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Revista mexicana de fitopatología
versión On-line ISSN 2007-8080versión impresa ISSN 0185-3309
Rev. mex. fitopatol vol.42 no.2 Texcoco may. 2024 Epub 24-Feb-2025
https://doi.org/10.18781/r.mex.fit.2312-1
Scientific Article
Aerial and terrestrial digital images for quantification of powdery mildew severity in Ayocote bean (Phaseolus coccineus)
11 Programa de Fitosanidad-Fitopatología, CP-LANREF, Programa de Genética. Colegio de Postgraduados, Km 36.5 Carretera México-Texcoco, Montecillo, Texcoco, Estado México, México, C.P. 56230;
22Departamento de Producción Agrícola y Animal, Universidad Autónoma Metropolitana, Unidad Xochimilco, Xochimilco, CDMX, México C.P. 04960.
33Programa de Genética. Colegio de Postgraduados, Km 36.5 Carretera México-Texcoco, Montecillo, Texcoco, Estado México, México, C.P. 56230;
Objective/Background.
Epidemiological research on Phaseolus coccineus is lacking. The aim was to develop and validate digital methods to quantify the severity associated with powdery mildew in ayocote bean.
Materials and Methods.
An ayocote bean plot with 65.3 % incidence and 22.7% average powdery mildew foliar severity was selected. Based on 250 leaves collected in field with varying severity degrees, eight 7- and 8-class logarithmic- diagrammatic scales (ELD) were designed and validated in a controlled environment (CEV) and field (FV). In Rstudio®, accuracy (β), precision (R2), reproducibility (r), and agreement level were determined with Cohen’s kappa index (κw) and Lin’s concordance coefficient (LCC). Additionally, a Hierarchical Cluster Analysis (HCA) was performed by scale and assessment environment for clustering by similarity evaluation. In ArcMap® v10.3, in a 15-quadrant block, an ‘image segmentation’ analysis was performed using supervised classification and maximum likelihood to estimate powdery mildew severity and an indicator of canopy coverage index (VCI).
Results
In VEC-1, v1r2 (ELD-7c; β=1.07, R2=0.93, r=0.87) and v1r1 (ELD-8c; β=0.97, R2=0.85, r=0.87) scales were best evaluated. In VEC-2, comparing clusters conformed in the HCA, the ELD-7c was the best scored with perfect accuracy (β>0.96), very high precision (R2>0.94), very high reproducibility (r=0.97-0.99) and very high agreement (κw>0.96; LCC>0.97); and in ELD-8c reproducibility and agreement decreased. In VCa, ELD-7c maintained optimal metrics, but ELD- 8c reached ideal parameters for preventive ELD in early stages of powdery mildew (β>0.98, R2>0.98, r=0.99, κw=0.99-0.999, LCC=0.98-0.999). Image análisis estimated severity = 8.4 % (CI = 5.3 - 12.6 %) and ICV = 0.88 (CI = 0.76 - 0.99), contrasting with field assessment 47 % (CI = 38.8 - 55.3 %) and 0.46 (CI = 0.76 - 0.99), respectively, mainly with ICV > 0.94 due to less symptomatic leaf exposure. Suggests applicability for canopy estimation with restrictions for severity based on pathogen expression.
Conclusion
A methodology for ELD development is proposed, comprising: image acquisition, processing and quantification; controlled validation and field validation. Validation statistics included precision (R2); accuracy (β); reproducibility (Pearson’s coefficient and Hierarchical Cluster Analysis); and agreement (Lin’s Coefficient and Kappa Index), proposed in a comprehensive approach for first time. RGB-drone images are proposed to estimate a comprehensive vigor and severity coverage index.
Keywords: Erysiphe vignae; scales-logarithmic; RStudio
Objetivo/Antecedentes.
La investigación epidemiológica en Phaseolus coccineus es insipiente. El objetivo fue desarrollar y validar metodologías digitales para cuantificación de severidad asociada a la cenicilla polvosa en frijol ayocote.
Materiales y Métodos.
Se seleccionó una parcela de frijol ayocote con 65.3 % de incidencia y 22.7 % de severidad promedio foliar de cenicilla polvosa. A partir de 250 foliolos colectados en campo con distintos grados de severidad, se diseñaron y validaron ocho escalas logarítmicas-diagramáticas (ELD) de 7 y 8-clases en entorno controlado (VEC) y campo (VCa). En Rstudio®, se determinó exactitud (β), precisión (R2), reproducibilidad (r), y concordancia con el índice kappa de Cohen (κw) y coeficiente de concordancia de Lin (LCC). Adicionalmente, se realizó un Hierarchical Cluster Analysis (HCA) por escala y entorno para agrupación por similitud de evaluación. Imágenes RGB-dron se procesaron en ArcMap® v10.3. En un bloque de 15-cuadrantes se realizó un análisis de ‘segmentación de imagen’ mediante clasificación supervisada y máxima probabilidad para estimar severidad de cenicilla y un indicador de cobertura de vigor (ICV).
Resultados.
