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Time-lapse seismic inversion for CO 2 saturation with SeisCO2Net: An application to Frio-II site

Seismic monitoring of geological CO 2 storage (GCS) involves highly nonlinear seismic inversion and petrophysical inversion, making it challenging to estimate CO 2 volume efficiently and detect possible early CO 2 leakages. Deep learning (DL) using convolutional neural networks (CNNs) has shown promise in solving highly nonlinear seismic inversion problems. However, direct estimation of CO 2 plume extent/saturation from time-lapse seismic gathers using DL is still underexplored, with no reported field applications to date. The investigation of field data is primarily hindered by scarcity of field data for neural network training. Other obstacles include highly nonlinear seismic-petrophysics inverse relationship, and presence of noise in field seismic data. We introduce SeisCO2Net, a deep CNN that predicts CO 2 saturation maps directly from time-lapse full waveform shot gathers. For training, we use site-specific geological information, fluid flow physics, rock physics, and seismic modeling to generate synthetic datasets that closely resemble the CO 2 storage site. Synthetic tests show promising results, inspiring us to apply SeisCO2Net's trained weights on field data collected at Frio-II GCS site by leveraging transfer learning principles. As reference, we compare SeisCO2Net's predicted CO 2 saturation maps with results obtained from physics-based inversion. Our analyses show both methods display similar CO 2 plume shapes, reasonable CO 2 plume characteristics, and comparable saturation values. Our results suggest pre-training CNNs on physics-informed synthetic datasets and then applying the learned weights to field data is a viable approach to estimating field CO 2 saturation. This method effectively addresses the scarcity of field training data, thus encouraging the feasibility of long-term GCS monitoring.

58 GEOSCIENCES↗

EGS Collab Experiment 2: Shear Stimulation ERT Monitoring Data

This repository contains the electrical resistivity tomography (ERT) monitoring data that was collected before, during, and after shear stimulation attempts were conducted at EGS Collab. These tests were carried out on the SURF 4100 level during Experiment 2 in March, 2022. Flow and stimulation data corresponding to this dataset are available in a different GDR dataset, which is linked below. Also included here are the E4D input files that were used to process the ERT data. E4D is an open source ERT monitoring and inversion code which is linked for use below.

15 GEOTHERMAL ENERGY↗

Electrical Resistivity Tomography Monitoring of In Situ Soil Flushing at the Hanford 100-K East Area: 100KE Soil Flushing Monitoring

Former operations in the 100-KE Area at the Hanford Site resulted in vadose zone hexavalent chromium that provides a source of groundwater contamination. Previous efforts to remediate vadose zone chromium involved excavation and offsite treatment of contaminated soils. Although much of the chromium was removed, contamination still exists in native soil between the water table and the bottom of the pit, which has since been backfilled. In-situ soil flushing was tested at the 100-KE Area to accelerate the removal of the remaining hexavalent chromium in the vadose zone. Soil flushing works by applying clean flush water at the surface, which mobilizes and transports chromium as it migrates downward to the water table. Once the chromium reaches the water table, it is hydraulically contained, extracted, and treated through pump and treat operations. The efficacy of soil flushing is directly related to the volume of clean water that infiltrates through contaminated soils. Therefore, performance monitoring requires and understanding of flush water migration through the vadose zone. It is challenging to comprehensively assess soil flushing performance via borehole access due to the limited volume of investigation afforded by a given wellbore. As an alternative, 3D time-lapse electrical resistivity tomography (ERT) was tested as a method of monitoring the distribution of flush water over time within the vadose zone. ERT is a method of imaging the bulk electrical conductivity of the subsurface, which is highly dependent on water saturation levels in unconsolidated and unsaturated sediments. Thus, the timing and location of changes in bulk conductivity caused by soil flushing can be used to infer flush water migration pathways. In this report we present results of 3D time-lapse ERT imaging during two separate soil flushing campaigns conducted during the spring and summer months of 2022 and 2023. Results show generally that: 1) Pit backfill materials appear to nominally have larger permeability than native soils. Consequently, the boundary between pit backfill and native soil had a significant impact on flush water migration, causing some flush water to migrate along the pit boundary to the bottom of the pit. 2) Non-uniform flows, likely caused by variations in hydrogeologic properties, developed in the pit backfill materials, resulting in uneven flush water distribution on the southern margin of the soil flushing zone. 3) Redistribution of water at the interface between backfill materials and Hanford formation materials likely facilitated elevated and uniform distribution of flush water within native soils beneath the deeper parts of the pit boundary beneath the center of the flush zone, which presumably overlie soils with elevated chromium contamination. These areas appear to have been infiltrated by higher volumes of flush water than the northern and southern margins of the flush zone. 4) In comparison to 2022, high flush water application rates significantly improved flush water distribution throughout the target flushing zone. 5) Imaging resolution was limited to a depth of approximate 20 meters below the land surface, due primarily to limitations on the lateral extent of the surface ERT array. The ~10 m region of the vadose zone between approximately 130 meters elevation and the water table at approximately 120 meters elevation was unresolved.

