scholarly journals Thermodynamic Control on Biogeography and Functioning of Rare-Biosphere Propionate Syntrophs in Paddy Field Soils

2020 ◽  
Author(s):  
Yidan Jin ◽  
Shuo Jiao ◽  
Yahai Lu

Abstract Background Global biogeochemical processes are not only gauged by dominant taxa of soil microbiome but also depend on the critical functions of “rare biosphere” members. Here we evaluated the biogeographical pattern of “rare biosphere” propionate-oxidizing syntrophs in 113 paddy soil samples collected across eastern China. Results The relative abundance, functioning capacity and growth potential of propionate-oxidizing syntrophs were analyzed to provide a panoramic view of syntroph biogeographical distribution at the continental scale. The relative abundances of four syntroph genera, Syntrophobacter, Pelotomaculum, Smithella and Syntrophomonas were significantly greater at the warm low latitudes than at the cool high latitudes. Correspondingly, the functioning potential of propionate degradation was greater in the low latitude soils compared with the high latitude soils. The slow rate of propionate degradation in high latitude soils resulted in a greater fold change in increase of the relative abundance, probably due to the growth rate-yield tradeoff relationship. The mean annual temperature (MAT) is the most important factor shaping the biogeographical pattern of propionate-oxidizing syntrophs, with the next factor to be the total S content (TS) in soil. Conclusions We suggest that the effect of MAT is related to the Gibbs free energy change, in which the endergonic tension of propionate oxidation is leveraged with the increase of MAT. The TS effect is likely due to that some propionate syntrophs can facultatively perform sulfate respiration.

2019 ◽  
Vol 46 (5) ◽  
pp. 378 ◽  
Author(s):  
Patrick L. Taggart ◽  
Bronwyn A. Fancourt ◽  
Andrew J. Bengsen ◽  
David E. Peacock ◽  
Patrick Hodgens ◽  
...  

Context Feral cats (Felis catus) impact the health and welfare of wildlife, livestock and humans worldwide. They are particularly damaging where they have been introduced into island countries such as Australia and New Zealand, where native prey species evolved without feline predators. Kangaroo Island, in South Australia, is Australia’s third largest island and supports several threatened and endemic species. Cat densities on Kangaroo Island are thought to be greater than those on the adjacent South Australian mainland, based on one cat density estimate on the island that is higher than most estimates from the mainland. The prevalence of cat-borne disease in cats and sheep is also higher on Kangaroo Island than the mainland, suggesting higher cat densities. A recent continental-scale spatial model of cat density predicted that cat density on Kangaroo Island should be about double that of the adjacent mainland. However, although cats are believed to have severe impacts on some native species on the island, other species that are generally considered vulnerable to cat predation have relatively secure populations on the island compared with the mainland. Aims The present study aimed to compare feral cat abundance between Kangaroo Island and the adjacent South Australian mainland using simultaneous standardised methods. Based on previous findings, we predicted that the relative abundance of feral cats on Kangaroo Island would be approximately double that on the South Australian mainland. Methods Standardised camera trap surveys were used to simultaneously estimate the relative abundance of feral cats on Kangaroo Island and the adjacent South Australian mainland. Survey data were analysed using the Royle–Nichols abundance-induced heterogeneity model to estimate feral cat relative abundance at each site. Key results Cat abundance on the island was estimated to be over 10 times greater than that on the adjacent mainland. Conclusions Consistent with predictions, cat abundance on the island was greater than on the adjacent mainland. However, the magnitude of this difference was much greater than expected. Implications The findings show that the actual densities of cats at local sites can vary substantially from predictions generated by continental-scale models. The study also demonstrates the value of estimating abundance or density simultaneously across sites using standardised methods.