En VEC-1, escalas v1r2 (ELD-7c; β=1.07, R2=0.93, r=0.87) y v1r1 (ELD-8c; β=0.97, R2=0.85, r=0.87) resultaron mejor evaluadas. En VEC-2, comparando clústeres conformados en el HCA, ELD-7c fue la mejor evaluada con exactitud perfecta (β>0.96), precisión muy alta (R2>0.94), reproducibilidad muy alta (r=0.97-0.99) y concordancia muy buena (κw>0.96; LCC>0.97); y en ELD8c disminuyó reproducibilidad y concordancia. En VCa, ELD-7c mantuvo métricas óptimas, pero ELD-8c alcanzó parámetros ideales para una ELD preventiva en etapas iniciales de la cenicilla polvosa (β>0.98, R2>0.98, r=0.99, κ =0.99-0.999, LCC=0.98-0.999). El análisis de imagen RGB-drone estimó severidad = 8.4 % (CI= 5.3 - 12.6 %) e ICV = 0.88 (CI = 0.76 - 0.99), contrastante con la evaluación de campo 47 % (CI = 38.8 - 55.3 %) y 0.46 (CI = 0.76 - 0.99), respectivamente, principalmente con ICV>0.94 debido a menor exposición de hojas sintomáticas. Sugiere w
Conclusión.
Se propone una metodología para desarrollo de ELD integrada por: toma, procesamiento y cuantificación de imágenes; validación controlada y campo. Estadísticos de validación incluyeron precisión (R2); exactitud (β); reproducibilidad (coeficiente de Pearson y Hierarchical Cluster Analysis); y concordancia (Coeficiente de Lin e Índice de Kappa), propuestos por primera vez de manera integral. Se proponen imágenes RGB-drone para estimar un índice de cobertura de vigor y severidad integral.
Palabras clave: Erysiphe vignae; escalas-logarítmicas; Rstudio
Introduction
The Ayocote bean (Phaseolus coccineus) has a high productive potential in several regions of Mexico due to its tolerance to phytopathogens, environmental adaptability, and nutritional benefits (Ávila-Alistac et al., 2023). However, scientific research on epidemiological and productive aspects is limited, including methodologies for disease quantification that allow proposing management strategies for the crop (Armenta-Cárdenas et al., 2024). The parametrization of the damage subsystem, or pathometry, through severity assessment scales for several pathosystems has been the most widely used resource, emphasizing an etiological approach rather than a comprehensive epidemiological approach for crop management (Del Ponte et al., 2017; Mora-Aguilera et al., 2021). Over the past two decades (2007-2019), publication trends on development and implementation of severity scales suggest: 1) the field implementation has increased significantly, 2) the Horsfall & Barrat principles and Weber-Fechner law are being replaced by linear or arithmetic models, 3) the Weber-Fechner visual stimulus law is questioned, 4) it is used as tools strictly for assessment the damage subsystem, 5) there is no methodological consensus for determining severity intervals and optimal classes number (Del Ponte et al., 2022; 2017; Franceschi et al., 2020; Godoy et al., 1996). In these new approaches, biological-epidemiological principles are compromised or
omitted by covering statistical parameters, e.g., the coefficient of determination (R2) that justify their implementation. A review of 105 scientific articles published from 1991 - 2017 on development of Logarithmic Diagrammatic Scales (LDS) analyzed various approaches to generating scales and adjusting reliability parameters (Del Ponte et al., 2017). In this meta-analysis, only five of 127 LDSs in three publications were developed for Phaseolus sp., specifically for Colletotrichum lindemuthianum, Uromyces appendiculatus, Phaeoisariopsis griseola, Pseudocercospora griseola, and Xanthomonas campestris pv. phaseoli (Librelon et al., 2015; Godoy et al., 1997). Except for Phaeoisariopsis griseola, severity intervals between 0.1 - 60% were divided into 6 - 9 classes based on the Weber-Fechner visual stimulus law. Additionally, the diagrammatic design (i.e., image of tissue on concern) was based on black-and-white drawn leaves due to digital technological restrictions (Del Ponte et al., 2017; Godoy et al., 1997). The most recent work using LDS was conducted for leaf blight caused by Alternaria alternata in Phaseolus vulgaris genotypes (Gonzalez-Cruces et al., 2022). However, none for powdery mildew reported for the first time in P. coccineus from the central Altiplano in Mexico (Armenta-Cárdenas et al., 2024). Therefore, an epidemiological approach was used in this study for LDS implementation in preventive disease management models in Phaseolus coccineus, which involved prioritizing the early classes of severity associated with pathogenic process of Erisyphe vignae for timely management control (Gonzalez-Cruces et al., 2022; Mora-Aguilera et al., 2021; Librelon et al., 2015). In the experimental plot of Colegio de Postgraduados, Campus Montecillo, Estado de México, an area of 3,100 m2 of P. coccineus established for seed production with genetic improvement purposes, and with high powdery mildew incidence was selected as a study area. The objective was to develop and validate digital methodologies for severity quantification using a logarithmic-diagrammatic scale and drone images, to establish preventive mechanisms potentially linked to official production and management programs.
