Effects of Soil Organic Matter Properties and Microbial Community Composition on Enzyme Activities in Cryoturbated Arctic Soils

Enzyme-mediated decomposition of soil organic matter (SOM) is controlled, amongst other factors, by organic matter properties and by the microbial decomposer community present. Since microbial community composition and SOM properties are often interrelated and both change with soil depth, the drivers of enzymatic decomposition are hard to dissect. We investigated soils from three regions in the Siberian Arctic, where carbon rich topsoil material has been incorporated into the subsoil (cryoturbation). We took advantage of this subduction to test if SOM properties shape microbial community composition, and to identify controls of both on enzyme activities. We found that microbial community composition (estimated by phospholipid fatty acid analysis), was similar in cryoturbated material and in surrounding subsoil, although carbon and nitrogen contents were similar in cryoturbated material and topsoils. This suggests that the microbial community in cryoturbated material was not well adapted to SOM properties. We also measured three potential enzyme activities (cellobiohydrolase, leucine-amino-peptidase and phenoloxidase) and used structural equation models (SEMs) to identify direct and indirect drivers of the three enzyme activities. The models included microbial community composition, carbon and nitrogen contents, clay content, water content, and pH. Models for regular horizons, excluding cryoturbated material, showed that all enzyme activities were mainly controlled by carbon or nitrogen. Microbial community composition had no effect. In contrast, models for cryoturbated material showed that enzyme activities were also related to microbial community composition. The additional control of microbial community composition could have restrained enzyme activities and furthermore decomposition in general. The functional decoupling of SOM properties and microbial community composition might thus be one of the reasons for low decomposition rates and the persistence of 400 Gt carbon stored in cryoturbated material.     

Arbuscular Mycorrhizas, Microbial Communities, Nutrient Availability, and Soil Aggregates in Organic Tomato Production

Effects of arbuscular mycorrhzal (AM) fungi on plant growth and nutrition are well-known, but their effects on the wider soil biota are less clear. This is in part due to difficulties with establishing appropriate non-mycorrhizal controls in the field. Here we present results of a field experiment using a new approach to overcome this problem. A previously well-characterized mycorrhizal defective tomato mutant (rmc) and its mycorrhizal wildtype progenitor (76R MYC+) were grown at an organic fresh market tomato farm (Yolo County, CA). At the time of planting, root in-growth cores amended with different levels of N and P, were installed between experimental plants to study localized effects of mycorrhizal and non-mycorrhizal tomato roots on soil ecology. Whilst fruit yield and vegetative production of the two genotypes were very similar at harvest, there were large positive effects of colonization of roots by AM fungi on plant nutrient contents, especially P and Zn. The presence of roots colonized by AM fungi also resulted in improved aggregate stability by increasing the fraction of small macroaggregates, but only when N was added. Effects on the wider soil community including nematodes, fungal biomass as indicated by ergosterol, microbial biomass C, and phospholipid fatty acid (PLFA) profiles were less pronounced. Taken together, these data show that AM fungi provide important ecosystem functions in terms of plant nutrition and aggregate stability, but that a change in this one functional group had only a small effect on the wider soil biota. This indicates a high degree of stability in soil communities of this organic farm.     

The Influence of Nutrient Availability on Soil Organic Matter Turnover Estimated by Incubations and Radiocarbon Modeling

We investigated the decomposability of soil organic matter (SOM) along a chronosequence of rainforest sites in Hawaii that form a natural fertility gradient and at two long-term fertilization experiments. To estimate turnover times and pool sizes of organic matter, we used two independent methods: (1) long-term incubations and (2) a three-box soil model constrained by radiocarbon measurements. Turnover times of slow-pool SOM (the intermediate pool between active and passive pools) calculated from incubations ranged from 6 to 20 y in the O horizon and were roughly half as fast in the A horizon. The radiocarbon-based model yielded a similar pattern but slower turnover times. The calculation of the ¹⁴C turnover times is sensitive to the lag time between photosynthesis and incorporation of organic C into SOM in a given horizon. By either method, turnover times at the different sites varied two- or threefold in soils with the same climate and vegetation community. Turnover times were fastest at the sites of highest soil fertility and were correlated with litter decay rates and primary productivity. However, experimental fertilization at the two least-fertile sites had only a small and inconsistent effect on turnover, with N slowing turnover and P slightly speeding it at one site. These results support studies of litter decomposition in suggesting that while plant productivity can respond rapidly to nutrient additions, decomposition may respond much more slowly to added nutrients.     

