Department of Medicine, Shiga University of Medical Science, Seta-Tsukinowa, Otsu, Shiga, 520-2192, Japan.
Department of Applied Biological Science, Faculty of Agriculture, Setsunan University, Hirakata, Osaka, 573-0101, Japan.
J Gastroenterol. 2022 Aug;57(8):559-570. doi: 10.1007/s00535-022-01882-8. Epub 2022 Jun 11.
BACKGROUND/AIMS: The gut virome is mainly composed of bacteriophages and influences gut homeostasis and pathogenic conditions. In this study, we analyzed the gut prokaryotic virome in Japanese patients with Crohn's disease (CD).
MATERIALS/METHODS: We collected 19 fecal samples from CD patients and 16 samples from healthy controls. The gut bacteriome was analyzed by 16S rRNA gene sequencing and the virome was profiled by shotgun metagenomic sequencing.
Despite no differences in richness and evenness, there was a significant difference in the overall structure of the gut virome between CD patients and controls (P = 0.013). CrAssphage and Staphylococcus virus, belonging to the order Caudovirales, were dominant in the gut virome of controls and CD patients. The abundance of crAssphage was significantly greater in CD patients than controls (P = 0.021). Lactococcus, Enterococcus and Lactobacillus phages were present only in CD patients, while Xanthomonas and Escherichia phages were unique to the controls. In the gut bacteriome of CD patients, richness and evenness were significantly lower, and a significant difference in the overall structure was observed between groups (P = 0.014). The gut bacteriome of CD patients was characterized by a decrease of the genera Faecalibacterium, Roseburia, and Ruminococcus and an increase of the family Enterobacteriaceae. There were more significant correlations between viruses and bacteria in CD patients than controls.
The gut virome of CD patients was distinct from that of healthy controls in a Japanese population. An altered gut virome may be one of the factors associated with the bacterial dysbiosis of CD.
背景/目的：肠道病毒组主要由噬菌体组成，影响肠道内环境稳态和发病条件。本研究分析了日本克罗恩病（CD）患者的肠道原核病毒组。
材料/方法：收集 19 例 CD 患者和 16 例健康对照者的粪便样本。采用 16S rRNA 基因测序分析肠道细菌组，采用鸟枪法宏基因组测序分析病毒组。
尽管 CD 患者和对照组的丰富度和均匀度无差异，但肠道病毒组的整体结构存在显著差异（P = 0.013）。CrAssphage 和 Staphylococcus virus 属于尾噬菌体目，在对照组和 CD 患者的肠道病毒组中占主导地位。CD 患者中 crAssphage 的丰度显著高于对照组（P = 0.021）。Lactococcus、Enterococcus 和 Lactobacillus 噬菌体仅存在于 CD 患者中，而 Xanthomonas 和 Escherichia 噬菌体仅存在于对照组中。CD 患者的肠道细菌组丰富度和均匀度显著降低，组间整体结构存在显著差异（P = 0.014）。CD 患者的肠道细菌组特征为 Faecalibacterium、Roseburia 和 Ruminococcus 属减少，Enterobacteriaceae 家族增加。与对照组相比，CD 患者的病毒与细菌之间存在更多显著相关性。
日本人群中 CD 患者的肠道病毒组与健康对照组不同。肠道病毒组的改变可能是 CD 细菌失调的相关因素之一。
