Microbiome Heterogeneity Characterizing Intestinal Tissue and Inflammatory Bowel Disease Phenotype.
Microbiome Heterogeneity Characterizing Intestinal Tissue and Inflammatory Bowel Disease Phenotype.
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DOI：
10.1097/mib.0000000000000674
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发表时间：
2016-04
影响因子：
4.9
通讯作者：
Silverberg MS
中科院分区：
文献类型：
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作者：
Tyler AD;Kirsch R;Milgrom R;Stempak JM;Kabakchiev B;Silverberg MS
与健康对照相比，IBD与许多生物体的差异丰度有关，然而很少有研究调查肠道位置微生物组的变异性，以及这种变异性如何与疾病位置和表型相关。在这项研究中，我们分析了在加拿大多伦多西奈山医院招募的一大批个体的微生物组。从患有克罗恩病（CD）、溃疡性结肠炎（UC）的受试者、以及健康对照（HC）、和已经经历回肠袋肛门吻合术（IPAA）以治疗UC或家族性腺瘤性息肉病（FAP）的个体获取活检。使用Illumina MiSeq平台对微生物16S rRNA进行测序。我们观察到微生物组在不同采样位置的特征方面存在很大的差异。来自囊袋和传入肢的样品在微生物组成方面具有可比性。当比较乙状结肠和TI样品时，观察到更多的差异。最大数量的差异丰富的微生物进行比较时，观察到无论是袋或传入肢体样本乙状结肠或TI。尽管存在这些差异，但我们能够观察到IBD表型和健康对照之间的适度微生物变异性，即使在控制采样位置和其他实验因素时也是如此。在健康对照和CD之间观察到大多数检测到的相关性，其中瘤胃球菌科和毛螺菌科中特定属的减少表征CD个体的组织样本。这项研究强调了分析微生物组组成时的重要考虑因素，并对表征这些看似相关的表型的微生物组差异提供了有用的见解。
IBD has been associated with differential abundance of numerous organisms when compared to healthy controls, however few studies have investigated variability in the microbiome across intestinal locations, and how this variability might be related to disease location and phenotype. In this study we have analyzed the microbiome of a large cohort of individuals recruited at Mount Sinai Hospital in Toronto, Canada. Biopsies were taken from subjects with Crohn's disease (CD) ulcerative colitis (UC), as well as healthy controls (HC), and individuals having undergone ileal pouch anal anastomosis (IPAA) for treatment of UC or familial adenomatous polyposis (FAP). Microbial 16S rRNA was sequenced using the Illumina MiSeq platform. We observed a great deal of variability in the microbiome characterizing different sampling locations. Samples from pouch and afferent limb were comparable in microbial composition. When comparing sigmoid and TI samples, more differences were observed. The greatest number of differentially abundant microbes was observed when comparing either pouch or afferent limb samples to sigmoid or TI. Despite these differences, we were able to observe modest microbial variability between IBD phenotypes and healthy controls, even when controlling for sampling location and additional experimental factors. The majority of detected associations were observed between healthy controls and CD, with decreases in specific genera in the families Ruminococcaceae and Lachnospiraceae characterizing tissue samples from individuals with CD. This study highlights important considerations when analyzing the composition of the microbiome, and also provides useful insight into differences in the microbiome characterizing these seemingly related phenotypes.