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Article

Field-Deployed Spectroscopy from 350 to 2500 nm: A Promising Technique for Early Identification of Powdery Mildew Disease (Erysiphe necator) in Vineyards

by
Sergio Vélez
1,2,*,
Enrique Barajas
2,
José Antonio Rubio
2,
Dimas Pereira-Obaya
3 and
José Ramón Rodríguez-Pérez
3
1
Group Agrivoltaics, Fraunhofer Institute for Solar Energy Systems ISE, 79110 Freiburg, Germany
2
Instituto Tecnológico Agrario de Castilla y León (ITACyL), 47071 Valladolid, Spain
3
Grupo de Investigación en Geomática e Ingeniería Cartográfica (GEOINCA), Universidad de León, Avenida de Astorga sn, 24401 Ponferrada, Spain
*
Author to whom correspondence should be addressed.
Agronomy 2024, 14(3), 634; https://0-doi-org.brum.beds.ac.uk/10.3390/agronomy14030634
Submission received: 28 February 2024 / Revised: 19 March 2024 / Accepted: 20 March 2024 / Published: 21 March 2024
(This article belongs to the Special Issue Data-Driven Agriculture: Remote Sensing and Machine Learning for Sustainable Farming Practices)
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Abstract

:
This study explores spectroscopy in the 350 to 2500 nm range for detecting powdery mildew (Erysiphe necator) in grapevine leaves, crucial for precision agriculture and sustainable vineyard management. In a controlled experimental vineyard setting, the spectral reflectance on leaves with varying infestation levels was measured using a FieldSpec 4 spectroradiometer during July and September. A detailed assessment was conducted following the guidelines recommended by the European and Mediterranean Plant Protection Organization (EPPO) to quantify the level of infestation; categorising leaves into five distinct grades based on the percentage of leaf surface area affected. Subsequently, spectral data were collected using a contact probe with a tungsten halogen bulb connected to the spectroradiometer, taking three measurements across different areas of each leaf. Partial Least Squares Regression (PLSR) analysis yielded coefficients of determination R2 = 0.74 and 0.71, and Root Mean Square Errors (RMSEs) of 12.1% and 12.9% for calibration and validation datasets, indicating high accuracy for early disease detection. Significant spectral differences were noted between healthy and infected leaves, especially around 450 nm and 700 nm for visible light, and 1050 nm, 1425 nm, 1650 nm, and 2250 nm for the near-infrared spectrum, likely due to tissue damage, chlorophyll degradation and water loss. Finally, the Powdery Mildew Vegetation Index (PMVI) was introduced, calculated as PMVI = (R755 − R675)/(R755 + R675), where R755 and R675 are the reflectances at 755 nm (NIR) and 675 nm (red), effectively estimating disease severity (R2 = 0.7). The study demonstrates that spectroscopy, combined with PMVI, provides a reliable, non-invasive method for managing powdery mildew and promoting healthier vineyards through precision agriculture practices.

