The profile of the soil microbiota in the Cerrado is influenced by land use

Souza, Lucas Conceição de; Procópio, Luciano

doi:10.1007/s00253-021-11377-w

Cited by 17 publications

(7 citation statements)

References 81 publications

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“…In terms of bacterial community composition, Proteobacteria was the most predominant phylum in all samples. The same was observed in other metagenomic studies on soil microbiomes from the Cerrado [ 51 , 52 , 53 , 54 ] and the Atlantic Forest [ 61 ]. In this study, as mentioned above, the phyla Proteobacteria, Actinobacteria, and Firmicutes were observed in all samples.…”

Section: Discussionsupporting

confidence: 85%

“…In studies carried out in similar environments, a predominance of the phyla represented by Proteobacteria, Actinobacteria, and Firmicutes has been observed, with approximately 80% of the total number of representatives representing the relative abundance of these three phyla [ 50 , 51 ]. Different studies have shown the occurrence of these same phyla in the Brazilian Cerrado [ 52 , 53 , 54 ].…”

Section: Discussionmentioning

confidence: 99%

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New Insights into the Effect of Fipronil on the Soil Bacterial Community

et al. 2022

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Fipronil is a broad-spectrum insecticide with remarkable efficacy that is widely used to control insect pests around the world. However, its extensive use has led to increasing soil and water contamination. This fact is of concern and makes it necessary to evaluate the risk of undesirable effects on non-target microorganisms, such as the microbial community in water and/or soil. Studies using the metagenomic approach to assess the effects of fipronil on soil microbial communities are scarce. In this context, the present study was conducted to identify microorganisms that can biodegrade fipronil and that could be of great environmental interest. For this purpose, the targeted metabarcoding approach was performed in soil microcosms under two environmental conditions: fipronil exposure and control (without fipronil). After a 35-day soil microcosm period, the 16S ribosomal RNA (rRNA) gene of all samples was sequenced using the ion torrent personal genome machine (PGM) platform. Our study showed the presence of Proteobacteria, Actinobacteria, and Firmicutes in all of the samples; however, the presence of fipronil in the soil samples resulted in a significant increase in the concentration of bacteria from these phyla. The statistical results indicate that some bacterial genera benefited from soil exposure to fipronil, as in the case of bacteria from the genus Thalassobacillus, while others were affected, as in the case of bacteria from the genus Streptomyces. Overall, the results of this study provide a potential contribution of fipronil-degrading bacteria.

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Section: Discussionsupporting

confidence: 85%

Section: Discussionmentioning

confidence: 99%

New Insights into the Effect of Fipronil on the Soil Bacterial Community

et al. 2022

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“…The clusterization of soils based on microbial composition on our analyses corroborated with the land use classification previously used, which might indicate that bacterial communities in soils are shaped and modified according to land use over the years, endorsing previous reports in the literature [37][38][39]. Vicinamibacter (Acidobacteriota) and Rhodoplanes (Pseudomonadota) genera were ubiquitous and abundant in all soils, likely due to their essential roles in carbon, nitrogen and sulfur cycling [40][41][42].…”

Section: Bacterial Community Structure and Dynamicssupporting

confidence: 88%

Metagenomic insights for antimicrobial resistance surveillance in soils with different land uses in Brazil

Ordine

Souza

Tamasco³

et al. 2022

Preprint

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Anthropization in terrestrial environments commonly leads to land use transformation, changing soil properties and their microbial communities. This, combined with the exacerbated use of antibiotics in human and animal health promotes the expansion of the soil resistome. Considering the urgent need for surveillance of antimicrobial resistance (AMR), we aimed to evaluate how different land practices (urban, farming and forest) can affect the soil resistome and the dynamics of their bacterial communities. We collected eight soil samples from different locations in the countryside of Sao Paulo (Brazil), assessed the community profiles based on 16S rRNA sequencing and analyzed the soil metagenomes based on shotgun sequencing. Our results highlight differences in the communities' structure and their dynamics which were correlated with land practices. Additionally, differences were observed in the abundance and diversity of antibiotic resistance genes (ARGs) and virulence factors (VFs) across studied soils, where a higher presence and homogeneity of vanRO, mtrA and rbpA genes were detected in livestock soils. We observed that Staphylococcus and Bacillus are positively correlated with each other and are markers for agricultural communities. Moreover, the abundance and diversity of ARGs and VFs observed in farming soils raises concerns regarding the potential spread of these genes in the environment. Together, our findings reinforce the importance and urgency of AMR surveillance in the environment, especially in soils undergoing deep land use transformations due to anthropic activity.

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“…For functional information, PfamScan (which is used to search a protein sequence against a library of Pfam hidden Markov models [HMMs]) and eggNOG mapper (which is used to search a protein sequence against the eggNOG public database) tools from OmicsBox were used in the default mode. Canonical correlation analysis was performed to graphically represent whether the plant traits correlated with the microbial community structures, using the Past 4.02 program according to de Souza and Procópio ( 82 ). Also, UniFrac-based weighted cluster analysis was calculated using the Past 4.02 program ( 83 ) in order to build a Coffea phylogenetic tree based on its microbiomes.…”

Section: Methodsmentioning

confidence: 99%