Host-centric proteomics of stool: a novel strategy focused on intestinal responses to the gut microbiota. Mol Cell Proteomics 12: 3310-3318.
    • (2013) Mol Cell Proteomics , vol.12 , pp. 3310-3318
    • Lichtman, J.S.1    Marcobal, A.2    Sonnenburg, J.L.3    Elias, J.E.4
  • 28
    • 0029908147 scopus 로고    scopus 로고
    • Faecal elastase 1: A novel, highly sensitive, and specific tubeless pancreatic function test
    • Loser C, Mollgaard A, Folsch UR. (1996). Faecal elastase 1: a novel, highly sensitive, and specific tubeless pancreatic function test. Gut 39: 580-586.
    • (1996) Gut , vol.39 , pp. 580-586
    • Loser, C.1    Mollgaard, A.2    Folsch, U.R.3
  • 30
    • 84884671077 scopus 로고    scopus 로고
    • A metabolomic view of how the human gut microbiota impacts the host metabolome using humanized and gnotobiotic mice
    • Marcobal A, Kashyap PC, Nelson TA, Aronov PA, Donia MS, Spormann A et al. (2013). A metabolomic view of how the human gut microbiota impacts the host metabolome using humanized and gnotobiotic mice. ISME J 7: 1933-1943.
    • (2013) ISME J , vol.7 , pp. 1933-1943
    • Marcobal, A.1    Kashyap, P.C.2    Nelson, T.A.3    Aronov, P.A.4    Donia, M.S.5    Spormann, A.6
  • 31
    • 70350666634 scopus 로고    scopus 로고
    • Regulation of inflammatory responses by gut microbiota and chemoattractant receptor GPR43
    • Maslowski KM, Vieira AT, Ng A, Kranich J, Sierro F, Yu D et al. (2009). Regulation of inflammatory responses by gut microbiota and chemoattractant receptor GPR43. Nature 461: 1282-1286.
    • (2009) Nature , vol.461 , pp. 1282-1286
    • Maslowski, K.M.1    Vieira, A.T.2    Ng, A.3    Kranich, J.4    Sierro, F.5    Yu, D.6
  • 32
    • 17844404232 scopus 로고    scopus 로고
    • Gut microorganisms, mammalian metabolism and personalized health care
    • Nicholson JK, Holmes E, Wilson ID. (2005). Gut microorganisms, mammalian metabolism and personalized health care. Nat Rev Microbiol 3: 431-438.
    • (2005) Nat Rev Microbiol , vol.3 , pp. 431-438
    • Nicholson, J.K.1    Holmes, E.2    Wilson, I.D.3
  • 33
    • 77950251400 scopus 로고    scopus 로고
    • A human gut microbial gene catalogue established by metagenomic sequencing
    • Qin J, Li R, Raes J, Arumugam M, Burgdorf KS, Manichanh C et al. (2010). A human gut microbial gene catalogue established by metagenomic sequencing. Nature 464: 59-65.
    • (2010) Nature , vol.464 , pp. 59-65
    • Qin, J.1    Li, R.2    Raes, J.3    Arumugam, M.4    Burgdorf, K.S.5    Manichanh, C.6
  • 35
    • 19944432197 scopus 로고    scopus 로고
    • Multiplexed protein quantitation in Saccharomyces cerevisiae using amine-reactive isobaric tagging reagents
    • Ross PL, Huang YN, Marchese JN, Williamson B, Parker K, Hattan S et al. (2004). Multiplexed protein quantitation in Saccharomyces cerevisiae using amine-reactive isobaric tagging reagents. Mol Cell Proteomics 3: 1154-1169.
    • (2004) Mol Cell Proteomics , vol.3 , pp. 1154-1169
    • Ross, P.L.1    Huang, Y.N.2    Marchese, J.N.3    Williamson, B.4    Parker, K.5    Hattan, S.6
  • 36
    • 38649108480 scopus 로고    scopus 로고
    • Species variation in the fecal metabolome gives insight into differential gastrointestinal function
    • Saric J, Wang Y, Li J, Coen M, Utzinger J, Marchesi JR et al. (2008). Species variation in the fecal metabolome gives insight into differential gastrointestinal function. J Proteome Res 7: 352-360.
