Nematode Research Articles

Managing both overstory and understory vegetation mitigates the impact of drought on soil nematode communities in a Mediterranean pine forest

Forest management strategies can effectively mitigate the impacts of drought on tree species, but their effects on soil fauna remain largely unexplored. Among soil organisms, soil nematodes can serve as valuable bioindicators to assess the impact of forest management on soil biodiversity and soil functioning. Consequently, we investigated two related questions in a Mediterranean Pinus halepensis Mill. forest located in southeastern France. First, how do soil nematodes respond to forest management practices? Second, can forest management practices help modulate the effects of Mediterranean summer drought on these soil organisms? We conducted a field experiment in which we explored the influence of two forest management techniques—tree thinning (intense, moderate, or absent) and understory removal (shrubs present or absent)—on soil nematodes before and after the summer drought. We found that only total and bacterivorous nematode abundances were positively influenced by the forest management practices. The highest values were observed under conditions of intense thinning combined with shrub presence, with an average of 97,509 individuals per kg of dry soil. In contrast, the abundances of all nematodes, with the exception of predaceous nematodes, were lower after the summer drought with a reduction ranging from −55 % to −82 %. Total, bacterivorous, and fungivorous nematode abundances were less negatively affected by the summer drought under conditions of moderate thinning when shrubs were present versus absent. More generally, we discovered that bacterivorous and fungivorous nematodes were particularly sensitive to the forest management practices and the summer drought. It is thus apparent that habitat alterations induced by forest management can strongly affect nematode community structure and could therefore prompt shifts in ecosystem functioning. Finally, this study highlights that, in forests, understory vegetation can have significant positive impacts on soil nematode populations when severe dry periods occur.

Inference of essential genes in Brugia malayi and Onchocerca volvulus by machine learning and the implications for discovering new interventions

Detailed explorations of the model organisms Caenorhabditis elegans (elegant worm) and Drosophila melanogaster (vinegar fly) have substantially improved our knowledge and understanding of biological processes and pathways in metazoan organisms. Extensive functional genomic and multi-omic data sets have enabled the discovery and characterisation of ‘essential’ genes that are critical for the survival of these organisms. Recently, we showed that a machine learning (ML)-based pipeline could be utilised to predict essential genes in both C. elegans and D. melanogaster using features from DNA, RNA, protein and/or cellular data or associated information. As these distantly-related species are within the Ecdysozoa, we hypothesised that this approach could be suited for non-model organisms within the same group (phylum) of protostome animals. In the present investigation, we cross-predicted essential genes within the phylum Nematoda – between C. elegans and the parasitic filarial nematodes Brugia malayi and Onchocerca volvulus, and then ranked and prioritised these genes. Highly ranked genes were linked to key biological pathways or processes, such as ribosome biogenesis, translation and RNA processing, and were expressed at relatively high levels in the germline, gonad, hypodermis and/or nerves. The present in silico workflow is hoped to expedite the identification of drug targets in parasitic organisms for subsequent experimental validation in the laboratory.

Recent research progress of soil nematode ecology in China.

Soil nematodes are a crucial component of belowground ecosystems. Soil nematode ecology, the studies of community distribution, structural composition, ecological functions, and interaction mechanisms with environment, has always been a hot spot in soil biology research. We systematically elaborated soil nematodes' high diversity and various diet, their advantages as bioindicator and model organisms, and their roles in biological control, ecological functions and soil health. Then, we reviewed the research progress of soil nematode ecology in China, including molecular biology identification methods, responses to global changes, food web structure and function, aboveground and belowground diversity relationship, and large-scale diversity pattern. We put forward the development trend of soil nematology, focusing on the high-throughput sequencing technology in nematode identification and quantification, the necessity of establishing a universal analysis platform to promote soil nematode research, and the importance of strengthening large-scale soil nematode survey.

