Soil Organisms Research Articles

Meta-analysis reveals that the effects of precipitation change on soil and litter fauna in forests depend on body size.

Anthropogenic climate change is altering precipitation regimes at a global scale. While precipitation changes have been linked to changes in the abundance and diversity of soil and litter invertebrate fauna in forests, general trends have remained elusive due to mixed results from primary studies. We used a meta-analysis based on 430 comparisons from 38 primary studies to address associated knowledge gaps, (i) quantifying impacts of precipitation change on forest soil and litter fauna abundance and diversity, (ii) exploring reasons for variation in impacts and (iii) examining biases affecting the realism and accuracy of experimental studies. Precipitation reductions led to a decrease of 39% in soil and litter fauna abundance, with a 35% increase in abundance under precipitation increases, while diversity impacts were smaller. A statistical model containing an interaction between body size and the magnitude of precipitation change showed that mesofauna (e.g. mites, collembola) responded most to changes in precipitation. Changes in taxonomic richness were related solely to the magnitude of precipitation change. Our results suggest that body size is related to the ability of a taxon to survive under drought conditions, or to benefit from high precipitation. We also found that most experiments manipulated precipitation in a way that aligns better with predicted extreme climatic events than with predicted average annual changes in precipitation and that the experimental plots used in experiments were likely too small to accurately capture changes for mobile taxa. The relationship between body size and response to precipitation found here has far-reaching implications for our ability to predict future responses of soil biodiversity to climate change and will help to produce more realistic mechanistic soil models which aim to simulate the responses of soils to global change.

Fostering biodiversity research in post-fire biology

The impacts of wildfire on vegetation and soil erosion have been studied for decades aiming to bring back ecosystems after fire perturbance. However, the influence of fires on above and belowground biodiversity remains far less understood. Biodiversity is critical for supporting ecosystem function, and this data scarcity is hampering managers in adopting effective practices for a proper restoration of burned ecosystems. This limitation could be overcome by future research that should focus post-fire diversity of plants and soil biota, by (i) analysing the environmental factors driving post-fire evolutionary trends; (ii) exploring their interrelations across different spatial and temporal scales; (iii) identifying the variability across fires of different severities and frequency; (iv) ascertaining the post-fire response of individual plant species and soil taxa to fire with or without application of post-fire restoration actions.

Occurrence of Sphingomonas olei with elemental S oxidation capability in sodic soil: Potential role in sodicity reclamation and plant growth promotion

The success of the sodic soil reclamation using elemental S (S°) depends on the population of the native S° oxidizers. Augmenting the native flora of the sodic soils with effective S° oxidizers can enhance the success of the sodic soil reclamation. Present study reports for the first time the S° oxidation potential of the Sphingomonas olei strain 20UP7 isolated from sodic soils with pHs 9.8 and ECe 3.6 dS m–1. Inoculation with S. olei strain 20UP7 caused 13.0–24.2 % increase in S° oxidation in different sodic soils (pHs 9.1–10.5). It improved the concentration of the Ca2+, Mg2+, PO43– and declined the HCO3– and total alkalinity of the soil solution. This isolate also showed appreciable P and Zn solubilization, indole acetic acid, ammonia, and titratable acidity production in the growth media. It tended to the formation of biofilm around sulphur particles. The PCR amplification with gene–specific primers showed the occurrence of soxA, soxB, and soxY genes with a single band corresponding to length of 850, 460, and 360 base pairs, respectively. The integration of the S. olei strain 20UP7 with S° caused 21.7–25.4 % increase in the rice and wheat yield compared to the soil treated with S° alone. This study concludes that the S. olei, native to high saline–sodic soils can be utilized for improving the sodicity reclamation and plant growth promotion using elemental S based formulations.