Materials and Methods
Experimental plot. In July 2022, during the summer-autumn cycle, an experimental plot (50 x 62 m) of Ayocote bean in the flowering stage was identified with 65.3 % incidence and 22.7 % average foliar severity of powdery mildew (Armenta- Cárdenas et al., 2022). Due to the irregular density and heterogeneity in coverage, a 13mpx image was taken from plot-centroid using a 50 m vertical flight with a Phantom 3 DJI® drone to plan the methodology for quantifying plant canopy and severity. The quadrant division used by Armenta-Cárdenas et al. (2022) with 80 quadrants and 720 sub-quadrants, was used as reference, and plant severity and vigor data were used to validate the estimates of this study.
Develop of a logarithmic-diagrammatic severity scale for powdery mildew. A total of 250 apical leaves from the middle stratum of Phaseolus coccineus plants were collected, photographed, and digitized, ensuring representativeness across the entire plot. The photographs were taken with mobile digital devices. A total of 50 images were discarded due to low resolution or poor damage discrimination. The collection criterion was aimed at severity range representative of disease progress from Yo (healthy) to Ymax (maximum severity). The digitized images were processed in GIMP v2.10.32 for background removal and quantification of total area (TA), damaged area (DA), or signs of the fungus associated with powdery mildew. The severity percentage (sev %) per leaf was obtained using the equation: sev % = 100 * [DA / TA]. For develop of logarithmic-diagrammatic scale (LDS) based on severity, class midpoint (CM), lower limit (LL), and upper limit (UL) were determined by entering the number classes desired and maximum severity into 2Log-Epidem v.2.0 using the modified Hosfall and Barrat method (1945) (Mora-Aguilera and Acevedo- Sánchez, 2022. CP-LANREF. Unpublished). Two scales of 7 (LDS-7) and 8 (LDS- 8) classes were developed for validation purposes. The classes number selected considered the potential use in severity assessment studies, genetic improvement, or biological effectiveness tests.
Validation of severity scales in a controlled environment. Two validations were conducted in a controlled environment (CEV) for LDS-7 and LDS-8. In the first one, version 1 of each scale was validated, and in the second one, a version with fixes and improvements, e.g., change of photographic image. In total, four scales for LDS-7 and four for LDS-8 were validated. From the total collection of 200 digitized leaf images, 30 with different severity degrees were randomly selected. The images were uniformly sized and centered on a PowerPoint® 2016 slide. A randomization macro with 30 s of visual exposure per leaf was programmed using Microsoft® Visual Basic® 2016. After 30 s, the real severity value (R-sev) was automatically displayed bottom the respective image. The recording of estimated assessment per image, with support of the color-printed scale by rater, was carried out in Validar-PER v1.5 (CP-LANREF, 2022. Unpublished). This software was developed in MS Excel® to determine the accuracy (β, slope) and precision (R2, coefficient of determination) associated with a linear regression model (y = βo + βx + e) between R-sev and estimated severity (Nutter and Schultz, 1995). In Validar- PER, each rater recorded the Class Number (#Class) and CM of respective scale. The file was projected in a classroom to nine raters for the assignment of severity class (S-class) per leaf. LDS-7 and LDS-8 were used in independent events. Each rater recorded in Validar-PER v1.5 the S-class and R-sev values for 30 leaves. Upon completing each assessment, β and R2 coefficients were automatically generated associated with a proposed accuracy scale to measure the bias of real value relative to estimated (β < 0.96, underestimated; β = 0.96 to 1.05, perfect; and β > 1.06, overestimated), and precision for the bias in set of real values relative to estimate in overall evaluation (R2 < 0.69, unacceptable; R2 = 0.7 to 0.8, low; R2 = 0.81 to 0.9, medium; R2 = 0.91 to 0.95, high; R2 > 0.96, very high). Reproducibility, as indicator of consistency by LDS among raters (Nutter & Schultz 1995), was estimated in RStudio® 2023.06.2 through: 1) Pearson correlation coefficient (r) from a matrix with S-class values; 2) weighted Kappa index (κw); and 3) Lin’s Concordance Correlation Coefficient (LCC), to determine the agreement: no concordance (< 0), insignificant (0.0 - 0.2), low (0.2 - 0.4), moderate (0.4 - 0.6), good (0.6 - 0.8), and very good (0.8 - 1.0).
Validation of severity scales in the field. The LDS-7 and LDS-8 with the best scores in r, β, and R2 were selected for field validation (FV). Four out of nine initial raters were selected based on contrasts in plant pathologist profile, and the final β and R2 scores from the controlled environment validation (CEV). In the plot, 240 leaves (30 per scale and rater) were randomly selected to determine S-class using the color-printed scale. Additionally, an image of assessment leaf was taken for digitization and to determine R-sev using the previously described method. Like the CEV validation, Validar-PER v1.5 was used for estimating accuracy and precision. Each rater recorded S-class and R-sev values for 30 leaves per scale. The β, R2, r, κw, and LCC parameters were generated for each rater and scale based on the method described above.
Hierarchical cluster analysis for CEV and FV. An independent matrix was integrated for the CEV and FV processes for nine and four raters, respectively, including S-class and R-sev for 30 leaves. In RStudio® 2023.06.2, for each assessment event and severity scale, heat maps were performed using the Heatmap function to represent S-class and reproducibility among raters through the Pearson correlation coefficient (r). Positive r values equal to or close to 1 indicated high reproducibility. For each Heatmap and variable (rater and leaf), a Hierarchical cluster analysis (HCA) was performed using the ‘complete’ method and ‘Euclidean’ distance (d). A green-yellow-red gradient color scheme was used to represent the transition from healthy to damage through S-class and r. The S-class and R-sev values for each process, scale, and rater were plotted using the ggplot function, fitting a linear regression to determine β, R2, and p-value parameters using the stat_ poly_eq function.