1. Introduction

Crop diseases and pests significantly impact global agricultural production, quality, and economic outcomes [1]. In the field of viticulture, several diseases significantly impact grapevine health, such as grapevine trunk diseases like Esca [2], Grapevine Red Blotch Disease and Grapevine Leafroll Disease [3] or Botrytis, which leads to botrytis bunch rot or grey mould [4]. Each disease presents unique challenges, requiring specific management and control strategies. Among these diseases, powdery mildew (PM) caused by the fungus Erysiphe necator (aka Uncinula necator) stands out as particularly harmful, especially with the challenges posed by climate change [5]. PM is a major economic threat to grape cultivation as it can alter both yield and grape quality, thereby impacting wine quality [6,7]. The epidemiology of the fungus, as well as its ecology, morphology, and reproductive biology, are well-documented [8]. This extensive research has revealed that the frequent use of intensive spraying programs to control PM contributes to resistance across various fungicide classes, thus necessitating the invention of novel, effective molecular control strategies [9]. Concurrently, research into the molecular dynamics between Vitis vinifera and Erysiphe necator offers insights into resistance mechanisms that hold promise for breeding PM-resistant strains [10]. Therefore, early disease detection and monitoring are crucial for improving productivity and promoting sustainable agriculture by facilitating targeted pesticide and fungicide applications [11], highlighting the urgency in developing rapid detection and surveillance techniques for PM.
PM severity is typically carried out through visual inspections, yet recent advancements offer more precise methods to diagnose, measure, and manage the disease by leveraging core plant pathology techniques [8]. The primary molecular tools for disease detection currently include ELISA and PCR (including real-time PCR), alongside methods based on immunofluorescence (IF), flow cytometry (FCM), fluorescence in situ hybridisation (FISH), and DNA microarrays [12]. PCR techniques, for instance, determine the quantity of pathogen DNA or the percentage of surface area affected by powdery mildew through infrared (IR) spectroscopy or by identifying disease biomarkers like volatile organic compounds [11]. These objective methods demand meticulous sampling and processing to identify plant diseases accurately [11]. Despite these technological advances, manual scouting remains prevalent due to its simplicity, albeit being laborious, time-consuming, and costly [13]. Hence, developing a reliable, non-destructive, fast and real-time disease monitoring system would significantly advance disease control and management in sustainable viticulture. Current trends in plant disease detection increasingly rely on advanced imaging techniques [1,14], with a notable emphasis on remote sensing, especially multispectral and hyperspectral (HSI) imagery captured by unmanned aerial vehicles (UAVs). This approach has become a key tool for monitoring grapevine health and identifying diseases [15,16,17,18,19]. These techniques often combine near-infrared (NIR) and red reflectance to gather data, exploiting biophysical parameters detectable via sensors equipped on UAVs. Notably, in the context of detecting diseases and environmental safety, HSI has been extensively utilised [20,21]. Moreover, HSI is adept at reducing constants and linear functions, thereby refining the precision of remote sensing in measuring crop parameters [22]. Specifically in this field, spectroscopy has shown considerable promise for detecting plant diseases [23] and in analysing compositional parameters in wine grapes, grape juice, and grapevine tissues critical for assessing quality and ripeness [24]. Techniques such as Vis–NIR [25], MIR [26], and Raman [27] spectroscopy offer rapid, cost-effective, and efficient approaches for disease detection and diagnosis in plants, applicable both in laboratory settings and in the field [28]. These methods can identify diseases before symptoms become visually apparent [29,30,31,32], and they can complement broad detection methods like UAVs due to the portability and ease of use of handheld spectroscopy devices for targeted, detailed analysis of specific areas. Additionally, spectroscopy has the potential to identify specific wavelengths that correlate directly with plant traits of interest, aiding in crafting new vegetation indices from specific spectral bands to improve the precision of agricultural assessment. Vegetation indices are useful for estimating plant and fruit health [33], biomass [34], water stress [35], quality traits [36], and chlorophyll content [37], and they could also enhance disease assessment capabilities by accurately detecting early signs of plant diseases through refined spectral analysis.
Particularly, in the field of viticulture, several researchers have effectively utilised spectroscopy for diverse applications, highlighting the method’s capability to capture critical biophysical parameters essential for enhancing grape production quality and efficiency. De Bei et al. [38] showcased the potential of near-infrared spectroscopy for the non-destructive determination of grapevine water potential, which is crucial for precise irrigation management. Likewise, Cuq et al. [39] employed NIR spectroscopy to swiftly determine the macro-element composition in vine leaves and grape berries, affirming its utility in vineyard management and ensuring grape quality. González-Caballero et al. [40] and González-Fernández et al. [41] explored field spectroscopy for tracking grape maturation and assessing vine water status, respectively. In the realm of vineyard management, significant progress has been made in identifying diseases through the application of spectroscopy techniques. Through Raman Spectroscopy, Baratto et al. [42] distinguished between healthy and Esca-infected vines, including those without symptoms. Junges et al. [43] identified unique spectral signatures between healthy and infected grapevine leaves, demonstrating hyperspectral reflectance as an effective method for prompt disease identification. In terms of quantifying disease severity, Hill et al. [44] applied NIR and mid-IR spectroscopy to objectively quantify Botrytis Bunch Rot in grapes. AL-Saddik et al. [45] created specific spectral disease indices for ‘Flavescence Dorée’ detection, reaching a classification accuracy of over 90%. Galvan et al. [46] utilised airborne imaging spectroscopy for the widespread early detection of grapevine viral diseases with an accuracy of up to 87%.
The main goal of this research is to enhance the early detection of powdery mildew infection levels in grapevines through spectroscopy. By utilising this technique, this research aims to identify specific wavelengths useful for this purpose and measure the disease’s early impact, thereby facilitating more prompt and effective management measures. This approach aims to support healthier vineyards and promote more sustainable agricultural practices.