2019 ◽  
Vol 16 (20) ◽  
pp. 3977-3996 ◽  
Author(s):  
Ward Swinnen ◽  
Nils Broothaerts ◽  
Gert Verstraeten

Abstract. Blanket peatlands constitute a rare ecosystem on a global scale, but blanket peatland is the most important peatland type on the British Isles. Most long-term peatland development models have focussed on peat bogs and high-latitude regions. Here, we present a process-based 2-D hillslope model to simulate long-term blanket peatland development along complex hillslope topographies. To calibrate the model, the peatland architecture was assessed along 56 hillslope transects in the headwaters of the river Dee (633 km2) in eastern Scotland, resulting in a dataset of 866 soil profile descriptions. The application of the calibrated model using local pollen-based land cover and regional climate reconstructions (mean annual temperature and mean monthly precipitation) over the last 12 000 years shows that the Early Holocene peatland development was largely driven by a temperature increase. An increase in woodland cover only has a slight positive effect on the peat growth potential contradicting the hypothesis that blanket peatland developed as a response to deforestation. Both the hillslope measurements and the model simulations demonstrate that the blanket peatland cover in the study area is highly variable both in extent and peat thickness stressing the need for spatially distributed peatland modelling. At the landscape scale, blanket peatlands were an important atmospheric carbon sink during the period 9.5–6 kyr BP. However, during the last 6000 years, the blanket peatlands were in a state of dynamic equilibrium with minor changes in the carbon balance.


2019 ◽  
Vol 14 (1) ◽  
Author(s):  
Viviane Radl ◽  
Jana Barbro Winkler ◽  
Susanne Kublik ◽  
Luhua Yang ◽  
Traud Winkelmann ◽  
...  

Abstract Background Apple replant disease (ARD) is a syndrome that occurs in areas where apple plants or closely related species have been previously cultivated. Even though ARD is a well-known phenomenon, which has been observed in different regions worldwide and occurs independent of the soil type, its causes still remain unclear. Results As expected, the biomass of plants grown in replant soil was significantly lower compared to those grown in control (virgin) soil. A shotgun metagenome analysis showed a clear differentiation between the rhizosphere and bulk soil compartments independent from the soil used. However, significant differences associated with apple replant disease were only observed in the rhizosphere compartment, for which we detected changes in the abundance of major bacterial genera. Interestingly, reads assigned to Actinobacteria were significantly reduced in relative abundance in rhizosphere samples of the soil affected by replant disease. Even though reads assigned to pathogenic fungi were detected, their relative abundance was low and did not differ significantly between the two different soils. Differences in microbiome structure also resulted in shifts in functional pattern. We observed an increase in genes related to stress sensing in the rhizosphere of soils affected by replant disease, whereas genes linked to nutrient sensing and uptake dominated in control soils. Moreover, we observed a lower abundance of genes coding for enzymes which trigger the degradation of aromatic compounds in rhizosphere of soils affected by replant disease, which is probably connected with higher concentration of phenolic compounds, generally associated with disease progression. Conclusions Our study shows, for the first time, how apple replanting affects soil functioning by altering the soil microbiome. Particularly, the decrease in the abundance of genes which code for enzymes catalyzing the degradation of aromatic compounds, observed in the rhizosphere of plants grown in soil affected by apple replant disease, is of interest. Apple rootstocks are known to synthetize many phenolic compounds, including defense related phytoalexins, which have been considered for long to be connected with the emergence of replant disease. The knowledge gained in this study might help to develop targeted strategies to overcome or at least reduce the effects of ARD symptoms.


Author(s):  
Justin Pomeranz ◽  
James R. Junker ◽  
Jeff Wesner

Accepted version of this manuscript can be found here: https://doi.org/10.1111/gcb.15862 The distribution of abundance and biomass within ecological communities is related to trophic transfer efficiency from prey to predators. While it is considered to be one of the few consistent patterns in ecology, spatiotemporal variation of this relationship across continental-scale environmental gradients is unknown. Using a database of stream communities collected across North America (18-68° N latitude, -4 to 25°C mean annual temperature) over 3 years, we constructed 162 mass-abundance relationships (i.e. size spectra). Size-spectra slopes declined (became steeper) with increasing temperature. However, the magnitude of change was relatively small, with median slopes changing from -1.2 to -1.3 across a 29°C range in mean annual temperature. In contrast, total community biomass increased 3-fold over the temperature gradient. Our study suggests strong conservation of abundance size-spectra in streams across broad natural environmental gradients. This supports the emerging use of size-spectra deviations as indicators of ecosystem health.


