-
1
-
-
84864752706
-
The impact of nutrition on the human microbiome
-
Flint HJ The impact of nutrition on the human microbiome. Nutr Rev 2012;70 (Suppl 1):S10-13.
-
(2012)
Nutr Rev
, vol.70
, pp. S10-S13
-
-
Flint, H.J.1
-
2
-
-
85047689124
-
Bacteria, colonic fermentation, and gastrointestinal health
-
Macfarlane GT, Macfarlane S. Bacteria, colonic fermentation, and gastrointestinal health. J AOAC Int 2012;95:50-60.
-
(2012)
J AOAC Int
, vol.95
, pp. 50-60
-
-
Macfarlane, G.T.1
Macfarlane, S.2
-
3
-
-
55949124035
-
Faecalibacterium prausnitzii is an anti-inflammatory commensal bacterium identified by gut microbiota analysis of Crohn disease patients
-
Sokol H, Pigneur B, Watterlot L, et al. Faecalibacterium prausnitzii is an anti-inflammatory commensal bacterium identified by gut microbiota analysis of Crohn disease patients. Proc Natl Acad Sci USA 2008;105:16731-6.
-
(2008)
Proc Natl Acad Sci USA
, vol.105
, pp. 16731-16736
-
-
Sokol, H.1
Pigneur, B.2
Watterlot, L.3
-
4
-
-
0032692721
-
The intestinal mucus layer from patients with inflammatory bowel disease harbors high numbers of bacteria compared with controls
-
Schultsz C, Van Den Berg FM, Ten Kate FW, et al. The intestinal mucus layer from patients with inflammatory bowel disease harbors high numbers of bacteria compared with controls. Gastroenterology 1999;117:1089-97.
-
(1999)
Gastroenterology
, vol.117
, pp. 1089-1097
-
-
Schultsz, C.1
Van Den Berg, F.M.2
Ten Kate, F.W.3
-
6
-
-
3042523533
-
Dysbiosis as a prerequisite for IBD
-
Tamboli CP, Neut C, Desreumaux P, et al. Dysbiosis as a prerequisite for IBD. Gut 2004;53:1057.
-
(2004)
Gut
, vol.53
, pp. 1057
-
-
Tamboli, C.P.1
Neut, C.2
Desreumaux, P.3
-
7
-
-
34547176642
-
Unravelling the pathogenesis of inflammatory bowel disease
-
Xavier RJ, Podolsky DK. Unravelling the pathogenesis of inflammatory bowel disease. Nature 2007;448:427-34.
-
(2007)
Nature
, vol.448
, pp. 427-434
-
-
Xavier, R.J.1
Podolsky, D.K.2
-
8
-
-
27744575829
-
Of mice and men: What to learn about human inflammatory bowel disease from genetic analysis of murine inflammation
-
Schreiber S. Of mice and men: what to learn about human inflammatory bowel disease from genetic analysis of murine inflammation. Gastroenterology 2005;129:1782-4.
-
(2005)
Gastroenterology
, vol.129
, pp. 1782-1784
-
-
Schreiber, S.1
-
9
-
-
84868336049
-
Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease
-
Jostins L, Ripke S, Weersma RK, et al. Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease. Nature 2012;491:119-24.
-
(2012)
Nature
, vol.491
, pp. 119-124
-
-
Jostins, L.1
Ripke, S.2
Weersma, R.K.3
-
10
-
-
78650099360
-
Disease phenotype and genotype are associated with shifts in intestinal-associated microbiota in inflammatory bowel diseases
-
Frank DN, Robertson CE, Hamm CM, et al. Disease phenotype and genotype are associated with shifts in intestinal-associated microbiota in inflammatory bowel diseases. Inflamm Bowel Dis 2011;17:179-84.
-
(2011)
Inflamm Bowel Dis
, vol.17
, pp. 179-184
-
-
Frank, D.N.1
Robertson, C.E.2
Hamm, C.M.3
-
11
-
-
80052580369
-
Nod2 is essential for temporal development of intestinal microbial communities
-
Rehman A, Sina C, Gavrilova O, et al. Nod2 is essential for temporal development of intestinal microbial communities. Gut 2011;60:1354-62.
-
(2011)
Gut
, vol.60
, pp. 1354-1362
-
-
Rehman, A.1
Sina, C.2
Gavrilova, O.3
-
12
-
-
33846627302
-
A genome-wide association scan of nonsynonymous SNPs identifies a susceptibility variant for Crohn disease in ATG16L1
-
Hampe J, Franke A, Rosenstiel P, et al. A genome-wide association scan of nonsynonymous SNPs identifies a susceptibility variant for Crohn disease in ATG16L1. Nat Genet 2007;39:207-11.