2. Materials and Methods

2.1. Field Site and Sampling

The study was conducted during the growing season of 2020 in an experimental vineyard (Figure 1) located in Zamadueñas estate (Valladolid, Spain; coordinates X:357700.6; Y: 4617774.6, ETRS89/UTM zone 30N, EPSG: 25830).
The grapevines, Vitis vinifera L. cv Tempranillo, under organic management, were treated with standard agricultural inputs and practices compatible with this system. The application of plant protection products was minimised, involving just two treatments: the first occurred before flowering on 23 June, utilising products compatible with organic agriculture (a combination of sulphur and copper-based products along with a binder, specifically horsetail), and the second took place after budding, employing wettable sulphur. This approach encouraged the natural progression of diseases, allowing for a range of infestation levels to be observed and studied within the experiment. As a result, the vineyard exhibited various degrees of natural powdery mildew infestation, which was endemic to the area due to the existing climatic conditions.
The fieldwork was organised into two phases: one for collecting a calibration dataset (D1) and another for a validation dataset (D2). The first dataset was collected on 31 July, comprising 68 leaf samples. The second dataset, consisting of 54 leaf samples, was gathered on 10 September. The guidelines recommended by the European and Mediterranean Plant Protection Organization (2002) [47] were followed to perform the samplings, focusing on the percentage of leaf surface affected by disease for sample assessment (Figure 2).
Based on these guidelines, the sampled leaves were graded into five levels of infestation: Grade 1 (no disease), Grade 2 (1–5%), Grade 3 (5–25%), Grade 4 (25–50%) and Grade 5 (>50%). Five to seven grapevines were selected for each grade, and one representative leaf from each grapevine was collected for spectral measurements.

2.2. Spectral Measurements

Spectra were obtained using a FieldSpec 4 spectroradiometer (Analytical Spectral Devices, Boulder, CO, USA). A contact probe with a tungsten halogen bulb was used to take leaf reflectance data (Figure 3), ensuring homogeneity in measurements. Three spectral measurements at different locations on each leaf were taken, and the damage level was assessed in order to obtain the spectral signature of detailed infestation levels. An average of 15 successive scans over the wavelength, ranging from 350 to 2500 nm, were done to calculate each spectrum of the leaf sample.
The calibration and validation datasets were collected in the field during leaf sampling activities in two separate collection periods: the first on July 31st, at the beginning of veraison, and the second on September 10th, when the berries were ready to be harvested, corresponding to BBCH81 and BBCH89 stages, respectively, according to the BBCH scale for the growth stages of the grapevine [48]. In each of these sessions, every leaf sampled was measured, resulting in 68 samples in the first session and 54 in the second (Table 1). The reflectance was processed using ASD View Spec Pro (ASD, Boulder, CO, USA), Spectral Analysis and Management System -SAMS V2 (CSTARS, UC Davis, CA, USA) and the Unscrambler V11 (CAMO, Oslo, Norway).

2.3. PLS Regressions

The performance of the regression model was initially evaluated through Leave-One-Out Cross-Validation (LOOCV) using the calibration dataset. Subsequently, its applicability was further tested via an independent validation employing the validation dataset. PLS calibrations were performed based on raw reflectance from the first dataset (31 July), and, using the second dataset (10 September), an independent validation was conducted to assess the model’s predictive ability. The model’s performance was evaluated by calculating the coefficient of determination (R2) and the root mean squared error (RMSE) values from the validation data. Notably, two types of RMSE were considered: one for the LOOCV assessment (RMSECV) and another for the independent validation (RMSEV). The standard deviation (SD) to RMSE ratio, known as RPD, was also utilised to evaluate the model’s predictive capability. The R2 is calculated as:
R 2 = R S S T S S
where RSS is the residual sum of squares and TSS is the total sum of squares.
The RMSE is defined as:
R M S E = ∑ i = 1 n y i − y p 2 n
where yi and yp represent the observed and predicted level of infestation for sample i, respectively, and n is the sample size.
The RPD is calculated as:
R P D = S D R M S E
R2 quantifies the proportion of variance in the dependent variable (PM infestation level) that is predictable from the independent variable (reflectance). It is presented as the percentage of the variation explained by a best-fit regression line. RMSE indicates the total prediction error of the model. In general, a high R2 and low RMSE, along with an RPD > 2.5, indicate the adequacy of the prediction model.

