Tracking wireworm burrowing behaviour in soil over time using 3D X-ray computed tomography

Conceptualizing soil fauna effects on labile and stabilized soil organic matter

Fauna is highly abundant and diverse in soils worldwide, but surprisingly little is known about how it affects soil organic matter stabilization. Here, we review how the ecological strategies of a multitude of soil faunal taxa can affect the formation and persistence of labile (particulate organic matter, POM) and stabilized soil organic matter (mineral-associated organic matter, MAOM). We propose three major mechanisms - transformation, translocation, and grazing on microorganisms - by which soil fauna alters factors deemed essential in the formation of POM and MAOM, including the quantity and decomposability of organic matter, soil mineralogy, and the abundance, location, and composition of the microbial community. Determining the relevance of these mechanisms to POM and MAOM formation in cross-disciplinary studies that cover individual taxa and more complex faunal communities, and employ physical fractionation, isotopic, and microbiological approaches is essential to advance concepts, models, and policies focused on soil organic matter and effectively manage soils as carbon sinks, nutrient stores, and providers of food.

Convolutional neural networks combined with conventional filtering to semantically segment plant roots in rapidly scanned X-ray computed tomography volumes with high noise levels

BACKGROUND

X-ray computed tomography (CT) is a powerful tool for measuring plant root growth in soil. However, a rapid scan with larger pots, which is required for throughput-prioritized crop breeding, results in high noise levels, low resolution, and blurred root segments in the CT volumes. Moreover, while plant root segmentation is essential for root quantification, detailed conditional studies on segmenting noisy root segments are scarce. The present study aimed to investigate the effects of scanning time and deep learning-based restoration of image quality on semantic segmentation of blurry rice (Oryza sativa) root segments in CT volumes.

RESULTS

VoxResNet, a convolutional neural network-based voxel-wise residual network, was used as the segmentation model. The training efficiency of the model was compared using CT volumes obtained at scan times of 33, 66, 150, 300, and 600 s. The learning efficiencies of the samples were similar, except for scan times of 33 and 66 s. In addition, The noise levels of predicted volumes differd among scanning conditions, indicating that the noise level of a scan time ≥ 150 s does not affect the model training efficiency. Conventional filtering methods, such as median filtering and edge detection, increased the training efficiency by approximately 10% under any conditions. However, the training efficiency of 33 and 66 s-scanned samples remained relatively low. We concluded that scan time must be at least 150 s to not affect segmentation. Finally, we constructed a semantic segmentation model for 150 s-scanned CT volumes, for which the Dice loss reached 0.093. This model could not predict the lateral roots, which were not included in the training data. This limitation will be addressed by preparing appropriate training data.

CONCLUSIONS

A semantic segmentation model can be constructed even with rapidly scanned CT volumes with high noise levels. Given that scanning times ≥ 150 s did not affect the segmentation results, this technique holds promise for rapid and low-dose scanning. This study offers insights into images other than CT volumes with high noise levels that are challenging to determine when annotating.

Experimental evidence that increased surface temperature affects bioturbation by ants

Ants are important bioturbators that actively produce biopores and move soil particles. They could be particularly affected by global warming as they are ectotherms. Nevertheless, they can indirectly regulate their temperature, through changes in their circadian cycles and the architecture of their nests (e.g. digging deep nests or using insulating materials). Nest architecture has been considered an expanded functional trait of ant colonies and thus sensitive to environmental changes such as increasing temperatures. This work aimed to study the nest architecture of ants as a functional trait and its effects on soil bioturbation. We hypothesized that, when exposed to increased surface temperatures, ants would increase their excavation activities, build deeper nests and alter the layout of chambers to maintain their preferred temperature and humidity, thus enhancing soil porosity. We allowed 17 young Lasius niger ant colonies to excavate nests in soil columns exposed to three surface temperatures (mild, n = 5; medium, n = 6; and high, n = 6) for 100 days. We measured the amount of soil excavated weekly and took X-ray scans of the soil column on Days 7, 14, 28, and 88 to characterize the three-dimensional structure of the nests (depth, shape, volume of chambers and tunnels). We then collected the colonies and measured their growth during the experiment, and the size and weight of workers. Ants reacted to surface temperature. Colonies exposed to medium and high temperatures excavated larger and deeper nests than those exposed to mild temperature. Nests excavated under high and medium temperatures had the same maximal depth, but chambers were located deeper in the former, which were further characterized by the refiling of some of the upper chambers. Colonies grew well in all treatments, although less under mild temperature. They produced normal-sized workers despite differences in surface temperature. Overall, these results suggest that ants exposed to higher temperatures live in deeper chambers. This study shows that surface temperature affects ant nest architecture, confirming its status as extended phenotype and highlighting its flexibility over time, which has in turn consequences on soil porosity.