-
(2007)
Nat Genet
, vol.39
, pp. 207-211
-
-
Hampe, J.1
Franke, A.2
Rosenstiel, P.3
-
13
-
-
35848970794
-
Genome-wide association scanning highlights two autophagy genes, ATG16L1 and IRGM, as being significantly associated with Crohn's disease
-
Massey DC, Parkes M. Genome-wide association scanning highlights two autophagy genes, ATG16L1 and IRGM, as being significantly associated with Crohn's disease. Autophagy 2007;3:649-51.
-
(2007)
Autophagy
, vol.3
, pp. 649-651
-
-
Massey, D.C.1
Parkes, M.2
-
14
-
-
34247554965
-
Genome-wide association study identifies new susceptibility loci for Crohn disease and implicates autophagy in disease pathogenesis
-
Rioux JD, Xavier RJ, Taylor KD, et al. Genome-wide association study identifies new susceptibility loci for Crohn disease and implicates autophagy in disease pathogenesis. Nat Genet 2007;39:596-604.
-
(2007)
Nat Genet
, vol.39
, pp. 596-604
-
-
Rioux, J.D.1
Xavier, R.J.2
Taylor, K.D.3
-
15
-
-
67649607465
-
Autophagy, immunity, and microbial adaptations
-
Deretic V, Levine B. Autophagy, immunity, and microbial adaptations. Cell Host Microbe 2009;5:527-49.
-
(2009)
Cell Host Microbe
, vol.5
, pp. 527-549
-
-
Deretic, V.1
Levine, B.2
-
16
-
-
56249135538
-
A key role for autophagy and the autophagy gene Atg16l1 in mouse and human intestinal Paneth cells
-
Cadwell K, Liu JY, Brown SL, et al. A key role for autophagy and the autophagy gene Atg16l1 in mouse and human intestinal Paneth cells. Nature 2008;456:259-63.
-
(2008)
Nature
, vol.456
, pp. 259-263
-
-
Cadwell, K.1
Liu, J.Y.2
Brown, S.L.3
-
17
-
-
78049485275
-
Crohn's disease susceptibility gene interactions, a NOD to the newcomer ATG16L1
-
Cadwell K. Crohn's disease susceptibility gene interactions, a NOD to the newcomer ATG16L1. Gastroenterology 2010;139:1448-50.
-
(2010)
Gastroenterology
, vol.139
, pp. 1448-1450
-
-
Cadwell, K.1
-
18
-
-
37549043217
-
Toll-like receptor signalling in macrophages links the autophagy pathway to phagocytosis
-
Sanjuan MA, Dillon CP, Tait SW, et al. Toll-like receptor signalling in macrophages links the autophagy pathway to phagocytosis. Nature 2007;450:1253-7.
-
(2007)
Nature
, vol.450
, pp. 1253-1257
-
-
Sanjuan, M.A.1
Dillon, C.P.2
Tait, S.W.3
-
19
-
-
48249109916
-
Eating for good health: Linking autophagy and phagocytosis in host defense
-
Sanjuan MA, Green DR. Eating for good health: linking autophagy and phagocytosis in host defense. Autophagy 2008;4:607-11.
-
(2008)
Autophagy
, vol.4
, pp. 607-611
-
-
Sanjuan, M.A.1
Green, D.R.2
-
20
-
-
35348857386
-
Molecular-phylogenetic characterization of microbial community imbalances in human inflammatory bowel diseases
-
Frank DN, St Amand AL, Feldman RA, et al. Molecular-phylogenetic characterization of microbial community imbalances in human inflammatory bowel diseases. Proc Natl Acad Sci USA 2007;104:13780-5.
-
(2007)
Proc Natl Acad Sci USA
, vol.104
, pp. 13780-13785
-
-
Frank, D.N.1
St. Amand, A.L.2
Feldman, R.A.3
-
21
-
-
66249129571
-
Twin studies reveal specific imbalances in the mucosa-associated microbiota of patients with ileal Crohn's disease
-
Willing B, Halfvarson J, Dicksved J, et al. Twin studies reveal specific imbalances in the mucosa-associated microbiota of patients with ileal Crohn's disease. Inflamm Bowel Dis 2009;15:653-60.
