From metagenomic data to personalized in silico microbiotas: predicting dietary supplements for Crohn's disease.
From metagenomic data to personalized in silico microbiotas: predicting dietary supplements for Crohn's disease.
复制标题
从宏基因组数据到硅微生物群中个性化：预测克罗恩病的饮食补充剂。
DOI：
10.1038/s41540-018-0063-2
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发表时间：
2018
影响因子：
4
通讯作者：
Thiele I
中科院分区：
文献类型：
--
作者：
Bauer E;Thiele I
克罗恩病（CD）与肠道微生物群的生态失衡有关，肠道微生物群由数百种物种组成。潜在的复杂性以及患者之间的个体差异导致难以定义标准化治疗。计算建模可以系统地研究肠道微生物之间的代谢相互作用，以揭示机制的见解。在这项研究中，我们将CD患者和健康对照的宏基因组数据与基因组规模的代谢模型整合到个性化的计算机微生物学中。我们预测了患者和对照组的短链脂肪酸（SFCA）水平，这与实验结果总体一致。作为一种紧急性质，CD患者的SCFA浓度预计较低，并且SCFA特征对每位患者都是独特的。因此，我们建议个性化的饮食治疗，可以提高每个患者的SCFA水平。基本的建模方法可以帮助临床实践找到饮食治疗，并通过合理地建议食物营养来指导恢复。人类肠道微生物群代谢的建模预测，含纤维的饮食可以改善克罗恩病（CD）的微生物代谢。通过将来自人类肠道样品的宏基因组数据整合到个性化代谢模型中，评估了肠道微生物的发酵谱以及CD患者和健康对照之间的差异。为了恢复健康和CD个体之间的发酵差异，将预测的有益代谢物添加到计算机模拟肠道群落模型中，可以改善CD患者的发酵特征。总之，这些结果可以帮助设计进一步的实验和临床研究，以帮助CD患者的饮食补充。
Crohn’s disease (CD) is associated with an ecological imbalance of the intestinal microbiota, consisting of hundreds of species. The underlying complexity as well as individual differences between patients contributes to the difficulty to define a standardized treatment. Computational modeling can systematically investigate metabolic interactions between gut microbes to unravel mechanistic insights. In this study, we integrated metagenomic data of CD patients and healthy controls with genome-scale metabolic models into personalized in silico microbiotas. We predicted short chain fatty acid (SFCA) levels for patients and controls, which were overall congruent with experimental findings. As an emergent property, low concentrations of SCFA were predicted for CD patients and the SCFA signatures were unique to each patient. Consequently, we suggest personalized dietary treatments that could improve each patient’s SCFA levels. The underlying modeling approach could aid clinical practice to find dietary treatment and guide recovery by rationally proposing food aliments. Modeling of the human gut microbiota metabolism predicts that fiber-containing diets can improve the microbe metabolism in Crohn’s disease (CD). By integrating metagenomic data from human gut samples into personalized metabolic models, the fermentation profile of gut microbes and the differences between CD patients and healthy controls were assessed. To revert the fermentation differences between healthy and CD individuals, predicted beneficial metabolites were added to the in silico gut community models, with which the fermentation profile of CD patients could be improved. Taken together, these results can assist in the design of further experimental and clinical studies to aid CD patients with dietary supplementation.
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影响因子：
29
作者：
Donohoe DR;Garge N;Zhang X;Sun W;O'Connell TM;Bunger MK;Bultman SJ
通讯作者：
Bultman SJ
影响因子：
64.8
作者：
Khor, Bernard;Gardet, Agnes;Xavier, Ramnik J.
通讯作者：
Xavier, Ramnik J.
DOI：
10.2174/1874091x01004010053
发表时间：
2010-05-13
期刊：
The open biochemistry journal
影响因子：
--
作者：
Huda-Faujan N;Abdulamir AS;Fatimah AB;Anas OM;Shuhaimi M;Yazid AM;Loong YY
通讯作者：
Loong YY
影响因子：
7.6
作者：
Di Sabatino, A;Morera, R;Corazza, GR
通讯作者：
Corazza, GR
影响因子：
3.6
作者：
通讯作者：
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