Multi-omics analysis of antagonistic interactions among free-living Pseudonocardia from diverse ecosystems

IF 4.3 2区 生物学 Q2 MICROBIOLOGY
Jonathan Parra, Scott A. Jarmusch, Katherine R. Duncan
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Abstract

Actinomycetes are a phylogenetically diverse bacterial group which are widely distributed across terrestrial and aquatic ecosystems. Within this order, the genus Pseudonocardia and their specialised metabolites have been the focus of previous ecological studies due to their antagonistic interactions with other microorganisms and their mutualistic interactions with insects. However, the chemical ecology of free-living Pseudonocardia remains understudied. This study applies a multi-omics approach to investigate the chemical ecology of free-living actinomycetes from the genus Pseudonocardia. In a comparative genomics analysis, it was observed that the biosynthetic gene cluster family distribution was influenced mainly by phylogenetic distance rather than the geographic or ecological origin of strains. This finding was also observed in the mass spectrometry-based metabolomic profiles of nine Pseudonocardia species isolated from marine sediments and two terrestrial species. Antagonist interactions between these 11 species were examined, and matrix-assisted laser desorption/ionisation-mass spectrometry imaging was used to examine in situ chemical interactions between the Southern Ocean strains and their phylogenetically close relatives. Overall, it was demonstrated that phylogeny was the main predictor of antagonistic interactions among free-living Pseudonocardia. Moreover, two features at m/z 441.15 and m/z 332.20 were identified as metabolites related to these interspecies interactions.

Abstract Image

Abstract Image

对来自不同生态系统的自由生活假心皮虫之间拮抗相互作用的多组学分析。
放线菌是一个系统发育多样的细菌群,广泛分布于陆地和水生生态系统。在这一门类中,假心皮菌属及其特殊代谢物一直是以往生态学研究的重点,因为它们与其他微生物发生拮抗作用,并与昆虫发生互利作用。然而,对自由生活的假心皮虫的化学生态学研究仍然不足。本研究采用多组学方法研究了假丝酵母属自由生活放线菌的化学生态学。在比较基因组学分析中观察到,生物合成基因簇家族分布主要受系统发育距离的影响,而不是菌株的地理或生态起源。从海洋沉积物中分离出的 9 种假卡氏菌和 2 种陆生菌的质谱代谢组图谱中也观察到了这一发现。研究人员考察了这 11 个物种之间的拮抗剂相互作用,并利用基质辅助激光解吸/电离质谱成像技术考察了南大洋菌株与其系统发育近亲之间的原位化学相互作用。总之,研究结果表明,系统发育是预测自由生活的假心皮虫之间拮抗作用的主要因素。此外,m/z 441.15 和 m/z 332.20 这两个特征被确定为与这些种间相互作用有关的代谢物。
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来源期刊
Environmental microbiology
Environmental microbiology 环境科学-微生物学
CiteScore
9.90
自引率
3.90%
发文量
427
审稿时长
2.3 months
期刊介绍: Environmental Microbiology provides a high profile vehicle for publication of the most innovative, original and rigorous research in the field. The scope of the Journal encompasses the diversity of current research on microbial processes in the environment, microbial communities, interactions and evolution and includes, but is not limited to, the following: the structure, activities and communal behaviour of microbial communities microbial community genetics and evolutionary processes microbial symbioses, microbial interactions and interactions with plants, animals and abiotic factors microbes in the tree of life, microbial diversification and evolution population biology and clonal structure microbial metabolic and structural diversity microbial physiology, growth and survival microbes and surfaces, adhesion and biofouling responses to environmental signals and stress factors modelling and theory development pollution microbiology extremophiles and life in extreme and unusual little-explored habitats element cycles and biogeochemical processes, primary and secondary production microbes in a changing world, microbially-influenced global changes evolution and diversity of archaeal and bacterial viruses new technological developments in microbial ecology and evolution, in particular for the study of activities of microbial communities, non-culturable microorganisms and emerging pathogens
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