2021 ◽  
Vol 12 ◽  
Author(s):  
Miquel Llimós ◽  
Guillem Segarra ◽  
Marc Sancho-Adamson ◽  
M. Isabel Trillas ◽  
Joan Romanyà

Plant communities and fertilization may have an impact on soil microbiome. Most commercial olive trees are minerally fertilized, while this practice is being replaced by the use of organic amendments. Organic amendments can both fertilize and promote plant growth-promoting organisms. Our aims were (i) to describe the changes in soil bacterial and fungal communities induced by the presence of young olive trees and their interaction with organic amendments and (ii) to compare the effects of mineral and organic fertilization. We set up two parallel experiments in pots using a previously homogenized soil collected from a commercial olive orchard: in the first one, we grew olive saplings in unamended and organically amended soils with two distinct composts and compared these two soils incubated without a plant, while in the second experiment, we comparatively tested the effects of organic and mineral fertilization. OTUs and the relative abundances of bacterial and fungal genera and phyla were analyzed by 16S rRNA and ITS1 gene amplicon using high-throughput sequencing. Basal respiration and substrate-induced respiration were measured by MicroRespTM. The effects of the different treatments were analyzed in all phyla and in the 100 most abundant genera. The presence of olive saplings increased substrate-induced respiration and bacterial and fungal richness and diversity. Organic amendments greatly affected both bacterial and fungal phyla and increased bacterial richness while not affecting fungal richness. Mineral fertilization increased the relative abundance of the less metabolically active bacterial phyla (Actinobacteria and Firmicutes), while it reduced the most metabolically active phylum, Bacteroidetes. Mineral fertilization increased the relative abundance of three N2-fixing Actinobacteria genera, while organic fertilization only increased one genus of Proteobacteria. In organically and minerally fertilized soils, high basal respiration rates were associated with low fungal diversity. Basidiomycota and Chytridiomycota relative abundances positively correlated with basal respiration and substrate-induced respiration, while Ascomycota correlated negatively. Indeed, the Ascomycota phyla comprised most of the fungal genera decreased by organic amendments. The symbiotrophic phylum Glomeromycota did not correlate with any of the C sources. The relative abundance of this phylum was promoted by the presence of plants but decreased when amending soils with composts.


2021 ◽  
Vol 9 ◽  
Author(s):  
Xiaoli Hu ◽  
Wenlong Zhou ◽  
Xiaonuo Li ◽  
Karl J. Niklas ◽  
Shucun Sun

Climate warming exerts profound effects on plant community composition. However, responses to climate warming are often reported at the community and functional type levels, but not at the species level. To test whether warming-induced changes are consistent among community, functional type, and species levels, we examined the warming-induced changes at different levels in an alpine meadow from 2015 to 2018. The warming was achieved by deploying six (open top) chambers [including three non-warmed chambers and three warmed chambers; 15 × 15 × 2.5 m (height) for each] that resulted in a small increase in mean annual temperature (0.3–0.5°C, varying with years) with a higher increase during the non-growing season (0.4–0.6°C) than in the growing season (0.03–0.47°C). The results show that warming increased plant aboveground biomass but did not change species richness, or Shannon diversity and evenness at the community level. At the functional type level, warming increased the relative abundance of grasses from 3 to 16%, but decreased the relative abundance of forbs from 89 to 79%; relative abundances of sedges and legumes were unchanged. However, for a given functional type, warming could result in contrasting effects on the relative abundance among species, e.g., the abundances of the forb species Geranium pylzowianum, Potentilla anserine, Euphrasia pectinate, and the sedge species Carex atrofusca increased in the warmed (compared to the non-warmed) chambers. More importantly, the difference in species identity between warmed and non-warmed chambers revealed warming-induced species loss. Specifically, four forb species were lost in both types of chambers, one additional forb species (Angelica apaensis) was lost in the non-warmed chambers, and two additional species (one forb species Saussurea stella and one sedge species Blysmus sinocompressus) were lost in the warmed chambers. Consequently, changes at the species level could not be deduced from the results at the community or functional type levels. These data indicate that species-level responses to climate changes must be more intensively studied. This work also highlights the importance of examining species identity (and not only species number) to study changes of community composition in response to climate warming.