Impacts of Soil Management and Sustainable Plant Protection Strategies on Soil Biodiversity in a Sangiovese Vineyard

Vine growing is one of the most economically important sectors of Mediterranean agriculture, but its cultivation practices are highly detrimental to the environment and the associated biota. The application of both natural products inducing endogenous plant defense mechanisms and natural soil management systems represents a potential solution for the preservation and improvement of soil health and biodiversity. The Life Green Grapes project aimed at evaluating the effects of different natural and sustainable vine protection strategies and soil management on vineyard edaphic communities. Soil TOC, TN, C:N ratio, CaCO3 content and pH were measured. Microbial communities (bacteria and fungi) were characterized through NGS, while nematodes and microarthropods were isolated and identified. Obtained data highlighted a relationshipbetween bacteria, fungi and nematodes with soil chemistry, and an effect of the different soil management on the single and total edaphic communities. Network analysis evidenced a positive effect of the application of sustainable soil managements on the relationships among the different investigated soil trophic levels, suggesting that more natural soil managements allow a better interaction between soil organisms. In conclusion, this work confirms the importance of the application of sustainable and natural soil management practices in agricultural ecosystems, with the aim of conserving and improving soil biodiversity.

Characterization and Identification of Major Constraints and Potentials of Kiltu Sorsa Watershed, in Guji Zone, Southern Ethiopia

Ethiopia is a country seriously affected by different natural resource degradation that included soil, vegetation, biodiversity and water degradation and climate deterioration. The study was conducted at Adola Rede District of Guji Zone, in Southern Ethiopia. The objectives of the study were to document baseline information on socioeconomic aspects and to document major biophysical and socio-economic constraints and potentials of the study watershed. The survey data were collected using key informant interview, focus group discussions, semi-structured interviews and guided field observations. A total of 60 respondents were selected for semi-structured interviews by means of simple random sampling methods. The majority (65%) of the respondent households were practiced physical and biological soil and water conservation activities. However, about 35% of the sampled households were not practiced soil and water conservation activities due to lack of awareness, lack of materials and labor. In the study watershed five major constraints such as land and soil related constraints, production related constraints, institutional and infrastructure related constraints, livestock related constraints and socio-economic related constraints were identified. However, suitable agro-ecology, availability of labor force, youth and women associations and informal institutions were the major identified potentials in the study watershed. Therefore, by using the potentials/opportunities of the study watershed and through providing quality extension services and training on soil and water conservation practices it is possible to enhance farmers participation and technical limitations. Moreover, for sustainable watershed management of the study area different soil and water conservation structures are very significant in various land use system of the study watershed through active participation of the local communities.

Body size: A hidden trait of the organisms that influences the distribution of antibiotic resistance genes in soil

Body size is a key life-history trait of organisms, which has important ecological functions. However, the relationship between soil antibiotic resistance gene (ARG) distribution and organisms' body size has not been systematically reported so far. Herein, the impact of organic fertilizer on the soil ARGs and organisms (bacteria, fungi, and nematode) at the aggregate level was analyzed. The results showed that the smaller the soil aggregate size, the greater the abundance of ARGs, and the larger the body size of bacteria and nematodes. Further analysis revealed significant positive correlations of ARG abundance with the body sizes of bacteria, fungi, and nematodes, respectively. Additionally, the structural equation model demonstrated that changes in soil fertility mainly regulate the ARG abundance by affecting bacterial body size. The random forest model revealed that total phosphorus was the primary soil fertility factor influencing the body size of organisms. Therefore, these findings proposed that excessive application of phosphate fertilizers could increase the risk of soil ARG transmission by increasing the body size of soil organisms. This study highlights the significance of organisms' body size in determining the distribution of soil ARGs and proposes a new disadvantage of excessive fertilization from the perspective of ARGs.