3. Results

3.1. Severity of Infestation

Both data sets showed similar characteristics and distributions of descriptive statistics (Table 2). The calibration dataset had a mean and SD of 32.1 and 23.7 (range of 0–80%), while the validation dataset had 34.8 and 24.1 (range of 0–90%), respectively. Infestation levels were right-skewed, with a median of 30% in both datasets. The CVs were 73.8% for calibration and 69.4% for validation, indicating that both datasets feature diverse distributions and substantial variation.

3.2. Spectral Reflectances at Different Levels of Infestation

Significant differences were noted in the mean reflectance spectra across various infestation grades, particularly in the visible and near-infrared spectra (Figure 4). This figure contains five series corresponding to different levels of infection, each with a distinct “Grade” of reflectance. The x-axis represents the wavelength of light, and the y-axis represents the reflectance, measuring how much light is being reflected off a surface at each wavelength. As the level of infestation increases, there is a general trend of increased reflectance.
Generally, the higher the degree of infection, the greater the difference in the spectral signature compared to non-infected leaves, with infested leaves exhibiting higher mean reflectance than healthy ones, which can be attributed to chlorophyll degradation (visible spectrum) and water loss (near-infrared spectrum) due to tissue damage. Furthermore, the separation between the curves is not uniform across all wavelengths, especially around 450 nm and 700 nm for visible and 1050 nm, 1425 nm, 1650 nm and 2250 nm for infrared, indicating that the fungus has a more pronounced effect on reflectance at specific wavelengths. The reflectance measurements for calibration recorded in July, marking the onset of disease detection, showed clear differences in spectral signatures, especially between severity levels 1 and 5 within the 750–1300 nm range (Figure 4A).
The spectral dataset for validation, collected in September when the disease was more widespread, also demonstrated clear differences in spectral signatures, although these differences were not as pronounced as those observed in July (Figure 4B). It can be noted that there was no “Grade 1” (infestation level: 0%) in September because all the leaves were infected due to the aforementioned vineyard management. It can be observed that the separation between the curves is smaller in September than in July, with lower mean reference values for all wavelengths. In addition, the slope of the spectral signature between 750 and 850 nm was notably different, being steeper for grades 4 and 5 compared to grades 1, 2, and 3. This pattern was even more pronounced in the validation dataset (Figure 4A).

3.3. Predictive Ability of the Level of Infestation (PLS Model)

The results of LOOCV yielded a high coefficient of determination value (R2 = 0.74) and a root mean square error of cross-validation (RMSECV) of 12.1%, while the values for the independent validation were R2 = 0.71 and an RMSEP of 12.9% (Table 3). Moreover, the high RPD values for LOOCV and independent validation (2.6 and 2.7, respectively) underscored the robustness of the prediction.

3.4. Predicted vs. Observed Level of Infestation

The relationship between observed and predicted levels of infestation for powdery mildew in the test dataset (n = 54) from the PLSR model fitted using the calibration spectra dataset (Figure 5) showed a satisfactory accuracy for predictions (R2 = 0.71 and a RMSEP of 12.9%), corroborated by a RPD = 2.7, confirming the high quality and future applicability of the results as it can be considered a reflection of excellent predictive ability [49].
Figure 6 shows the Weighted Regression Coefficients of the PLS regression modes derived from the calibration dataset (10 July). Higher regression coefficients (Figure 6) are centred at 550 (green), 675nm (red) and 750 (red edge) nm, suggesting that the disease impacts chlorophyll assimilation [50]. Peaks at 1400 and 1900 nm highlight water metabolism disturbances due to powdery mildew.

3.5. Powdery Mildew Vegetation Index (PMVI)

The sensitivity of the 675 nm and 755 nm bands (Figure 6) to disease severity suggests their potential for early detecting and estimating powdery mildew damage, leading to the formulation of the Powdery Mildew Vegetation Index (PMVI) as follows:
P M V I = R 755 − R 675 R 755 + R 675
where R755 and R675 are reflectance at 755 and 675 nm, respectively. Reflectances R755 and R675 were calculated as average reflectances of ranges 740–770 nm and 660–690 nm, respectively. An ordinary linear regression analysis (OLS) using the PMVI as the predictor (Figure 7A) showed a significant correlation between PM severity and PMVI (R2 = 0.73), demonstrating the potential of the new index to detect disease severity in vineyards. The negative linear relationship between PMVI and observed severity indicates that as PMVI increases, the observed severity of infestation decreases.
In order to test the predictive accuracy of PMVI, the fitted model was validated against the second dataset (Figure 7B). Although there is some dispersion, the general trend indicates that the model has an acceptable accuracy, as most of the points are clustered close to the line of equality, and the RMSE of 14.63% confirms PMVI’s utility in the prediction of the severity.

