Laboratory of Genomics and Molecular Medicine, Department of Biology, University of Copenhagen, Copenhagen, Denmark.
Center for Evolutionary Hologenomics, GLOBE institute, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, Denmark.
Commun Biol. 2021 May 14;4(1):579. doi: 10.1038/s42003-021-02105-1.
Salmonids are important sources of protein for a large proportion of the human population. Mycoplasma species are a major constituent of the gut microbiota of salmonids, often representing the majority of microbiota. Despite the frequent reported dominance of salmonid-related Mycoplasma species, little is known about the phylogenomic placement, functions and potential evolutionary relationships with their salmonid hosts. In this study, we utilise 2.9 billion metagenomic reads generated from 12 samples from three different salmonid host species to I) characterise and curate the first metagenome-assembled genomes (MAGs) of Mycoplasma dominating the intestines of three different salmonid species, II) establish the phylogeny of these salmonid candidate Mycoplasma species, III) perform a comprehensive pangenomic analysis of Mycoplasma, IV) decipher the putative functionalities of the salmonid MAGs and reveal specific functions expected to benefit the host. Our data provide a basis for future studies examining the composition and function of the salmonid microbiota.
鲑鱼是很大一部分人类的重要蛋白质来源。支原体是鲑鱼肠道微生物群的主要组成部分，通常代表了大多数微生物群。尽管经常报道鲑鱼相关支原体的优势，但对于它们在系统发育上的位置、功能以及与鲑鱼宿主的潜在进化关系知之甚少。在这项研究中，我们利用从三个不同鲑鱼宿主物种的 12 个样本中生成的 29 亿个宏基因组读数：I） 描述和整理主导三种不同鲑鱼肠道的支原体的第一个宏基因组组装基因组（MAGs）；II） 建立这些鲑鱼候选支原体物种的系统发育；III） 对支原体进行全面的泛基因组分析；IV） 解码鲑鱼 MAGs 的推测功能，并揭示预期对宿主有益的特定功能。我们的数据为未来研究鲑鱼微生物群的组成和功能提供了基础。
