Transformation of soil invertebrate complex after surface fires of different intensity

The effect of surface fires of different intensity on soil invertebrates was evaluated in central taiga Scotch pine forests in the Yenisey Region of Siberia. In the period of 4–5 years, the abundance and ecological and trophic structure of sandy podzol population was almost completely restored after surface fires of medium and low intensity. The recovery process was decelerated after high intensity fires.     

Identifying qualitative effects of different grazing types on below‐ground communities and function in a long‐term field experiment

Herbivory is an important modulator of plant biodiversity and productivity in grasslands, but our understanding of herbivore‐induced changes on below‐ground processes and communities is limited. Using a long‐term (17 years) experimental site, we evaluated impacts of rabbit and invertebrate grazers on some soil functions involved in carbon cycling, microbial diversity, structure and functional composition. Both rabbit and invertebrate grazing impacted soil functions and microbial community structure. All functional community measures (functions, biogeochemical cycling genes, network association between different taxa) were more strongly affected by invertebrate grazers than rabbits. Furthermore, our results suggest that exclusion of invertebrate grazers decreases both microbial biomass and abundance of genes associated with key biogeochemical cycles, and could thus have long‐term consequences for ecosystem functions. The mechanism behind these impacts are likely to be driven by both direct effects of grazing altering the pattern of nutrient inputs and by indirect effects through changes in plant species composition. However, we could not entirely discount that the pesticide used to exclude invertebrates may have affected some microbial community measures. Nevertheless, our work illustrates that human activity that affects grazing intensity may affect ecosystem functioning and sustainability, as regulated by multi‐trophic interactions between above‐ and below‐ground communities.     

Microbial community composition in soils of Northern Victoria Land, Antarctica

Biotic communities and ecosystem dynamics in terrestrial Antarctica are limited by an array of extreme conditions including low temperatures, moisture and organic matter availability, high salinity, and a paucity of biodiversity to facilitate key ecological processes. Recent studies have discovered that the prokaryotic communities in these extreme systems are highly diverse with patchy distributions. Investigating the physical and biological controls over the distribution and activity of microbial biodiversity in Victoria Land is essential to understanding ecological functioning in this region. Currently, little information on the distribution, structure and activity of soil communities anywhere in Victoria Land are available, and their sensitivity to potential climate change remains largely unknown. We investigated soil microbial communities from low- and high-productivity habitats in an isolated Antarctic location to determine how the soil environment impacts microbial community composition and structure. The microbial communities in Luther Vale, Northern Victoria Land were analysed using bacterial 16S rRNA gene clone libraries and were related to soil geochemical parameters and classical morphological analysis of soil metazoan invertebrate communities. A total of 323 16S rRNA gene sequences analysed from four soils spanning a productivity gradient indicated a high diversity (Shannon-Weaver values > 3) of phylotypes within the clone libraries and distinct differences in community structure between the two soil productivity habitats linked to water and nutrient availability. In particular, members of the Deinococcus/Thermus lineage were found exclusively in the drier, low-productivity soils, while Gammaproteobacteria of the genus Xanthomonas were found exclusively in high-productivity soils. However, rarefaction curves indicated that these microbial habitats remain under-sampled. Our results add to the recent literature suggesting that there is a higher biodiversity within Antarctic soils than previously expected.     

沙地樟子松人工林土壤理化性质与微生物生物量的动态变化

为揭示不同林龄沙地樟子松人工林土壤理化性质和微生物生物量的动态和相互关系,以毛乌素沙地、科尔沁沙地和呼伦贝尔沙地不同林龄樟子松人工林为对象,分析土壤理化性质、土壤微生物生物量碳和微生物生物量氮变化规律。结果表明:樟子松人工林土壤理化性质随林龄增加在不同沙地中表现不同,毛乌素沙地土壤容重和养分含量明显降低,科尔沁沙地土壤孔隙度和养分含量明显升高,呼伦贝尔沙地土壤养分则呈现先增加后降低趋势。与土壤理化性质变化趋势类似,毛乌素沙地樟子松人工林土壤微生物生物量氮随着林龄的增加而降低,科尔沁沙地土壤微生物生物量氮随着林龄的增加而升高,呼伦贝尔沙地土壤微生物生物量氮随着林龄的增加呈先增加而后降低趋势。影响毛乌素沙地、科尔沁沙地和呼伦贝尔沙地土壤微生物生物量碳、氮的主要因子分别是硝态氮、铵态氮和有机质含量。毛乌素与科尔沁沙地樟子松人工林主要限制因子为土壤氮,而呼伦贝尔沙地樟子松受土壤有机碳限制较强。     