100 Area↗

lumicap v0.1

Automated HDR luminance imaging system designed for daylighting research and building science. It controls a fisheye-lens camera to capture time-lapse bracket sequences, merges them into calibrated HDR images, and runs a full post-processing pipeline — all unattended. Features: - Scheduled LDR bracket capture via gphoto2 - HDR merging with vignetting, ND filter, and fisheye projection corrections - Illuminance and luminance meter integration (Konica Minolta T-10A, LS-100/150) - Daylight glare probability (DGP) and solar position computation - Automated false-color rendering, JPEG thumbnails, and daily time-lapse video - CSV data logging per timestep Uses: - Long-term monitoring of daylight conditions in buildings - Glare analysis for occupant comfort research - Solar irradiance and sky luminance studies Advantages: - End-to-end automation — capture, calibration, analysis, and archiving run without manual intervention - Built on the proven Radiance toolchain, ensuring photometrically accurate HDR output - Hardware-agnostic meter support via serial auto-detection - Lightweight — no GUI overhead, deployable on a headless Raspberry Pi or similar embedded system

Wang, Taoning [Lawrence Berkeley National Laborato↗

CO 2 rock physics modeling for reliable monitoring of geologic carbon storage

Monitoring, verification, and accounting (MVA) are crucial to ensure safe and long-term geologic carbon storage. Seismic monitoring is a key MVA technique that utilizes seismic data to infer elastic properties of CO 2 -saturated rocks. Reliable accounting of CO 2 in subsurface storage reservoirs and potential leakage zones requires an accurate rock physics model. However, the widely used CO 2 rock physics model based on the conventional Biot-Gassmann equation can substantially underestimate the influence of CO 2 saturation on seismic waves, leading to inaccurate accounting. We develop an accurate CO 2 rock physics model by accounting for both effects of the stress dependence of seismic velocities in porous rocks and CO 2 weakening on the rock framework. We validate our CO 2 rock physics model using the Kimberlina-1.2 model (a previously proposed geologic carbon storage site in California) and create time-lapse elastic property models with our new rock physics method. We compare the results with those obtained using the conventional Biot-Gassmann equation. Our innovative approach produces larger changes in elastic properties than the Biot-Gassmann results. Using our CO 2 rock physics model can replicate shear-wave speed reductions observed in the laboratory. Our rock physics model enhances the accuracy of time-lapse elastic-wave modeling and enables reliable CO 2 accounting using seismic monitoring.

58 GEOSCIENCES↗

Technical Report on Subsurface Monitoring of the Brady Hot Spring Geothermal Site, Nevada, based upon Full Waveform Inversion