    • (2008) J Proteome Res , vol.7 , pp. 352-360
    • Saric, J.1    Wang, Y.2    Li, J.3    Coen, M.4    Utzinger, J.5    Marchesi, J.R.6
  • 37
    • 33947603233 scopus 로고    scopus 로고
    • Differential protein expression profile in the intestinal epithelium from patients with inflammatory bowel disease
    • Shkoda A, Werner T, Daniel H, Gunckel M, Rogler G, Haller D. (2007). Differential protein expression profile in the intestinal epithelium from patients with inflammatory bowel disease. J Proteome Res 6: 1114-1125.
    • (2007) J Proteome Res , vol.6 , pp. 1114-1125
    • Shkoda, A.1    Werner, T.2    Daniel, H.3    Gunckel, M.4    Rogler, G.5    Haller, D.6
  • 38
    • 84881068658 scopus 로고    scopus 로고
    • The microbial metabolites, short-chain fatty acids, regulate colonic Treg cell homeostasis
    • Smith P, Howitt M, Panikov N. (2013). The microbial metabolites, short-chain fatty acids, regulate colonic Treg cell homeostasis. Science 80: 569-574.
    • (2013) Science , vol.80 , pp. 569-574
    • Smith, P.1    Howitt, M.2    Panikov, N.3
  • 39
    • 0028800208 scopus 로고
    • Comparison of 16 S rRNA sequences of segmented filamentous bacteria isolated from mice, rats, and chicketns and proposal of "Candidatus Arthromitus
    • Snel J, Heinen PP, Blok HJ, Carman RJ, Allen PC. (1995). Comparison of 16 S rRNA sequences of segmented filamentous bacteria isolated from mice, rats, and chicketns and proposal of "Candidatus Arthromitus.". Int J Syst Bacteriol 45: 780-782.
    • (1995) J Syst Bacteriol , vol.45 , pp. 780-782
    • Snel, J.1    Heinen, P.P.2    Blok, H.J.3    Carman, R.J.4    Allen, P.C.5
  • 40
    • 55949124035 scopus 로고    scopus 로고
    • Faecalibacterium prausnitzii is an anti-inflammatory commensal bacterium identified by gut microbiota analysis of Crohn disease patients
    • Sokol H, Pigneur B, Watterlot L, Lakhdari O, Bermúdez-Humarán LG, Gratadoux J-J et al. (2008). Faecalibacterium prausnitzii is an anti-inflammatory commensal bacterium identified by gut microbiota analysis of Crohn disease patients. Proc Natl Acad Sci USA 105: 16731-16736.
    • (2008) Proc Natl Acad Sci USA , vol.105 , pp. 16731-16736
    • Sokol, H.1    Pigneur, B.2    Watterlot, L.3    Lakhdari, O.4    Bermúdez-Humarán, L.G.5    Gratadoux, J.-J.6
  • 41
    • 79952748287 scopus 로고    scopus 로고
    • Unravelling the effects of the environment and host genotype on the gut microbiome
    • Spor A, Koren O, Ley R. (2011). Unravelling the effects of the environment and host genotype on the gut microbiome. Nat Rev Microbiol 9: 279-290.
    • (2011) Nat Rev Microbiol , vol.9 , pp. 279-290
    • Spor, A.1    Koren, O.2    Ley, R.3
  • 43
    • 34548176784 scopus 로고    scopus 로고
    • Viscosity gradient within the mucus layer determines the mucosal barrier function and the spatial organization of the intestinal microbiota
    • Swidsinski A, Sydora B. (2007). Viscosity gradient within the mucus layer determines the mucosal barrier function and the spatial organization of the intestinal microbiota. Inflamm Bowel Dis 13: 963-970.
    • (2007) Inflamm Bowel Dis , vol.13 , pp. 963-970
    • Swidsinski, A.1    Sydora, B.2
  • 44
    • 22144476548 scopus 로고    scopus 로고
    • Spatial organization and composition of the mucosal flora in patients with inflammatory bowel disease
    • Swidsinski A, Weber J, Loening-Baucke V, Hale LP, Lochs H. (2005). Spatial organization and composition of the mucosal flora in patients with inflammatory bowel disease. J Clin Microbiol 43: 3380-3389.