Response of soil nematode community structure and metabolic footprint to nitrogen addition in alfalfa fields on the Loess Plateau

Nematodes serve as key indicators of soil health in ecological studies. Therefore, the current study examined the community structure and metabolic footprint of soil nematodes in alfalfa fields across varying levels of N supply in the semi-arid Loess Plateau. The findings offer theoretical guidance for the sustainable management of artificial alfalfa grasslands in this region. The research was based on alfalfa fields with different N application rates (0, 50, 100, 150 kg/ha2) as the research object, The shallow plate method was used to separate and extract soil nematodes, identify soil nematode groups, calculate ecological function index and metabolic footprint, and identify indicator species. A total of 6346 nematodes were isolated in this study, belonging to 27 genera and 19 families. Notably, the plant parasitic nematode Helicotylenchus was predominant. As N addition increased, the plant parasitic index (PPI) increased significantly. A N50 application significantly enhanced the soil nematode diversity index (H\\documentclass[12pt]{minimal} \\usepackage{amsmath} \\usepackage{wasysym} \\usepackage{amsfonts} \\usepackage{amssymb} \\usepackage{amsbsy} \\usepackage{mathrsfs} \\usepackage{upgreek} \\setlength{\\oddsidemargin}{-69pt} \\begin{document}$$\ ext{H}$$\\end{document}) and the free-living index (MI). The findings showcased a noticeable decrease in disturbance within the N50 soil nematode community. This resulted in a mature and stable community structure primarily attributed to the heightened abundance of omnivorous/predatory nematodes. Across various N levels, soil nematode communities underwent significant alterations in the soil food web structure through shifts in their metabolic footprint. Future strategies should focus on refining N management practices and integrating sustainable approaches like crop rotation and pest management. These efforts will contribute to guidelines ensuring artificial alfalfa grasslands lasting health and productivity.

Personal Hygiene Practices To Reduce The Risk Of Soil-Transmitted Helminth Infection In Farmers

Backgrounds: Soil-transmitted Helminths infections have become a frequent phenomenon among farmers due to their lack of hygiene, making it easy for nematode worms to enter the body. Soil-transmitted helminths can affect nutritional status, resulting in anemia, loss of appetite, and damage to the intestines. To overcome this phenomenon, adequate personal hygiene in farmers is needed. Purpose: The purpose of this study is to analyze how personal hygiene can affect the incidence of Soil-Transmitted Helminths infection. Methods: The method used is a literature review using 10 kinds of literature from 3 sources, namely Google Scholar, PubMed, and Science Direct with a publication range from 2020-2024. Result: The results showed that some articles showed an association between personal hygiene and the incidence of soil-transmitted helminths. Good personal hygiene can prevent the entry of nematode worms into the digestive tract of the body. Besides that, some articles also showed no association between personal hygiene and soil-transmitted helminth infection. Conclusion: Adequate personal hygiene such as always using gloves and complete personal protective equipment while working, always washing hands before eating, and maintaining environmental hygiene is needed by farmers to avoid the incidence of soil-transmitted helminth infection.

Effects of several long-term soil health treatments on populations of Pratylenchus penetrans and the soil microbial community

Soil suppressiveness can reduce the damage by plant parasitic nematodes (PPN) in agricultural soils and is conveyed by the activity of soil microorganisms. While natural suppressiveness has been reported, it is still poorly understood if soil suppressiveness can be elicited by manipulating the soil microbial community. In the present study we assessed the number of the Pratylenchus penetrans (Pp) and the bacterial and fungal community composition over 7 years in a long-term soil health experiment. The field experiment consisted of an organic and conventional agricultural land management system and three soil health treatments (SHT): an untreated control (CT), anaerobic disinfestation (AD) and a combination of marigold cover cropping, compost and chitin amendment (CB). The land management systems were kept continuously, while the soil health treatments were applied only twice in seven years. The microbial community significantly differed between the organic and conventional system, but there was no significant difference in Pp numbers between the two systems. However, both the CB treatment and to a lesser extent the AD treatment reduced Pp numbers and increased yield with the effect being the strongest in the years immediately after the treatment. Accordingly, both the bacterial and fungal community differed significantly between the treatments, the differences being largest in the years after the treatments. Notably, the CB treatment elicited both long-term changes in the microbial community and a reduction of Pp numbers lasting for at least three years. These results indicated that a combination of treatments can lead to an altered soil microbial community in combination with persisting suppressiveness of Pp.