Predicting the responsiveness of soil biodiversity to deforestation: a cross‐biome study

The consequences of deforestation for aboveground biodiversity have been a scientific and political concern for decades. In contrast, despite being a dominant component of biodiversity that is essential to the functioning of ecosystems, the responses of belowground biodiversity to forest removal have received less attention. Single‐site studies suggest that soil microbes can be highly responsive to forest removal, but responses are highly variable, with negligible effects in some regions. Using high throughput sequencing, we characterize the effects of deforestation on microbial communities across multiple biomes and explore what determines the vulnerability of microbial communities to this vegetative change. We reveal consistent directional trends in the microbial community response, yet the magnitude of this vegetation effect varied between sites, and was explained strongly by soil texture. In sandy sites, the difference in vegetation type caused shifts in a suite of edaphic characteristics, driving substantial differences in microbial community composition. In contrast, fine‐textured soil buffered microbes against these effects and there were minimal differences between communities in forest and grassland soil. These microbial community changes were associated with distinct changes in the microbial catabolic profile, placing community changes in an ecosystem functioning context. The universal nature of these patterns allows us to predict where deforestation will have the strongest effects on soil biodiversity, and how these effects could be mitigated.     

On the Notion of Microrange of Soil Testaceans

We studied species composition and population structure of testaceans (Protozoa: Testacea) in a series of soil microblock samples (weighing between 5 and 0.05 g) from podzol horizons L, F, A1A2, and A2 of cowberry-heath-lichen and gramineous-cowberry pine forests. Similarity between the testacean communities in the soil microblock samples from horizon A1A2 was at least 0.94 (by Morisita-Horn index of similarity, quantitative data), while in the enzymatic layer of litter it decreased to 0.34. The notion of microrange of soil-forming testaceans is proposed and discussed on the basis of the obtained and published data.     

半干旱区沙质退化草地造林对土壤质量的影响

采用野外调查与室内培养相结合的方法,研究了我国北方半干旱区科尔沁沙地退化草地营造樟子松人工林32年后0～10 cm表层土壤理化性状、土壤碳氮矿化量、土壤微生物量以及土壤酶活性等的变化. 结果表明32年生樟子松人工林土壤有机碳、全氮和全磷等养分含量分别下降了21%、42%和45%;5月和11月樟子松人工林土壤NH4 -N显著高于草地(P=0.001;P=0.019),而5、8和11月草地土壤NO3--N含量显著高于樟子松人工林(P＜0.001;P=0.048;P=0.031);5、8和11月樟子松人工林土壤有机碳日矿化释放的CO2-C量均大于草地,而二者土壤氮矿化率差异不显著(P＞0.05);5和8月樟子松人工林土壤微生物量碳含量与草地相比差异不显著,11月则显著高于草地;土壤养分和水分含量是影响土壤微生物量碳含量的重要因素;与草地相比,樟子松人工林土壤脲酶和蔗糖酶活性降低,而土壤过氧化氢酶活性升高. 上述结果说明半干旱区沙质退化草地营造樟子松人工林32年后土壤质量出现一定程度的下降;由于植被的改变,樟子松人工林土壤理化性状和生物学性状等表现出与草地不同的季节动态特征.造林作为我国北方半干旱区沙地退化生态系统的一种恢复手段具有一定的局限性.     

Mineral Type Structures Soil Microbial Communities

Soil microorganisms living in close contact with minerals play key roles in the biogeochemical cycling of elements, soil formation, and plant nutrition. Yet, the composition of microbial communities inhabiting the mineralosphere (i.e., the soil surrounding minerals) is poorly understood. Here, we explored the composition of soil microbial communities associated with different types of minerals in various soil horizons. To this effect, a field experiment was set up in which mineral specimens of apatite, biotite, and oligoclase were buried in the organic, eluvial, and upper illuvial horizons of a podzol soil. After an incubation period of two years, the soil attached to the mineral surfaces was collected, and microbial communities were analyzed by means of Illumina MiSeq sequencing of the 16S (prokaryotic) and 18S (eukaryotic) ribosomal RNA genes. We found that both composition and diversity of bacterial, archaeal, and fungal communities varied across the different mineral surfaces, and that mineral type had a greater influence on structuring microbial assemblages than soil horizon. Thus, our findings emphasize the importance of mineral surfaces as ecological niches in soils.     