Pest Elaterids of North America: New Insights and Opportunities for Management

The larval stages of click beetle (Coleoptera: Elateridae) species, several of which are serious agricultural pests, are called wireworms. Their cryptic subterranean habitat, resilience, among-species differences in ecology and biology, and broad host range, as well as the lack of objective economic injury thresholds, have rendered wireworms a challenging pest complex to control. Significant progress has been made in recent years, introducing a new effective class of insecticides and improving species identification and our understanding of species-specific phenology, chemical ecology (i.e., adult sex pheromones and larval olfactory cues), and abiotic and biotic factors influencing the efficacy of biological control agents. These new developments have created opportunities for further research into improving our risk assessment, monitoring, and integrated pest management capabilities.

Influence of Wireworm Diet on its Susceptibility to and Control With the Entomopathogenic Fungus Metarhizium brunneum (Hypocreales: Clavicipitaceae) in Laboratory and Field Settings

Entomopathogenic fungi (EPF) represent promising control agents against wireworms but success in field experiments is inconsistent. The physiological condition of the targeted insect is crucial for its ability to withstand fungal infection. In particular, nutritional status is among the most important determinants of the insects' immune defense. In this study, we investigated the effects of diet on the development of the wireworm Agriotes obscurus (L.) (Coleoptera: Elateridae) and its subsequent susceptibility to the fungal pathogen Metarhizium brunneum (Petch) (Hypocreales: Clavicipitaceae) in a pot experiment. After being reared on one of five plant diets for eight weeks, wireworms were exposed to an environment inoculated with the EPF and monitored for their susceptibility to fungal infection. We then performed a field experiment in which three plant diets (clover, radish, and a cover crop mix), selected according to the insects' performance in the laboratory experiment, were grown as a cover crop with EPF application. Plant diet influenced growth and development of larvae, but there were no strong differences in susceptibility toward fungal infection in the laboratory experiment. Damage levels in EPF-treated plots in the field varied depending on the cover crop. Damage was highest in plots planted with a mix of cover crop species, whereas damage was lowest in plots with clover or radish alone. This agrees with the laboratory results where insect performance was inferior when fed on clover or radish. Cover crop effects on wireworm damage in the subsequent cash crop may thus vary depending on the cover crop species selected.

Analysis of the Destructive Effect of the Halyomorpha halys Saliva on Tomato by Computer Tomographical Imaging and Antioxidant Capacity Measurement

Simple Summary

Halyomorpha halys is a devastating agricultural pest, and digestion starts with an extra-oral phase as the injury is inflicted by injected saliva enzymes into the plant tissues. We carried out a noninvasive imaging assay assisted by computer tomography (CT) of through damaged tomatoes caused by H. halys. It was intended to support the imaging results by further laboratory analytical approaches, such as the antioxidant capacity, which have been used as a stress indicator. Our results confirmed that the noninvasive approach may provide new data for the cognition of the degree of damage induced by this important pest. The important finding is the proof of escalation of the lesions as a function of bug number and the exposure time. Volume and structure deviation in tomatoes were justified by the antioxidant activity. In summary, our method can be suitable for the qualitative inspection of tomato items.

Abstract

Qualitative and quantitative parameters of tomatoes are impaired by Halyomorpha halys Stål (Hemiptera: Pentatomidae), which cause severe economic losses worldwide. Our aims were to assess H. halys-induced tissue damage in tomatoes via computer tomography and to confirm the results of imaging obtained by analytical methods. Our examination confirmed the intensification of the change in the inner structure of damaged tomatoes as a function of time. The tendency of this destruction triggered by bug saliva grew exponentially from the exocarp layer to the inner placenta. The destruction of the plant tissue was aggravated by an increase in the number of bugs, as it was unequivocally evinced by the shell thickness assays. The results of the assessment of the antioxidant capacity of tomato mesocarp showed a distinct decrease in the antioxidant capacity of the samples obtained from H. halys-infested tomatoes. This indicates that the ferric-reducing antioxidant power value was related to the degradation processes of the mesocarp tissue in tomato fruit caused by the watery saliva released by H. halys. The presented experimental method can be suitable for the qualitative control of the vegetable items intended for trade, which can help for the isolation of tomatoes damaged by bugs immediately after harvest.