Abilities to accurately characterize the subsurface in a geothermal setting is key to assess and support production. An important element of geothermal reservoir monitoring is also the ability to investigate fluid transport within fracture network. This report focuses on improving subsurface imaging and monitoring in geothermal settings using full waveform inversion based on the adjoint method and time-lapse imaging. To assess our method, we rely on a dense seismic dataset collected in 2016 at the Brady Hot Springs geothermal site in Nevada for the DOE-funded project Poroelastic Tomography by Adjoint Inverse Modeling of Data from Seismology, Geodesy, and Hydrology. This dataset captures subsurface changes across four stages of geothermal power plant operations, which involve varying rates of fluid injection and extraction. Two velocity models were previously derived from this dataset using different methods: one based on travel times and another on sweep interferometry. Our first step is to refine these models using adjoint tomography, which has been applied successfully at global and regional-scales but is less common at the reservoir-scale. Two approaches are then explored for time-lapse analysis: directly comparing refined tomographic models from different stages or backpropagating waveform differences relative to a baseline tomographic model. The main take away is that both approaches highlight similar reservoir behaviors, but the latter approach is more computationally effective in capturing small-scale changes in subsurface properties. For this work, we leverage the use of Salvus (www.mondaic.com), an end-to-end seismic imaging solution, relying on the spectral element method to compute forward and adjoint simulations, and developed by Mondaic Ltd. It includes integrated workflow management that handles waveform and metadata, launches simulations, computes waveform misfits and adjoint sources, and iterates for model updates by nonlinear optimization.

15 GEOTHERMAL ENERGY↗

Evolution of storage monitoring – update in response to commercial and regulatory drivers

Carbon Capture and Storage (CCS) is in transition from first-of-a kind projects and research-orientated pilots to commercially-motivated applications. Monitoring results from many newly developed and planned large scale commercial projects are limited; however, it is worthwhile to assess their evolution and consider new strategies as part of an effort to assess and document best practices. Commercial monitoring is targeted to activities that comply with regulatory drivers and de-risk investments. Commercial monitoring also supports accounting that storage has occurred and is tied to project financing. It deals with long time frames and large volumes injected into multiple wells and multiple projects in favorable areas. We see developing trends toward reproducible workflows that systematically reduce risks and clarify expectations for oversight and long-term surveillance. Monitoring techniques showing increasing trends include injection zone pressure as a history-matching and compliance tool. To reduce cost and environmental impact of time-lapse seismic data collection, deploying new approaches and tools, such as use of fibre and installed sources are increasingly applied. Concern over the risk of induced seismicity by regulatory bodies and the general public has increased, which has also resulted in increased monitoring. Some techniques used in the early research phases have been sidelined or used only in restricted applications. For example, geochemical analyses in the injection zone as well as the environment are now being deployed less than it was in research-oriented programs, except in the US where it is required by the permitting process. Expectations of frequent area-wide near surface monitoring have also decreased.

25 ENERGY STORAGE↗

Geophysical and Environmental Monitoring Data, and Subsurface Flow Modelling Results for Chicken Bone Meadow, Mt. Snodgrass, Crested Butte, CO

This dataset includes geoelectrical monitoring data acquired between October 2021 and November 2022, soil moisture and temperature data, groundwater data obtained from borehole SNIB covering the period from June 2021 to September 2022, and hydrological modelling results. The data were acquired to investigate how variations in bedrock type and topography, and vegetation cover control subsurface flow dynamics. To provide insights into the subsurface flow dynamics and their controls, a monitoring transect was installed at the Chicken Bone Meadow, Mt. Snodgrass, Crested Butte, CO, measuring the spatio-temporal variations of soil moisture, soil and snow temperature, subsurface electrical resistivity variations, and groundwater dynamics. Field data are organized in a folder structure, with Electrical Resistivity Tomography (ERT) data being provided as one file per measurement, and data of the soil moisture and temperature sensors being provided as text files covering the entire monitoring period. The ‘Locations.csv’ file contains the location of all sensors, given in NAD83 – UTM Zone 13N. ERT monitoring data has been processed to filter data based on reciprocal errors (data with errors > 30% were removed), a linear error model was fitted to each survey, and to ensure a constant set of measurements for time-lapse inversion, filtered data were interpolated and assigned a 100% measurement error. Soil moisture and temperature data were acquired at 15 min intervals, and averaged to provide 1h data. Weather data and borehole data (groundwater depth, conductivity and temperature) were acquired at 30 min intervals, and are provided as daily measurements; all measurements are averaged, except of precipitation values, which are given as daily accumulation. The hydrological model was set up along the ERT monitoring transect, and net infiltration was used as surface boundary condition and derived from the weather data. Four different results are provided, (1) results for a parameterization using hydraulic permeability and porosity as derived from the ERT data through petrophysical relationships, and (2) three simplified model results, using 1 to 3 geological layers above the bedrock. Modelling was performed using PFLOTRAN, and for each model the PFLOTRAN input files are provided. The result files include weekly hydrological modelling results (e.g., saturation, velocities, pressures), as well as the model parameterization. The dataset additionally includes a file-level metadata (flmd.csv) file that lists each file contained in the dataset with associated metadata; and a data dictionary (dd.csv) file that contains column/row headers used throughout the files along with a definition, units, and data type.