Estimation of coverage vigor and severity using drone images. A block of nine quadrants (Column 8:10, Row 1:3) was selected based on the criterion of maximum powdery mildew inductivity through terrestrial-visual exploration. At the block centroid, 10 RGB-drone images (13 mpx) were captured with the Phantom 3 DJI® at 27 m elevation. An image-control per quadrant at 5 m elevation was captured for higher-resolution symptom. In ArcMap® v10.3, an ‘image segmentation’ analysis was conducted in two stages using supervised classification and maximum likelihood: 1) Training on an image-sample with a 5 m resolution, to create a ‘RGB signature’ capable of discriminating between classification categories, i.e., powdery mildew severity (sev), soil (s), leaf tissue (t), and flowering (f); and 2) Image-segmentation by extrapolating the ‘RGB signature’ from training to the 27 m resolution image corresponding to the whole block. The area for each classification category and total area of whole block were obtained (TS = sev + s + t + f). The powdery mildew severity estimation for the block was calculated as: sevb = 100 * (sev / TS); and the canopy coverage as vcb = 100 * ([ sev + t + f ] / TS). Severity and canopy coverage were compared against field data for quadrants evaluated by Armenta-Cárdenas et al. (2024).
Results and Discussion
Design of logarithmic-diagrammatic severity scales (LDS). Eight scales were developed, two with 7 classes and two with 8 classes, with two repetitions per scale. The classes range used was like other studies with analogous objectives (512, Mo = 6; Del Ponte et al., 2017). The representative image for each class was selected based on lower limit (LL) and upper limit (UL) obtained in 2Log-Epidem v.2.0. The LDSs for 7 and 8 classes were composed with class image associated to LL, CM, and UL (Figure 1). Values of 0, 0.5, 2.1, 6.2, 16.6, 41.7, and 100 % were obtained as CMs for LDS-7c (Figure 1A); and 0, 0.2, 0.9, 2.7, 7.1, 17.8, 42.9, and 100 % for LDS-8c (Figure 1B).
First validation of eight scales in a controlled environment (CEV-1). The evaluation in LDS-7c had β, R2, and r coefficients ranged in 0.99 - 1.02, 0.80 - 0.94, and 0.81 - 0.87, respectively, reported as acceptable-optimal in scale design and validation studies (Ortega-Acosta et al., 2016; Librelon et al., 2015; Godoy et al., 1996; Nutter Jr. & Schultz, 1995). The scale v1r2 was the best scored with β =1.07 (overestimated by 7 %), R2 = 0.93 (high) and r = 0.87 (moderate). Although v2r1 had similar coefficients, it obtained the lowest reproducibility at 0.81 (Table 1). For the LDS-8c, the coefficients were notably lower: β = 0.81 - 0.97, R2 = 0.80 0.85, and r = 0.79 - 0.94 (Table 1). The best scored scale was v1r1 with β = 0.97 (perfect), R2 = 0.85 (medium) and r = 0.87 (medium) (Table 1). Overall, it was observed that a higher classes number correlated with increased assessment error, mainly with a trend to underestimate, possibly due to difficulty in discriminating

Figure 1 Final versions of logarithmic-diagrammatic severity scales for powdery mildew in Ayocote bean (Phaseolus coccineus), selected for field validation. A) 7-class logarithmic- diagrammatic scales; B) 8-class logarithmic-diagrammatic scales.
Table 1 Average accuracy (β), precision (R2), and reproducibility (r) of eight logarithmic-diagrammatic severity scales for evaluating powdery mildew in Phaseolus coccineus.
| IDz | Accuracy (β) | Qualitive class of β | Precision (R2) | Qualitive class of R2 | Reproducibility (r, Range) |
|---|---|---|---|---|---|
| ELD 7 classes | |||||
| v1r1 | 0.99 | Perfect | 0.81 | medium | 0.83 (0.60 – 0.98) |
| v1r2 | 1.07 | Overestimated | 0.93 | high | 0.87 (0.67 – 0.99) |
| v2r1 | 1.08 | Overestimated | 0.94 | high | 0.81 (0.61 – 0.98) |
| v2r2 | 1.02 | Perfect | 0.80 | low | 0.86 (0.72 – 0.94) |
| ELD 8 classes | |||||
| v1r1 | 0.97 | Perfect | 0.85 | medium | 0.87 (0.77 – 0.97) |
| v1r2 | 0.81 | Underestimated | 0.84 | medium | 0.94 (0.81 – 1.00) |
| v2r1 | 0.96 | Perfect | 0.81 | medium | 0.79 (0.62 – 0.99) |
| v2r2 | 0.87 | Underestimated | 0.80 | low | 0.79 (0.62 – 0.99) |
z The ID was formed based on the version number (v) and the repetition (r) of the scale. *Scales selected for best superior rating in the evaluated parameters are highlighted in bold.
damage between classes (Del Ponte et al., 2022; Perina et al., 2020). However, other factors that may influence outcomes in a controlled environment include image quality, exposure time, or rater experience (Librelon et al., 2015; Godoy et al., 1997). The scales v1r2 and v1r1, of seven and eight classes respectively, best scored in this phase were selected for a second validation, analysis, and specific parameterization.
