The intestinal microbiota is believed to play a role in the pathogenesis of inflammatory bowel disease in humans and chronic inflammatory enteropathy (CIE) in dogs. While most previous studies have described the gut microbiota using sequencing methods, it is fundamental to assess the spatial distribution of the bacteria for a better understanding of their relationship with the host. The microbiota in the colonic mucosa of 22 dogs with CIE and 11 control dogs was investigated using fluorescence in situ hybridization (FISH) with a universal eubacterial probe (EUB338) and specific probes for select bacterial groups. The number of total bacteria labeled with EUB338 probe was lower within the colonic crypts of dogs with CIE compared to controls. Helicobacter spp. and Akkermansia spp. were decreased on the colonic surface and in the crypts of dogs with CIE. Dogs with CIE had increased number of Escherichia coli/Shigella spp. on the colonic surface and within the crypts compared to control dogs. In conclusion, the bacterial microbiota in the colonic mucosa differed between dogs with and without CIE, with depletion of the crypt bacteria in dogs with CIE. The crypt bacterial species that was intimately associated with the host mucosa in control dogs was composed mainly of Helicobacter spp.

中文翻译：

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慢性炎症性肠病犬结肠的细菌生物地理学。

据信肠道微生物群在人的炎症性肠病和狗的慢性炎症性肠病（CIE）的发病机理中起作用。尽管大多数先前的研究已经使用测序方法描述了肠道菌群，但是评估细菌的空间分布以更好地了解其与宿主的关系是至关重要的。使用荧光原位杂交（FISH），通用的真细菌探针（EUB338）和针对特定细菌群的特异性探针，对22只CIE犬和11只对照犬的结肠黏膜中的微生物群进行了研究。与对照组相比，带有CIE的狗的结肠隐窝内用EUB338探针标记的总细菌数较少。幽门螺杆菌 和Akkermansia spp。在患有CIE的狗的结肠表面和隐窝中，它们的含量降低。患有CIE的狗的大肠杆菌/志贺氏菌数量有所增加。与对照犬相比，在结肠表面和隐窝内 总之，在有和没有CIE的狗之间，结肠黏膜中的细菌菌群是不同的，而在CIE的狗中，隐窝细菌被消耗掉了。与对照犬的宿主粘膜密切相关的隐窝细菌种类主要由幽门螺杆菌组成。