Department of Gastroenterology, Graduate School of Medical Sciences, Kanazawa University, Kanazawa, Ishikawa, 920-8641, Japan.
Department of Bacteriology, Graduate School of Medicinal Sciences, Kanazawa University, Kanazawa, Ishikawa, Japan.
Genome Biol. 2019 Nov 25;20(1):252. doi: 10.1186/s13059-019-1879-9.
Recent metagenomic analyses have revealed dysbiosis of the gut microbiota of ulcerative colitis (UC) patients. However, the impacts of this dysbiosis are not fully understood, particularly at the strain level.
We perform whole-genome shotgun sequencing of fecal DNA extracts from 13 healthy donors and 16 UC and 8 Crohn's disease (CD) patients. The microbiota of UC and CD patients is taxonomically and functionally divergent from that of healthy donors, with E. faecium being the most differentially abundant species between the two microbial communities. Transplantation of feces from UC or CD patients into Il10 mice promotes pathological inflammation and cytokine expression in the mouse colon, although distinct cytokine expression profiles are observed between UC and CD. Unlike isolates derived from healthy donors, E. faecium isolates from the feces of UC patients, along with E. faecium strain ATCC 19434, promotes colitis and colonic cytokine expression. Inflammatory E. faecium strains, including ATCC 19434 and a UC-derived strain, cluster separately from commercially available probiotic strains based on whole-genome shotgun sequencing analysis. The presence of E. faecium in fecal samples is associated with large disease extent and the need for multiple medications in UC patients.
E. faecium strains derived from UC patients display an inflammatory genotype that causes colitis.
最近的宏基因组分析揭示了溃疡性结肠炎（UC）患者肠道微生物群落的失调。然而，这种失调的影响尚不完全清楚，尤其是在菌株水平上。
我们对 13 名健康供体和 16 名 UC 患者和 8 名克罗恩病（CD）患者的粪便 DNA 提取物进行了全基因组鸟枪法测序。UC 和 CD 患者的微生物群落在分类学和功能上与健康供体不同，其中屎肠球菌是两种微生物群落之间差异最丰富的物种。将 UC 或 CD 患者的粪便移植到 Il10 小鼠中，会促进小鼠结肠的病理性炎症和细胞因子表达，但 UC 和 CD 之间观察到不同的细胞因子表达谱。与来自健康供体的分离株不同，来自 UC 患者粪便的屎肠球菌分离株以及屎肠球菌 ATCC 19434 株，可促进结肠炎和结肠细胞因子表达。包括 ATCC 19434 和 UC 衍生株在内的炎性屎肠球菌菌株，根据全基因组鸟枪法测序分析，与市售益生菌株聚类分开。粪便中屎肠球菌的存在与 UC 患者的疾病严重程度大以及需要多种药物治疗有关。
来自 UC 患者的屎肠球菌菌株显示出一种引起结肠炎的炎症基因型。