1992 ◽  
Vol 6 ◽  
pp. 193-193
Author(s):  
Norman Macleod ◽  
Gerta Keller

Quantitative analysis of a high resolution latest Maastrichtian through Danian planktic foraminiferal database reveals that degrees of endemism characterizing tropical Tethyan and both northern and southern high latitude faunas throughout this interval are much lower than previously supposed. In terms of temporal patterns in the relative abundance of cosmopolitan species, the transition from the diverse globotruncanid-dominated late Maastrichtian assemblage (I), characterizing the lower portion of the A. mayaroensis / P. deformis zones prior to the base of Chron 29, to the diverse globigerinid-dominated Danian assemblage (V) found in Zone P1c and above, takes place through the successive rise and fall of at least three intermediate faunal associations. These include: a mixed assemblage (II) that delineates an interval from the base of Chron 29 to lowermost Danian Zone PO and is dominated by heterohelicids, hedbergellids, and globigerinelloids; a guembelitrid-dominated assemblage (III) that ranges through lower Danian zones P0 - P1a; and a chiloguembelinid-dominated assemblage (IV) that characterizes lower Danian zones P1a through P1b.Species whose differential relative abundances identify them as more or less endemic to a northern high latitude biogeographic province include Guembelitria danica (assemblage III), Chiloguembelitria waiparensis (assemblage IV), and Eoglobigerina danica (assemblage V), while southern high latitude forms with endemic abundance acmes include C. waiparensis (assemblage III) and several globigerine species (e.g., Globigerina extensa, Igorina spiralis, Globigerina aequiensis, Globigerina chasconoma). Tropical tethyan abundance endemics include Heterohelix navarroensis and Pseudoguembelina costulata (fauna II), along with both Parvularugoglobigerina eugubina and Woodringina hornerstownensis (assemblage IV). Overall, levels of planktic foraminiferal endemism were quite low throughout the upper Maastrichtian A. mayaroensis / P. deformis zones, across the K/T boundary, and into the Danian Zone P0. Endemism increased gradually throughout zones P1a and P1b with the addition of species to both northern high latitude and tropical tethyan biogeographic provinces, and then increased much more substantially in Zone P1c with the addition of the southern high latitude globigerine species.Our analysis has also uncovered several instances of dramatic abundance increases for individual taxa occurring significantly earlier in the southern high latitudes (e.g., Chiloguembelina waiparensis). Associated with these diachronous relative abundance patterns, stable isotopic studies indicate that environmental conditions (e.g., temperature, organic productivity) over this K/T transition interval were more stable in the southern ocean than in tropics. Finally, our data reveals a distinct difference and mirror-image ordering in both the disappearance and successive reappearance of the planktic foraminiferal test morphotypes (e.g., keeled trochospires, globigerine trochospires, forms with serially arranged chambers) that prevailed in each faunal assemblage. We believe that these data can best be accounted for by accepting a causal model of geographically heterogeneous deterioration and subsequent restructuring of marine planktic habitats that took place over an extended interval of time and was ultimately driven by a synergistic combination of climatic (global cooling), oceanographic (sea level change) and tectonic factors.


2021 ◽  
Author(s):  
Manish R. Patel ◽  
Graham Seller ◽  
Jonathon Mason ◽  
James Holmes ◽  
Megan Brown ◽  
...  