IMPACT OF SOIL STERILIZATION FROM DIFFERENT LOCATIONS, WHEAT SEEDS CLEANING AND THEIR INTERACTIONS ON WEED CONTROL, AND YIELD AND YIELD COMPONENTS

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Soil Moisture and Litter Coverage Drive the Altitude Gradient Pattern of Soil Arthropods in a Low-Elevation Mountain

This study sought to investigate the vertical distribution pattern of the soil faunal community in a low-altitude mountain area. On 8 July 2022, a low hill was selected as the study area, and soil arthropods were collected through traps. The leaf litter, vegetation type, and distribution quantity of each sampling site were investigated while the soil faunae were collected. In addition, the soil’s physical and chemical parameters were measured. The results of a one-way ANOVA showed that there were significant differences (p < 0.05) in the soil properties, leaf litter, and plant quantities at different altitudes within the research area. A total of 1086 soil arthropods, belonging to five classes and ten orders, were collected during the study period. The dominant species of soil arthropods at different altitudes were significantly different. The dominant species in low-altitude areas were Armadillidium sp. and Aethus nigritus. However, Eupolyphaga sinensis and Philodromidae were the dominant species in high-altitude areas. The results of a non-metric multidimensional scaling (NMDS) analysis showed that the soil faunae at different altitudes were clustered into two communities: a high-altitude community and a low-altitude community. With the increase in altitude, the species richness of the soil arthropods gradually decreased, and their abundance showed a decreasing trend. A redundancy analysis (RDA) of the soil arthropods and environmental factors showed that soil moisture (p < 0.01), pH (p < 0.01) and defoliation (p < 0.05) had significant effects on the distribution of the soil fauna. The results of a Pearson correlation analysis indicated that different environmental factors had interactive effects on the distribution of the soil arthropods. The quantity and species richness of the soil arthropods in different sample lines were tested using a variance analysis. The results showed that there were significantly smaller quantities of soil arthropods in the sampling line closer to the trekking ladder. This indicates that human tourism, namely mountaineering activities, had a direct impact on the soil fauna. This study can provide a reference for and data support in the development of biodiversity conservation measures for forest parks in low mountain areas.

Optimization and validation of multiresidual extraction methods for pharmaceuticals in Soil, Lettuce, and Earthworms.

The presence of human and veterinary pharmaceuticals (PhACs) in the environment poses potential risks. To comprehensively assess these risks, robust multiresidual analytical methods are essential for determining a broad spectrum of PhAC classes in various environmental compartments (soil, plants, and soil organisms). This study optimized extraction methods for analyzing over 40 PhACs from various matrices, including soil, lettuce, and earthworms. A four-step ultrasonic extraction method with varying extraction conditions and subsequent solid phase extraction was developed for soil samples. QuEChERS methods were optimized for extracting PhACs from lettuce and earthworm samples, addressing a literature gap in these less-studied matrices. The quantification of PhACs in soil, lettuce, and earthworm extracts was performed using a single LC-MS/MS method. Following thorough method validation, earthworms and lettuce were exposed to a mixture of 27 pharmaceuticals in a soil environment. The method validation results demonstrated the robustness of these methods for a broad spectrum of PhACs. Specifically, 29 out of 42 PhACs were extracted with an average efficiency > 50% and RSD < 30% from the soil; 40 out of 42 PhACs exhibited average efficiency > 50% and %RSD < 30% from the earthworms, while 39 out of 42 PhACs showed average efficiency > 50% and RSD < 30% from the lettuce. Exposure experiments confirmed the viability of these methods for quantifying a diverse range of PhACs in different environmental compartments. This study presents three thoroughly validatedmethods for determining more than 40 PhACs in diverse matrices, enabling a comprehensive assessment of PhAC dissemination in the environment.

Biochemical and molecular-level effects of co-exposure to chlorpyrifos and lambda-cyhalothrin on the earthworm (Eisenia fetida)

