scholarly journals Seasonal dynamics alters taxonomical and functional microbial profiles in Pampa biome soils under natural grasslands

2018 ◽  
Author(s):  
Anthony Barboza ◽  
Victor S Pylro ◽  
Rodrigo Jacques ◽  
Paulo Gubiani ◽  
Júlio Trindade ◽  
...  
Keyword(s):  
Microbial Communities ◽  
Seasonal Variations ◽  
Soil Microbial Communities ◽  
Soil Microbial ◽  
Pampa Biome ◽  
Natural Grasslands ◽  
Microbial Groups ◽  
Composition Changes ◽  
New Strategies ◽  
Selection Of

Soil microbial communities’ assembly is strongly tied to changes in temperature and moisture. Although microbial functional redundancy seems to overcome taxonomical composition changes, the sensitivity and resilience of soil microbial communities from subtropical regions in response to seasonal variations are still poorly understood. Thus, the development of new strategies for biodiversity conservation and sustainable management require a complete understanding of the soil abiotic process involved in the selection of microbial taxa and functions. In this work, we used state of the art molecular methodologies (Next Generation Sequencing) to compare the taxonomic (metataxonomics) and functional (metatranscriptomics) profiles among soil samples from two subtropical natural grasslands located in the Pampa biome, Brazil, in response to short-term seasonal variations. We found consistent effects of season on both microbial community structure and functions, but with the former being more influenced than the latter. These variations were more related to the oscillation in the relative abundances of specific taxa along seasons, rather than extinction and recolonization of taxa along seasons. In conclusion, the most abundant microbial groups and functions were shared between seasons and locations reflecting the existence of a stable taxonomical and functional core microbiota.

scholarly journals Seasonal dynamics alters taxonomical and functional microbial profiles in Pampa biome soils under natural grasslands

2018 ◽  
Author(s):  
Anthony Barboza ◽  
Victor S Pylro ◽  
Rodrigo Jacques ◽  
Paulo Gubiani ◽  
Júlio Trindade ◽  
...  
Keyword(s):  
Microbial Communities ◽  
Seasonal Variations ◽  
Soil Microbial Communities ◽  
Soil Microbial ◽  
Pampa Biome ◽  
Natural Grasslands ◽  
Microbial Groups ◽  
Composition Changes ◽  
New Strategies ◽  
Selection Of

Soil microbial communities’ assembly is strongly tied to changes in temperature and moisture. Although microbial functional redundancy seems to overcome taxonomical composition changes, the sensitivity and resilience of soil microbial communities from subtropical regions in response to seasonal variations are still poorly understood. Thus, the development of new strategies for biodiversity conservation and sustainable management require a complete understanding of the soil abiotic process involved in the selection of microbial taxa and functions. In this work, we used state of the art molecular methodologies (Next Generation Sequencing) to compare the taxonomic (metataxonomics) and functional (metatranscriptomics) profiles among soil samples from two subtropical natural grasslands located in the Pampa biome, Brazil, in response to short-term seasonal variations. We found consistent effects of season on both microbial community structure and functions, but with the former being more influenced than the latter. These variations were more related to the oscillation in the relative abundances of specific taxa along seasons, rather than extinction and recolonization of taxa along seasons. In conclusion, the most abundant microbial groups and functions were shared between seasons and locations reflecting the existence of a stable taxonomical and functional core microbiota.

scholarly journals Seasonal dynamics alter taxonomical and functional microbial profiles in Pampa biome soils under natural grasslands

PeerJ ◽  
2018 ◽  
Vol 6 ◽  
pp. e4991 ◽  
Author(s):  
Anthony Diego Muller Barboza ◽  
Victor Satler Pylro ◽  
Rodrigo Josemar Seminot Jacques ◽  
Paulo Ivonir Gubiani ◽  
Fernando Luiz Ferreira de Quadros ◽  
...  
Keyword(s):  
Microbial Communities ◽  
Seasonal Variations ◽  
Soil Microbial Communities ◽  
Community Membership ◽  
Soil Microbial ◽  
Pampa Biome ◽  
Natural Grasslands ◽  
Microbial Groups ◽  
Climatic Disturbances ◽  
Composition Changes

Soil microbial communities’ assembly is strongly tied to changes in temperature and moisture. Although microbial functional redundancy seems to overcome taxonomical composition changes, the sensitivity and resilience of soil microbial communities from subtropical regions in response to seasonal variations are still poorly understood. Thus, the development of new strategies for biodiversity conservation and sustainable management require a complete understanding of the soil abiotic process involved in the selection of microbial taxa and functions. In this work, we used state of the art molecular methodologies (Next Generation Sequencing) to compare the taxonomic (metataxonomics) and functional (metatranscriptomics) profiles among soil samples from two subtropical natural grasslands located in the Pampa biome, Brazil, in response to short-term seasonal variations. Our data suggest that grasslands maintained a stable microbial community membership along the year with oscillation in abundance. Apparently soil microbial taxa are more susceptible to natural climatic disturbances while functions are more stable and change with less intensity along the year. Finally, our data allow us to conclude that the most abundant microbial groups and functions were shared between seasons and locations reflecting the existence of a stable taxonomical and functional core microbiota.

