scholarly journals Spatio-Temporal Dynamics of Soil Microbial Communities in a Pasture: A Case Study of Bromus inermis Pasture in Eastern Nebraska

2020 ◽  
Author(s):  
Taity Changa ◽  
Jane Asiyo Okalebo ◽  
Shaokun Wang
Keyword(s):  
Soil Stabilization ◽  
Temporal Dynamics ◽  
Soil Microbial Communities ◽  
Acid Methyl Ester ◽  
Soil Nutrient ◽  
Bromus Inermis ◽  
Soil Microbial ◽  
Spatio Temporal ◽  
Brome Grass

Today’s intensified agricultural production is characterized by crop and pasture monocultures, which have a significant impact on soil microbial diversity and abundance. This chapter provides a case study in which the relative importance of brome grass (Bromus inermis) monoculture pasture versus intra-site microhabitat diversity is explored using fatty acid methyl ester (FAMEs) assay to delineate the presence and abundance of several classes of soil microbes instrumental in soil nutrient cycling, plant health, plant organic matter decomposition, and soil stabilization. The chapter explores spatio-temporal variability of bacteria, actinomycetes, saprophytes, mycorrhizae, and micro-eukaryotes over two durations (summer and fall) collected using two distinct sampling methods. One of the methods is commonly employed, namely, transect-based, while the other is informed by soil electroconductivity measurements conducted over the entire pasture site from a previous survey.

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 Evaluation of functional diversity of soil microbial communities – a case study

2011 ◽  
Vol 50 (No. 4) ◽  
pp. 141-148 ◽  
Author(s):  
J. Hofman ◽  
J. Švihálek ◽  
I. Holoubek
Keyword(s):  
Microbial Communities ◽  
Functional Diversity ◽  
Diversity Index ◽  
Soil Microbial Communities ◽  
Natural Area ◽  
Multivariate Statistical ◽  
Soil Microbial ◽  
Routine Monitoring ◽  
Best Parameter

In our case study, we measured the functional diversity of the microbial communities of twelve soils from the small natural area to assess if this assay is suitable for routine monitoring of soil biological quality. We found the BIOLOG assay meets especially practical benefits in routine monitoring of soils being simple and quick assay. However, we confirmed the ambiguity about the most appropriate analysis of the BIOLOG multivariate data and about the best parameter, which can be derived from the assay. The different analyses of the data were examined and various parameters derived from the BIOLOG assay were comparatively used to contribute to the discussion of how the data should be evaluated. We showed that not-normalized raw absorbances or trapezoid areas should be used for calculation of diversity index if the inoculum was standardized. There was no single answer to what parameter provided more correct results in the multivariate statistical analysis. Evaluating at least one not-normalized (e.g. trapezoid area) and one normalized parameter (e.g. absorbances read in fixed AWCD) was strongly suggested keeping in mind that they reveal different information.

scholarly journals Effects of Spatial Variability and Relic DNA Removal on the Detection of Temporal Dynamics in Soil Microbial Communities

mBio ◽  
2020 ◽  
Vol 11 (1) ◽  
Author(s):  
Paul Carini ◽  
Manuel Delgado-Baquerizo ◽  
Eve-Lyn S. Hinckley ◽  
Hannah Holland‐Moritz ◽  
Tess E. Brewer ◽  
...  
Keyword(s):  
Microbial Community ◽  
Spatial Variability ◽  
Spatial Heterogeneity ◽  
Microbial Communities ◽  
Temporal Variability ◽  
Temporal Dynamics ◽  
Microbial Community Composition ◽  
Soil Microbial Communities ◽  
Environmental Preferences ◽  
Soil Microbial

ABSTRACT Few studies have comprehensively investigated the temporal variability in soil microbial communities despite widespread recognition that the belowground environment is dynamic. In part, this stems from the challenges associated with the high degree of spatial heterogeneity in soil microbial communities and because the presence of relic DNA (DNA from dead cells or secreted extracellular DNA) may dampen temporal signals. Here, we disentangle the relationships among spatial, temporal, and relic DNA effects on prokaryotic and fungal communities in soils collected from contrasting hillslopes in Colorado, USA. We intensively sampled plots on each hillslope over 6 months to discriminate between temporal variability, intraplot spatial heterogeneity, and relic DNA effects on the soil prokaryotic and fungal communities. We show that the intraplot spatial variability in microbial community composition was strong and independent of relic DNA effects and that these spatial patterns persisted throughout the study. When controlling for intraplot spatial variability, we identified significant temporal variability in both plots over the 6-month study. These microbial communities were more dissimilar over time after relic DNA was removed, suggesting that relic DNA hinders the detection of important temporal dynamics in belowground microbial communities. We identified microbial taxa that exhibited shared temporal responses and show that these responses were often predictable from temporal changes in soil conditions. Our findings highlight approaches that can be used to better characterize temporal shifts in soil microbial communities, information that is critical for predicting the environmental preferences of individual soil microbial taxa and identifying linkages between soil microbial community composition and belowground processes. IMPORTANCE Nearly all microbial communities are dynamic in time. Understanding how temporal dynamics in microbial community structure affect soil biogeochemistry and fertility are key to being able to predict the responses of the soil microbiome to environmental perturbations. Here, we explain the effects of soil spatial structure and relic DNA on the determination of microbial community fluctuations over time. We found that intensive spatial sampling was required to identify temporal effects in microbial communities because of the high degree of spatial heterogeneity in soil and that DNA from nonliving sources masks important temporal patterns. We identified groups of microbes with shared temporal responses and show that these patterns were predictable from changes in soil characteristics. These results provide insight into the environmental preferences and temporal relationships between individual microbial taxa and highlight the importance of considering relic DNA when trying to detect temporal dynamics in belowground communities.