Aspen Increase Soil Moisture,Nutrients, Organic Matter and Respiration in Rocky Mountain Forest Communities

Development and change in forest communities are strongly influenced by plant-soil interactions. The primary objective of this paper was to identify how forest soil characteristics vary along gradients of forest community composition in aspen-conifer forests to better understand the relationship between forest vegetation characteristics and soil processes. The study was conducted on the Fishlake National Forest, Utah, USA. Soil measurements were collected in adjacent forest stands that were characterized as aspen dominated, mixed, conifer dominated or open meadow, which includes the range of vegetation conditions that exist in seral aspen forests. Soil chemistry, moisture content, respiration, and temperature were measured. There was a consistent trend in which aspen stands demonstrated higher mean soil nutrient concentrations than mixed and conifer dominated stands and meadows. Specifically, total N, NO₃ and NH₄ were nearly two-fold higher in soil underneath aspen dominated stands. Soil moisture was significantly higher in aspen stands and meadows in early summer but converged to similar levels as those found in mixed and conifer dominated stands in late summer. Soil respiration was significantly higher in aspen stands than conifer stands or meadows throughout the summer. These results suggest that changes in disturbance regimes or climate scenarios that favor conifer expansion or loss of aspen will decrease soil resource availability, which is likely to have important feedbacks on plant community development.     

Tree Species Effects on Soil Organic Matter Dynamics: The Role of Soil Cation Composition

Abstract We studied the influence of tree species on soil carbon and nitrogen (N) dynamics in a common garden of replicated monocultures of fourteen angiosperm and gymnosperm, broadleaf and needleleaf species in southwestern Poland. We hypothesized that species would influence soil organic matter (SOM) decomposition primarily via effects on biogeochemical recalcitrance, with species having tissues with high lignin concentrations retarding rates of decomposition in the O and A horizons. Additionally, because prior work demonstrated substantial divergence in foliar and soil base cation concentrations and soil pH among species, we hypothesized that species would influence chemical stabilization of SOM via cation bridging to mineral surfaces in the A-horizon. Our hypotheses were only partially supported: SOM decomposition and microbial biomass were unrelated to plant tissue lignin concentrations, but in the mineral horizon, were significantly negatively related to the percentage of the cation exchange complex (CEC) occupied by polyvalent acidic (hydrolyzing) cations (Al and Fe), likely because these cations stabilize SOM via cation bridging and flocculation and/or because of inhibitory effects of Al or low pH on decomposers. Percent CEC occupied by exchangeable Al and Fe was in turn related to both soil clay content (a parent material characteristic) and root Ca concentrations (a species characteristic). In contrast, species influenced soil N dynamics largely via variation in tissue N concentration. In both laboratory and in situ assays, species having high-N roots exhibited faster rates of net N mineralization and nitrification. Nitrification:mineralization ratios were greater, though, under species with high exchangeable soil Ca²⁺. Our results indicate that tree species contribute to variation in SOM dynamics, even in the mineral soil horizons. To our knowledge the influence of tree species on SOM decomposition via cation biogeochemistry has not been demonstrated previously, but could be important in other poorly buffered systems dominated by tree species that differ in cation nutrition or that are influenced by acidic deposition.     