4. Discussion

This research highlights the potential of spectroscopy in the spectral range of 350 to 2500 nm as a rapid and non-invasive disease detection technique. This approach is well aligned with the current needs of precision agriculture and sustainable wine-growing practices. The comparative analysis between the spectral data collected in July and September offers a critical insight into the temporal dynamics of PM infestation. In July, the spectroscopy data marked the onset of PM detection, with clear spectral differences noted in the reflectance data between the infected and non-infected leaves. This finding is of particular importance as it suggests the ability of spectroscopic methods to detect subtle changes in the vine leaves that precede clear visible symptoms of infestation.
Consequently, this early detection could enable viticulturists to implement preventative rather than reactive measures. This shift can potentially improve sustainability and reduce the extent of infection and associated costs. The spectral signatures in July, especially the significant peaks at wavelengths corresponding to chlorophyll absorption and water content (Figure 4A), indicate the initial physiological responses of the vines to the pathogen. In the progression towards September, these spectral differences become less pronounced (Figure 4B), with the separation between the curves being smaller in September than in July, with lower mean reference values for all wavelengths. This shift in the spectral characteristics could be influenced by the phenological stage of the vines, which is pivotal when considering the application of spectral indices for monitoring over an entire growing season [51].
Moreover, the reflectance of mature leaves may be lower due to several factors, including structural, chemical and photochemical changes. As the leaf ages, there is a variation in the ratio of chlorophyll to carotenoids, changes in the leaf cuticle and adaptations to light exposure that can affect how the leaf reflects light [52,53,54]. In addition, the consistency in the Weighted Regression Coefficients of PLS across both datasets underscores the reliability of spectral reflectance as an indicator of PM infestation, irrespective of the temporal development of the disease. There are similarities in the spectral patterns between July and September. These similarities imply that the spectral signature of PM infestation, once established, can be a reliable metric and could serve as a continuous monitoring tool throughout the growing season. Although the subtle variations in the slope changes in the spectral signature between 750 and 850 nm highlight the importance of continuous monitoring to capture the full spectrum of the impact of the disease, the reflectance centred at the red (R675) and NIR (R755) suggest that this spectral region remains a robust indicator of PM severity over time. Furthermore, the consistency in the PLS Weighted Regression Coefficients across datasets highlights the reliability of the spectral reflectance as a PM infestation indicator, regardless of the progression. The similarities in spectral patterns between July and September indicate that the disease can be spectrally monitored throughout the season. In addition, it is important to note that the red (R675) and NIR (R755) reflectance suggest these regions as strong indicators of PM severity over time.
Therefore, introducing the Powdery Mildew Vegetation Index (PMVI) aims to harness these spectral regions for early detection and estimation of the severity of downy mildew in vineyards. This index has a standardised equation that is easy to apply, similar to other well-known and helpful indices in agriculture, such as the Normalised Difference Red Edge Index (NDRE) [55] and Normalised Difference Vegetation Index (NDVI) [56]. In addition, the PMVI bands are located in an intermediate region between those used for NDVI and NDRE, highlighting the importance of this region in vegetation assessment. This finding is not surprising, as this region concentrates on indicators for estimating plant health, photosynthetic capacity, changes in chlorophyll content and the nutritional status of plants [57,58]. Nevertheless, PMVI specifically uses the 675 nm and 755 nm wavelengths, as opposed to those traditionally used for NDRE, which has a red-edge band (700 nm to 730 nm) and a band in the near-infrared (NIR) (often near 780 nm or more), and for NDVI, which uses one band in the red (approximately 640 nm to 680 nm) and one band in the NIR (approximately 800 nm to 900 nm). Thus, the bands chosen for PMVI lie between the specific spectral sensitivities of NDRE and NDVI, taking advantage of the transition between strong chlorophyll absorption in the red and increased reflectance in the NIR.