-
(2009)
Inflamm Bowel Dis
, vol.15
, pp. 653-660
-
-
Willing, B.1
Halfvarson, J.2
Dicksved, J.3
-
22
-
-
33846133717
-
Azathioprine and mesalazine-induced effects on the mucosal flora in patients with IBD colitis
-
Swidsinski A, Loening-Baucke V, Bengmark S, et al. Azathioprine and mesalazine-induced effects on the mucosal flora in patients with IBD colitis. Inflamm Bowel Dis 2007;13:51-6.
-
(2007)
Inflamm Bowel Dis
, vol.13
, pp. 51-56
-
-
Swidsinski, A.1
Loening-Baucke, V.2
Bengmark, S.3
-
23
-
-
78650155416
-
Highlighting new phylogenetic specificities of Crohn's disease microbiota
-
Mondot S, Kang S, Furet JP, et al. Highlighting new phylogenetic specificities of Crohn's disease microbiota. Inflamm Bowel Dis 2011;17:185-92.
-
(2011)
Inflamm Bowel Dis
, vol.17
, pp. 185-192
-
-
Mondot, S.1
Kang, S.2
Furet, J.P.3
-
24
-
-
0036117798
-
Changes in the bacterial flora of the neoterminal ileum after ileocolonic resection for Crohn's disease
-
Neut C, Bulois P, Desreumaux P, et al. Changes in the bacterial flora of the neoterminal ileum after ileocolonic resection for Crohn's disease. Am J Gastroenterol 2002;97:939-46.
-
(2002)
Am J Gastroenterol
, vol.97
, pp. 939-946
-
-
Neut, C.1
Bulois, P.2
Desreumaux, P.3
-
25
-
-
84872592295
-
Fecal microbiota composition differs between children with beta-cell autoimmunity and those without
-
de Goffau MC, Luopajarvi K, Knip M, et al. Fecal microbiota composition differs between children with beta-cell autoimmunity and those without. Diabetes 2013;62:1238-44.
-
(2013)
Diabetes
, vol.62
, pp. 1238-1244
-
-
De Goffau, M.C.1
Luopajarvi, K.2
Knip, M.3
-
26
-
-
84880135340
-
Diversity of human small intestinal Streptococcus and Veillonella populations
-
van den Bogert B, Erkus O, Boekhorst J, et al. Diversity of human small intestinal Streptococcus and Veillonella populations. FEMS Microbiol Ecol 2013;85:376-88.
-
(2013)
FEMS Microbiol Ecol
, vol.85
, pp. 376-388
-
-
Van Den Bogert, B.1
Erkus, O.2
Boekhorst, J.3
-
27
-
-
56849106496
-
The pervasive effects of an antibiotic on the human gut microbiota, as revealed by deep 16S rRNA sequencing
-
Dethlefsen L, Huse S, Sogin ML, et al. The pervasive effects of an antibiotic on the human gut microbiota, as revealed by deep 16S rRNA sequencing. PLoS Biol 2008;6:e280.
-
(2008)
PLoS Biol
, vol.6
, pp. e280
-
-
Dethlefsen, L.1
Huse, S.2
Sogin, M.L.3
-
28
-
-
77952243141
-
QIIME allows analysis of high-throughput community sequencing data
-
Caporaso JG, Kuczynski J, Stombaugh J, et al. QIIME allows analysis of high-throughput community sequencing data. Nat Methods 2010;7:335-6.
-
(2010)
Nat Methods
, vol.7
, pp. 335-336
-
-
Caporaso, J.G.1
Kuczynski, J.2
Stombaugh, J.3
-
29
-
-
77956304094
-
Rapidly denoising pyrosequencing amplicon reads by exploiting rank-abundance distributions
-
Reeder J, Knight R. Rapidly denoising pyrosequencing amplicon reads by exploiting rank-abundance distributions. Nat Methods 2010;7:668-9.
-
(2010)
Nat Methods
, vol.7
, pp. 668-669
-
-
Reeder, J.1
Knight, R.2
-
30
-
-
77957244650
-
Search and clustering orders of magnitude faster than BLAST
-
Edgar RC Search and clustering orders of magnitude faster than BLAST. Bioinformatics 2010;26:2460-1.
-
(2010)
Bioinformatics
, vol.26
, pp. 2460-2461
-
-
Edgar, R.C.1
-
31
-
-
34548293679
-
Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy
-
Wang Q, Garrity GM, Tiedje JM, et al. Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Appl Environ Microbiol 2007;73:5261-7.