Bacterial Communities Involved in Soil Formation and Plant Establishment Triggered by Pyrite Bioweathering on Arctic Moraines

In arctic glacier moraines, bioweathering primed by microbial iron oxidizers creates fertility gradients that accelerate soil development and plant establishment. With the aim of investigating the change of bacterial diversity in a pyrite-weathered gradient, we analyzed the composition of the bacterial communities involved in the process by sequencing 16S rRNA gene libraries from different biological soil crusts (BSC). Bacterial communities in three BSC of different morphology, located within 1 m distance downstream a pyritic conglomerate rock, were significantly diverse. The glacier moraine surrounding the weathered site showed wide phylogenetic diversity and high evenness with 15 represented bacterial classes, dominated by Alphaproteobacteria and pioneer Cyanobacteria colonizers. The bioweathered area showed the lowest diversity indexes and only nine bacterial families, largely dominated by Acidobacteriaceae and Acetobacteraceae typical of acidic environments, in accordance with the low pH of the BSC. In the weathered BSC, iron-oxidizing bacteria were cultivated, with counts decreasing along with the increase of distance from the rock, and nutrient release from the rock was revealed by environmental scanning electron microscopy-energy dispersive X-ray analyses. The vegetated area showed the presence of Actinomycetales, Verrucomicrobiales, Gemmatimonadales, Burkholderiales, and Rhizobiales, denoting a bacterial community typical of developed soils and indicating that the lithoid substrate of the bare moraine was here subjected to an accelerated colonization, driven by iron-oxidizing activity.     

Effects of Organic Resource Quality on Soil Profile N Dynamics and Maize Yields on Sandy Soils in Zimbabwe

Optimising the use efficiency of nitrogen (N) derived from different quality organic resources and mineral fertilizers on sandy soils with <100 g clay kg⁻¹ is a major challenge for smallholder farmers in Southern Africa. The dominant sandy soils have a poor capacity to store and supply crop nutrients due to low organic matter contents and inherent infertility. A study was conducted in Zimbabwe to determine the differential N supply effects of different quality and quantities of organic nutrient sources on maize productivity. Crotalaria juncea L., Calliandra calothyrsus Meissn., cattle manure, maize (Zea mays L.) stover and Pinus patula Schiede & Schltdl. & Cham. sawdust which represented high to low quality materials respectively, were each incorporated into soil at 1.2 and 4 t C ha⁻¹ at Makoholi Experiment Station (rainfall: 450–650 mm yr⁻¹) and tested against a sole mineral N fertilizer and control treatments. In a separate experiment conducted in farmers’ fields under different rainfall zones of Zimuto (450–650 mm yr⁻¹), Chinyika (650–750 mm yr⁻¹) and Chikwaka (>750 mm yr⁻¹), commonly available organic materials, including manure and composted miombo leaf litter, applied in varying amounts by farmers were evaluated. Nitrogen release patterns were consistent with differences in resource quality. At 3 weeks after incorporation into soil at the onset of the rains, C. juncea and C. calothyrsus had released as high as 24% and 13% of added N respectively, compared with no more than 5–6% for the rest of the amended treatments. Most of the N released was lost through leaching as evidenced by progressive movement of NO₃⁻-N bulges beyond maize rooting depth following major rainfall events. Maize yields were significantly related to the size of profile mineral N fluxes, with the best linear relationship (R² = 0.86) obtained with N available in the top 30 cm of soil at maize flowering. High grain yields of ~3 t ha⁻¹ were only achieved with C. juncea applied at 4 t C ha⁻¹, which also had highest NO₃⁻-N leaching losses. Conversely, the same application rate increased N immobilization by 30% and 42% under maize stover and sawdust, respectively, relative to the control. Results from farmers’ fields showed that organic resources traditionally used on smallholder farms are invariably of low quality relative to C. juncea and C. calothyrsus. However, they exhibited shorter N immobilization effects than was shown for maize stover and sawdust at Makoholi, suggesting that pre-application treatments, such as composting, employed by farmers enhance seasonal N benefits from these materials. Maize yields increased linearly with total N added in these resources in combination with N fertilizer, justifying the high organic matter loading strategy (e.g. >20 t ha⁻¹ for manure, fresh litter and composted litter) used by farmers who often achieve high crop yields on such coarse sandy soils in Zimbabwe.     