Concerning PM, Pithan et al. [59] identified distinct spectral shifts in grapevine leaves associated with various fungal diseases, and Atanassova et al. [60] identified spectral differences between healthy and infected plants, noting the most significant disparities occurred in a distinct spectral region, specifically between 540 and 680 nm, diverging from the range examined in our study. Oberti et al. [61] investigated the enhancement of grapevine powdery mildew detection via multispectral imaging from various angles, finding that the detection sensitivity increased significantly, from 9% at 0° to 73% at 60° for symptoms in early to middle stages, indicating that angle-based imaging could provide a more focused method for disease management. Bierman et al. [62] developed an automated imaging and analysis system to evaluate the severity of Erysiphe necator on grape leaf disks, employing a 46-megapixel RGB camera and a convolutional neural network (CNN) with over 94% accuracy and, as in this study, they successfully differentiated between susceptible, moderately resistant and highly resistant samples. Nevertheless, these investigations primarily concentrated on the visible (VIS) or near-infrared (NIR) spectral range rather than exploring the complete spectral signature range from 350 to 2500 nm. Some studies have embraced a broader spectral range, such as Knauer et al. [63], who introduced an advanced spatial–spectral segmentation approach using hyperspectral imaging to detect powdery mildew infection levels, effectively distinguishing between healthy, infected, and severely diseased levels. Pérez-Roncal et al. [64] also utilised hyperspectral imaging, achieving 85.33% accuracy in disease identification through image feature extraction and Partial Least Squares Discriminant Analysis (PLS-DA), adeptly differentiating between healthy and infected samples. Nevertheless, these authors focused on grapevine bunches rather than leaves.
This research thus makes a novel contribution to the fields of plant pathology and agronomy, marking the first study to examine the impact of powdery mildew on the spectral signature range from 350 to 2500 nm of grapevine leaves across different infection levels and throughout various periods of the year. The results of the present study reveal that spectral reflectance data underscore pronounced differences among various infestation grades, with a notable increase in reflectance as the infestation severity escalated. The results are in harmony with those of Pérez-Roncal et al. [64], who observed that infected pixels exhibited higher reflectance values than those from healthy samples, although their research was conducted on bunches, not leaves. This trend is further corroborated by other studies [65], which highlighted the effectiveness of spectral and textural data in accurately identifying grapevine diseases. The present research extends these insights, introducing the PMVI and demonstrating that specific wavelengths especially indicate powdery mildew infestation, likely attributable to chlorophyll degradation and water loss in infected leaves. Thus, these findings not only enrich the existing knowledge on spectral responses to varying PM levels using spectrometry from 350 to 2500 nm but also pinpoint specific wavelengths associated with PM infestation, augmenting the existing literature on the non-destructive evaluation of vineyard health.
Future research should focus on developing comparative studies across grape varieties. Resistance to PM depends on the cultivar [66], and these experiments could uncover variety-specific spectral disease indicators, potentially enabling more precise monitoring strategies. In addition, the temporal dynamics of the disease should be further explored to understand how spectral reflectance evolves over vine growth stages and seasons, potentially refining disease management timing. Finally, integrating spectral analysis with precision agriculture technologies like drone-based monitoring and machine learning could improve scalable, real-time disease detection, significantly boosting vineyard management efficiency. Portable sensors designed to compute the PMVI could play a crucial role in achieving this goal.

