Gina Vecere, Shachar Malka, Nicole Sands, Margaret Lee, Janina A Krumbeck
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ITS-2 stands for internal transcribed spacer 2, a region of DNA in fungi that is used to identify and classify species.</p><p><strong>Results: </strong>In healthy rabbit feces, Bacteroidales sp, Odoribacter sp, Paraprevotella xylaniphila, Lachnospiraceae sp, Papillibacter sp, Akkermansia sp, and Ruminococcus sp were noted to be more prevalent. Comparatively, Lachnoclostridium sp, Anaerotruncus sp, Subdoligranulum sp, and B uniformis were found in greater abundance in rabbits with GI disease. Only 1 fungal species, Malassezia restricta, was significantly enriched in the GI disease group.</p><p><strong>Conclusions: </strong>Next-generation DNA sequencing technology can be used to evaluate the microbiome of the rabbit GI tract through fecal material and can provide a clinically accessible testing method for veterinarians.</p><p><strong>Clinical relevance: </strong>Numerous bacteria and fungi in the fecal samples of healthy rabbits were identified that could be considered markers of gastrointestinal health; similarly, specific bacteria and fungi were noted in greater abundance in rabbits with GI disease, which should be further investigated for their importance in causing, contributing to, or as the result of clinical disease. These findings support the use of next-generation DNA sequencing in order to diversify our understanding of the microbiome of rabbit feces, aid in clinical diagnosis, and provide support for the need for more specific probiotic supplements for rabbits.</p>","PeriodicalId":7754,"journal":{"name":"American journal of veterinary research","volume":" ","pages":"1-8"},"PeriodicalIF":1.3000,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":"{\"title\":\"Assessment of the fecal microbiome of healthy rabbits (Oryctolagus cuniculus domesticus) compared with rabbits with gastrointestinal disease using next-generation DNA sequencing.\",\"authors\":\"Gina Vecere, Shachar Malka, Nicole Sands, Margaret Lee, Janina A Krumbeck\",\"doi\":\"10.2460/ajvr.24.07.0193\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<p><strong>Objective: </strong>To determine the normal fecal microbiome of healthy rabbits in comparison to rabbits with gastrointestinal (GI) disease. Next-generation DNA sequencing was used to identify the primary bacteria and fungi in the microbiome.</p><p><strong>Methods: </strong>Fecal pellets from 25 clinically healthy rabbits and 25 rabbits experiencing GI disease were collected. Next-generation DNA sequencing was performed targeting the ITS-2 region for mycobiome, and the V1-V3 region of the 16S rRNA for bacteriome analysis. ITS-2 stands for internal transcribed spacer 2, a region of DNA in fungi that is used to identify and classify species.</p><p><strong>Results: </strong>In healthy rabbit feces, Bacteroidales sp, Odoribacter sp, Paraprevotella xylaniphila, Lachnospiraceae sp, Papillibacter sp, Akkermansia sp, and Ruminococcus sp were noted to be more prevalent. Comparatively, Lachnoclostridium sp, Anaerotruncus sp, Subdoligranulum sp, and B uniformis were found in greater abundance in rabbits with GI disease. Only 1 fungal species, Malassezia restricta, was significantly enriched in the GI disease group.</p><p><strong>Conclusions: </strong>Next-generation DNA sequencing technology can be used to evaluate the microbiome of the rabbit GI tract through fecal material and can provide a clinically accessible testing method for veterinarians.</p><p><strong>Clinical relevance: </strong>Numerous bacteria and fungi in the fecal samples of healthy rabbits were identified that could be considered markers of gastrointestinal health; similarly, specific bacteria and fungi were noted in greater abundance in rabbits with GI disease, which should be further investigated for their importance in causing, contributing to, or as the result of clinical disease. 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引用次数: 0
摘要
