Dominance of Prevotella and low abundance of classical ruminal bacterial species in the bovine rumen revealed by relative quantification real-time PCR
Dominance of Prevotella and low abundance of classical ruminal bacterial species in the bovine rumen revealed by relative quantification real-time PCR
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DOI：
10.1007/s00253-006-0802-y
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发表时间：
2007-05-01
影响因子：
5
通讯作者：
Weimer, Paul J.
中科院分区：
文献类型：
--
作者：
Stevenson, David M.;Weimer, Paul J.
相对定量实时PCR被用来量化从两个泌乳奶牛，每个采样3小时后连续两天喂养瘤胃样品中的几种细菌。使用分类群特异性引物和真细菌结构域水平引物，将每个靶分类群的缺失计算为样品中总16S rRNA基因拷贝的分数。细菌种群显示出明显的优势普雷沃氏菌属的成员，其中包括42%至60%的样品中的细菌rRNA基因拷贝。然而，只有2%至4%的细菌rRNA基因拷贝由经典的瘤胃普雷沃氏菌属物种布氏普雷沃氏菌、瘤胃普雷沃氏菌和短普雷沃氏菌代表。归因于产琥珀酸纤维杆菌、产黄瘤胃球菌、反刍月形单胞菌和溶糊精琥珀酸弧菌的rRNA基因拷贝的比例通常各自在0.5%至1%的范围内。嗜淀粉瘤胃杆菌和反刍真杆菌的比例较低（0.1%至0.2%），而溶纤维丁酸弧菌、牛链球菌、白色瘤胃球菌和埃氏巨球酵母的丰度更低，各自包含< 0.03%的细菌rRNA基因拷贝。这些数据表明，最深入研究的瘤胃细菌物种的总丰度相对较低，并且大部分未培养的群体代表单个细菌属。
Relative quantification real-time PCR was used to quantify several bacterial species in ruminal samples from two lactating cows, each sampled 3 h after feeding on two successive days. Abundance of each target taxon was calculated as a fraction of the total 16S rRNA gene copies in the samples, using taxon-specific and eubacterial domain-level primers. Bacterial populations showed a clear predominance of members of the genus Prevotella, which comprised 42% to 60% of the bacterial rRNA gene copies in the samples. However, only 2% to 4% of the bacterial rRNA gene copies were represented by the classical ruminal Prevotella species Prevotella bryantii, Prevotella ruminicola and Prevotella brevis. The proportion of rRNA gene copies attributable to Fibrobacter succinogenes, Ruminococcus flavefaciens, Selenomonas ruminantium and Succinivibrio dextrinosolvens were each generally in the 0.5% to 1% range. Proportions for Ruminobacter amylophilus and Eubacterium ruminantium were lower (0.1% to 0.2%), while Butyrivibrio fibrisolvens, Streptococcus bovis, Ruminococcus albus and Megasphaera elsdenii were even less abundant, each comprising < 0.03% of the bacterial rRNA gene copies. The data suggest that the aggregate abundance of the most intensively studied ruminal bacterial species is relatively low and that a large fraction of the uncultured population represents a single bacterial genus.