Dissolved Organic Matter Concentration and Quality Influences upon Structure and Function of Freshwater Microbial Communities

Past studies have suggested that the concentration and quality of dissolved organic matter (DOM) may influence microbial community structure. In this study, we cross-inoculated the bacterial communities from two streams and a dystrophic lake that varied in DOM concentration and chemistry, to yield nine fully crossed treatments. We measured dissolved organic carbon (DOC) concentration and heterotrophic microbial community productivity throughout a 72-h incubation period, characterized DOM quality by molecular weight, and determined microbial community structure at the initial and final time points. Our results indicate that all bacterial inoculate sources had similar effects upon DOC concentration and DOM quality, regardless of the DOM source. These effects included an overall decrease in DOM M _W and an initial period of DOC concentration variability between 0-24h. In contrast, microbial communities and their metabolic rates converged to profiles that reflected the DOM source upon which they were growing, regardless of the initial bacterial inoculation. The one exception was that the bacterial community from the low-concentration and low-molecular-weight DOM source exhibited a greater denaturing gradient gel electrophoresis (DGGE) band richness when grown in its own DOM source than when grown in the highest concentration and molecular weight DOM source. This treatment also exhibited a higher rate of productivity. In general, our data suggest that microbial communities are selected by the DOM sources to which they are exposed. A microbial community will utilize the low-molecular-weight (or labile) DOM sources as well as parts of the high-molecular-weight (refractory) DOM, until a community develops that can efficiently metabolize the more abundant high-molecular-weight source. This experiment examines some of the complex interactions between microbial community selection and the combined factors of DOM quality and concentration. Our data suggest that the roles of aerobic aquatic heterotrophic bacteria in carbon cycling, as well as the importance of high-molecular-weight DOM as a carbon source, may be more complex than is conventionally recognized.     

Soil Aggregates and Associated Organic Matter under Conventional Tillage,No-Tillage,and Forest Succession after Three Decades

Impacts of land use on soil organic C (SOC) are of interest relative to SOC sequestration and soil sustainability. The role of aggregate stability in SOC storage under contrasting land uses has been of particular interest relative to conventional tillage (CT) and no-till (NT) agriculture. This study compares soil structure and SOC fractions at the 30-yr-old Horseshoe Bend Agroecosystem Experiment (HSB). This research is unique in comparing NT and CT with adjacent land concurrently undergoing forest succession (FS) and in sampling to depths (15–28 cm) previously not studied at HSB. A soil moving experiment (SME) was also undertaken to monitor 1-yr changes in SOC and aggregation. After 30 years, enhanced aggregate stability under NT compared to CT was limited to a depth of 5 cm, while enhanced aggregate stability under FS compared to CT occurred to a depth of 28 cm and FS exceeded NT from 5–28 cm. Increases in SOC concentrations generally followed the increases in stability, except that no differences in SOC concentration were observed from 15–28 cm despite greater aggregate stability. Land use differences in SOC were explained equally by differences in particulate organic carbon (POC) and in silt-clay associated fine C. Enhanced structural stability of the SME soil was observed under FS and was linked to an increase of 1 Mg SOC ha⁻¹ in 0–5 cm, of which 90% could be attributed to a POC increase. The crushing of macroaggregates in the SME soil also induced a 10% reduction in SOC over 1 yr that occurred under all three land uses from 5–15 cm. The majority of this loss was in the fine C fraction. NT and FS ecosystems had greater aggregation and carbon storage at the soil surface but only FS increased aggregation below the surface, although in the absence of increased carbon storage.     