Farmland soil organisms frequently encounter pesticide mixtures presented in their living environment. However, the underlying toxic mechanisms employed by soil animals to cope with such combined pollution have yet to be explored. This investigation aimed to reveal the changes in cellular and mRNA levels under chlorpyrifos (CPF) and lambda-cyhalothrin (LCT) co-exposures in earthworms (Eisenia fetida). Results exhibited that the combination of CPF and LCT triggered an acute synergistic influence on the animals. Most exposures resulted in significant alterations in the activities of total superoxide dismutase (T-SOD), copper/zinc superoxide dismutase (Cu/Zn-SOD), caspase 3, and carboxylesterase (CarE) compared to the basal level. Moreover, when exposed to chemical mixtures, the transcription levels of four genes [heat shock protein 70 (hsp70), gst, sod, and calreticulin (crt)] also displayed more pronounced changes compared with their individual exposures. These changes in determined parameters indicated the occurrence of oxidative stress, cell death, detoxification dysfunction, and endoplasmic reticulum damage after co-exposure to CPF and LCT in E. fetida. The comprehensive examination of mixture toxicities of CPF and LCT at different endpoints would help to understand the overall toxicity they cause to soil invertebrates. The augmented deleterious effect of these pesticides in a mixture suggested that mixture toxicity assessment was necessary for the safety evaluation and application of pesticide mixtures.

Automatic identification of Collembola with deep learning techniques

Collembola are very abundant organisms in soils (several thousand individuals per square meter) and are considered to be good indicators of soil quality. These indicators are mainly based on the number of individuals observed (abundance per square meter of soil), but also the singularity and number of species present (species richness). A limitation that comes with the usage of collembola as an indicator is the complexity of the identification of the species under a microscope, how time-consuming it is, and the morphological similarity between some species. Deep learning approaches have been very successful in the resolution of image-based problems. Still, no work yet exists that uses deep learning in the recognition of collembola on a microscope slide. This could be a valuable tool for experts seeking to use Collembola as a metric on a larger scale. In this work, we explore and evaluate the performance of state-of-the-art deep learning techniques over the identification of Collembola on a new manually annotated dataset.

Response of nutrient management practices on carbon mineralization in relation to changed soil biology under rice-wheat cropping in north-western India

Response of nutrient management practices on carbon mineralization in relation to changed soil biology under rice-wheat cropping in north-western India

Comparative Study on the Bacterial Community of Cultivated and Uncultivated Rice Field Soils

A study was conducted to determine the changes in bacterial micro flora of soil in relation fallowing (abandonment) in rice fields. Soil samples from two paddy fields at Kumarakom region, southwest part of Kuttanad, Kerala, one field with paddy cultivation and the other fallowed, was subjected to the study. A total of 15 bacterial species, 8 from the cultivated field only, 6 from the fallowed field only and 1 common to both fields were isolated and identified in the study. The bacterial community in the soil of uncultivated field are entirely shifted from field where rice has been cultivated continuously. The persistent occurrence encountered in the cultivated field isolates were Bacillus megaterium, Pseudomonas aeroginosa and Klebsiella oxytoca while that in the abandoned field were of E coli followed by higher incidence of (80%) Enterobacter aerogenes and Citrobacter freundii. Under rice cultivation, soil pH, EC and bacterial density were generally higher than that in uncultivated soils while organic carbon in the soil was consistently lower than that in uncultivated soils. The study reveals the importance of bacteria in maintaining the health of a habitat and confirm that soil quality deteriorates over long-term fallowing.

Ageing influences the toxicity of two innovative nanofertilizers to the soil invertebrates Enchytraeus crypticus and Folsomia candida.

The increasing global food demand is threatening the sustainability of agrifood production systems. The intensification of agricultural practices, with inadequate use of pesticides and fertilizers, poses major challenges to the good functioning of agroecosystems and drastically degrades the soil quality. Nanotechnology is expected to optimize the current farming practices and mitigate some associated impacts. Layered double hydroxides (LDHs) are a class of nanomaterials with high potential for use in agricultural productions, mostly due to their sustained release of nutrients. Considering its novelty and lack of studies on the terrestrial ecosystem, it is essential to assess potential long-term harmful consequences to non-target organisms. Our study aimed to evaluate the effect of Zn-Al-NO3 LDH and Mg-Al-NO3 LDH ageing on the survival and reproduction of two soil invertebrate species Enchytraeus crypticus and Folsomia candida. We postulated that the toxicity of nanomaterials to soil invertebrates would change with time, such that the ageing of soil amendments would mediate their impacts on both species. Our results showed that the toxicity of LDHs was species-dependent, with Zn-Al-NO3 LDH being more toxic to E. crypticus, while Mg-Al-NO3 LDH affected more F. candida, especially in the last ageing period, where reproduction was the most sensitive biological parameter. The toxicity of both nanomaterials increased with ageing time, as shown by the decrease of the EC50 values over time. The influence of LDH dissolution and availability of Zn and Mg in the soil pore water was the main factor related to the toxicity, although we cannot rule out the influence of other structural constituents of LDHs (e.g., nitrates and aluminium). This study supports the importance of incorporating ageing in the ecotoxicity testing of nanomaterials, considering their slow release, as effects on soil organisms can change and lead to more severe impacts on the ecosystem functioning.