A Markovian dynamics for Caenorhabditis elegans behavior across scales

How do we capture the breadth of behavior in animal movement, from rapid body twitches to aging? Using high-resolution videos of the nematode worm Caenorhabditis elegans, we show that a single dynamics connects posture-scale fluctuations with trajectory diffusion and longer-lived behavioral states. We take short posture sequences as an instantaneous behavioral measure, fixing the sequence length for maximal prediction. Within the space of posture sequences, we construct a fine-scale, maximum entropy partition so that transitions among microstates define a high-fidelity Markov model, which we also use as a means of principled coarse-graining. We translate these dynamics into movement using resistive force theory, capturing the statistical properties of foraging trajectories. Predictive across scales, we leverage the longest-lived eigenvectors of the inferred Markov chain to perform a top-down subdivision of the worm's foraging behavior, revealing both "runs-and-pirouettes" as well as previously uncharacterized finer-scale behaviors. We use our model to investigate the relevance of these fine-scale behaviors for foraging success, recovering a trade-off between local and global search strategies.

Assessment of nematode and microbial diversity and screening of entomopathogens in revegetated post-coal-mining land in Kutai Kartanegara District, East Kalimantan, Indonesia

Abstract. Sopialena, Rosfiansyah, Suryadi A. 2024. Assessment of nematode and microbial diversity and screening of entomopathogens in revegetated post-coal-mining land in Kutai Kartanegara District, East Kalimantan, Indonesia. Biodiversitas 25: 2921-2930. Post-coal-mining management should strive toward site revegetation. The success of such revegetation efforts is largely determined by the soil's fertility status, which encompasses physical, chemical, and biological components. Biological fertility is indicated by the presence and abundance of soil microbes and nematodes. The objective of this study was to identify the diversity of nematodes and soil microbes in ex-coal-mining land revegetated with oil palm in Kutai Kartanegara District (East Kalimantan, Indonesia), to screen for entomopathogenic nematodes and microbes, and to analyze their relationships with the chemical fertility status of the land. As a control, non-mining land was also investigated. The results showed that microbial diversity and density (including fungi and bacteria) in the ex-coal-mining area were significantly lower compared to the control. Additionally, a decrease in microbial diversity and density was found in deeper soil layers of both post-mining and non-mining lands. In contrast, soil nematodes were more abundant in post-mining land, both in terms of diversity and density, and were also more plentiful in the deeper soil layers. Among the nematodes and microbes studied, only Heterorhabditis and Steinernema (nematodes), Trichoderma (fungi), and Bacillaceae (bacteria) were identified as entomopathogens, causing death in Tenebrio molitor L. larvae. Overall, soil fertility in ex-coal-mining land was observed to be lower, characterized by decreased soil pH, basic saturation, Soil Organic Carbon (SOC), and nutrient content, which contributed to a reduced microbial community compared to non-mining land.

IMPACT OF PHYTOSANITARY TREATMENTS WITH NATURAL EXTRACTS ON SOIL NEMATODE COMMUNITY IN POT FARMING

The EU strongly encourages the use of natural products in plant protection. Natural extracts are increasingly used in controlling plant-parasitic nematodes, while the effects on the structure and function of non-target soil organisms have been poorly investigated. This work aimed at investigating the impact of abamectin, azadirachtin, and allium extract on the structure of soil free-living nematode community in potted ornamental plants of Acer palmatum and x Cupressocyparis leylandii by soil nematode indicators. Abamectin and Azadirachtin negatively affected the soil nematode community, but the effect was transitory. The nematode indicators showed that the nematode community responded quickly and negatively to treatments with natural extracts. The plant parasitic index (PPI) and enrichment index (EI) were the most representative due to their strong decrease after pest control treatment, especially after Fenamiphos applications. From a phytosanitary point of view, natural extract showed their potential in the IPM strategy only when they were applied in combination with other chemicals. Key Words: Azadiracthin, Allium extract, Abamectin, Pistoia Nursery-Ornamental District

Are Soil Nematode Communities Altered by Tree Introduction and Prolonged Cultivation in the Subarctic Region?

Are Soil Nematode Communities Altered by Tree Introduction and Prolonged Cultivation in the Subarctic Region?

