Expressions of resistome is linked to the key functions and stability of active rumen microbiome

作者：Tao Ma, Rahat Zaheer, Tim A. McAllister, Wei Guo, Fuyong Li, Yan Tu, Qiyu Diao, Le Luo Guan · 发表于：Animal Microbiome · 年份：2022 · DOI：10.1186/s42523-022-00189-6 · 被引用次数：20 · 研究领域：Pharmaceutical and Antibiotic Environmental Impacts、Clostridium difficile and Clostridium perfringens research、Antibiotic Resistance in Bacteria

BACKGROUND: The resistome describes the array of antibiotic resistant genes (ARGs) present within a microbial community. Recent research has documented the resistome in the rumen of ruminants and revealed that the type and abundance of ARGs could be affected by diet and/or antibiotic treatment. However, most of these studies only assessed ARGs using metagenomics, and expression of the resistome and its biological function within the microbiome remains largely unexplored. RESULTS: We characterized the pools of ARGs (resistome) and their activities in the rumen of 48 beef cattle belonging to three breeds (Angus, Charolais, Kinsella composite hybrid), using shotgun metagenomics and metatranscriptomics. Sixty (including 20 plasmid-associated) ARGs were expressed which accounted for about 30% of the total number of ARGs (187) identified in metagenomic datasets, with tetW and mefA exhibiting the highest level of expression. In addition, the bacterial hosts of 17 expressed ARGs were identified. The active resistome was less diverse in Kinsella composite hybrid than Angus, however, expression of ARGs did not differ among breeds. Although not associated with feed efficiency, the total abundance of expressed ARGs was positively correlated with metabolic pathways and 'attenuation values' (a measurement of stability) of the active rumen microbiome, suggesting that ARGs expression influences the stability and functionality of the rumen microbiome. Moreover, Ruminococcus spp., Prevotella r...