Rhizobox Technology for Sustainable Agriculture–Acquired Implications

Evaluation on the effect of rhizobox technology in the rhizosphre soil of agricultural crops is necessary for sound and safe agriculture. This article confers the rhizobox technology-induced information about rhizosphere so far conducted since 1987s and on. Combined with its special features and construction technique, rhizobox-affected rhizosphere processes like pH changes, patterns of nutrient distribution, heavy metal movement and microbial activities are extensively analyzed. Finally, the established rhizobox model of 1987 encompassing its modified versions are detailed, followed by its potential application in rhizosphere studies of plant nutrition, soil chemistry, and soil biology for sustainable agriculture.

Nano Fertilizers: New Vistas towards Sustainable Agriculture and Climate Change Mitigation: A Review

To ensure the food and nutritional security of the burgeoning global population, food production needs to be doubled in developing countries by 2050. Currently, 30-40% of agriculture production predominantly relies on chemical fertilizers. Precise crop nutrition, low nutrient efficiency, maintaining soil fertility, less damage to soil flora and minimal environmental footprint are the major challenges in modern agriculture. Recent developments in the application of nanotechnology to produce agriculture inputs emerged as a sustainable solution for addressing the challenges in modern intensive agriculture by replacing synthetic bulk fertilizers with their nanoparticle size ( less than 100 nm), superior properties and smart delivery system. Nano fertilizers had the potential to fulfill the requirements of plant nutrition along with imparting sustainability in crop production without compromising the yield of the crops. Some of the current research studies have been reviewed in this paper with citation and these results showed that nano fertilizers have a substantial effect on plant growth, development and physiological parameters including chlorophyll content and photosynthetic activity, it depends on their composition, method and time of application. Their enhanced nutrient use efficiency, correlated with mitigating greenhouse gas emissions. Hence evolving as a cutting-edge approach for sustainable agriculture in climate change is enlightened in this review.

Temperature Mainly Determined the Seasonal Variations in Soil Faunal Communities in Semiarid Areas

The implementation of the Grain for Green Project has increased vegetation coverage and provided suitable habitats and food resources for soil fauna, thereby promoting the development of soil faunal communities. Studying seasonal variations in soil fauna communities in different vegetation areas can improve our understanding of the mechanisms that drive soil fauna recovery. We selected five typical artificially restored vegetation habitats, including Populus simonii (POS), Pinus tabulaeformis (PIT), Caragana korshinskii (CAK), Stipa bungeana (STB), and Medicago sativa (MES), and one farmland (Zea mays, FAL) habitat on the Loess Plateau. In this study, soil fauna communities and environmental factors were investigated during spring (May), summer (August), and autumn (November). Among the habitats, the STB habitat had the largest seasonal variation in soil faunal density (from 1173 ind·m−2 in May to 10,743 ind·m−2 in August), and the FAL habitat had the smallest (from 2827 ind·m−2 in August to 5550 ind·m−2 in November). Among the restored vegetation habitats, Acarina (44.89–88.56%) had the highest relative abundance of all taxa. The redundancy analysis (RDA) results showed that among the factors driving seasonal variation in soil animal communities, temperature (47.41%) was the most important, followed by precipitation (22.60%). In addition, the dominant groups, Acarina and Collembola, played an influential role in seasonal variations in soil faunal density. Temperature mainly determined the seasonal variations in soil faunal communities. Seasonal factors should be considered when conducting soil fauna research, as they contribute to biodiversity conservation and regional ecological management in the Loess Plateau.