Urban greenspaces shape soil nematode community across soil depth gradients: Belowground life at The Ohio State University

Urban greenspaces face significant anthropogenic transformation, impacting soil ecosystems, multifunctionality, and global biodiversity. With increasing population and urbanization, understanding the drivers influencing soil nematode communities in urban greenspaces is crucial for sustainable urban ecosystem management. We chose the campus of The Ohio State University (OSU) due to its unique urban settings with minimally disturbed both turf and non-turf ecosystems. This study focuses on nematodes, the often-overlooked ecological engineers which play diverse roles in ecosystem functions. Nematodes were collected from 99 sampling locations across three soil depths to represent two ecosystem types (i.e., turf and non-turf) of the OSU campus. Among plant parasitic nematodes (PPN), Helicotylenchus and Pratylenchus populations were above damage threshold limits. No specific pattern of community composition was observed in the spatial variation map. The presence of rare PPN genera in the lower soil layers had a significant impact on beta diversity. Trophic group abundances displayed distinct patterns, with turf ecosystems exhibiting higher PPN as well as total nematode abundance decreasing with soil depths. In the subsurface layer (10–30 cm), both bacterivores and fungivores were higher in the non-turf than turf ecosystem. Fungal-dominated decomposition of organic matter was observed in both ecosystem types. Soil physiochemical properties, specifically, total organic carbon and soil texture, had a significant impact on PPN community composition. However, nematode trophic group composition was more altered by ecosystem type than edaphic factors followed by soil depths. Together these three explanatory variables explained 27.5 % of the total variance in trophic group composition. Overall, this study provides insights into the complex interactions between PPN, trophic groups, soil properties, and urban ecosystem characteristics, contributing valuable knowledge for sustainable urban greenspace management.

Target control of linear directed networks based on the path cover problem

Securing complete control of complex systems comprised of tens of thousands of interconnected nodes holds immense significance across various fields, spanning from cell biology and brain science to human-engineered systems. However, depending on specific functional requirements, it can be more practical and efficient to focus on a pre-defined subset of nodes for control, a concept known as target control. While some methods have been proposed to find the smallest driver node set for target control, they either rely on heuristic approaches based on k-walk theory, lacking a guarantee of optimal solutions, or they are overly complex and challenging to implement in real-world networks. To address this challenge, we introduce a simple and elegant algorithm, inspired by the path cover problem, which efficiently identifies the nodes required to control a target node set within polynomial time. To practically apply the algorithm in real-world systems, we have selected several networks in which a specific set of nodes with functional significance can be designated as a target control set. The analysed systems include the complete connectome of the nematode worm C. elegans, the recently disclosed connectome of the Drosophila larval brain, as well as dozens of genome-wide metabolic networks spanning major plant lineages. The target control analysis shed light on distinctions between neural systems in nematode worms and larval brain insects, particularly concerning the number of nodes necessary to regulate specific functional systems. Furthermore, our analysis uncovers evolutionary trends within plant lineages, notably when examining the proportion of nodes required to control functional pathways.

Nematode Communities in Soils of the Same Volcanic Origin across a Gradient of Naturalization: From Intensive Agriculture to Forest

Nematodes play a key role in ecological environments. Biotic indices based on soil nematode community are effectively used for assessing soil health status. This work represents the opportunity to investigate three different management practices continuously maintained for 40 or more decades on soils with the same geological origin. This unique feature allows us to reduce variables and link biotic with abiotic factors. Therefore, the nematode communities of three neighboring volcanic soils under different managements were examined. The maximum values in soil biodiversity were found in the forest environment in which all the trophic groups were detected and well balanced. Instead, in permanent grassing and carnation crop greenhouse (CG), biodiversity indices progressively decreased with the intensification of agricultural practices. Furthermore, CG showed a stronger dominance of a specific plant-parasitic nematode identified as Heterodera daverti. Nematode indicators demonstrated that changes in the nematode community gradually varied from anthropic to natural environments whereas soil properties were feebly correlated to nematode community indicators. In conclusion, we demonstrated that biodiversity and ecological indices applied to the soil nematode community are effective at detecting alterations due to anthropogenic impact. Nematodes seem to be susceptible to perceiving the soil dynamics.

Ecological Structure of Soil Nematode Communities of Southern Chukotka

Ecological Structure of Soil Nematode Communities of Southern Chukotka

Behavioral adjustment of C. elegans to mechanosensory loss requires intact mechanosensory neurons.