人工油松林（Pinus tabulaeformis）恢复过程中土壤微生物生物量C、N的变化特征

采用时空替代法,选取15a（PF15）、25a（PF25）、30a（PF30）的人工油松林作为样地,并选取灌丛作为参考植被,研究了植被恢复过程中土壤微生物生物量C、N以及土壤养分的变化特征,同时探讨了它们之间的相互关系。研究结果表明随着恢复的进行,土壤质量得到了改善,主要表现为有机碳、全氮、粘粒含量、土壤含水量的上升和pH值、容重的下降。土壤微生物生物量C、N分别在155.00~885.64mg/kg和33.73~237.40mg/kg的范围内变化。土壤微生物生物量C、N在植被恢复的初期显著低于灌丛,而后随着恢复的进行逐步增长。土壤微生物生物量C、N与植被恢复时间的相关性没有达到统计学上的显著水平,但是土壤微生物生物量C与土壤有机碳、全氮、全磷呈显著正相关,这表明植被恢复过程中土壤微生物生物量与土壤养分状况关系密切,植被恢复通过改善土壤养分状况间接地影响土壤微生物生物量的变化。Cmic/TOC在1.38%~4.75%的范围内变化。Cmic/TOC随着植被恢复不断下降,Cmic/TOC与植被恢复时间和土壤有机碳呈显著负相关,这表明植被恢复过程中,惰性有机质积累导致供应土壤微生物的活性有机质减少,Cmic/TOC同时受土壤有机质的数量和质量影响。     

Shifting abundances of communities associated with nitrogen cycling in soils promoted by sugarcane harvest systems

Sugarcane cultivation supports Brazil as one of the largest world sugar and ethanol producer. In order to understand the impact of changing sugarcane harvest from manual to mechanized harvest, we studied the effect of machinery traffic on soil and consequently soil compaction upon soil microbial communities involved in nitrogen cycling. The impact of sugarcane harvest was dependent on soil depth and texture. At deeper soil layers, mechanized harvesting increases the abundance of nitrogen fixers and denitrifying communities (specifically nosZ clade I and II) while manual harvesting increases the abundance of ammonia oxidizers (specifically AOA) and increases denitrifying communities (nosZ clade I and II) on top and at intermediate depth. The effect of change on the harvest system is more evident on sandy soil than on clay soil, where soil indicators of compaction (bulk density and penetration resistance) were negatively correlated with soil microorganisms associated with the nitrogen cycle. Our results point to connections between soil compaction and N transformations in sugarcane fields, besides naming biological variables to be used as proxies for alterations in soil structure.     

Microbial community utilization of recalcitrant and simple carbon compounds: impact of oak-woodland plant communities

Little is known about how the structure of microbial communities impacts carbon cycling or how soil microbial community composition mediates plant effects on C-decomposition processes. We examined the degradation of four ¹³C-labeled compounds (starch, xylose, vanillin, and pine litter), quantified rates of associated enzyme activities, and identified microbial groups utilizing the ¹³C-labeled substrates in soils under oaks and in adjacent open grasslands. By quantifying increases in non-¹³C-labeled carbon in microbial biomarkers, we were also able to identify functional groups responsible for the metabolism of indigenous soil organic matter. Although microbial community composition differed between oak and grassland soils, the microbial groups responsible for starch, xylose, and vanillin degradation, as defined by ¹³C-PLFA, did not differ significantly between oak and grassland soils. Microbial groups responsible for pine litter and SOM-C degradation did differ between the two soils. Enhanced degradation of SOM resulting from substrate addition (priming) was greater in grassland soils, particularly in response to pine litter addition; under these conditions, fungal and Gram + biomarkers showed more incorporation of SOM-C than did Gram – biomarkers. In contrast, the oak soil microbial community primarily incorporated C from the added substrates. More ¹³C (from both simple and recalcitrant sources) was incorporated into the Gram – biomarkers than Gram + biomarkers despite the fact that the Gram + group generally comprised a greater portion of the bacterial biomass than did markers for the Gram – group. These experiments begin to identify components of the soil microbial community responsible for decomposition of different types of C-substrates. The results demonstrate that the presence of distinctly different plant communities did not alter the microbial community profile responsible for decomposition of relatively labile C-substrates but did alter the profiles of microbial communities responsible for decomposition of the more recalcitrant substrates, pine litter and indigenous soil organic matter.     