Second validation and parametric analysis of scales (CEV-2). In LDS-7c, the Hierarchical cluster analysis (HCA) formed a cluster for raters 4 - 9 (p = 0.94), characterized by parameters of perfect accuracy (β > 0.96), very high precision (R20.94), very high reproducibility (r = 0.97 - 0.99), and very good concordance (κw 0.96; LCC > 0.97) (Figure 2A1-A2, Figure 3A, and Table 2). Raters 1 - 3 formed independent clusters (p > 0.75), which underestimated severity by 10 - 18 % in classes 2 - 5 (β = 0.82 - 0.97), their precision was moderate (R2 = 0.82 - 0.89), and although reproducibility was high (r = 0.92 - 0.94), the agreement was moderate - good (κw = 0.9 - 0.95; LCC = 0.89 - 0.93) (Figure 2A1-5A3, Figure 3A, and Table 2). In LDS-8c, two significant different clusters were formed (p < 0.001), with raters 4 and 8 as independent cases (p > 0.56). The main cluster was formed by raters 2, 3, 6, and 9 (p = 0.96), with perfect accuracy (β > 0.96), very high precision (R2 > 0.95), high - very high reproducibility (r > 0.93), and high - very high concordance (κw = 0.80 - 0.97; LCC = 0.97 - 0.98) (Figure 2B1-B3, Figure 3B, and Table 2). Raters 1, 5, and 7 formed the second cluster (p = 0.56), underestimating severity by 10 - 15 % in class 4 (β = 0.68 - 0.80).

Figure 2 A1 and B1. Logarithmic-diagrammatic scales of 7 and 8 classes for assessment of powdery mildew severity on Ayocote bean (P. coccineus) leaves, during the Controlled Environment Validation (CEV) process of 30 leaves by nine raters. A2 and B2. Heatmap of Pearson correlation coefficient (r) among nine raters by severity scale. Values of r = 0.8 - 1 indicate the reproducibility of each scale among raters. A3 and B3. Heatmap of severity class in 30 leaves evaluated by scale and rater. The color represents the class value assigned by the rater for each leaf. For rater and leaves, a Hierarchical cluster analysis is plotted, grouped by the complete method and Euclidean distance.

Figure 3 Correlation graphs between severity (y) assessed using the scale and real values (x) by nine raters during the Controlled Environment Validation (CEV) with 30 Phaseolus coccineus leaves. The linear regression equation (y = βo + βx + e) is fitted to determine β, R2, and p-value parameters using the stat_poly_eq function. A. LDS-7 classes. B. LDS-8 classes.
Table 2 Parametric comparison of nine raters relative to the real value, to determine accuracy (βx), precision (R2), and agree- ment (LCC, κw) by severity class assessed during the validation process in a controlled environment (CEV) and in the field (FV).
| Stagex | Rater vs real | Hits vs real y | βo | βx | r | R2 z | LCC | κw |
|---|---|---|---|---|---|---|---|---|
| ELD 7 Classes | ||||||||
| Eval1 | 0.63 | -0.2 | 0.82 | 0.91 | 0.82 | 0.89 | 0.95 | |
| Eval2 | 0.57 | 3.1 | 0.90 | 0.92 | 0.84 | 0.92 | 0.90 | |
| Eval3 | 0.67 | 5.0 | 0.97 | 0.94 | 0.89 | 0.93 | 0.95 | |
| Eval4 | 0.87 | 0.1 | 0.99 | 0.99 | 0.99 | 0.99 | 0.98 | |
| Eval5 | 0.87 | 0.8 | 0.99 | 0.98 | 0.97 | 0.98 | 0.98 | |
| Eval6 | 0.73 | 0.7 | 0.96 | 0.97 | 0.94 | 0.97 | 0.96 | |
| Eval7 | 0.87 | -0.1 | 0.99 | 0.99 | 0.99 | 0.99 | 0.98 | |
| Eval8 | 0.90 | 1.0 | 0.99 | 0.98 | 0.97 | 0.98 | 0.99 | |
| Eval9 | 0.83 | 0.8 | 0.96 | 0.99 | 0.99 | 0.99 | 0.96 | |
| x | 0.77 | . | 0.95 | 0.96 | 0.93 | 0.96 | 0.96 | |
| CEV | CI | 0.69-0.85 | . | 0.91-0.99 | 0.94-0.98 | 0.89-0.98 | 0.94-0.98 | 0.94-0.98 |