Sensory neurons specialize in detecting and signaling the presence of diverse environmental stimuli. Neuronal injury or disease may undermine such signaling, diminishing the availability of crucial information. Can animals distinguish between a stimulus not being present and the inability to sense that stimulus in the first place? To address this question, we studied Caenorhabditis elegans nematode worms that lack gentle body touch sensation due to genetic mechanoreceptor dysfunction. We previously showed that worms can compensate for the loss of touch by enhancing their sense of smell, via an FLP-20 neuropeptide pathway. Here, we find that touch-deficient worms exhibit, in addition to sensory compensation, also cautious-like behavior, as if preemptively avoiding potential undetectable hazards. Intriguingly, these behavioral adjustments are abolished when the touch neurons are removed, suggesting that touch neurons are required for signaling the unavailability of touch information, in addition to their conventional role of signaling touch stimulation. Furthermore, we found that the ASE taste neurons, which similarly to the touch neurons, express the FLP-20 neuropeptide, exhibit altered FLP-20 expression levels in a touch-dependent manner, thus cooperating with the touch circuit. These results imply a novel form of neuronal signaling that enables C. elegans to distinguish between lack of touch stimulation and loss of touch sensation, producing adaptive behavioral adjustments that could overcome the inability to detect potential threats.

Arthrobotrys oligospora (Fungi: Orbiliales) and its liquid culture filtrate myco-constituents kill Haemonchus contortus infective larvae (Nematoda: trichostrongylidae)

ABSTRACT Arthrobotrys oligospora is a nematode-trapping fungus belonging to the family Orbiliaceae and one of the main antagonists of nematodes in soil, including plant and animal parasitic nematodes and free-living nematodes. This species develops three-dimensional adhesive nets in which nematodes are trapped, destroyed and consumed by the fungus. It also possesses other strategies to immobilise, kill and degrade nematodes, i.e. nematode-attractant substances, cuticle adhesion polymers and a number of nematocidal metabolites. The objective of this study was to assess the in vitro nematocidal activity of a strain of A. oligospora through its predatory activity and its liquid culture filtrates (LCF) against the ruminant parasite Haemonchus contortus (HcL3) and to investigate the presence of myco-compounds with potential nematocidal activity. Predatory activity (PA) was assessed in agar plates; 200 HcL3 were placed on agar plates with the fungus and a control group and incubated for 10 days. The LCF confrontation with nematodes was performed in microtiter plates. Two media, Czapek-Dox Broth (Cz-DB) and potato dextrose broth, were assessed. Three concentrations (25, 50 and 100 mg/mL) were assessed at 48 and 72 h (n = 4, per concentration). The experiment was performed in triplicate. The results showed 73.6 ± 2.7% PA and the highest mortality (83%) with the LCF in Cz-DB after 72 h. Gas chromatography–mass spectrometry (GC–MS) analysis revealed that the A. oligospora ethyl acetate phase was composed of 1,2-benzenedicarboxylic acid, bis (2-methylpropyl) ester, (M) 1,4-benzenedicarboxylic acid, bis (2-methylpropyl) ester and (M) decanedioic acid (2-ethylexyl) ester. These compounds could be responsible for nematocidal activity.

Enhanced plant litter impacts nematode communities and carbon use efficiency in a mixed forest

Abstract Rising temperatures and higher atmospheric CO2 levels can potentially increase plant photosynthesis and boost forest productivity, thereby spurring litter inputs to soils on a global scale. Understanding the feedback loops between increased litter inputs and soil biota activity will allow for better prediction of organic matter and carbon (C) cycling in terrestrial ecosystems. Nematodes represent the full spectrum of trophic groups within the soil biota. Accordingly, we studied the link between nematode metabolic activities and plant litter input. For this, different litter input levels were manipulated in a temperate forest, including control zones without litter, natural litter input zones and zones with double, triple and quadruple amounts of natural litter input. Soil top layers (0–10 cm) were then collected to study the responses of nematode communities. Increased litter input positively influenced the abundance and diversity of nematodes, except for plant‐parasitic species. Higher litter input levels led to an enhancement in the ratio of bacterivores to the total of bacterivores and fungivores. More litter increased the K/r strategist ratio among bacterivores and the corresponding nematode metabolic footprints. More litter also stimulated nematode production and respiration components and improved the carbon use efficiency of bacterivores. Moreover, structural equation modelling revealed the crucial role of bacterivores in influencing soil organic C under increased litter input. In conclusion, our study shows that increased plant above‐ground litter input modifies the taxonomic and functional communities of soil nematodes, ultimately regulating carbon cycling in forest soils. Read the free Plain Language Summary for this article on the Journal blog.