澳大利亚亚热带不同森林土壤微生物群落对碳源的利用

为阐明土壤微生物群落对碳源利用类型和强度,采用MicroRespTM方法研究3种森林类型不同土壤含水量微生物群落对不同类型碳源的利用情况,结果表明：湿地松（Pinus elliottii Engelm. var. elliotttii）林地土壤微生物碳源利用率依次为60%WHC>20%WHC>40%WHC,南洋杉（Araucaria cunninghamii）和贝壳杉（Agathis australis）林地土壤微生物对碳源利用的格局相似,为20%WHC>60%WHC>40%WHC。南洋杉和贝壳杉林地土壤对碳源利用率趋势相同,主要是对L-苹果酸、草酸和L-赖氨酸利用比较高。在40%WHC处理中,3种树种对碳源的利用均很低,差异不明显。除精氨酸和L-赖氨酸外,60%WHC处理土壤微生物利用单一碳源能力的大小顺序为：南洋杉>湿地松>贝壳杉。3种树种土壤Shannon多样性指数(H’)、Shannon均匀度(E)和Simpson指数(D)均无显著差异。土壤pH值影响微生物对L-丙氨酸、精氨酸、D-( )-葡萄糖、N-乙酰基-氨基葡萄糖的利用率较大,这些类群的微生物主要分布在贝壳杉林地;分布在南洋杉林地的微生物对柠檬酸、L-苹果酸和γ-酪氨酸利用率较大,且主要是受TP的影响;D-( )-果糖、柠檬酸和L-半胱氨酸-盐酸等受水分、TN和TC等影响较大,这类微生物类群主要分布在湿地松林地。     

Response of the Soil Microbial Community to Changes in Precipitation in a Semiarid Ecosystem

Microbial communities regulate many belowground carbon cycling processes; thus, the impact of climate change on the structure and function of soil microbial communities could, in turn, impact the release or storage of carbon in soils. Here we used a large-scale precipitation manipulation (+18%, −50%, or ambient) in a piñon-juniper woodland (Pinus edulis-Juniperus monosperma) to investigate how changes in precipitation amounts altered soil microbial communities as well as what role seasonal variation in rainfall and plant composition played in the microbial community response. Seasonal variability in precipitation had a larger role in determining the composition of soil microbial communities in 2008 than the direct effect of the experimental precipitation treatments. Bacterial and fungal communities in the dry, relatively moisture-limited premonsoon season were compositionally distinct from communities in the monsoon season, when soil moisture levels and periodicity varied more widely across treatments. Fungal abundance in the drought plots during the dry premonsoon season was particularly low and was 4.7 times greater upon soil wet-up in the monsoon season, suggesting that soil fungi were water limited in the driest plots, which may result in a decrease in fungal degradation of carbon substrates. Additionally, we found that both bacterial and fungal communities beneath piñon pine and juniper were distinct, suggesting that microbial functions beneath these trees are different. We conclude that predicting the response of microbial communities to climate change is highly dependent on seasonal dynamics, background climatic variability, and the composition of the associated aboveground community.     

Animal-habitat relationships in the Knysna Forest,South Africa: discrimination between forest types by birds and invertebrates

Summary Effects of forest plant species composition and physiognomy on bird and invertebrate communities were investigated in three discrete, relatively undisturbed forest types along a dry-wet soil moisture gradient. Using discriminant function analysis, a 100% floristic and a 78% vegetation structural discrimination were obtained between the three forest types. However, the bird communities of these different forest types were very similar in species composition, and had much lower densities than those normally encountered in other, superficially similar forests. Although an 81% discrimination between forest types was attained through analysis of ground surface invertebrates, measures of litter and aerial invertebrate abundance were also of limited use as discriminators. Historical and biogeographic factors, as well as the low nutritional levels in the soil and vegetation may be the causes of low bird and invertebrate density and diversity. It is concluded that floristics and vegetation structure have, at best, a minor influence on bird community structure, and possibly also on invertebrate community structure in the Knysna Forest.     

