J. Mason Earles
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View article: Leaf hyperspectral reflectance detects pre‐visual stress to <i>Fusarium</i> wilt in strawberries
Leaf hyperspectral reflectance detects pre‐visual stress to <i>Fusarium</i> wilt in strawberries Open
Fusarium wilt, caused by Fusarium oxysporum , threatens global food security and high‐value crops like strawberries ( Fragaria × ananassa ) in California. Traditional detection, reliant on visual symptoms, often comes too late for interven…
View article: Comparison of Mask-R-CNN and Thresholding-Based Segmentation for High-Throughput Phenotyping of Walnut Kernel Color
Comparison of Mask-R-CNN and Thresholding-Based Segmentation for High-Throughput Phenotyping of Walnut Kernel Color Open
High-throughput phenotyping has become essential for plant breeding programs, replacing traditional methods that rely on subjective scales influenced by human judgment. Machine learning (ML) computer vision systems have successfully used c…
View article: Enhancing AI microscopy for foodborne bacterial classification using adversarial domain adaptation to address optical and biological variability
Enhancing AI microscopy for foodborne bacterial classification using adversarial domain adaptation to address optical and biological variability Open
AI-enabled microscopy is emerging for rapid bacterial classification, yet its utility remains limited in dynamic or resource-limited settings due to imaging variability. This study aims to enhance the generalizability of AI microscopy usin…
View article: AgRowStitch: A High-fidelity Image Stitching Pipeline for Ground-based Agricultural Images
AgRowStitch: A High-fidelity Image Stitching Pipeline for Ground-based Agricultural Images Open
Agricultural imaging often requires individual images to be stitched together into a final mosaic for analysis. However, agricultural images can be particularly challenging to stitch because feature matching across images is difficult due …
View article: Novel algorithms for high-resolution prediction of canopy evapotranspiration in grapevine
Novel algorithms for high-resolution prediction of canopy evapotranspiration in grapevine Open
Developing low-cost technology for custom water delivery to individual or small groups of plants is a critical next step to advance precision irrigation. Current systems for estimating evapotranspiration (ET), or plant water use, work on t…
View article: Biometeorological Dataset for 'Novel algorithms for high resolution prediction of canopy evapotranspiration in grapevine'
Biometeorological Dataset for 'Novel algorithms for high resolution prediction of canopy evapotranspiration in grapevine' Open
A head trained Vitis vinifera L. cv. Zinfandel vine was grafted on St. George rootstock (V. rupestris) then planted in a 1.1 m3 plastic container filled with Yolo County, CA sourced sandy loam.…
View article: Biometeorological Dataset for 'Novel algorithms for high resolution prediction of canopy evapotranspiration in grapevine'
Biometeorological Dataset for 'Novel algorithms for high resolution prediction of canopy evapotranspiration in grapevine' Open
A head trained Vitis vinifera L. cv. Zinfandel vine was grafted on St. George rootstock (V. rupestris) then planted in a 1.1 m3 plastic container filled with Yolo County, CA sourced sandy loam.…
View article: Structural and functional leaf diversity lead to variability in photosynthetic capacity across a range of <i>Juglans regia</i> genotypes
Structural and functional leaf diversity lead to variability in photosynthetic capacity across a range of <i>Juglans regia</i> genotypes Open
Similar to other cropping systems, few walnut cultivars are used as scion in commercial production. Germplasm collections can be used to diversify cultivar options and hold potential for improving crop productivity, disease resistance and …
View article: A workflow for segmenting soil and plant X-ray CT images with deep learning in Googles Colaboratory
A workflow for segmenting soil and plant X-ray CT images with deep learning in Googles Colaboratory Open
X-ray micro-computed tomography (X-ray microCT) has enabled the characterization of the properties and processes that take place in plants and soils at the micron scale. Despite the widespread use of this advanced technique, major limitati…
View article: The three‐dimensional construction of leaves is coordinated with water use efficiency in conifers
The three‐dimensional construction of leaves is coordinated with water use efficiency in conifers Open
Summary Conifers prevail in the canopies of many terrestrial biomes, holding a great ecological and economic importance globally. Current increases in temperature and aridity are imposing high transpirational demands and resulting in conif…