-
(2007)
Appl Environ Microbiol
, vol.73
, pp. 5261-5267
-
-
Wang, Q.1
Garrity, G.M.2
Tiedje, J.M.3
-
32
-
-
84883190251
-
Impact of ileocecal resection and concomitant antibiotics on the microbiome of the murine jejunum and colon
-
Devine AA, Gonzalez A, Speck KE, et al. Impact of ileocecal resection and concomitant antibiotics on the microbiome of the murine jejunum and colon. PLoS One 2013;8:e73140.
-
(2013)
PLoS One
, vol.8
-
-
Devine, A.A.1
Gonzalez, A.2
Speck, K.E.3
-
33
-
-
84861186087
-
Defects in autophagy favour adherent-invasive Escherichia coli persistence within macrophages leading to increased pro-inflammatory response
-
Lapaquette P, Bringer MA, Darfeuille-Michaud A. Defects in autophagy favour adherent-invasive Escherichia coli persistence within macrophages leading to increased pro-inflammatory response. Cell Microbiol 2012;14:791-807.
-
(2012)
Cell Microbiol
, vol.14
, pp. 791-807
-
-
Lapaquette, P.1
Bringer, M.A.2
Darfeuille-Michaud, A.3
-
34
-
-
84882757943
-
Glutathione and antioxidant enzymes serve complementary roles in protecting activated hepatic stellate cells against hydrogen peroxide-induced cell death
-
Dunning S, Ur Rehman A, Tiebosch MH, et al. Glutathione and antioxidant enzymes serve complementary roles in protecting activated hepatic stellate cells against hydrogen peroxide-induced cell death. Biochim Biophys Acta 2013;1832:2027-34.
-
(2013)
Biochim Biophys Acta
, vol.1832
, pp. 2027-2034
-
-
Dunning, S.1
Ur Rehman, A.2
Tiebosch, M.H.3
-
35
-
-
65549150087
-
Comparative assessment of human and farm animal faecal microbiota using real-time quantitative PCR
-
Furet JP, Firmesse O, Gourmelon M, et al. Comparative assessment of human and farm animal faecal microbiota using real-time quantitative PCR. FEMS Microbiol Ecol 2009;68:351-62.
-
(2009)
FEMS Microbiol Ecol
, vol.68
, pp. 351-362
-
-
Furet, J.P.1
Firmesse, O.2
Gourmelon, M.3
-
36
-
-
38049058331
-
Early bacterial dependent induction of inducible nitric oxide synthase (iNOS) in epithelial cells upon transfer of CD45RB(high) CD4(+) T cells in a model for experimental colitis
-
Dijkstra G, Yuvaraj S, Jiang HQ, et al. Early bacterial dependent induction of inducible nitric oxide synthase (iNOS) in epithelial cells upon transfer of CD45RB(high) CD4(+) T cells in a model for experimental colitis. Inflamm Bowel Dis 2007;13:1467-74.
-
(2007)
Inflamm Bowel Dis
, vol.13
, pp. 1467-1474
-
-
Dijkstra, G.1
Yuvaraj, S.2
Jiang, H.Q.3
-
37
-
-
0031946794
-
Nutritional factors in inflammatory bowel disease
-
Hunter JO Nutritional factors in inflammatory bowel disease. Eur J Gastroenterol Hepatol 1998;10:235-7.
-
(1998)
Eur J Gastroenterol Hepatol
, vol.10
, pp. 235-237
-
-
Hunter, J.O.1
-
38
-
-
0027429494
-
Treatment of active Crohn's disease by exclusion diet: East Anglian multicentre controlled trial
-
Riordan AM, Hunter JO, Cowan RE, et al. Treatment of active Crohn's disease by exclusion diet: East Anglian multicentre controlled trial. Lancet 1993;342:1131-4.
-
(1993)
Lancet
, vol.342
, pp. 1131-1134
-
-
Riordan, A.M.1
Hunter, J.O.2
Cowan, R.E.3
-
39
-
-
84869232768
-
Influence of the protein kinase C activator phorbol myristate acetate on the intracellular activity of antibiotics against hemin-and menadione-auxotrophic small-colony variant mutants of Staphylococcus aureus and their wild-type parental strain in human THP-1 cells
-
Garcia LG, Lemaire S, Kahl BC, et al. Influence of the protein kinase C activator phorbol myristate acetate on the intracellular activity of antibiotics against hemin-and menadione-auxotrophic small-colony variant mutants of Staphylococcus aureus and their wild-type parental strain in human THP-1 cells. Antimicrob Agents Chemother 2012;56:6166-74.