54 ENVIRONMENTAL SCIENCES↗

Assessing the Value of Seismic Amplitude Versus Offset (AVO) Attributes for CO2 Storage Project Using a Bayesian Network Model for Decision Support

Attributes versus offset (AVO) are a set of measurements to analyze how the characteristics of reflected seismic waves change as a function of the offset. It can be useful for monitoring CO2 storage sites because the presence of leaked CO2 into the overlying aquifer can change the properties of the rocks and pore fluids composition that can alter the way seismic waves reflect and their amplitudes. The time-lapse changes in AVO attributes derived from repeat seismic surveys can help identify anomalies or shifts in the subsurface that could potentially be used as an indicator for CO2 leak detection. Our study leverages multiple seismic attributes derived from synthetic seismic data and Bayesian network model to quantify the probability of leak detection in the overlying aquifer above the storage reservoir. It helps to quantify the value of individual seismic attributes at multiple monitoring periods based upon their sensitivities.

Kumar, Abhash↗

Revealing complex subsurface dynamics with continuous seismic monitoring: Observations using distributed acoustic sensing and surface orbital vibrators during hydraulic fracturing

Understanding hydraulic fracturing is crucial to improving the stimulation of unconventional reservoirs and increasing fluid production. This study develops a novel seismic monitoring technology using distributed acoustic sensing (DAS) and surface orbital vibrators (SOV) to capture fracture seismic response and mechanical properties at high temporal intervals. We analyze continuous time-lapse vertical seismic profiling (VSP) data acquired every hour during the first nine days of treatment of an unconventional reservoir in the Austin Chalk/Eagle Field Laboratory. The VSP data contain clear seismic signals scattered from the activated fractures. The spatiotemporal changes of the fracture reflectivity revealed by the SOV/DAS data correlate well with the observations of fracture locations inferred from low-frequency DAS data. These results capture the fracture opening and closure processes, as well as highlight potential prestage activations of the fractures due to hydraulic connectivity with preexisting fracture systems. Therefore, analysis of the presented data set provides a unique opportunity to understand fracture initiation and subsequent evolution, not only in the context of unconventional resources but also in enhanced geothermal systems.

Correa, Julia↗

Electrical Resistivity Tomography data from 2016 to 2018 at the Lower Montane site in the East River Watershed, Colorado

This dataset contains time-lapse Electrical Resistivity Tomography (ERT) data along a transect located on the northeast-facing hillslope at the lower montane site (Pumphouse site) in the upper East River Watershed. The monitoring dataset covers the period from November 2, 2016, to August 6, 2018. In addition, the archive also contains a baseline dataset from October 9, 2016. The ERT transect consisted of 128 electrodes with an electrode spacing of 1.25 m. The acquisition system was located in the middle of the transect, about 50 m on one side, and included an MPT (Multi-Phase Technologies) ERT system, a mini computer, and batteries with solar panels. Acquisition occurred daily under normal circumstances. The first 16 electrodes (from the upper end of the transect) could not be used after the cable was damaged during the 2017–2018 winter. Also, due to multiple failures in the power system, the temporal resolution of the data is much lower in 2018 compared to 2016 and 2017. The data have been processed and used in Dafflon et al., 2023, and the baseline dataset was used in Falco et al., 2019 (see reference list). This archive contains the measurements (ER.zip containing csv files) for each of the 326 acquisition times and a filtered version where only electrodes 17 to 128 are included (ERT_sm.zip containing csv files). The archive also contains the baseline dataset and two acquisitions with full reciprocals (ERT_RB.zip containing csv files), as well as all the raw MPT files (ERT_raw_MTP.zip). The geometry (electrode position and elevation) is provided in Universal Transverse Mercator (UTM) 13N Geoid2012AB in the file named ERT_Location.csv. The archive contains 1 *.csv data files, four *.zip files, and three metadata *.csv files. This work was supported by the Watershed Function Science Focus Area at Lawrence Berkeley National Laboratory funded by the US Department of Energy, Office of Science, Biological and Environmental Research under Contract No. DE-AC02-05CH11231.