Subordinate plant species impact on soil microbial communities and ecosystem functioning in grasslands: Findings from a removal experiment

Despite their low relative abundance, subordinate plant species may have larger impacts on ecosystem functioning than expected, but their role in plant communities remains poorly understood. The aim of this study was to test how subordinate plant species influence the functioning of a species-rich semi-natural grasslands. A plant removal experiment was set-up in the mountain grasslands of the Jura Mountains (Switzerland) to test the impact of subordinate plant species on soil microbial communities and ecosystem functioning. The experiment included three treatments: removal of all subordinate species, partial biomass removal of dominant species, and a no biomass removal control. After 2 years of treatments, we determined soil microbial community (bacteria and mycorrhizal fungi) by T-RFLP analysis and measured litter decomposition, soil respiration, soil inorganic nitrogen (DIN) availability and throughout above-ground biomass production as measures of ecosystem function. The removal of subordinate plant species strongly affected bacterial and weakly influenced mycorrhizal fungi communities and decreased rates of plant litter decomposition, soil respiration and DIN availability with larger effects than the partial loss of dominant biomass. The removal of subordinate plant species did not modify plant community structure, but it did reduce total above-ground biomass production compared to the control plots. Collectively, our findings indicate that the loss of subordinate species can have significant consequences for soil microbial communities and ecosystem functions, suggesting that subordinate species are important drivers of ecosystem properties.     

Disentangling the ‘brown world’ faecal–detritus interaction web: dung beetle effects on soil microbial properties

Many ecosystem services are sustained by the combined action of microscopic and macroscopic organisms, and shaped by interactions between the two. However, studies tend to focus on only one of these two components. We combined the two by investigating the impact of macrofauna on microbial community composition and functioning in the context of a major ecosystem process: the decomposition of dung. We compared bacterial communities of pasture soil and experimental dung pats inhabited by one (Aphodius), two (Aphodius and Geotrupes), or no dung beetle genera. Overall, we found distinct microbial communities in soil and dung samples, and that the communities converged over the course of the experiment. Characterising the soil microbial communities underlying the dung pats revealed a significant interactive effect between the microflora and macrofauna, where the diversity and composition of microbial communities was significantly affected by the presence or absence of dung beetles. The specific identity of the beetles had no detectable impact, but the microbial evenness was lower in the presence of both Aphodius and Geotrupes than in the presence of Aphodius alone. Differences in microbial community composition were associated with differences in substrate usage as measured by Ecoplates. Moreover, microbial communities with similar compositions showed more similar substrate usage. Our study suggests that the presence of macrofauna (dung beetles) will modify the microflora (bacteria) of both dung pats and pasture soil, including community diversity and functioning. In particular, the presence of dung beetles promotes the transfer of bacteria across the soil–dung interface, resulting in increased similarity in community structure and functioning. The results demonstrate that to understand how microbes contribute to the ecosystem process of dung decomposition, there is a need to understand their interactions with larger co‐occurring fauna.     

Revisiting the Dilution Procedure Used To Manipulate Microbial Biodiversity in Terrestrial Systems

It is hard to assess experimentally the importance of microbial diversity in soil for the functioning of terrestrial ecosystems. An approach that is often used to make such assessment is the so-called dilution method. This method is based on the assumption that the biodiversity of the microbial community is reduced after dilution of a soil suspension and that the reduced diversity persists after incubation of more or less diluted inocula in soil. However, little is known about how the communities develop in soil after inoculation. In this study, serial dilutions of a soil suspension were made and reinoculated into the original soil previously sterilized by gamma irradiation. We determined the structure of the microbial communities in the suspensions and in the inoculated soils using 454-pyrosequencing of 16S rRNA genes. Upon dilution, several diversity indices showed that, indeed, the diversity of the bacterial communities in the suspensions decreased dramatically, with Proteobacteria as the dominant phylum of bacteria detected in all dilutions. The structure of the microbial community was changed considerably in soil, with Proteobacteria, Bacteroidetes, and Verrucomicrobia as the dominant groups in most diluted samples, indicating the importance of soil-related mechanisms operating in the assembly of the communities. We found unique operational taxonomic units (OTUs) even in the highest dilution in both the suspensions and the incubated soil samples. We conclude that the dilution approach reduces the diversity of microbial communities in soil samples but that it does not allow accurate predictions of the community assemblage during incubation of (diluted) suspensions in soil.     