Vegetation Effects on Soil Organic Matter Chemistry of Aggregate Fractions in a Hawaiian Forest

We examined chemical changes from leaf tissue to soil organic matter (SOM) to determine the persistence of plant chemistry into soil aggregate fractions. We characterized a slow (Dicranopteris linearis) and fast-decomposing species (Cheirodendron trigynum) and surface (O), and subsurface (A-horizon) SOM beneath each species using pyrolysis-gas chromatography/mass spectrometry (py-GC/MS), with and without derivatization. The live tissues of Dicranopteris had greater lignin content whereas Cheirodendron had a greater lipid, N-bearing, and polysaccharide component. Despite this difference in leaf chemistry, SOM chemistry was similar between soil aggregate fractions, but different between horizons. The O-horizon contained primarily lignin and polysaccharide biomarkers whereas the A-horizon contained polysaccharide, aromatic, and N-derived compounds, indicating considerable microbial processing of plant litter. The soils beneath Cheirodendron inherited a greater lipid signal composed of cutin and suberin biomarkers whereas the soils beneath Dicranopteris contained greater aromatic biomarker content, possibly derived from plant lignins. The soils beneath both species were more similar to root polysaccharides, lipids, and lignins than aboveground tissue. This study indicates that although plant-derived OM is processed vigorously, species-specific biomarkers and compound class differences persist into these soils and that differences in plant chemical properties may influence soil development even after considerable reworking of plant litter by microorganisms.     

Effects of Added Organic Matter and Water on Soil Carbon Sequestration in an Arid Region

It is generally predicted that global warming will stimulate primary production and lead to more carbon (C) inputs to soil. However, many studies have found that soil C does not necessarily increase with increased plant litter input. Precipitation has increased in arid central Asia, and is predicted to increase more, so we tested the effects of adding fresh organic matter (FOM) and water on soil C sequestration in an arid region in northwest China. The results suggested that added FOM quickly decomposed and had minor effects on the soil organic carbon (SOC) pool to a depth of 30 cm. Both FOM and water addition had significant effects on the soil microbial biomass. The soil microbial biomass increased with added FOM, reached a maximum, and then declined as the FOM decomposed. The FOM had a more significant stimulating effect on microbial biomass with water addition. Under the soil moisture ranges used in this experiment (21.0%–29.7%), FOM input was more important than water addition in the soil C mineralization process. We concluded that short-term FOM input into the belowground soil and water addition do not affect the SOC pool in shrubland in an arid region.     

The Effects of Permafrost Thaw on Soil Hydrologic, Thermal, and Carbon Dynamics in an Alaskan Peatland

Recent warming at high-latitudes has accelerated permafrost thaw in northern peatlands, and thaw can have profound effects on local hydrology and ecosystem carbon balance. To assess the impact of permafrost thaw on soil organic carbon (OC) dynamics, we measured soil hydrologic and thermal dynamics and soil OC stocks across a collapse-scar bog chronosequence in interior Alaska. We observed dramatic changes in the distribution of soil water associated with thawing of ice-rich frozen peat. The impoundment of warm water in collapse-scar bogs initiated talik formation and the lateral expansion of bogs over time. On average, Permafrost Plateaus stored 137 ± 37 kg C m⁻², whereas OC storage in Young Bogs and Old Bogs averaged 84 ± 13 kg C m⁻². Based on our reconstructions, the accumulation of OC in near-surface bog peat continued for nearly 1,000 years following permafrost thaw, at which point accumulation rates slowed. Rapid decomposition of thawed forest peat reduced deep OC stocks by nearly half during the first 100 years following thaw. Using a simple mass-balance model, we show that accumulation rates at the bog surface were not sufficient to balance deep OC losses, resulting in a net loss of OC from the entire peat column. An uncertainty analysis also revealed that the magnitude and timing of soil OC loss from thawed forest peat depends substantially on variation in OC input rates to bog peat and variation in decay constants for shallow and deep OC stocks. These findings suggest that permafrost thaw and the subsequent release of OC from thawed peat will likely reduce the strength of northern permafrost-affected peatlands as a carbon dioxide sink, and consequently, will likely accelerate rates of atmospheric warming.     