54 ENVIRONMENTAL SCIENCES↗

Deep Vadose Zone Monitoring Test Bed (FY23 Status Report)

A subsurface air injection at the Hanford Site’s Deep Vadose Zone Monitoring Test Bed was completed to realize a change in subsurface hydrologic conditions in accordance with a soil desiccation remedy. The injection mimicked a previous injection at the site that was performed in accordance with a vadose zone treatability study. Unlike the previous test which relied on electrical methods only, the change in hydrologic conditions during the recent test was also monitored using cross-hole seismic sensing methods to assess the ability of the seismic methods to evaluate changes in moisture conditions of desiccated sediment at the field scale. Data from in situ neutron probes indicates a reduction of soil moisture in the vicinity of the injection well due to the air injection. Similar changes were observed in the time-lapse electrical resistivity and seismic data, which indicates a loss of soil moisture over time. Tomographic inversions of the time-lapse geophysical data illustrate the 2D and 3D features of the soil moisture distribution over time. Time-lapse electrical resistivity tomography (ERT) results show a reduction in the electrical conductivity of the subsurface in the vicinity of the injection well, with most changes occurring within the screened interval. Similar patterns are observed in the seismic tomography results, with both methods illustrating two lobe-shaped features of reduced soil moisture. Use of seismic and ERT technologies in tandem takes advantage of two complementary geophysical monitoring technologies, providing increased sensitivity to specific hydrologic conditions. The multiphysics approach, therefore, has the potential to improve the ability to estimate subsurface moisture conditions from sensor-based and remotely sensed geophysical data that will ultimately improve the ability of remediation contractors to evaluate remedy performance.

58 GEOSCIENCES↗

Geophysical Characterization and Monitoring of the 200 Area Treated Effluent Disposal Facility to Support Permit Renewal; TEDF Geophysical Monitoring

The Treated Effluent Disposal Facility (TEDF), located in the 200 East Area of the Hanford Site, is a site where non-hazardous and non-radioactive liquid wastes are disposed into two state-permitted infiltration basins. In 2016, the Washington State Department of Ecology denied a permit renewal request for TEDF due to the inability to adequately assess the impact of TEDF discharge water on the underlying groundwater quality. TEDF overlies the relatively impermeable Ringold Lower Mud (RLM) unit, whose upper contact lies in the vadose zone approximately 30 m below ground surface and approximately 10 m above the water table boundary. The RLM is assumed to isolate TEDF discharge water from the natural groundwater aquifer, which is monitored using wellbores screened below the RLM. Therefore, samples collected from monitoring wells near TEDF are not considered representative of TEDF discharge water. Rather, TEDF discharge water is assumed to mound on top of the RLM to form a perched aquifer. To support permitting of the TEDF, a new monitoring well is required that can be used to sample water from the presumed perched water aquifer above the RLM. Ideally, the screened section of the well would be located at the peak of the perched water mound(s), which presumably occurs at the point of maximum vertical flux from TEDF to the RLM, or equivalently where the dominant infiltration flow paths reach the RLM. This report describes how time-lapse 3D electrical resistivity tomography (ERT) was used in conjunction with nominal TEDF discharge operations to image the dominant flow paths from each pond to the RLM. Results are summarized in Figure ES.1. Figure ES.1A shows a satellite image of the TEDF overlain by an array of surface ERT electrodes. The solid and dashed black circles denote the zones of maximum vertical flux at the RLM within the south and north ponds, respectively, and presumably the regions where perched water peaks during discharge. Figure ES.1B shows time-lapse difference imaging results approximately 15 days after switching discharge from the south pond to the north pond. Blue iso-surfaces beneath the north pond denote regions of increasing bulk electrical conductivity caused by increasing saturation due to infiltrating water. Red iso-surfaces beneath the south pond denote regions that were previously saturated during the south pond discharge and are now de-saturating, causing a decrease in bulk electrical conductivity. In both cases, the zones of maximum change mark the dominant flow paths to the RLM. Figure ES.1C shows time-lapse imaging results approximately 15 days after switching discharge from the north pond to the south pond. In this case, blue iso-surfaces mark the dominant flow paths to the RLM from the south pond. The red iso-surfaces mark the dominant flow paths that existed during discharge to the north pond. The regions of maximum change in bulk conductivity (due to saturation or desaturation) that mark the primary flow paths are equivalent in both cases and denoted by the dashed solid and black circles. If a perched water zone forms on the RLM, it is likely to mound within or near the dashed circle during discharge to the north pond, and in the solid circle during discharge to the south pond. In other words, if perched water mounding occurs, the circles mark the optimum locations suggested by the ERT imaging for monitoring boreholes to be placed, enabling samples to be collected that are representative of TEDF discharge impacts on groundwater quality.