Soil microbial diversity and community structure across a climatic gradient in western Canada

Soil microbial functional diversity was assessed along a climatic gradient in Western Canada. Mineral soil samples were collected from jack pine (Pinus banksiana Lamb.) stands along an 800km transect between Prince Albert, Saskatchewan and Gillam, Manitoba. Microbial communities were isolated from the soil samples, washed and inoculated into wells of Gram-negative Biolog microplates. Optical density values were used to calculate Shannon diversity indices and to perform principal component analysis. Colour development rank plots (CDR) were created by expressing optical density values as a percentage of total colour development and plotting the wells in descending order. Soil microbial functional diversity decreased with increasing latitude and correlated positively with measures of atmospheric temperature and pH. Soil microbial diversity may be lower in northern sites due to decreased productivity, nutrient limitation and higher acidity. CDR plots are consistent with a trend of increasing environmental harshness moving north along the transect.     

Soil bacterial diversity in degraded and restored lands of Northeast Brazil

Land degradation deteriorates biological productivity and affects environmental, social, and economic sustainability, particularly so in the semi-arid region of Northeast Brazil. Although some studies exist reporting gross measures of soil microbial parameters and processes, limited information is available on how land degradation and restoration strategies influence the diversity and composition of soil microbial communities. In this study we compare the structure and diversity of bacterial communities in degraded and restored lands in Northeast Brazil and determine the soil biological and chemical properties influencing bacterial communities. We found that land degradation decreased the diversity of soil bacteria as indicated by both reduced operational taxonomic unit (OTU) richness and Shannon index. Soils under native vegetation and restoration had significantly higher bacterial richness and diversity than degraded soils. Redundancy analysis revealed that low soil bacterial diversity correlated with a high respiratory quotient, indicating stressed microbial communities. By contrast, soil bacterial communities in restored land positively correlated with high soil P levels. Importantly, however, we found significant differences in the soil bacterial community composition under native vegetation and in restored land, which may indicate differences in their functioning despite equal levels of bacterial diversity.     

Impact of Atmospheric Nitrogen Deposition on Carbon Dynamics in Two Scots Pine Forest Soils of Northern Germany

The impact of atmospheric N deposition on the dynamics of various carbon fractions was investigated in two Scots pine forest soils (cambisol, podzol) of Northern Germany in microcosm experiments. Total organic carbon (TOC), CO₂ emission, microbial carbon (C_mic) as well as organic hot- and coldwater extractable carbon fractions (C_hwe, C_cwe) were analyzed before, during, and after soil incubation in microcosms, run in three treatments: 0, +45, and +90 kg N ha⁻¹a⁻¹. On both sites, the N treatment showed no response to total organic carbon (TOC) contents in most of the investigated soil layers. Microbial carbon (C_mic) was significantly increased in the organic layer of both soil types by the N application. Subsequent to the N application, the CO₂ emission increased in all mineral soil layers of the cambisol but remained almost unaffected in the podzol. After the N application, a remarkable increase of hotwater extractable C (C_hwe) was detected for the organic layer of the cambisol but not for the podzol, whereas coldwater extractable C (C_cwe) concentrations decreased at both sites. The N application did not have a significant impact on the leachate concentrations of total organic carbon (TOC), dissolved organic carbon (DOC), and particulate organic carbon (POC) in the podzol, whereas the concentrations of these C fractions were decreased in the organic layer and the 35–70~cm mineral soil layer of the cambisol. The N treatment changed the contents of most of the investigated C fractions in both soil types and resulted in a considerable C~mobilization. But the processes of the C~mobilization between the cambisol and the podzol were completely different. According to the presented data, the cambisol obtaining moderate atmospheric N loads is much more sensitive to additional N inputs than the podzol that already received high amounts of atmospheric N.