Phylogenetic and gene-centric metagenomics of the canine intestinal microbiome reveals similarities with humans and mice.
Phylogenetic and gene-centric metagenomics of the canine intestinal microbiome reveals similarities with humans and mice.
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DOI：
10.1038/ismej.2010.162
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发表时间：
2011-04
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影响因子：
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中科院分区：
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这项研究首次使用宏基因组学方法来表征犬胃肠道微生物组的系统发育和功能能力。六只健康的成年狗采用交叉设计，喂食低纤维对照饮食 (K9C) 或含有 7.5% 甜菜浆的饮食 (K9BP)。对每次处理的粪便 DNA 样本进行 454 次焦磷酸测序，生成 503 280 (K9C) 和 505 061 (K9BP) 序列。主要细菌门包括拟杆菌门/绿菌门和厚壁菌门，两者均占所有序列的~35%，其次是变形菌门（13-15%）和梭杆菌门（7-8%）。 K9C 含有较多的拟杆菌门、梭杆菌门和变形菌门，而 K9BP 含有较多的拟杆菌门/绿菌门和厚壁菌门。古细菌不因饮食而改变，占所有序列的~1%。所有古菌都是泉古菌门和广古菌门的成员，其中产甲烷菌最为丰富和多样。 K9C 中存在三种真菌系统型，但 K9BP 中没有。不到 0.4% 的序列源自病毒，其中 >99% 与噬菌体相关。主要功能类别不受饮食的显着影响，并且与碳水化合物相关；蛋白质代谢； DNA代谢；辅助因子、维生素、辅基和色素；氨基酸及其衍生物；细胞壁和荚膜；和毒力。几种胃肠道宏基因组的层次聚类证明了狗、人类和小鼠之间的系统发育和代谢相似性。需要更多的研究来更深入地了解犬类微生物组，评估年龄、遗传或环境对其组成和活性的影响，并确定其在胃肠道疾病中的作用。
This study is the first to use a metagenomics approach to characterize the phylogeny and functional capacity of the canine gastrointestinal microbiome. Six healthy adult dogs were used in a crossover design and fed a low-fiber control diet (K9C) or one containing 7.5% beet pulp (K9BP). Pooled fecal DNA samples from each treatment were subjected to 454 pyrosequencing, generating 503 280 (K9C) and 505 061 (K9BP) sequences. Dominant bacterial phyla included the Bacteroidetes/Chlorobi group and Firmicutes, both of which comprised ∼35% of all sequences, followed by Proteobacteria (13–15%) and Fusobacteria (7–8%). K9C had a greater percentage of Bacteroidetes, Fusobacteria and Proteobacteria, whereas K9BP had greater proportions of the Bacteroidetes/Chlorobi group and Firmicutes. Archaea were not altered by diet and represented ∼1% of all sequences. All archaea were members of Crenarchaeota and Euryarchaeota, with methanogens being the most abundant and diverse. Three fungi phylotypes were present in K9C, but none in K9BP. Less than 0.4% of sequences were of viral origin, with >99% of them associated with bacteriophages. Primary functional categories were not significantly affected by diet and were associated with carbohydrates; protein metabolism; DNA metabolism; cofactors, vitamins, prosthetic groups and pigments; amino acids and derivatives; cell wall and capsule; and virulence. Hierarchical clustering of several gastrointestinal metagenomes demonstrated phylogenetic and metabolic similarity between dogs, humans and mice. More research is required to provide deeper coverage of the canine microbiome, evaluate effects of age, genetics or environment on its composition and activity, and identify its role in gastrointestinal disease.
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影响因子：
4.2
作者：
Li, Fei;Hullar, Meredith A. J.;Lampe, Johanna W.
通讯作者：
Lampe, Johanna W.
影响因子：
56.9
作者：
Gill, Steven R.;Pop, Mihai;Nelson, Karen E.
通讯作者：
Nelson, Karen E.
DOI：
10.1073/pnas.0504978102
发表时间：
2005-08-02
影响因子：
11.1
作者：
Ley, RE;Bäckhed, F;Gordon, JI
通讯作者：
Gordon, JI
DOI：
10.1073/pnas.0806191105
发表时间：
2009-02-10
影响因子：
11.1
作者：
Brulc, Jennifer M.;Antonopoulos, Dionysios A.;White, Bryan A.
通讯作者：
White, Bryan A.
影响因子：
1.9
作者：
Ott, Stephan J.;Kuehbacher, Tanja;Schreiber, Stefan
通讯作者：
Schreiber, Stefan