View article: The 3D construction of leaves is coordinated with water use efficiency in conifers
The 3D construction of leaves is coordinated with water use efficiency in conifers Open
Summary Conifers prevail in the canopies of many terrestrial biomes, holding a great ecological and economic importance globally. Current increases in temperature and aridity are imposing high transpirational demands and resulting in conif…
View article: Maximum CO <sub>2</sub> diffusion inside leaves is limited by the scaling of cell size and genome size
Maximum CO <sub>2</sub> diffusion inside leaves is limited by the scaling of cell size and genome size Open
Maintaining high rates of photosynthesis in leaves requires efficient movement of CO 2 from the atmosphere to the mesophyll cells inside the leaf where CO 2 is converted into sugar. CO 2 diffusion inside the leaf depends directly on the st…
View article: R script used to generate the theoretical conductance values based on cell size and leaf porosity. from Maximum CO<sub>2</sub> diffusion inside leaves is limited by the scaling of cell size and genome size
R script used to generate the theoretical conductance values based on cell size and leaf porosity. from Maximum CO<sub>2</sub> diffusion inside leaves is limited by the scaling of cell size and genome size Open
Maintaining high rates of photosynthesis in leaves requires efficient movement of CO2 from the atmosphere to the mesophyll cells inside the leaf where CO2 is converted into sugar. CO2 diffusion inside the l…
View article: Supplementary Tables from Maximum CO<sub>2</sub> diffusion inside leaves is limited by the scaling of cell size and genome size
Supplementary Tables from Maximum CO<sub>2</sub> diffusion inside leaves is limited by the scaling of cell size and genome size Open
Supllemental Tables S1, S2, S3, S4, and S6
View article: R script used to generate the theoretical conductance values based on cell size and leaf porosity. from Maximum CO<sub>2</sub> diffusion inside leaves is limited by the scaling of cell size and genome size
R script used to generate the theoretical conductance values based on cell size and leaf porosity. from Maximum CO<sub>2</sub> diffusion inside leaves is limited by the scaling of cell size and genome size Open
Maintaining high rates of photosynthesis in leaves requires efficient movement of CO2 from the atmosphere to the mesophyll cells inside the leaf where CO2 is converted into sugar. CO2 diffusion inside the l…
View article: Digitally deconstructing leaves in 3D using X‐ray microcomputed tomography and machine learning
Digitally deconstructing leaves in 3D using X‐ray microcomputed tomography and machine learning Open
Premise X‐ray microcomputed tomography (microCT) can be used to measure 3D leaf internal anatomy, providing a holistic view of tissue organization. Previously, the substantial time needed for segmenting multiple tissues limited this techni…
View article: Image Dataset for 'Digitally deconstructing leaves in 3D using X-ray microcomputed tomography and machine learning'
Image Dataset for 'Digitally deconstructing leaves in 3D using X-ray microcomputed tomography and machine learning' Open
Dataset used in the manuscript 'Digitally Deconstructing Leaves in 3D Using X-ray microcomputed Tomography and Machine Learning'. Please cite the paper presenting this dataset: Citation: Théroux-Rancourt, G., M. R. Jenkins…
View article: Image Dataset for 'Digitally deconstructing leaves in 3D using X-ray microcomputed tomography and machine learning'
Image Dataset for 'Digitally deconstructing leaves in 3D using X-ray microcomputed tomography and machine learning' Open
Dataset used in the manuscript 'Digitally Deconstructing Leaves in 3D Using X-ray microcomputed Tomography and Machine Learning'. Please cite the paper presenting this dataset: Citation: Théroux-Rancourt, G., M. R. Jenkins…
View article: Maximum CO<sub>2</sub>diffusion inside leaves is limited by the scaling of cell size and genome size
Maximum CO<sub>2</sub>diffusion inside leaves is limited by the scaling of cell size and genome size Open
Summary Maintaining high rates of photosynthesis in leaves requires efficient movement of CO 2 from the atmosphere to the chloroplasts inside the leaf where it is converted into sugar. Throughout the evolution of vascular plants, CO 2 diff…
View article: MicroCT data to 'Maximum CO2 diffusion inside leaves is limited by the scaling of cell size and genome size'
MicroCT data to 'Maximum CO2 diffusion inside leaves is limited by the scaling of cell size and genome size' Open
This dataset is presented in the following publication. Please cite this publication if you use the dataset. Théroux-Rancourt Guillaume, Roddy Adam B., Earles J. Mason, Gilbert Matthew E., Zwieniecki Maciej A., Boyce C. Kevin, Tholen D…
