Gammaproteobacteria, a core taxon in the guts of soil fauna, are potential responders to environmental concentrations of soil pollutants

Abstract

Background The ubiquitous gut microbiotas acquired from the environment contribute to host health. The gut microbiotas of soil invertebrates are gradually assembled from the microecological region of the soil ecosystem which they inhabit, but little is known about their characteristics when the hosts are under environmental stress. The rapid development of high-throughput DNA sequencing in the last decade has provided unprecedented insights and opportunities to characterize the gut microbiotas of soil invertebrates. Here, we characterized the core, transient, and rare bacterial taxa in the guts of soil invertebrates using the core index (CI) and developed a new theory of global microbial diversity of soil ecological microregions. Results We found that the Gammaproteobacteria could respond indiscriminately to the exposure to environmental concentrations of soil pollutants and were closely associated with the physiology and function of the host. Meanwhile, machine-learning models based on metadata calculated that Gammaproteobacteria were the core bacteria with the highest colonization potential in the gut, and further identified that they were the best indicator taxon of the response to environmental concentrations of soil pollution. Gammaproteobacteria also closely correlated with the abundance of antibiotic resistance genes. Conclusions Our results determined that Gammaproteobacteria were an indicator taxon in the guts of the soil invertebrates that responded to environmental concentrations of soil pollutants, thus providing an effective theoretical basis for subsequent assessments of soil ecological risk. The results of the physiological and biochemical analyses of the host and the microbial-community functions, and the antibiotic resistance of Gammaproteobacteria, provide new insights for evaluating global soil ecological health.

Soil environment reshapes microbiota of laboratory-maintained Collembola during host development

“…The core microbiota, which is stable and abundant members of the bacterial community [ 5 , 16 , 56 ], of adult and juvenile A. kimi consisted of 13 OTUs belonging to Chryseobacterium , Pandoraea, Sphingomonas, Escherichia–Shigella, and Acinetobacter (at 0.1% relative abundance and 50% prevalence threshold) (Fig. 4 a).…”

Altering Microbiomes with Hydroxyapatite Nanoparticles: A Metagenomic Analysis

“…Other classes belonging to the Proteobacteria phylum, including Alphaproteobacteria and Betaproteobacteria, all decreased in prominence after the treatment with HAp. Gammaproteobacteria are a class that positively correlates with soil pollution and with the abundance of antibiotic-resistant genes in the microbial population [ 55 ]. It is also a category to which a greater number of pathogenic species causative of disease in humans belong as compared to other Proteobacteria classes, including the likes of Pseudomonas aureginosa , Escherichia coli , Francisella tularensis , Yersinia pestis , Salmonella enterica , Shigella dysenteriae , Legionella pneumophila , Coxiella burnetii , and Vibrio cholerae .…”

16S rRNA gene sequencing reveals altered composition of gut microbiota in postoperative individuals with renal stones

“…Gammaproteobacteria is closely correlated with the expression of antibiotic resistance genes and also directly associated with host locomotion and oxidative stress levels (24). Renal stones caused by Escherichia coli infection have been reported in numerous studies (25)(26)(27)(28), and E. coli is one of the most commonly identi ed organisms in stone cultures (29).…”