Synergistic effects of organic carbon and silica in preserving structural stability of drying soils

Predicted climate warming and prolonged droughts pose a threat to the soil structure as organic carbon losses weaken the stability of soil aggregates. Well-structured soils are important for storage and movement of water, solutes, and air, the development of plant roots, as habitat for soil organisms, and the microbial activity. Structural stability is measured in terms of hydro-mechanical properties. This study compares effects of amorphous silica with those of organic carbon on stability parameters during drying of aggregates from relatively finer- and coarser-textured soils. Silica amendment enhanced the positive effect of organic carbon on structural stability in terms of the tensile strength. Synergistic effects between silica and organic carbon in soil colloids appear to dynamically alter aggregate density and friability (i.e., ability to crumble) during drying. Silica together with organic carbon could help soil management to reduce negative effects of predicted prolonged droughts on soil structure and stability.

Interactive effects of soil moisture, air temperature and litter nutrient diversity on soil microbial communities and Folsomia candida population

Soil organisms play a key role in carbon and nutrient cycling in forest ecosystems. While soil organisms are strongly influenced by litter chemistry and are highly sensitive to abiotic conditions, little is known about the interactive effects of these two factors. To address this gap in knowledge, we conducted a 10 week microcosm experiment in which we simulated the effects of climate change on soil ecology. More specifically, we studied relationships among litter nutrient concentration, microbial biomass, Collembola demographic parameters, and litter decomposition, exploring the potential impacts of increasing air temperature and decreasing soil moisture. To develop a gradient of nutrient concentrations, we created six tree litter mixtures with materials gathered from Quercus pubescens and its companion species. In contrast to microbes, we observed that Collembola abundance and litter decomposition were interactively affected by soil moisture and air temperature: the negative effect of increasing air temperature on Collembola abundance was amplified by reduced soil moisture, whereas the positive effect of increasing air temperature on litter decomposition disappeared under reduced soil moisture conditions. In contrast to fungi, the response of bacterial biomass and Collembola abundance to litter nutrient concentration was dependent on abiotic conditions. More specifically, the relationships between nutrients, especially calcium and magnesium, and bacterial biomass and Collembola abundance were less robust or disappeared under drier or warmer conditions. In conclusion, our findings underscore that ongoing climate change could affect soil organisms directly as well as indirectly, by altering their responses to litter nutrient concentrations. In addition, we found that nutrient‐rich habitats might be more affected than nutrient‐poor habitats by altered climatic conditions.

Retracing the evolution of Pneumocystis species, with a focus on the human pathogen Pneumocystis jirovecii.

SUMMARYEvery human being is presumed to be infected by the fungus Pneumocystis jirovecii at least once in his or her lifetime. This fungus belongs to a large group of species that appear to exclusively infect mammals, with P. jirovecii being the only one known to cause disease in humans. The mystery of P. jirovecii origin and speciation is just beginning to unravel. Here, we provide a review of the major steps of P. jirovecii evolution. The Pneumocystis genus likely originated from soil or plant-associated organisms during the period of Cretaceous ~165 million years ago and successfully shifted to mammals. The transition coincided with a substantial loss of genes, many of which are related to the synthesis of nutrients that can be scavenged from hosts or cell wall components that could be targeted by the mammalian immune system. Following the transition, the Pneumocystis genus cospeciated with mammals. Each species specialized at infecting its own host. Host specialization is presumably built at least partially upon surface glycoproteins, whose protogene was acquired prior to the genus formation. P. jirovecii appeared at ~65 million years ago, overlapping with the emergence of the first primates. P. jirovecii and its sister species P. macacae, which infects macaques nowadays, may have had overlapping host ranges in the distant past. Clues from molecular clocks suggest that P. jirovecii did not cospeciate with humans. Molecular evidence suggests that Pneumocystis speciation involved chromosomal rearrangements and the mounting of genetic barriers that inhibit gene flow among species.