| ELD 8 Classes | ||||||||
| Eval1 | 0.50 | 2.1 | 0.51 | 0.80 | 0.64 | 0.65 | 0.80 | |
| Eval2 | 0.83 | 3.9 | 0.96 | 0.97 | 0.95 | 0.97 | 0.97 | |
| Eval3 | 0.80 | 0.2 | 0.98 | 0.97 | 0.95 | 0.97 | 0.94 | |
| Eval4 | 0.47 | -1.9 | 0.92 | 0.93 | 0.87 | 0.93 | 0.93 | |
| Eval5 | 0.63 | 5.2 | 0.68 | 0.84 | 0.70 | 0.81 | 0.92 | |
| Eval6 | 0.80 | -0.3 | 0.98 | 0.97 | 0.95 | 0.97 | 0.97 | |
| Eval7 | 0.67 | 0.9 | 0.80 | 0.91 | 0.82 | 0.89 | 0.93 | |
| Eval8 | 0.73 | 3.1 | 0.99 | 0.93 | 0.87 | 0.93 | 0.92 | |
| Eval9 | 0.67 | 1.8 | 0.98 | 0.98 | 0.97 | 0.98 | 0.91 | |
| x | 0.68 | . | 0.87 | 0.92 | 0.86 | 0.90 | 0.92 | |
| CI | 0.59-0.76 | . | 0.76-0.98 | 0.88-0.96 | 0.78-0.94 | 0.83-0.97 | 0.89-0.95 | |
| ELD 7 Classes | ||||||||
| Eval1 | 0.87 | 1.7 | 0.86 | 0.86 | 0.88 | 0.93 | 0.96 | |
| Eval2 | 0.77 | 2.6 | 0.98 | 0.94 | 0.97 | 0.98 | 0.96 | |
| Eval3 | 0.77 | 3.3 | 0.97 | 0.93 | 0.95 | 0.97 | 0.96 | |
| Eval4 | 0.80 | -1.2 | 0.99 | 0.95 | 0.98 | 0.99 | 0.97 | |
| FV | x | 0.80 | . | 0.95 | 0.92 | 0.95 | 0.97 | 0.96 |
| CI | 0.77-0.83 | . | 0.91-0.99 | 0.96-0.98 | 0.91-0.97 | 0.95-0.98 | 0.96-0.97 | |
| ELD 8 Classes | ||||||||
| Eval1 | 0.87 | -1.2 | 0.99 | 0.99 | 0.98 | 0.98 | 0.98 | |
| Eval2 | 0.87 | 1.3 | 0.98 | 0.99 | 0.98 | 0.98 | 0.98 | |
| Eval3 | 0.90 | 0.5 | 0.99 | 0.99 | 0.99 | 1.0 | 0.99 | |
| Eval4 | 0.87 | -0.3 | 1.01 | 0.99 | 0.99 | 0.99 | 0.98 | |
| x | 0.88 | . | 0.99 | 0.99 | 0.99 | 0.99 | 0.98 | |
| CI | 0.86-0.88 | . | 0.98-1.0 | 0.99 | 0.98-0.99 | 0.98-0.99 | 0.98-0.99 |
X CEV = Controlled Environment Validation. FV = Field Validation. Y Proportion of the correct estimation number among the total sheets assessment. Z The fit of Coefficient of Determination (R2) and correlations (r) were significant p<0.001.
Rater 1 was notoriously the most inaccurate (β = 0.51), with erratic assessment of underestimation and overestimation in classes 3 - 6. In reproducibility, this cluster was medium (r = 0.80 - 0.91) with moderate agreement (κw = 0.80 - 0.92; LCC = 0.65 - 0.86; Figure 2A2, Figure 3B, and Table 2). Although raters 4 and 6 were close to main cluster, they were significant different (p = 0.78 and 0.56, respectively), associated with strong underestimation or overestimation in classes 4 - 5 (β = 0.92, 0.99), which resulted in medium precision (R2 = 0.87) and moderate agreement (κw = 0.93; LCC = 0.93; Figure 2B1-B2, Figure 3B, and Table 2). Comparatively, LDS-7c was 15 % more accurate, with underestimation in classes 4 - 6 and overestimation in classes 1 - 3 (β = 0.91 - 0.99; Table 2). Conversely, in LDS-8c, underestimation in classes 1 - 7 was more evident (β = 0.76 - 0.98). LDS-7c was 9 % more precise with high to very high metrics (R2 = 0.89 - 0.99 vs. R2 = 0.78 - 0.94; Table 2). Overall, precision, accuracy, and reproducibility were similar to analogous studies using scales (Ortega-Acosta et al., 2016; Martelli et al., 2017; Perina et al., 2019; da Silva et al., 2019; Franceschi et al., 2019; Arias et al., 2020). The second evaluation improved overestimation bias in the LDS-7c and the precision in 8 LDS-8c (Table 1 and 4). Furthermore, the best- clusters assessed by scale had similar coefficients (Table 2), suggesting that training increases efficiency regardless of classes number (Librelon et al., 2015; Telíz-Ortíz et al., 2003; Martelli et al., 2017).
