Kobel Carl M, Leu Andy, Vera-Ponce de León Arturo, Øyås Ove, Lai Wanxin, Altshuler Ianina, Hagen Live H, Wollenberg Rasmus D, Søndergaard Mads T, Bakshani Cassie R, Willats William G T, Nicoll Laura, McIlroy Simon J, Hvidsten Torgeir R, Schmidt Oliver, Greening Chris, Tyson Gene W, Roehe Rainer, Aho Velma T E, Pope Phillip B
Faculty of Biosciences, Norwegian University of Life Sciences, 1432, Ås, Norway.
Centre for Microbiome Research, School of Biomedical Sciences, Queensland University of Technology (QUT), Translational Research Institute, Woolloongabba, QLD, Australia.
Nat Commun. 2025 Jul 7;16(1):6238. doi: 10.1038/s41467-025-61302-2.
While rapid progress has been made to characterize the bacterial and archaeal populations of the rumen microbiome, insight into how they interact with keystone protozoal species remains elusive. Here, we reveal two distinct system-wide rumen community types (RCT-A and RCT-B) that are not strongly associated with host phenotype nor genotype but instead linked to protozoal community patterns. We leveraged a series of multi-omic datasets to show that the dominant Epidinium spp. in animals with RCT-B employ a plethora of fiber-degrading enzymes that present enriched Prevotella spp. a favorable carbon landscape to forage upon. Conversely, animals with RCT-A, dominated by genera Isotricha and Entodinium, harbor a more even distribution of fiber, protein, and amino acid metabolizers, reflected by higher detection of metabolites from both protozoal and bacterial activity. Our results indicate that microbiome variation across key protozoal and bacterial populations is interlinked, which should act as an important consideration for future development of microbiome-based technologies.
虽然在表征瘤胃微生物群的细菌和古菌种群方面已取得快速进展，但对于它们如何与关键原生动物物种相互作用的了解仍然有限。在这里，我们揭示了两种不同的全系统瘤胃群落类型（RCT-A和RCT-B），它们与宿主表型或基因型没有强烈关联，而是与原生动物群落模式相关。我们利用一系列多组学数据集表明，RCT-B动物中的优势艾美球虫属利用大量纤维降解酶，为富集的普雷沃氏菌属提供了有利的碳源以供觅食。相反，以等毛虫属和内毛虫属为主的RCT-A动物，其纤维、蛋白质和氨基酸代谢物的分布更为均匀，这反映在原生动物和细菌活动产生的代谢物检测率更高。我们的结果表明，关键原生动物和细菌种群的微生物群变异是相互关联的，这应作为基于微生物群的技术未来发展的重要考虑因素。