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

Using a physics-informed neural network and fault zone acoustic monitoring to predict lab earthquakes

Abstract Predicting failure in solids has broad applications including earthquake prediction which remains an unattainable goal. However, recent machine learning work shows that laboratory earthquakes can be predicted using micro-failure events and temporal evolution of fault zone elastic properties. Remarkably, these results come from purely data-driven models trained with large datasets. Such data are equivalent to centuries of fault motion rendering application to tectonic faulting unclear. In addition, the underlying physics of such predictions is poorly understood. Here, we address scalability using a novel Physics-Informed Neural Network (PINN). Our model encodes fault physics in the deep learning loss function using time-lapse ultrasonic data. PINN models outperform data-driven models and significantly improve transfer learning for small training datasets and conditions outside those used in training. Our work suggests that PINN offers a promising path for machine learning-based failure prediction and, ultimately for improving our understanding of earthquake physics and prediction.

42 ENGINEERING↗

Improved geophysical monitoring of carbon sequestration through parameter linkage to reservoir modeling

Predictive reservoir modeling, even if present in the form of only basic hydrogeological model assumptions, is expected to accompany the majority of carbon capture and sequestration monitoring activities. It thus represents a source of prior information about the migration of injected fluids that can benefit geophysical survey planning and ensuing monitoring. Constraining the imaging of geophysical monitoring data with reservoir modeling is preferable over standalone geophysical imaging because of additional complementary hydrogeological information. However, fully coupled hydrogeophysical data inversion for flow-modeling parameters that control saturation predictions is an involved process. Within the context of three-dimensional electromagnetic (EM) inversion of data from borehole-to-surface layouts, we employ a "poor people's" alternative. The approach constrains geophysical inversion parameters through saturation predictions. The coupling is realized through spatially variable lower and upper parameter bounds that scale with gas saturation magnitudes, the latter provided by reservoir modeling. In this work, enhancement of three-dimensional time-lapse plume EM imaging is demonstrated for simulated sequestration into a depleted gas reservoir.

58 GEOSCIENCES↗

Where do the fish go in winter? A year of observing seasonal changes in Sequim Bay’s nearshore fish community

