Metatranscriptomic Profiling Reveals Linkages between the Active Rumen Microbiome and Feed Efficiency in Beef Cattle
Metatranscriptomic Profiling Reveals Linkages between the Active Rumen Microbiome and Feed Efficiency in Beef Cattle
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DOI：
10.1128/aem.00061-17
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发表时间：
2017-05-01
影响因子：
4.4
通讯作者：
Guan, Le Luo
中科院分区：
文献类型：
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作者：
Li, Fuyong;Guan, Le Luo
探索瘤胃微生物组的组成和功能特征，有助于进一步了解其在瘤胃功能和牛饲料效率中的作用。在本研究中，我们利用总RNA测序技术，应用亚转录组学技术对不同饲料效率（高效，n = 10；低效，n = 10）的肉牛瘤胃活性微生物组进行了表征。根据16S rrna估计活性细菌和古细菌的组成，根据来自相同的亚转录组学数据集的mrna评估活性微生物的代谢功能，包括碳水化合物活性酶（CAZymes）。总共有6个细菌门（变形菌门、厚壁菌门、拟杆菌门、螺旋藻门、蓝藻门和协同菌门），8个细菌科（丁弧菌科、Prevotellaceae、Ruminococcaceae、Lachno-spiraceae、Veillonellaceae、Spirochaetaceae、Dethiosulfovibrionaceae和Mogibacteriaceae）， 4个古细菌分支（Methanomassiliicoccales、Methanobrevibacter ruminantium、Methanobrevibacter gottschalkii和Methanosphaera）， 112个代谢途径，126种CAZymes被鉴定为活性瘤胃微生物组的核心成分。对比分析发现，低饲料效率（低效）动物中有3个细菌科（Lachnospiraceae）、乳酸杆菌科（Lactobacillaceae）和绒毛菌科（Veillonellaceae）较多（P < 0.10），高饲料效率（高效）牛中有1个古细菌分类群（Methanomassiliicoccales）较多（P < 0.10）。同时，32种微生物代谢途径和12种cazyme存在差异丰度(>2线性判别分析评分P值为
Exploring compositional and functional characteristics of the rumen mi-crobiome can improve the understanding of its role in rumen function and cattle feed efficiency. In this study, we applied metatranscriptomics to characterize the active rumen microbiomes of beef cattle with different feed efficiencies (efficient, n = 10; inefficient, n = 10) using total RNA sequencing. Active bacterial and archaeal compositions were estimated based on 16S rRNAs, and active microbial metabolic functions including carbohydrate-active enzymes (CAZymes) were assessed based on mRNAs from the same metatranscriptomic data sets. In total, six bacterial phyla (Proteobacteria, Firmicutes, Bacteroidetes, Spirochaetes, Cyanobacteria, and Synergistetes), eight bacterial families (Succinivibrionaceae, Prevotellaceae, Ruminococcaceae, Lachno-spiraceae, Veillonellaceae, Spirochaetaceae, Dethiosulfovibrionaceae, and Mogibacteriaceae), four archaeal clades (Methanomassiliicoccales, Methanobrevibacter ruminantium, Methanobrevibacter gottschalkii, and Methanosphaera), 112 metabolic pathways, and 126 CAZymes were identified as core components of the active rumen microbiome. As determined by comparative analysis, three bacterial families (Lachnospiraceae, Lactobacillaceae, and Veillonellaceae) tended to be more abundant in low-feed-efficiency (inefficient) animals (P < 0.10), and one archaeal taxon (Methanomassiliicoccales) tended to be more abundant in high-feed-efficiency (efficient) cattle (P < 0.10). Meanwhile, 32 microbial metabolic pathways and 12 CAZymes were differentially abundant (linear discriminant analysis score of >2 with a P value of