Invasiveness of Impatiens parviflora in Carpathian Beech Forests: Insights from Soil Nematode Communities

Invasive plants are capable of homogenizing both aboveground and belowground biota and, along with climate change, are recognized as one of the biggest threats to global biodiversity. Soil nematode communities reflect the surroundings they inhabit and are therefore frequently employed as biological indicators of soil condition. In this study, soil properties and nematode communities in Carpathian beech forest floor covered by dense vegetation of invasive Impatiens parviflora (small balsam) were investigated over two vegetation seasons. We assumed that the spread of invasive I. parviflora could influence soil fauna through litter accumulation when established and could also change several soil properties, consequently altering soil nematode communities. A total of 52 nematode species were found in the soil samples. The mean number of species varied from 18 to 31, but did not significantly differ between invaded and uninvaded plots across all sampling dates. However, redundancy analysis indicated that the nematode community in plots with small balsam differed significantly from that in uninvaded plots, reflecting different proportions of genera in the two communities. Invasion by small balsam significantly enhanced the relative abundance of bacterivores, whereas it decreased the abundance of plant parasites and root-fungal feeders, mainly in the spring and summer season. Ordination of nematode species along the structure index and enrichment index trajectories revealed a maturing food web, low to moderately disturbed in the I. parviflora invaded soils as well as in uninvaded forest plots. Decomposition channels of soil food webs in both plots were balanced and fungal–bacterial mediated, although low values of the channel index suggested prevailing bacterial decomposition. Our study reveals that the expansion of I. parviflora moderately influenced the composition of nematode communities and the soil food web, increased soil nitrogen, carbon and C/N ratio, but did not modify soil acidity.

Structure and function role of soil nematode communities in different types of vegetation in Yogyakarta and Central Java, Indonesia

Abstract. Indarti S, Utami SNH, Putra NS, Maharani R. 2024. Structure and function role of soil nematode communities in different types of vegetation in Yogyakarta and Central Java, Indonesia. Biodiversitas 25: 2765-2772. Soil nematodes are crucial parts of the soil organism community and play a significant role in many ecological soil processes. It is necessary to pay greater attention to the lack of knowledge regarding the composition and role of the soil nematode community in different vegetations. Hence, the nematode structure community from minimal to soil stillages have been observed and compared from seven distinct types of vegetation. This study aimed to determine the soil nematode community structure, which includes the dominance, abundance, richness, diversity, and functional role of nematodes, as well as other chemical soil properties. Vegetation type represents soil management and has an impact on the life of soil organisms such as nematodes. A total of approximately 2328 soil nematodes were found, and 18 genera were identified. The Nematode Indicator Joint Analysis (NINJA) revealed that the vegetation type, land use, and soil chemical properties influence the nematode’s abundance, dominance, and structure differently. Through those results, the authors confirmed that soil nematodes in cultivated vegetation are dominated by the trophic groups of plant-parasitic nematodes and bacterivores. Conversely, predator, omnivores, and fungivores nematodes dominate in soil with minimal tillage. Overall, this study highlights the importance of soil nematode analysis in sustainable agricultural soil ecosystems.

Classical and Molecular Methods of Identification as well as Estimating Nematodes: A Comparative Review

Changing climatic scenarios accompanied with harsh ecological conditions are forcing various groups of organisms to evolve and adapt in different dimensions. Predominantly in the field of agriculture and crop science, several categories of new pests along with diseases are emerging voraciously causing havoc and causing panic-stricken situations for the farmers. Among the pests, nematode is one of the unnoticed categories contributing significantly to economic loss to the farmers. Due to monotonous crop protection practices in some of the areas as well as drastic changes in the environmental factors, new species of nematode are evolving and attacking economically important crop species. For that, we have to understand the pattern of feeding, oviposition site, life cycle, host searching behaviour, parasitic stages and susceptible host stage for attacking in order to form proper management practices. For understanding its mechanisms and behaviour, our prime concern will be its identification and taxonomic classification by various conventional as well as molecular approaches. Molecular approaches are turning out to be a useful and vigorous tool for the identification of the phylum Nematoda replacing conventional ones.