Carbon Source Quality and Placement Effects on Soil Organic Carbon Status

Improved management of agricultural soils has potential for sequestering carbon (C) and reducing the accumulation of atmospheric carbon dioxide. Development of management practices to increase C sequestration is dependent on improved understanding of soil processes influencing long-term storage of C. A field study was conducted to compare surface C source quality and above- vs. belowground addition of annual or perennial plant biomass effects on particulate organic matter (POM), total labile C (TLC), and total organic C (TOC). Since microaggregate stabilization within macroaggregates is the main mechanism for sequestering C, aggregate size distribution, expressed as mean weight diameter (MWD), and wet aggregate stability (WAS) was also measured. After 5 years, POM decreased in plots receiving surface application of readily available substrate (sucrose and alfalfa pellets) and the bare surface control. Plots receiving plant additions [wood chips, growing wheat (Triticum aestivum L.) crop, growing switchgrass (Panicum virgatum L.) crop, and fallow receiving either wheat or switchgrass residue] exhibited higher TLC and TOC content. Plots receiving plant residue maintained MWD, and those supporting live plants exhibited increasing WAS. Surface plant residue protected the soil against raindrop impact and reduced the intensity of wetting and drying cycles allowing the development of larger more stable aggregates resulting in C accrual.     

The Influence of Tropical Plant Diversity and Composition on Soil Microbial Communities

There is growing interest in understanding the linkages between above- and belowground communities, and very little is known about these linkages in tropical systems. Using an experimental site at La Selva Biological Station, Costa Rica, we examined whether plant diversity, plant community composition, and season influenced microbial communities. We also determined whether soil characteristics were related to differences in microbial communities. Phospholipid fatty acid (PLFA) composition revealed that microbial community composition differed across a plant diversity gradient (plots contained 1, 3, 5, or over 25 species). Plant species identity also was a factor influencing microbial community composition; PLFA composition significantly varied among monocultures, and among three-species combinations that differed in plant species composition. Differences among treatments within each of these comparisons were apparent in all four sampling dates of the study. There was no consistent shift in microbial community composition between wet and dry seasons, although we did see significant changes over time. Of all measured soil characteristics, soil C/N was most often associated with changes in microbial community composition across treatment groups. Our findings provide evidence for human alteration of soil microbial communities via the alteration of plant community composition and diversity and that such changes are mediated in part by changes in soil carbon quality.     

The Impact of Corn Residue Removal on Soil Aggregates and Particulate Organic Matter

Removal of corn (Zea mays L.) stover as a biofuel feedstock is being considered. It is important to understand the implications of this practice when establishing removal guidelines to ensure the long-term sustainability of both the biofuel industry and soil health. Aboveground and belowground plant residues are the soil’s main sources of organic materials that bind soil particles together into aggregates and increase soil carbon (C) storage. Serving to stabilize soil particles, soil organic matter (SOM) assists in supplying plant available nutrients, increases water holding capacity, and helps reduce soil erosion. Data obtained from three Corn Stover Regional Partnership sites (Brookings, SD; Morris, MN; and Ithaca, NE) were utilized to evaluate the impact of removing corn stover on soil physical properties, including dry aggregate size distribution (DASD), erodible fraction (EF), and SOM components. Each site consisted of a combination of three residue removal rates (low—removal of grain only, intermediate—approximately 50 % residue removal, and high—maximum amount of residue removal). Results showed that the distribution of soil aggregates was less favorable for all three locations when residue was removed without the addition of other sources of organic matter such as cover crops. Additionally, we found that when residue was removed and the soil surface was less protected, there was an increase in the EF at all three research sites. There was a reduction in the EF for both the Brookings, SD, and Ithaca, NE sites when cover crops were incorporated or additional nitrogen (N) was added to the system. Amounts of SOM, fine particulate organic matter (fPOM), and total particulate organic matter (tPOM) consistently decreased as greater amounts of residue were removed from the soil surface. Across these three locations, the removal of crop residue from the soil surface had a negative impact on measured soil physical properties. The addition of a cover crop or additional N helped reduce this impact as measured through aggregate size distribution and EF and SOM components.     