View article: MicroCT data to 'Maximum CO2 diffusion inside leaves is limited by the scaling of cell size and genome size'
MicroCT data to 'Maximum CO2 diffusion inside leaves is limited by the scaling of cell size and genome size' Open
This dataset is presented in the following publication. Please cite this publication if you use the dataset. Théroux-Rancourt Guillaume, Roddy Adam B., Earles J. Mason, Gilbert Matthew E., Zwieniecki Maciej A., Boyce C. Kevin, Tholen D…
View article: Digitally Deconstructing Leaves in 3D Using X-ray Microcomputed Tomography and Machine Learning
Digitally Deconstructing Leaves in 3D Using X-ray Microcomputed Tomography and Machine Learning Open
Premise of the study X-ray microcomputed tomography (microCT) can be used to measure 3D leaf internal anatomy, providing a holistic view of tissue organisation. Previously, the substantial time needed for segmenting multiple tissues limite…
View article: Spatiotemporal Coupling of Vessel Cavitation and Discharge of Stored Xylem Water in a Tree Sapling
Spatiotemporal Coupling of Vessel Cavitation and Discharge of Stored Xylem Water in a Tree Sapling Open
Water discharge from stem internal storage compartments is thought to minimize the risk of vessel cavitation. Based on this concept, one would expect that water storage compartments involved in the buffering of xylem tensions empty before …
View article: Diurnal Variation in Nonstructural Carbohydrate Storage in Trees: Remobilization and Vertical Mixing
Diurnal Variation in Nonstructural Carbohydrate Storage in Trees: Remobilization and Vertical Mixing Open
Nonstructural carbohydrate (NSC) storage plays a critical role in tree function and survival, but understanding and predicting local NSC storage dynamics is challenging because NSC storage pools are dispersed throughout the complex archite…
View article: Beyond Porosity: 3D Leaf Intercellular Airspace Traits That Impact Mesophyll Conductance
Beyond Porosity: 3D Leaf Intercellular Airspace Traits That Impact Mesophyll Conductance Open
The leaf intercellular airspace (IAS) is generally considered to have high conductance to CO2 diffusion relative to the liquid phase. While previous studies accounted for leaf-level variation in porosity and mesophyll thickness,…
View article: Insight into the physiological role of water absorption via the leaf surface from a rehydration kinetics perspective
Insight into the physiological role of water absorption via the leaf surface from a rehydration kinetics perspective Open
Soil water transported via the petiole is a primary rehydration pathway for leaves of water‐stressed plants. Leaves may also rehydrate by absorbing water via their epidermal surfaces. The mechanisms and physiological relevance of this wate…
View article: <i>In vivo</i> quantification of plant starch reserves at micrometer resolution using X‐ray micro<scp>CT</scp> imaging and machine learning
<i>In vivo</i> quantification of plant starch reserves at micrometer resolution using X‐ray micro<span>CT</span> imaging and machine learning Open
Summary Starch is the primary energy storage molecule used by most terrestrial plants to fuel respiration and growth during periods of limited to no photosynthesis, and its depletion can drive plant mortality. Destructive techniques at coa…
View article: Storage Compartments for Capillary Water Rarely Refill in an Intact Woody Plant
Storage Compartments for Capillary Water Rarely Refill in an Intact Woody Plant Open
Water storage is thought to play an integral role in the maintenance of whole-plant water balance. The contribution of both living and dead cells to water storage can be derived from rehydration and water-release curves on excised plant ma…
View article: The bias of a two‐dimensional view: comparing two‐dimensional and three‐dimensional mesophyll surface area estimates using noninvasive imaging
The bias of a two‐dimensional view: comparing two‐dimensional and three‐dimensional mesophyll surface area estimates using noninvasive imaging Open
Summary The mesophyll surface area exposed to intercellular air space per leaf area ( S m ) is closely associated with CO 2 diffusion and photosynthetic rates. S m is typically estimated from two‐dimensional (2D) leaf sections and correcte…
View article: Excess Diffuse Light Absorption in Upper Mesophyll Limits CO<sub>2</sub> Drawdown and Depresses Photosynthesis
Excess Diffuse Light Absorption in Upper Mesophyll Limits CO<sub>2</sub> Drawdown and Depresses Photosynthesis Open
In agricultural and natural systems, diffuse light can enhance plant primary productivity due to deeper penetration into and greater irradiance of the entire canopy. However, for individual sun-grown leaves from three species, photosynthes…