    • (2005) J Clin Microbiol , vol.43 , pp. 3380-3389
    • Swidsinski, A.1    Weber, J.2    Loening-Baucke, V.3    Hale, L.P.4    Lochs, H.5
  • 46
    • 77950669604 scopus 로고    scopus 로고
    • The effect of diet on the human gut microbiome: A metagenomic analysis in humanized gnotobiotic mice
    • Turnbaugh PJ, Ridaura VK, Faith JJ, Rey FE, Knight R, Gordon JI. (2009). The effect of diet on the human gut microbiome: a metagenomic analysis in humanized gnotobiotic mice. Sci Transl Med 1: 6ra14.
    • (2009) Sci Transl Med , vol.1 , pp. 6ra14
    • Turnbaugh, P.J.1    Ridaura, V.K.2    Faith, J.J.3    Rey, F.E.4    Knight, R.5    Gordon, J.I.6
  • 47
    • 36749009597 scopus 로고    scopus 로고
    • Alkaline phosphatase: Keeping the peace at the gut epithelial surface
    • Vaishnava S, Hooper LV. (2007). Alkaline phosphatase: keeping the peace at the gut epithelial surface. Cell Host Microbe 2: 365-367.
    • (2007) Cell Host Microbe , vol.2 , pp. 365-367
    • Vaishnava, S.1    Hooper, L.V.2
  • 48
    • 80054122238 scopus 로고    scopus 로고
    • The antibacterial lectin RegIIIgamma promotes the spatial segregation of microbiota and host in the intestine
    • Vaishnava S, Yamamoto M, Severson KM, Ruhn KA, Yu X, Koren O et al. (2011). The antibacterial lectin RegIIIgamma promotes the spatial segregation of microbiota and host in the intestine. Science 334: 255-258.
    • (2011) Science , vol.334 , pp. 255-258
    • Vaishnava, S.1    Yamamoto, M.2    Severson, K.M.3    Ruhn, K.A.4    Yu, X.5    Koren, O.6
  • 51
    • 79960214321 scopus 로고    scopus 로고
    • A targeted proteomics-based pipeline for verification of biomarkers in plasma
    • Whiteaker JR, Lin C, Kennedy J, Hou L, Trute M, Sokal I et al. (2011). A targeted proteomics-based pipeline for verification of biomarkers in plasma. Nat Biotechnol 29: 625-634.
    • (2011) Nat Biotechnol , vol.29 , pp. 625-634
    • Whiteaker, J.R.1    Lin, C.2    Kennedy, J.3    Hou, L.4    Trute, M.5    Sokal, I.6
  • 53
    • 4444346217 scopus 로고    scopus 로고
    • Metabolic labeling of mammalian organisms with stable isotopes for quantitative proteomic analysis
    • Wu CC, MacCoss MJ, Howell KE, Matthews DE, Yates JR. (2004). Metabolic labeling of mammalian organisms with stable isotopes for quantitative proteomic analysis. Anal Chem 76: 4951-4959.
    • (2004) Anal Chem , vol.76 , pp. 4951-4959
    • Wu, C.C.1    MacCoss, M.J.2    Howell, K.E.3    Matthews, D.E.4    Yates, J.R.5
  • 54
    • 55249093899 scopus 로고    scopus 로고
    • Metabonomic and microbiological analysis of the dynamic effect of vancomycin-induced gut microbiota modification in the mouse
    • Yap IKS, Li JV, Saric J, Martin F-P, Davies H, Wang Y et al. (2008). Metabonomic and microbiological analysis of the dynamic effect of vancomycin-induced gut microbiota modification in the mouse. J Proteome Res 7: 3718-3728.
    • (2008) J Proteome Res , vol.7 , pp. 3718-3728
    • Yap, I.K.S.1    Li, J.V.2    Saric, J.3    Martin, F.-P.4    Davies, H.5    Wang, Y.6


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.