scholarly journals Soil Microbial Activity and Diversity in Response to Soil Chemical Factors in Agricultural Soils

2019 ◽  
Vol 24 (1) ◽  
pp. 43
Author(s):  
Lily Ishak ◽  
Philip Hugh Brown
Keyword(s):  
Microbial Communities ◽  
Agricultural Soils ◽  
Soil Health ◽  
Soil Microbial Communities ◽  
Soil Microbial Activity ◽  
Soil Microbial Diversity ◽  
Soil Microbial ◽  
Microbial Responses ◽  
Chemical Factors ◽  
Microbial Groups

The role of microbial communities in maintaining soil health is mostly influenced by chemical condition of soil. Microbial communities vary in response to soil chemical factors. The contradictive results from previous findings emphasise that it is difficult to define a pattern of the influence of soil chemical factors on soil microbial diversity and activity. The aim of the study was to assess soil microbial responses to soil chemical factors in agricultural soils. Composite soil (Dermosol order) samples taken from 16 commercial crop sites in Bundaberg, Queensland, Australia, were chemically and biologically analysed. It was found that bacterial and fungal activity and diversity were significantly affected by soil EC, SOM and NO3-N content, but were not influenced by soil pH, CEC, and Ca:Mg ratio. The diversity of bacterial and fungal communities displayed a positive linear relationship with soil EC, whereas the activity and diversity of these two microbial groups and SOM displayed a significant quadratic relationship. The finding suggested that microbial community was predominantly influenced by SOM content.

scholarly journals Patterns of local, intercontinental and interseasonal variation of soil bacterial and eukaryotic microbial communities

2020 ◽  
Vol 96 (3) ◽  
Author(s):  
Johan De Gruyter ◽  
James T Weedon ◽  
Stéphane Bazot ◽  
Steven Dauwe ◽  
Pere-Roc Fernandez-Garberí ◽  
...  
Keyword(s):  
Temporal Variation ◽  
Microbial Communities ◽  
Community Composition ◽  
Temporal Dynamics ◽  
Soil Microbial Communities ◽  
Soil Microbiome ◽  
Ongoing Research ◽  
Soil Microbial ◽  
Spatio Temporal ◽  
Microbial Groups

ABSTRACT Although ongoing research has revealed some of the main drivers behind global spatial patterns of microbial communities, spatio-temporal dynamics of these communities still remain largely unexplored. Here, we investigate spatio-temporal variability of both bacterial and eukaryotic soil microbial communities at local and intercontinental scales. We compare how temporal variation in community composition scales with spatial variation in community composition, and explore the extent to which bacteria, protists, fungi and metazoa have similar patterns of temporal community dynamics. All soil microbial groups displayed a strong correlation between spatial distance and community dissimilarity, which was related to the ratio of organism to sample size. Temporal changes were variable, ranging from equal to local between-sample variation, to as large as that between communities several thousand kilometers apart. Moreover, significant correlations were found between bacterial and protist communities, as well as between protist and fungal communities, indicating that these microbial groups change in tandem, potentially driven by interactions between them. We conclude that temporal variation can be considerable in soil microbial communities, and that future studies need to consider temporal variation in order to reliably capture all drivers of soil microbiome changes.

scholarly journals Successive DNA extractions improve characterization of soil microbial communities

PeerJ ◽  
2017 ◽  
Vol 5 ◽  
pp. e2915 ◽  
Author(s):  
Mauricio R. Dimitrov ◽  
Annelies J. Veraart ◽  
Mattias de Hollander ◽  
Hauke Smidt ◽  
Johannes A. van Veen ◽  
...  
Keyword(s):  
Microbial Communities ◽  
Dna Extraction ◽  
Community Composition ◽  
Microbial Community Composition ◽  
Soil Microbial Communities ◽  
Soil Samples ◽  
Soil Microbial ◽  
Dna Yield ◽  
Microbial Groups

Currently, characterization of soil microbial communities relies heavily on the use of molecular approaches. Independently of the approach used, soil DNA extraction is a crucial step, and success of downstream procedures will depend on how well DNA extraction was performed. Often, studies describing and comparing soil microbial communities are based on a single DNA extraction, which may not lead to a representative recovery of DNA from all organisms present in the soil. The use of successive DNA extractions might improve soil microbial characterization, but the benefit of this approach has only been limitedly studied. To determine whether successive DNA extractions of the same soil sample would lead to different observations in terms of microbial abundance and community composition, we performed three successive extractions, with two widely used commercial kits, on a range of clay and sandy soils. Successive extractions increased DNA yield considerably (1–374%), as well as total bacterial and fungal abundances in most of the soil samples. Analysis of the 16S and 18S ribosomal RNA genes using 454-pyrosequencing, revealed that microbial community composition (taxonomic groups) observed in the successive DNA extractions were similar. However, successive DNA extractions did reveal several additional microbial groups. For some soil samples, shifts in microbial community composition were observed, mainly due to shifts in relative abundance of a number of microbial groups. Our results highlight that performing successive DNA extractions optimize DNA yield, and can lead to a better picture of overall community composition.

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