期刊文献

Unveiling the Bovine Epimural Microbiota Composition and Putative Function 收藏

揭示牛外膜微生物群组成和推定功能

原文求助发布源

作者

Cátia Pacífico[ 1;[*]; Renée Maxine Petri[ 2]; Sara Ricci[ 1]; Elsayed Mickdam[ 3]; Stefanie Urimare Wetzels[ 4;5]; Viktoria Neubauer[ 4;5];Qendrim Zebeli[ 1]

作者单位

[1] Christian Doppler Laboratory for Innovative Gut Health Concepts of Livestock, Department for Farm Animals and Veterinary Public Health, Institute of Animal Nutrition and Functional Plant Compounds, University of Veterinary Medicine, 1210 Vienna, Austria [2] Sherbrooke Research and Development Centre, Agriculture and Agri-Food Canada, Sherbrooke, QC J1M1Z7, Canada [3] Nutrition and Clinical Nutrition Department, Faculty of Veterinary Medicine, South Valley University, Qena 83523, Egypt [4] Unit for Food Microbiology, Department for Farm Animals and Veterinary Public Health, Institute of Food Safety, Food Technology and Veterinary Public Health, University of Veterinary Medicine, 1210 Vienna, Austria [5] Austrian Competence Centre for Feed and Food Quality, Safety and Innovation FFoQSI GmbH, 3430 Tulln, Austria [*] Author to whom correspondence should be addressed. Academic Editor: Benoit St Pierre Microorganisms 2021, 9(2), 342; https://doi.org/10.3390/microorganisms9020342

关键词

rumen papillae; epimural microbiota; bovine rumen epithelium; core microbiota

关键词译文

瘤胃乳头;互联网微生物群;牛瘤胃上皮;核心微生物群

发布日期

2021-02-09

页码

342

DOI

10.3390/microorganisms9020342

来源信息

Microorganisms ISSN：2076-2607, 2021年, 9卷, 2期, 342页

摘要

Numerous studies have used the 16S rRNA gene target in an attempt to characterize the structure and composition of the epimural microbiota in cattle. However, comparisons between studies are challenging, as the results show large variations associated with experimental protocols and bioinformatics methodologies. Here, we present a meta-analysis of the rumen epimural microbiota from 11 publicly available amplicon studies to assess key technical and biological sources of variation between experiments. Using the QIIME2 pipeline, 332 rumen epithelial microbiota samples were analyzed to investigate community structure, composition, and functional potential. Despite having a significant impact on microbial abundance, country of origin, farm, hypervariable region, primer set, animal variability, and biopsy location did not obscure the identification of a core microbiota. The bacterial genera Campylobacter, Christensenellaceae R-7 group, Defluviitaleaceae UCG-011, Lachnospiraceae UCG-010, Ruminococcaceae NK4A214 group, Ruminococcaceae UCG-010, Ruminococcaceae UCG-014, Succiniclasticum, Desulfobulbus, and Comamonas spp. were found in nearly all epithelium samples (>90%). Predictive analysis (PICRUSt) was used to assess the potential functions of the epithelial microbiota. Regularized canonical correlation analysis identified several pathways associated with the biosynthesis of precursor metabolites in Campylobacter, Comamonas, Desulfobulbus, and Ruminococcaceae NK4A214, highlighting key metabolic functions of these microbes within the epithelium.

摘要译文

许多研究使用了16S rRNA基因靶标试图表征牛中互联网微生物群的结构和组成。然而，研究之间的比较是具有挑战性的，因为结果表明与实验方案和生物信息学方法相关的大变化。在这里，我们提出了来自11个公共扩增子研究的瘤胃外观微生物群的荟萃分析，以评估实验之间的关键技术和生物学来源。使用Qiime2管道，分析332个瘤胃上皮微生物群样品以研究群落结构，组成和功能潜力。尽管对微生物丰富的微生物丰富产生了重大影响，但原产地，农场，高变区域，底漆集，动物变异性和活检地点并未掩盖核心微生物群的鉴定。细菌属Campylobacter，Christensenellaceae r-7组，Defluviitaleaeeeae UCG-011，Lachnospireae UCG-010，喇叭杆菌Caceae NK4a214组，喇菇，喇叭杆菌菌Ucg-014，uccIccaceae，desurofobulbus和comamonas spp。在几乎所有上皮样品（> 90％）中被发现。预测分析（Picrust）用于评估上皮微生物群的潜在功能。正规的规范相关性分析确定了与弯曲杆菌，脱硫和喇叭杆菌和喇叭杆菌的前体代谢物生物合成相关的几种途径，突出了上皮内这些微生物的关键代谢功能。

Cátia Pacífico[ 1;[*]; Renée Maxine Petri[ 2]; Sara Ricci[ 1]; Elsayed Mickdam[ 3]; Stefanie Urimare Wetzels[ 4;5]; Viktoria Neubauer[ 4;5];Qendrim Zebeli[ 1]. Unveiling the Bovine Epimural Microbiota Composition and Putative Function[J]. Microorganisms, 2021,9(2): 342