5. Conclusions

This research validates the efficacy of spectroscopy in the spectral range of 350 to 2500 as a fast and non-invasive disease detection technique for early detection of powdery mildew infestation levels in grapevines, matching the current needs in precision farming and sustainable wine-growing practices. This study underscores its reliability through statistical, spectral, and predictive analyses. Spectral signatures of non-infected and infected leaves were obtained using a FieldSpec 4 spectroradiometer equipped with a contact probe with a tungsten halogen bulb to collect reflectance data at wavelengths between 350 and 2500 nm. Spectral reflectance analysis revealed significant differences in the mean spectra between various infestation grades, particularly in the visible and near-infrared regions, with these discrepancies becoming more marked with increasing infection severity. The Partial Least Squares Regression (PLSR) model demonstrated substantial predictive capability, with a coefficient of determination R2 = 0.74 and a Root Mean Square Error of Cross-Validation (RMSECV) of 12.1% for the calibration set, and an R2 = 0.71 and a Root Mean Square Error of Prediction (RMSEP) of 12.9% for independent validation. The model’s robustness was further evidenced by Relative Percent Difference (RPD) values of 2.6 and 2.7 for Leave-One-Out Cross-Validation and independent validation, respectively.
In addition, key spectral regions indicative of disease impact, particularly on chlorophyll assimilation and water metabolism, were identified, highlighting the importance of green (550 nm) and red edge (750 nm) bands, as well as wavelengths at 1400 and 1900 nm. A new vegetation index was introduced using this information: the Powdery Mildew Vegetation Index (PMVI), derived from reflectance at 675 and 755 nm, potentially facilitating the disease’s rapid and non-destructive prediction. A significant linear relationship between PM severity and PMVI was confirmed, with potential practical application in vineyard management. These findings suggest that spectroscopy, enhanced by PLS regression and PMVI, offers a promising tool for early disease detection and management in viticulture. This approach not only supports farmers in timely treatment application but also holds the potential for developing portable sensors for continuous vineyard monitoring. Future work will extend to different grape cultivars and management practices, aiming to generalise the calibration’s applicability, ultimately aiding in improved grape production and contributing to food security.

Author Contributions

Conceptualisation, S.V., E.B. and J.R.R.-P.; methodology, S.V., E.B. and J.R.R.-P.; software, S.V., J.R.R.-P. and D.P.-O.; validation, S.V., E.B., J.R.R.-P. and D.P.-O.; formal analysis, S.V. and J.R.R.-P.; investigation, S.V. and J.R.R.-P.; resources, S.V., E.B., J.A.R. and J.R.R.-P.; data curation, S.V. and J.R.R.-P.; writing—original draft preparation, S.V. and J.R.R.-P.; writing—review and editing, S.V., E.B. and J.R.R.-P.; visualisation, S.V., J.R.R.-P. and D.P.-O.; supervision, E.B., J.A.R. and J.R.R.-P.; project administration, E.B. and J.A.R.; funding acquisition, E.B., J.A.R. and J.R.R.-P. All authors have read and agreed to the published version of the manuscript.

Funding

The research was part of the EVARRES project Evaluación de variedades de vid resistentes a enfermedades (Assessment of Disease-Resistant Grape Varieties, code 2018/879) and VITICOM project Alternativas para una viticultura competitiva y sostenible (Alternatives for Competitive and Sustainable Viticulture, code 2021/1168), both financially supported by the Centre for the Development of Industrial Technology of Spain (CDTI), and it was supported by the company VITICAMPO, SL (grant id: 2021/00009/001; T132). Dr. Sergio Vélez’s contract has been supported by the Iberdrola Foundation and the European Commission under the Marie Skłodowska-Curie Actions (MSCA)—E4F, part of the Horizon 2020 program (Grant Agreement No 101034297, https://0-doi-org.brum.beds.ac.uk/10.3030/101034297, accessed on 20 March 2024).

Data Availability Statement

Data are available upon reasonable request.

Acknowledgments

We would like to thank “Agromillora” for their collaboration.

Conflicts of Interest

The authors declare no conflicts of interest.