The use of environmental DNA (eDNA) sampling has been proposed as a complementary method to monitor fish species in marine environments. eDNA offers a non-invasive, cost-effective, and scalable way to detect aquatic species. It is appealing in environments where traditional methods are limited by access or visibility, especially in complex or sensitive habitats such as tidal channels and other marine energy sites. Before eDNA can be fully relied upon, we must verify its accuracy against established methods, like underwater photography. In this study, we collected eDNA samples and concurrently deployed a 360-degree camera near the floating dock of PNNL-Sequim in the tidal channel of Sequim Bay once a month for twelve consecutive months. During deployments, the camera remained on the seafloor for several hours overlapping slack tide and captured time-lapse photographs at ten second intervals. Counts and identifications of fish species observed in the images were used to calculate monthly Shannon diversity and Pielou evenness indices. These values were compared across the months using a Kruskal-Wallis test paired with a Conover-Iman post-hoc test. Cliff’s Delta was also calculated to quantify the effect size of the monthly differences. No fish were observed from December through April, likely due to seasonal behavior changes within the local fish community. Fish returned to the shoreline in May, with the greatest diversity and evenness recorded in September. These findings reveal substantial seasonal variation in nearshore fish communities. Many monthly comparisons were found to contain statistically significant differences within the diversity and evenness, and even more were found to have large effect sizes, signifying large ecological changes throughout the seasons. The absence of fish observed during the winter months is a key outcome of this survey that will hopefully be reflected in the eDNA results still to come, which would help validate the eDNA approach.

59 BASIC BIOLOGICAL SCIENCES↗

Monitoring the impact of confinement on hyphal penetration and fungal behavior

Through their expansive mycelium network, soil fungi alter the physical arrangement and chemical composition of their local environment. This can significantly impact bacterial distribution and nutrient transport and can play a dramatic role in shaping the rhizosphere around a developing plant. However, direct observation and quantitation of such behaviors is extremely difficult due to the opacity and complex porosity of the soil microenvironment. In this study, we demonstrate the development and use of an engineered microhabitat to visualize fungal growth in response to varied levels of confinement. Microfluidics were fabricated using photolithography and conventional soft lithography, assembled onto glass slides, and prepared to accommodate fungal cultures. Selected fungal strains across three phyla (Ascomycota: Morchella sextalata , Fusarium falciforme ; Mucoromycota: Linnemannia elongata , Podila minutissima , Benniella ; Basidiomycota: Laccaria bicolor , and Serendipita sp.) were cultured within microhabitats and imaged using time-lapse microscopy to visualize development at the mycelial level. Fungal hyphae of each strain were imaged as they penetrated through microchannels with well-defined pore dimensions. The hyphal penetration rates through the microchannels were quantified via image analysis. Other behaviors, including differences in the degree of branching, peer movement, and tip strength were also recorded for each strain. Our results provide a repeatable and easy-to-use approach for culturing fungi within a microfluidics platform and for visualizing the impact of confinement on hyphal growth and other fungal behaviors pertinent to their remodeling of the underground environment.

Guo, Yi-Syuan (ORCID:0000000340142225)↗

Amino mapping: possibility to visualize amino-N compounds in the rhizosphere of Zea Mays L.

Abstract Understanding N uptake by plants, the N cycle, and their relationship to soil heterogeneity has generated a great deal of interest in the distribution of amino-N compounds in soil. Visualization of the spatial distribution of amino-N in soil can provide insights into the role of labile N in plant-microbial mechanisms of N acquisition and plant N uptake, but until now, it has remained technically challenging. Here, we describe a novel technique to visualize the amino-N distribution at the root-soil interface. The technique is based on time-lapse amino mapping (TLAM) using membranes saturated with the fluorogenic OPAME reagent (O-phthalaldehyde and β-mercaptoethanol). OPAME in the membrane reacts with organic compounds containing a NH 2 functional group at the membrane-soil interface, generating a fluorescent product visible under UV light and detectable by a digital camera. The TLAM amino-mapping technique was applied to visualize and quantify the concentration of amino-N compounds in the rhizosphere of maize (Zea MaysL.). A ten times greater amino-N concentration was detected in the rhizosphere compared to non-rhizosphere soil. The high content of amino-N was mainly associated with the root tips and was 3 times larger than the average amino-N content at seminal roots. The amino-N rhizosphere was 2 times broader around the root tips than around other parts of the roots. We concluded that TLAM is a promising approach for monitoring the fate of labile N in soils. However, the technique needs to be standardized for different soil types, plant species, and climate conditions to allow wider application.

Agriculture↗