<p>The Ultraviolet and Visible Spectrometer (UVIS) channel [1] of the Nadir and Occultation for Mars Discovery (NOMAD) instrument [2] aboard the ExoMars Trace Gas Orbiter has been making observations of the vertical, latitudinal and seasonal distributions of ozone.  Here, we present ~1.5 Mars Years (MY) of vertical profiles of ozone, from <em>L</em><sub>S</sub> = 163° in MY34 to <em>L</em><sub>S</sub> = 320° in MY35.  This period includes the occurrence of the MY34 Global Dust Storm. The relative abundance of both ozone and water (from coincident NOMAD measurements) increases with decreasing altitude below ~40 km at perihelion and at aphelion, localised decreases in ozone abundance exist between 25-35 km coincident with the location of modelled peak water abundances. High latitude (> ± 55°), high altitude (40-55 km) equinoctial ozone enhancements are observed in both hemispheres (<em>L</em><sub>S</sub> ~350‑40°).  Morning terminator observations show elevated ozone abundances with respect to evening observations, most likely attributed to diurnal photochemical partitioning along the line of sight between ozone and O. The ozone retrievals presented here provide the most complete global description of Mars ozone vertical distributions to date as a function of season and latitude</p>


2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Joseph M. Craine

AbstractNorth American plains bison (Bison bison) have been reintroduced across their former range, yet we know too little about their current diet to understand what drove their past migrations as well as observed continental-scale variation in weight gain and reproduction. In order to better understand the seasonal diets of bison at the continental scale, bison fecal material was collected monthly from April to September in 2019 across 45 sites throughout the conterminous United States. Fecal material was analyzed for dietary quality using near infrared spectroscopy and dietary composition with DNA metabarcoding. As observed in previous research, dietary quality peaked in June and was on average greatest for sites with cold, wet climates. Yet, in April, dietary quality was highest in warmer regions, likely reflecting earlier phenology of plants in southern than northern regions. Independent of climate and season, bison that consumed more warm-season grasses had lower dietary protein concentrations. Interpreting the relative abundance of sequences from different plant species as the relative intake of protein from those species, only 38% of bison protein intake came from grasses. An equal amount of dietary protein came from legumes (38%) and 22% from non-leguminous forbs. Seasonal shifts in bison diet were also clear, in part, following the phenology of functional groups. For example, cool-season grass protein intake was highest in May, while legume protein intake was highest in August. Comparing data taken in June and September 2018 in a previous study with corresponding data in 2019, on average, June [CP] was 20% higher in 2019 than 2018, while September [CP] did not differ between years. Dietary functional group composition was generally similar in amounts and relationships with climate between years, yet in September 2019, legumes contributed 20% more protein and warm-season grasses 14% less than in September 2018. In all, this research demonstrates that bison consistently rely on eudicots for protein with the functional group composition of their diet in some ways consistent across space and time, but also spatially and temporally variable. The early-season inversion of plant quality gradients would have been a strong driver of migratory behavior for large numbers of bison optimizing protein intake. As most bison currently experience protein deficiency, optimizing protein intake under current non-migratory conditions will require increasing the relative abundance of high-protein species such as N2-fixing species.


2013 ◽  
Vol 40 (7) ◽  
pp. 578 ◽  
Author(s):  
Thibaud Porphyre ◽  
Joanna McKenzie ◽  
Andrea E. Byrom ◽  
Graham Nugent ◽  
James Shepherd ◽  
...  

Context In New Zealand, the introduced brushtail possum, Trichosurus vulpecula, is a reservoir of bovine tuberculosis and as such poses a major threat to the livestock industry. Aerial 1080 poisoning is an important tool for possum control but is expensive, creating an ongoing need for ever more cost-effective ways of using this technique. Aims To develop geographic information system (GIS) models to better predict spatial variation in the distribution of unmanaged possum populations, to facilitate better targeting of control activities. Methods Relative abundance of possums and their distribution among habitat types were surveyed in a dry high-country area of the northern South Island. Two GIS-based models were developed to predict the relative abundance of possums on trap lines. The first model used remotely sensed (digital) environmental data; the second complemented the remotely sensed data with fine-scale habitat and topographic data collected on the ground. Key results Digital environmental factors and habitat features proved to be key predictors of relative possum abundance. In both GIS models, height above valley floor, presence of forest cover and mean annual temperature were the strongest predictors. Conclusions Predictive maps (projections) of relative possum abundance produced from these models can provide useful decision-support tools for pest-control managers, by enabling possum control to be targeted spatially. Implications Spatially targeted pest control could allow effective control activities for invasive species or disease vectors to be applied at a lower cost for the same benefit.


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