Publication

Anti-inflammatory Gut Microbial Pathways Are Decreased During Crohn's Disease Exacerbations

Klaassen, M. A. Y., Imhann, F., Collij, V., Fu, J., Wijmenga, C., Zhernakova, A., Dijkstra, G., Festen, E. A. M., Gacesa, R., Vich Vila, A. & Weersma, R. K., 10-Apr-2019, In : Journal of Crohn's and Colitis. 13, 11, p. 1439-1449 11 p.

Research output: Contribution to journalArticleAcademicpeer-review

APA

Klaassen, M. A. Y., Imhann, F., Collij, V., Fu, J., Wijmenga, C., Zhernakova, A., Dijkstra, G., Festen, E. A. M., Gacesa, R., Vich Vila, A., & Weersma, R. K. (2019). Anti-inflammatory Gut Microbial Pathways Are Decreased During Crohn's Disease Exacerbations. Journal of Crohn's and Colitis, 13(11), 1439-1449. https://doi.org/10.1093/ecco-jcc/jjz077

Author

Klaassen, Marjolein A Y ; Imhann, Floris ; Collij, Valerie ; Fu, Jingyuan ; Wijmenga, Cisca ; Zhernakova, Alexandra ; Dijkstra, Gerard ; Festen, Eleonora A M ; Gacesa, Ranko ; Vich Vila, Arnau ; Weersma, Rinse K. / Anti-inflammatory Gut Microbial Pathways Are Decreased During Crohn's Disease Exacerbations. In: Journal of Crohn's and Colitis. 2019 ; Vol. 13, No. 11. pp. 1439-1449.

Harvard

Klaassen, MAY, Imhann, F, Collij, V, Fu, J, Wijmenga, C, Zhernakova, A, Dijkstra, G, Festen, EAM, Gacesa, R, Vich Vila, A & Weersma, RK 2019, 'Anti-inflammatory Gut Microbial Pathways Are Decreased During Crohn's Disease Exacerbations', Journal of Crohn's and Colitis, vol. 13, no. 11, pp. 1439-1449. https://doi.org/10.1093/ecco-jcc/jjz077

Standard

Anti-inflammatory Gut Microbial Pathways Are Decreased During Crohn's Disease Exacerbations. / Klaassen, Marjolein A Y; Imhann, Floris; Collij, Valerie; Fu, Jingyuan; Wijmenga, Cisca; Zhernakova, Alexandra; Dijkstra, Gerard; Festen, Eleonora A M; Gacesa, Ranko; Vich Vila, Arnau; Weersma, Rinse K.

In: Journal of Crohn's and Colitis, Vol. 13, No. 11, 10.04.2019, p. 1439-1449.

Research output: Contribution to journalArticleAcademicpeer-review

Vancouver

Klaassen MAY, Imhann F, Collij V, Fu J, Wijmenga C, Zhernakova A et al. Anti-inflammatory Gut Microbial Pathways Are Decreased During Crohn's Disease Exacerbations. Journal of Crohn's and Colitis. 2019 Apr 10;13(11):1439-1449. https://doi.org/10.1093/ecco-jcc/jjz077


BibTeX

@article{86c38158b84a41a99391223fb7d89153,
title = "Anti-inflammatory Gut Microbial Pathways Are Decreased During Crohn's Disease Exacerbations",
abstract = "BACKGROUND AND AIMS: Crohn's disease [CD] is a chronic inflammatory disorder of the gastrointestinal tract characterised by alternating periods of exacerbation and remission. We hypothesised that changes in the gut microbiome are associated with CD exacerbations, and therefore aimed to correlate multiple gut microbiome features to CD disease activity.METHODS: Faecal microbiome data generated using whole-genome metagenomic shotgun sequencing of 196 CD patients were of obtained from the 1000IBD cohort [one sample per patient]. Patient disease activity status at time of sampling was determined by re-assessing clinical records 3 years after faecal sample production. Faecal samples were designated as taken 'in an exacerbation' or 'in remission'. Samples taken 'in remission' were further categorised as 'before the next exacerbation' or 'after the last exacerbation', based on the exacerbation closest in time to the faecal production date. CD activity was correlated with gut microbial composition and predicted functional pathways via logistic regressions using MaAsLin software.RESULTS: In total, 105 bacterial pathways were decreased during CD exacerbation (false-discovery rate [FDR] <0.1) in comparison with the gut microbiome of patients both before and after an exacerbation. Most of these decreased pathways exert anti-inflammatory properties facilitating the biosynthesis and fermentation of various amino acids [tryptophan, methionine, and arginine], vitamins [riboflavin and thiamine], and short-chain fatty acids [SCFAs].CONCLUSIONS: CD exacerbations are associated with a decrease in microbial genes involved in the biosynthesis of the anti-inflammatory mediators riboflavin, thiamine, and folate, and SCFAs, suggesting that increasing the intestinal abundances of these mediators might provide new treatment opportunities. These results were generated using bioinformatic analyses of cross-sectional data and need to be replicated using time-series and wet lab experiments.",
author = "Klaassen, {Marjolein A Y} and Floris Imhann and Valerie Collij and Jingyuan Fu and Cisca Wijmenga and Alexandra Zhernakova and Gerard Dijkstra and Festen, {Eleonora A M} and Ranko Gacesa and {Vich Vila}, Arnau and Weersma, {Rinse K}",
note = "Copyright {\textcopyright} 2019 European Crohn{\textquoteright}s and Colitis Organisation (ECCO). Published by Oxford University Press. All rights reserved. For permissions, please email: journals.permissions@oup.com.",
year = "2019",
month = apr,
day = "10",
doi = "10.1093/ecco-jcc/jjz077",
language = "English",
volume = "13",
pages = "1439--1449",
journal = "Journal of Crohn's and Colitis",
issn = "1873-9946",
publisher = "Oxford University Press",
number = "11",