Effects of Plant Biomass, Plant Diversity, and Water Content on Bacterial Communities in Soil Lysimeters: Implications for the Determinants of Bacterial Diversity

Soils may comprise tens of thousands to millions of bacterial species. It is still unclear whether this high level of diversity is governed by functional redundancy or by a multitude of ecological niches. In order to address this question, we analyzed the reproducibility of bacterial community composition after different experimental manipulations. Soil lysimeters were planted with four different types of plant communities, and the water content was adjusted. Group-specific phylogenetic fingerprinting by PCR-denaturing gradient gel electrophoresis revealed clear differences in the composition of Alphaproteobacteria, Betaproteobacteria, Bacteroidetes, Chloroflexi, Planctomycetes, and Verrucomicrobia populations in soils without plants compared to that of populations in planted soils, whereas no influence of plant species composition on bacterial diversity could be discerned. These results indicate that the presence of higher plant species affects the species composition of bacterial groups in a reproducible manner and even outside of the rhizosphere. In contrast, the environmental factors tested did not affect the composition of Acidobacteria, Actinobacteria, Archaea, and Firmicutes populations. One-third (52 out of 160) of the sequence types were found to be specifically and reproducibly associated with the absence or presence of plants. Unexpectedly, this was also true for numerous minor constituents of the soil bacterial assemblage. Subsequently, one of the low-abundance phylotypes (beta10) was selected for studying the interdependence under particular experimental conditions and the underlying causes in more detail. This so-far-uncultured phylotype of the Betaproteobacteria species represented up to 0.18% of all bacterial cells in planted lysimeters compared to 0.017% in unplanted systems. A cultured representative of this phylotype exhibited high physiological flexibility and was capable of utilizing major constituents of root exudates. Our results suggest that the bacterial species composition in soil is determined to a significant extent by abiotic and biotic factors, rather than by mere chance, thereby reflecting a multitude of distinct ecological niches.     

Effects of Manipulated Above- and Belowground Organic Matter Input on Soil Respiration in a Chinese Pine Plantation

Alteration in the amount of soil organic matter input can have profound effect on carbon dynamics in forest soils. The objective of our research was to determine the response in soil respiration to above- and belowground organic matter manipulation in a Chinese pine (Pinus tabulaeformis) plantation. Five organic matter treatments were applied during a 2-year experiment: both litter removal and root trenching (LRRT), only litter removal (LR), control (CK), only root trenching (RT) and litter addition (LA). We found that either aboveground litter removal or root trenching decreased soil respiration. On average, soil respiration rate was significantly decreased in the LRRT treatment, by about 38.93% ± 2.01% compared to the control. Soil respiration rate in the LR treatment was 30.65% ± 1.87% and in the RT treatment 17.65% ± 1.95% lower than in the control. Litter addition significantly increased soil respiration rate by about 25.82% ± 2.44% compared to the control. Soil temperature and soil moisture were the main factors affecting seasonal variation in soil respiration. Up to the 59.7% to 82.9% seasonal variation in soil respiration is explained by integrating soil temperature and soil moisture within each of the various organic matter treatments. The temperature sensitivity parameter, Q₁₀, was higher in the RT (2.72) and LA (3.19) treatments relative to the control (2.51), but lower in the LRRT (1.52) and LR treatments (1.36). Our data suggest that manipulation of soil organic matter input can not only alter soil CO₂ efflux, but also have profound effect on the temperature sensitivity of organic carbon decomposition in a temperate pine forest.     