目的确定健康兔子与患有胃肠道疾病的兔子的正常粪便微生物组。采用下一代 DNA 测序鉴定微生物组中的主要细菌和真菌：方法：收集 25 只临床健康兔子和 25 只患消化道疾病兔子的粪便颗粒。针对真菌生物群的 ITS-2 区域和细菌群分析的 16S rRNA V1-V3 区域进行了新一代 DNA 测序。ITS-2代表内部转录间隔区2，是真菌DNA的一个区域，用于识别和分类物种：结果：在健康家兔的粪便中，类杆菌属（Bacteroidales sp）、臭杆菌属（Odoribacter sp）、木质副杆菌属（Paraprevotella xylaniphila）、漆黑杆菌属（Lachnospiraceae sp）、乳杆菌属（Papillibacter sp）、Akkermansia sp和反刍球菌属（Ruminococcus sp）的数量较多。相比之下，在患有消化道疾病的家兔中，Lachnoclostridium sp、Anaerotruncus sp、Subdoligranulum sp 和 B uniformis 的数量较多。只有一种真菌，即限制马拉色菌，在消化道疾病组中明显增多：结论：下一代 DNA 测序技术可用于通过粪便材料评估家兔消化道微生物组，并可为兽医提供一种临床可用的检测方法：在健康兔子的粪便样本中发现了许多细菌和真菌，这些细菌和真菌可被视为胃肠道健康的标志物；同样，在患有胃肠道疾病的兔子体内发现了更多的特定细菌和真菌，应进一步研究这些细菌和真菌在引起、促成或导致临床疾病方面的重要性。这些研究结果支持使用下一代 DNA 测序技术，以丰富我们对兔子粪便微生物组的了解，帮助临床诊断，并支持为兔子提供更具针对性的益生菌补充剂。
Assessment of the fecal microbiome of healthy rabbits (Oryctolagus cuniculus domesticus) compared with rabbits with gastrointestinal disease using next-generation DNA sequencing.
Objective: To determine the normal fecal microbiome of healthy rabbits in comparison to rabbits with gastrointestinal (GI) disease. Next-generation DNA sequencing was used to identify the primary bacteria and fungi in the microbiome.
Methods: Fecal pellets from 25 clinically healthy rabbits and 25 rabbits experiencing GI disease were collected. Next-generation DNA sequencing was performed targeting the ITS-2 region for mycobiome, and the V1-V3 region of the 16S rRNA for bacteriome analysis. ITS-2 stands for internal transcribed spacer 2, a region of DNA in fungi that is used to identify and classify species.
Results: In healthy rabbit feces, Bacteroidales sp, Odoribacter sp, Paraprevotella xylaniphila, Lachnospiraceae sp, Papillibacter sp, Akkermansia sp, and Ruminococcus sp were noted to be more prevalent. Comparatively, Lachnoclostridium sp, Anaerotruncus sp, Subdoligranulum sp, and B uniformis were found in greater abundance in rabbits with GI disease. Only 1 fungal species, Malassezia restricta, was significantly enriched in the GI disease group.
Conclusions: Next-generation DNA sequencing technology can be used to evaluate the microbiome of the rabbit GI tract through fecal material and can provide a clinically accessible testing method for veterinarians.
Clinical relevance: Numerous bacteria and fungi in the fecal samples of healthy rabbits were identified that could be considered markers of gastrointestinal health; similarly, specific bacteria and fungi were noted in greater abundance in rabbits with GI disease, which should be further investigated for their importance in causing, contributing to, or as the result of clinical disease. These findings support the use of next-generation DNA sequencing in order to diversify our understanding of the microbiome of rabbit feces, aid in clinical diagnosis, and provide support for the need for more specific probiotic supplements for rabbits.
期刊介绍：
The American Journal of Veterinary Research supports the collaborative exchange of information between researchers and clinicians by publishing novel research findings that bridge the gulf between basic research and clinical practice or that help to translate laboratory research and preclinical studies to the development of clinical trials and clinical practice. The journal welcomes submission of high-quality original studies and review articles in a wide range of scientific fields, including anatomy, anesthesiology, animal welfare, behavior, epidemiology, genetics, heredity, infectious disease, molecular biology, oncology, pharmacology, pathogenic mechanisms, physiology, surgery, theriogenology, toxicology, and vaccinology. Species of interest include production animals, companion animals, equids, exotic animals, birds, reptiles, and wild and marine animals. Reports of laboratory animal studies and studies involving the use of animals as experimental models of human diseases are considered only when the study results are of demonstrable benefit to the species used in the research or to another species of veterinary interest. Other fields of interest or animals species are not necessarily excluded from consideration, but such reports must focus on novel research findings. Submitted papers must make an original and substantial contribution to the veterinary medicine knowledge base; preliminary studies are not appropriate.
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