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Figure 1. Location of the experimental vineyard. Zamadueñas estate (Valladolid, Spain; coordinates X: 357700.6; Y: 4617774.6, ETRS89/UTM zone 30N, EPSG: 25830).
Figure 1. Location of the experimental vineyard. Zamadueñas estate (Valladolid, Spain; coordinates X: 357700.6; Y: 4617774.6, ETRS89/UTM zone 30N, EPSG: 25830).
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Figure 2. Damage symptoms due to powdery mildew on leaf vine at different levels of infestation expressed on the percentage of leaf surface area affected: Grade 1 (no disease), Grade 2 (1–5%), Grade 3 (5–25%), Grade 4 (25–50%) and Grade 5 (>50%).
Figure 2. Damage symptoms due to powdery mildew on leaf vine at different levels of infestation expressed on the percentage of leaf surface area affected: Grade 1 (no disease), Grade 2 (1–5%), Grade 3 (5–25%), Grade 4 (25–50%) and Grade 5 (>50%).
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Figure 3. Leaf under analysis using the contact probe connected to the FieldSpec 4 spectroradiometer. The data are visualised in real-time on the laptop screen.
Figure 3. Leaf under analysis using the contact probe connected to the FieldSpec 4 spectroradiometer. The data are visualised in real-time on the laptop screen.
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Figure 4. Mean reflectance spectra of leaves at different grades/levels of infestation by powdery mildew for (A) calibration dataset in July and (B) validation dataset in September.
Figure 4. Mean reflectance spectra of leaves at different grades/levels of infestation by powdery mildew for (A) calibration dataset in July and (B) validation dataset in September.
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Figure 5. Observed versus predicted severity degree/levels of powdery mildew (PM) infestation derived from the PLS regression. These results correspond to the independent validation dataset. The dotted line is 1:1.
Figure 5. Observed versus predicted severity degree/levels of powdery mildew (PM) infestation derived from the PLS regression. These results correspond to the independent validation dataset. The dotted line is 1:1.
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Figure 6. Weighted Regression Coefficients of PLS regression for estimation of infestation levels using reflectance values of dataset 1 (31 July) as prediction variables.
Figure 6. Weighted Regression Coefficients of PLS regression for estimation of infestation levels using reflectance values of dataset 1 (31 July) as prediction variables.
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Figure 7. (A) Ordinary linear regression (OLS) between PMVI and severity of infestation of powdery mildew. Data correspond to calibration dataset D1 (31 July). (B) Observed versus predicted severity of powdery mildew derived from the OLS model. Results correspond to validation dataset D2 (10 September). The dotted line is 1:1.
Figure 7. (A) Ordinary linear regression (OLS) between PMVI and severity of infestation of powdery mildew. Data correspond to calibration dataset D1 (31 July). (B) Observed versus predicted severity of powdery mildew derived from the OLS model. Results correspond to validation dataset D2 (10 September). The dotted line is 1:1.
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Table 1. Number of leaves sampled for each dataset and infestation level (severity degree).
Table 1. Number of leaves sampled for each dataset and infestation level (severity degree).
Infestation Level
Severity Degree		Calibration Dataset (D1). 31 JulyValidation Dataset (D2). 10 SeptemberTotal
Grade 1 (no disease)6 6
Grade 2 (1–5%)8917
Grade 3 (5–25%)161834
Grade 4 (25–50%)24933
Grade 5 (>50%)141832
Total6854122
Table 2. Descriptive statistics of the level of infestation (as a percentage of leaf area) for calibration (July 31st) and validation (September 10th) data sets.
Table 2. Descriptive statistics of the level of infestation (as a percentage of leaf area) for calibration (July 31st) and validation (September 10th) data sets.
StatisticsCalibration Dataset (D1)Validation Dataset (D2)
n6854
Max (%)8090
Min (%)00
Mean (%)32.134.8
SD23.724.1
CV (%)73.869.4
Median (%)3030
Q1 (%)10.020.0
Q3 (%)50.053.8
Skewness0.400.36
Table 3. Performance of PLSR model.
Table 3. Performance of PLSR model.
AssessmentNSDData SetF (PLSR)R2RMSESERPD
RMSECVRMSEPSECVSEP
LOOCV6832.1July30.7412.1-12.2-2.6
Independent5434.8September30.71-12.9-13.02.7
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Vélez, S.; Barajas, E.; Rubio, J.A.; Pereira-Obaya, D.; Rodríguez-Pérez, J.R. Field-Deployed Spectroscopy from 350 to 2500 nm: A Promising Technique for Early Identification of Powdery Mildew Disease (Erysiphe necator) in Vineyards. Agronomy 2024, 14, 634. https://0-doi-org.brum.beds.ac.uk/10.3390/agronomy14030634

AMA Style

Vélez S, Barajas E, Rubio JA, Pereira-Obaya D, Rodríguez-Pérez JR. Field-Deployed Spectroscopy from 350 to 2500 nm: A Promising Technique for Early Identification of Powdery Mildew Disease (Erysiphe necator) in Vineyards. Agronomy. 2024; 14(3):634. https://0-doi-org.brum.beds.ac.uk/10.3390/agronomy14030634

Chicago/Turabian Style

Vélez, Sergio, Enrique Barajas, José Antonio Rubio, Dimas Pereira-Obaya, and José Ramón Rodríguez-Pérez. 2024. "Field-Deployed Spectroscopy from 350 to 2500 nm: A Promising Technique for Early Identification of Powdery Mildew Disease (Erysiphe necator) in Vineyards" Agronomy 14, no. 3: 634. https://0-doi-org.brum.beds.ac.uk/10.3390/agronomy14030634

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