Soil Nitrogen Availability and Plant Genotype Modify the Nutrition Strategies of M. truncatula and the Associated Rhizosphere Microbial Communities

Plant and soil types are usually considered as the two main drivers of the rhizosphere microbial communities. The aim of this work was to study the effect of both N availability and plant genotype on the plant associated rhizosphere microbial communities, in relation to the nutritional strategies of the plant-microbe interactions, for six contrasted Medicago truncatula genotypes. The plants were provided with two different nutrient solutions varying in their nitrate concentrations (0 mM and 10 mM). First, the influence of both nitrogen availability and Medicago truncatula genotype on the genetic structure of the soil bacterial and fungal communities was determined by DNA fingerprint using Automated Ribosomal Intergenic Spacer Analysis (ARISA). Secondly, the different nutritional strategies of the plant-microbe interactions were evaluated using an ecophysiological framework. We observed that nitrogen availability affected rhizosphere bacterial communities only in presence of the plant. Furthermore, we showed that the influence of nitrogen availability on rhizosphere bacterial communities was dependent on the different genotypes of Medicago truncatula. Finally, the nutritional strategies of the plant varied greatly in response to a modification of nitrogen availability. A new conceptual framework was thus developed to study plant-microbe interactions. This framework led to the identification of three contrasted structural and functional adaptive responses of plant-microbe interactions to nitrogen availability.     

Microbial Communities Involved in Fe Reduction and Mobility During Soil Organic Matter (SOM) Mineralization in Two Contrasted Paddy Soils

Lowland rice fields of West Africa (Ivory Coast) and South Asia (Thailand) are affected by ferrous toxicity or salinity, respectively, and their soil waters contain large amounts of ferrous iron, depending on reducing irrigation condition and suggesting occurrence of bacterial reducing processes. To determine the involvement, dynamic and activities of bacterial communities in Fe(III) reduction and mobilization during anaerobic degradation and mineralization of soil organic matter (SOM), different experiments and analyses have been performed. Results demonstrated that the utilization of SOM as sole carbon, nutrient and energy sources favored the presence of large bacterial communities: facultative anaerobic and anaerobic bacteria, Fe(III)-reducing bacteria (FeRB) (fermentative and Fe respiring), sulfate reducing bacteria (SRB) which are involved in carbon, nitrogen, iron and sulfur cycling. The larger functional diversity is observed in the Ivory Coast paddy soils containing larger amounts of organic matter and sulfur compounds. These communities contained complementary populations (chemoorganotrophic, chemolitotrophic, aerobic, facultative anaerobic and anaerobic) that can be active at different steps of iron solubilization with simultaneous organic matter mineralization. Our results indicate that the pH controlled by bacterial activity, the nature much more than the content of organic matter, and consequently the structure and activity of bacterial communities influence significantly the availability and dynamic of iron in paddy fields which affect the soil quality.     

Functional Gene Differences in Soil Microbial Communities from Conventional,Low-Input,and Organic Farmlands

Various agriculture management practices may have distinct influences on soil microbial communities and their ecological functions. In this study, we utilized GeoChip, a high-throughput microarray-based technique containing approximately 28,000 probes for genes involved in nitrogen (N)/carbon (C)/sulfur (S)/phosphorus (P) cycles and other processes, to evaluate the potential functions of soil microbial communities under conventional (CT), low-input (LI), and organic (ORG) management systems at an agricultural research site in Michigan. Compared to CT, a high diversity of functional genes was observed in LI. The functional gene diversity in ORG did not differ significantly from that of either CT or LI. Abundances of genes encoding enzymes involved in C/N/P/S cycles were generally lower in CT than in LI or ORG, with the exceptions of genes in pathways for lignin degradation, methane generation/oxidation, and assimilatory N reduction, which all remained unchanged. Canonical correlation analysis showed that selected soil (bulk density, pH, cation exchange capacity, total C, C/N ratio, NO₃⁻, NH₄⁺, available phosphorus content, and available potassium content) and crop (seed and whole biomass) variables could explain 69.5% of the variation of soil microbial community composition. Also, significant correlations were observed between NO₃⁻ concentration and denitrification genes, NH₄⁺ concentration and ammonification genes, and N₂O flux and denitrification genes, indicating a close linkage between soil N availability or process and associated functional genes.