-
(2012)
Antimicrob Agents Chemother
, vol.56
, pp. 6166-6174
-
-
Garcia, L.G.1
Lemaire, S.2
Kahl, B.C.3
-
40
-
-
84896730900
-
A Crohn's disease variant in Atg16l1 enhances its degradation by caspase 3
-
Murthy A, Li Y, Peng I, et al. A Crohn's disease variant in Atg16l1 enhances its degradation by caspase 3. Nature 2014;506:456-62.
-
(2014)
Nature
, vol.506
, pp. 456-462
-
-
Murthy, A.1
Li, Y.2
Peng, I.3
-
41
-
-
84866533089
-
Crohn disease ATG16L1 polymorphism increases susceptibility to infection with Helicobacter pylori in humans
-
Raju D, Hussey S, Jones NL. Crohn disease ATG16L1 polymorphism increases susceptibility to infection with Helicobacter pylori in humans. Autophagy 2012;8:1387-8.
-
(2012)
Autophagy
, vol.8
, pp. 1387-1388
-
-
Raju, D.1
Hussey, S.2
Jones, N.L.3
-
42
-
-
54849421128
-
Impaired autophagy of an intracellular pathogen induced by a Crohn's disease associated ATG16L1 variant
-
Kuballa P, Huett A, Rioux JD, et al. Impaired autophagy of an intracellular pathogen induced by a Crohn's disease associated ATG16L1 variant. PLoS One 2008;3:e3391.
-
(2008)
PLoS One
, vol.3
-
-
Kuballa, P.1
Huett, A.2
Rioux, J.D.3
-
43
-
-
77649194674
-
Crohn's disease-associated adherent-invasive E. Coli are selectively favoured by impaired autophagy to replicate intracellularly
-
Lapaquette P, Glasser AL, Huett A, et al. Crohn's disease-associated adherent-invasive E. coli are selectively favoured by impaired autophagy to replicate intracellularly. Cell Microbiol 2010;12:99-113.
-
(2010)
Cell Microbiol
, vol.12
, pp. 99-113
-
-
Lapaquette, P.1
Glasser, A.L.2
Huett, A.3
-
44
-
-
70450248450
-
Differential involvement of Atg16L1 in Crohn disease and canonical autophagy: Analysis of the organization of the Atg16L1 complex in fibroblasts
-
Fujita N, Saitoh T, Kageyama S, et al. Differential involvement of Atg16L1 in Crohn disease and canonical autophagy: analysis of the organization of the Atg16L1 complex in fibroblasts. J Biol Chem 2009;284:32602-9.
-
(2009)
J Biol Chem
, vol.284
, pp. 32602-32609
-
-
Fujita, N.1
Saitoh, T.2
Kageyama, S.3
-
45
-
-
84862168533
-
Prevention of postoperative recurrence of Crohn's disease
-
van Loo ES, Dijkstra G, Ploeg RJ, et al. Prevention of postoperative recurrence of Crohn's disease. J Crohns Colitis 2012;6:637-46.
-
(2012)
J Crohns Colitis
, vol.6
, pp. 637-646
-
-
Van Loo, E.S.1
Dijkstra, G.2
Ploeg, R.J.3
-
46
-
-
84890854990
-
Selective modulation of autophagy, innate immunity, and adaptive immunity by small molecules
-
Shaw SY, Tran K, Castoreno AB, et al. Selective modulation of autophagy, innate immunity, and adaptive immunity by small molecules. ACS Chem Biol 2013;8:2724-33.
-
(2013)
ACS Chem Biol
, vol.8
, pp. 2724-2733
-
-
Shaw, S.Y.1
Tran, K.2
Castoreno, A.B.3
-
47
-
-
84901660514
-
Atg16L1 T300A variant decreases selective autophagy resulting in altered cytokine signaling and decreased antibacterial defense
-
Lassen KG, Kuballa P, Conway KL, et al. Atg16L1 T300A variant decreases selective autophagy resulting in altered cytokine signaling and decreased antibacterial defense. Proc Natl Acad Sci USA 2014;111:7741-6.
-
(2014)
Proc Natl Acad Sci USA
, vol.111
, pp. 7741-7746
-
-
Lassen, K.G.1
Kuballa, P.2
Conway, K.L.3
-
48
-
-
38649115342
-
Microbial influences in inflammatory bowel diseases
-
Sartor RB Microbial influences in inflammatory bowel diseases. Gastroenterology 2008;134:577-94.
-
(2008)
Gastroenterology
, vol.134
, pp. 577-594
-
-
Sartor, R.B.1
|