scholarly journals Temporal Dynamics of Soil Microbial Communities below the Seedbed under Two Contrasting Tillage Regimes

2017 ◽  
Vol 8 ◽  
Author(s):  
Florine Degrune ◽  
Nicolas Theodorakopoulos ◽  
Gilles Colinet ◽  
Marie-Pierre Hiel ◽  
Bernard Bodson ◽  
...  
Keyword(s):  
Microbial Communities ◽  
Temporal Dynamics ◽  
Soil Microbial Communities ◽  
Soil Microbial

scholarly journals Using Red List species in designating protection status to forest areas: a case study on the problem of spatio-temporal dynamics

2020 ◽  
Vol 29 (11-12) ◽  
pp. 3429-3443
Author(s):  
Lise Tingstad ◽  
John-Arvid Grytnes ◽  
Magne Sætersdal ◽  
Ivar Gjerde
Keyword(s):  
Temporal Dynamics ◽  
Rank Order ◽  
Common Species ◽  
Red List ◽  
Red List Species ◽  
Polypore Fungi ◽  
Temporal Turnover ◽  
Spatio Temporal ◽  
Selection Of

Abstract Red-listed species are often used as target species in selection of sites for conservation. However, limitations to their use have been pointed out, and here we address the problem of expected high spatio-temporal dynamics of red-listed species. We used species data (vascular plants, bryophytes, macrolichens and polypore fungi) from two inventories 17 years apart to estimate temporal turnover of red-listed and non-red-listed species in two forest areas (147 and 195 ha) and of plots (0.25 ha) within each area. Furthermore, we investigated how turnover of species affected the rank order of plots regarding richness of red-listed species, using two different national Red List issues (1998 and 2015). In both study areas, temporal turnover was substantial, despite minor changes in the overall number of species. At plot level, temporal turnover in red-listed species was higher than in non-red-listed species, but similar to non-red-listed species of the same frequency of occurrence. Adding the effect of changing identities of species red-listed according to the two Red List issues, further increased the estimated spatio-temporal dynamics. Recorded spatio-temporal turnover also resulted in substantial changes in the rank order of plots regarding richness of red-listed species. Using rare red-listed species for site selection may therefore be accompanied by a higher loss of conservation effectiveness over time than for more common species, and particularly at finer scales.

scholarly journals Fishing for euros: how mapping applications can assist in maintaining revenues under the Landing Obligation

2020 ◽  
Author(s):  
Julia Calderwood ◽  
Kristian Schreiber Plet-Hansen ◽  
Clara Ulrich ◽  
David G Reid
Keyword(s):  
Temporal Dynamics ◽  
Species Distributions ◽  
Fishing Effort ◽  
Fishing Industry ◽  
Fishing Activity ◽  
Spatio Temporal ◽  
Catch Rates ◽  
Demersal Species ◽  
High Catch

Abstract With the introduction of the Landing Obligation (LO) in EU fisheries, there is an increasing need for fishers to avoid unwanted catches while maximizing revenues. Improving understanding of the spatio-temporal dynamics of unwanted catches could assist the fishing industry optimize catches by altering where they fish. How following such advice relates to revenues and fishery dynamics requires more consideration. We take an existing hotspot mapping methodology and examine how it could be used to identify fishing opportunities under the LO in Irish (Celtic Sea) and Danish (North Sea and Skagerrak) demersal fisheries. We consider if fishing effort can be relocated to avoid unwanted catches while maintaining revenues. The value per unit effort of fishing activity in both areas was often linked to high catch rates of key demersal species (cod, haddock, hake, and whiting). Our analyses indicated, however, that there are options to fish in areas that could provide higher revenues while avoiding below minimum conservation reference size catches and choke species. This was evident across both case study areas demonstrating that hotspot mapping tools could have wide applicability. There does, however, remain a need to explore how the displacement of vessels may further alter species distributions and fleet economics.

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