}

RIS

TY - JOUR

T1 - Anti-inflammatory Gut Microbial Pathways Are Decreased During Crohn's Disease Exacerbations

AU - Klaassen, Marjolein A Y

AU - Imhann, Floris

AU - Collij, Valerie

AU - Fu, Jingyuan

AU - Wijmenga, Cisca

AU - Zhernakova, Alexandra

AU - Dijkstra, Gerard

AU - Festen, Eleonora A M

AU - Gacesa, Ranko

AU - Vich Vila, Arnau

AU - Weersma, Rinse K

N1 - Copyright © 2019 European Crohn’s and Colitis Organisation (ECCO). Published by Oxford University Press. All rights reserved. For permissions, please email: journals.permissions@oup.com.

PY - 2019/4/10

Y1 - 2019/4/10

N2 - BACKGROUND AND AIMS: Crohn's disease [CD] is a chronic inflammatory disorder of the gastrointestinal tract characterised by alternating periods of exacerbation and remission. We hypothesised that changes in the gut microbiome are associated with CD exacerbations, and therefore aimed to correlate multiple gut microbiome features to CD disease activity.METHODS: Faecal microbiome data generated using whole-genome metagenomic shotgun sequencing of 196 CD patients were of obtained from the 1000IBD cohort [one sample per patient]. Patient disease activity status at time of sampling was determined by re-assessing clinical records 3 years after faecal sample production. Faecal samples were designated as taken 'in an exacerbation' or 'in remission'. Samples taken 'in remission' were further categorised as 'before the next exacerbation' or 'after the last exacerbation', based on the exacerbation closest in time to the faecal production date. CD activity was correlated with gut microbial composition and predicted functional pathways via logistic regressions using MaAsLin software.RESULTS: In total, 105 bacterial pathways were decreased during CD exacerbation (false-discovery rate [FDR] <0.1) in comparison with the gut microbiome of patients both before and after an exacerbation. Most of these decreased pathways exert anti-inflammatory properties facilitating the biosynthesis and fermentation of various amino acids [tryptophan, methionine, and arginine], vitamins [riboflavin and thiamine], and short-chain fatty acids [SCFAs].CONCLUSIONS: CD exacerbations are associated with a decrease in microbial genes involved in the biosynthesis of the anti-inflammatory mediators riboflavin, thiamine, and folate, and SCFAs, suggesting that increasing the intestinal abundances of these mediators might provide new treatment opportunities. These results were generated using bioinformatic analyses of cross-sectional data and need to be replicated using time-series and wet lab experiments.

AB - BACKGROUND AND AIMS: Crohn's disease [CD] is a chronic inflammatory disorder of the gastrointestinal tract characterised by alternating periods of exacerbation and remission. We hypothesised that changes in the gut microbiome are associated with CD exacerbations, and therefore aimed to correlate multiple gut microbiome features to CD disease activity.METHODS: Faecal microbiome data generated using whole-genome metagenomic shotgun sequencing of 196 CD patients were of obtained from the 1000IBD cohort [one sample per patient]. Patient disease activity status at time of sampling was determined by re-assessing clinical records 3 years after faecal sample production. Faecal samples were designated as taken 'in an exacerbation' or 'in remission'. Samples taken 'in remission' were further categorised as 'before the next exacerbation' or 'after the last exacerbation', based on the exacerbation closest in time to the faecal production date. CD activity was correlated with gut microbial composition and predicted functional pathways via logistic regressions using MaAsLin software.RESULTS: In total, 105 bacterial pathways were decreased during CD exacerbation (false-discovery rate [FDR] <0.1) in comparison with the gut microbiome of patients both before and after an exacerbation. Most of these decreased pathways exert anti-inflammatory properties facilitating the biosynthesis and fermentation of various amino acids [tryptophan, methionine, and arginine], vitamins [riboflavin and thiamine], and short-chain fatty acids [SCFAs].CONCLUSIONS: CD exacerbations are associated with a decrease in microbial genes involved in the biosynthesis of the anti-inflammatory mediators riboflavin, thiamine, and folate, and SCFAs, suggesting that increasing the intestinal abundances of these mediators might provide new treatment opportunities. These results were generated using bioinformatic analyses of cross-sectional data and need to be replicated using time-series and wet lab experiments.

U2 - 10.1093/ecco-jcc/jjz077

DO - 10.1093/ecco-jcc/jjz077

M3 - Article

C2 - 31066440

VL - 13

SP - 1439

EP - 1449

JO - Journal of Crohn's and Colitis

JF - Journal of Crohn's and Colitis

SN - 1873-9946

IS - 11

ER -

ID: 100365804