Lin’s Concordance Correlation Coefficient (LCC), with an increase in the implementation over the last decade because it integrates precision and accuracy into the same statistic (Del Ponte et al., 2017; 2022), showed better parameters for LDS-7c (LCC = 0.96, CI = 0.94 - 0.98; Table 2) than LDS-7c (LCC = 0.9, CI = 0.83 - 0.97; Table 2). As reported in previous studies, the LCC did not show explanatory differences with respect to r and R2, which had similar trends (Table 2) (Perina et al., 2019). A Pearson correlation among the three parameters showed a similarity of R2 > 0.98 between β, R2, and LCC. The proposal to include in this study the weighted Cohen’s Kappa index (κw), in addition to the LCC, to determine the agreement degree with the real value, validated the results of linear coefficients and LCC, showing better agreement for LDS-7c (κw = 0.94 - 0.98) where 60 % of raters had a very good agreement, in contrast to LDS-8c (κw = 0.89 - 0.95) with 50 % of raters in moderate and 22 % very low (Table 2). The κw index overall corresponded with β, R2, and LCC at r = 0.70; interestingly, it was higher in LDS- 8c (r = 0.86) associated with a broad distribution of assessment errors between all severity classes (Figures 2-5 and Table 2). Comparing each indicator respect to the proportion of real hits, κw was higher than LCC with r = 0.91 for LDS-7c and r = 0.68 for LDS-8c, and similar respect to β and R2, therefore it can be considered as a complementary indicator to linear statistics in the absence of other statistics like LCC (Arias et al., 2020; Del Ponte et al., 2017; Martelli et al., 2017; Ortega-Acosta et al., 2016; Librelon et al., 2015).
Field validation (FV) of LDS-7c and LDS-8c scales. At field condition validation, LDS-7c maintained accuracy (β = 0.95, CI = 0.91 - 0.99), precision (R2 = 0.95, CI = 0.92 - 0.97), and reproducibility (r = 0.92, CI = 0.89 - 0.95) compared to CEV (Figures 2-5 and Table 2). The parametric analysis of this scale showed a main cluster comprising the real values and raters 2 - 4 (p = 0.93) with closely perfect accuracy (β > 0.97) and very high precision (R2 > 0.95) (Figure 4A2, Figure 5A, and Table 2). Regarding reproducibility in this cluster, very high values (r =0.95 - 0.97) suggested an optimal error margin for field conditions in Phaseolus coccineus (Gonzalez-Cruces et al., 2022; Librelon et al., 2015). Rater 1 formed a significantly different clade (p > 0.93) with lowest assessment of accuracy, precision, and reproducibility (β = 0.86, R2 = 0.88, r = 0.86), tending to underestimate or overestimate classes 5 - 6 (Figure 4A1-A2, Figure 5A, and Table 2). In agreement, the LCC (0.97, CI = 0.95 - 0.98) and κw (0.96, CI = 0.96 - 0.97) showed no differences compared to the controlled environment evaluation. Although accuracy, precision, and agreement appeared to show analogous trends under field conditions, in classes lower 16.6 % severity, particularly the class 4 which was underestimated in CEV, its discrimination improved notably in the field (Figures 2A2 and 4A2). This effect, reported by Del Ponte et al. (2022), where the benefit of using scales is marginal and greater at lower severity classes, for a study with epidemiological purposes it is appropriate in order to improve precision in detecting early disease phases where intervening in the epidemic process can be more effective (Gonzalez- Cruces et al., 2022; Mora-Aguilera et al., 2021).
On the contrary, the LDS-8c scale performed better metrics compared to the CEV process, and even better than LDS-7c in field. The analysis formed a main cluster with real values and raters 3 - 4 (p = 0.99). Raters 1 - 2 formed independent clades without significant differences (p > 0.85, Figures 4B2 and 5B). Accuracy improved considerably and was close to perfect (β = 0.98 - 1.01), with main underestimation errors in classes 4 - 6 (Figures 4B1-B2, 5B, and Table 2). Precision increased notably to 0.98 - 0.99 in four raters, showing a significant improvement with 8 classes at the field assessment (Figures 4B2, 5B, and Table 2). The reproducibility of LDS-8c among raters had the best assessment in comparison to the real (r = 0.99), even despite slight overestimation in classes 2 - 4 (Figures 4B3, 5B, Table 2). In agreement, both LCC (0.99, CI = 0.98 - 0.999) and κw (0.98, CI = 0.99 - 0.999) achieved optimal agreement levels and significantly improved compared to CEV process (Table 2). LCC maintained similarity with linear statistics (Perina et al., 2019). Overall, the eight-class scale applied in a field assessment improved in statistical metrics to optimal levels desired for a logarithmic-diagrammatic scale (LDS). Qualitatively, initial damage attributable to classes 1 - 4 could be differentiated with greater precision and biological criteria than ELD-7c, which enables the strategies design aimed at interrupting chains of infection prior to 7.1 %

Figure 4 A1 and B1. Logarithmic-diagrammatic scale of 7 and 8 classes for assessing powdery mildew severity on Ayocote bean (P. coccineus) leaves during the validation process of 30 leaves in the field by four selected raters. A2 and B2. Heatmap of Pearson correlation coefficient (r) among nine raters based on severity scale. Values of r = 0.8 - 1 indicate the reproducibility level of each scale among raters. A3 and B3. Heatmap of severity class on 30 leaves assessed by scale and rater. The color represents the class value assigned by the rater to each leaf. Hierarchical cluster analysis is performed by grouping raters and leaves using the ‘complete’ method and Euclidean distance.

Figure 5 Correlation plots between severity (y) assessed by scale and actual values (x) from four raters during Field Validation (VCa) with 30 Phaseolus coccineus leaves. The linear regression equation (y = βo + βx + e) is fitted to determine parameters β, R2, and p-value using the stat_poly_eq function. A. LDS-7classes. B. LDS-8classes.
severity (LL = 5.3, UL = 12.4; Figure 1), integrating into Surveillance Systems for disease monitoring, in breeding or control programs (Gonzalez-Cruces et al., 2022; Mora-Aguilera et al., 2021; Franceschi et al., 2019; Ortega-Acosta et al., 2016).
RGB image analysis (13mpx) taken with DJI® Phantom 3 Drone. The analysis at 27 m within the 15 selected quadrants of the study plot (Figure 6A1) allowed estimating an average powdery mildew severity of 8.4 % (CI = 5.3 - 12.6 %) and a canopy coverage index (VCI) of 0.88 (CI = 0.76 - 0.99), contrasting with the field assessment which obtained a severity of 47 % (CI = 38.8 - 55.3 %) and VCI = 0.46 (CI = 0.76 - 0.99) (Figure 6A2 and Table 3). The image analysis revealed an inverse relationship between severity and VCI (R2 = 0.68), suggesting that higher foliage density corresponds to lower damage intensity (Table 3). However, in comparison to severity and plant canopy index (PVI) assessed with App-Monitor v1.0, showed a directly proportional trend, although not significant (R2 = 0.2) due to severity varying within the experimental plot (Figure 6). The classification algorithm underestimated by 46.4 % to 63.7 % in quadrants with VCI > 0.94, associated with the occurrence of Erysiphe vignae primarily in the lower to middle canopy strata, less exposed for aerial imaging (Table 3, Figure 6A1-10A2).
These findings suggest that the image classification algorithm was less efficient in estimating foliar severity associated with non-systemic fungal organisms (i.e., Erysiphe vignae) when VCI was low, indicating potential overestimation of severity in quadrants with limited tissue availability (Table 3, Figure 6A2). However, field assessments also revealed significant bias in severity compared to PVI (R2 = 0.19, Table 3), linked to prior discussions on successful pathogenesis processes in organisms thriving under favorable developmental microclimates within foliage, coupled with reduced exposure to sunlight for P. coccineus plants (Craig & Weyne, 2012; Hückelhoven & Panstruga, 2011). This suggests that estimation error is associated more with biological factors of the pathosystem than with digital analysis processes. It has been documented that such analyses may have favorable implications for other disease organisms such as viruses, wilt diseases, blights, etc., or for calculating indices and epidemiological indicators in crops (Gonzalez- Cruces et al., 2022). Overall, exploratory results from image analysis suggest that these methodologies hold significant epidemiological potential; however, they should be complemented with field assessments linked to sampling systems (i.e., sampling pattern) designed ad hoc based on biological-epidemiological criteria of the pathosystem, enabling informed decision-making.

Figure 6 Estimation of canopy and severity indicators using RGB imagery (13 mpx) from Phantom 3 processed through supervised segmentation algorithm in ArcMap® v10.3. A1. Image of the total experimental area (40 x 52 m). Captured at 50 m altitude. A2. Block of 15 selected quadrants based on uniformity in host continuity, canopy, and maximum inductivity. Continuous yellow lines depict quadrant divisions. Dashed white lines represent selected blocks for algorithm versus real image estimation. Captured at 27 m. A3. Image at 5 m of a selected sector for designing ‘RGB signature’ with crop categories (foliar tissue, flowering, powdery mildew, and soil coverage).

x Quadrant (C) and Block (B) IDs. Field estimates with App-Monitor v1.0 using 5 classes (0-100%) (Armenta-Cárdenas et al., 2024). SD = Standard Deviation, CI = Confidence Interval (α = 0.05).
Table 3 Comparison of canopy coverage index (VCI), plant canopy (PVI), and powdery mildew severity percentage estimated using RGB-drone image and field assessments.
Conclusions
The validation process in controlled environments and field enabled the development of scales with optimal quantitative statistical parameters. In field, the selected and validated logarithmic-diagrammatic scales of seven and eight classes exhibited best accuracy, precision, and agreement values for assessment powdery mildew severity caused by Erysiphe vignae in Ayocote beans. However, for epidemiological purposes aimed at managing larger-scale crops, the use of eight classes is recommended as it provided greater precision in the initial phases of the E. vignae pathogenesis process. Regarding the use of images for damage estimation, the underestimation of severity estimated with RGB-drone images compared to field assessments with App-Monitor suggests the need to establish complementary digital and ground-based methods due to the occurrence of E. vignae in the middle plant canopy and its heterogeneous foliar coverage habits. Additionally, other digital methodologies should be tested in addition to drone imagery. A methodology for developing logarithmic-diagrammatic scales is proposed, which includes image capture, processing, and quantification, as well as validation in controlled environments and fields. For scale validation, precision metrics (R2); accuracy (β); reproducibility (Pearson coefficient and Hierarchical cluster analysis); and agreement (Lin’s coefficient and Kappa Index) are proposed, for the first time, comprehensively. RGB-drone images are proposed to estimate an integrated canopy coverage index and severity.
Acknowledgments
The authors acknowledge CONAHCYT for the scholarship awarded to graduate students and the CP-LANREF team for their logistical and operational support in carrying out field activities.
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Received: December 02, 2023; Accepted: March 09, 2024










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