A novel dataset and deep learning object detection benchmark for grapevine pest surveillance

Flavescence dorée (FD) stands out as a significant grapevine disease with severe implications for vineyards. The American grapevine leafhopper (Scaphoideus titanus) serves as the primary vector, transmitting the pathogen that causes yield losses and elevated costs linked to uprooting and replanting. Another potential vector of FD is the mosaic leafhopper, Orientus ishidae, commonly found in agroecosystems. The current monitoring approach involves periodic human identification of chromotropic traps, a labor-intensive and time-consuming process.

Application of satellite-derived vegetation indices for frost damage detection in grapevines

Wine grape production is increasingly vulnerable to freeze damage due to warming climates, milder winters, and unpredictable late spring frosts. Traditional methods for assessing frost damage in grapevines which combine fieldwork and meteorological data, are expensive, time-consuming, and labor-intensive. Remote sensing could offer a rapid, inexpensive way to detect frost damage at a regional scale. Remote sensing approaches were used to assess freeze damage in grapevines by evaluating satellite-derived vegetation indices (VIs) to understand the severity and spatial distribution of damage in several New York vineyards immediately after a frost event (May 17th-18th, 2023). PlanetScope 3m satellite images acquired before and after the freeze were used to map damage and measure changes in VIs for vineyards in the Finger Lakes region.

Protection of genetic diversity: maintenance and developements of a grapevine genebank in Hungary

Among the items preserved in gene banks, the old standard and autochthonous varieties represent an increasing value, since these varieties may have properties to make their cultivation more effective under changing climatic conditions. The increasingly extreme weather is a huge challenge for the viticulture. Collectional varieties can also play important role in protection against pests and pathogens. A genebank ensures not only the preservation of rare varieties, but also gives the opportunity for more knowledge and research of these varieties.

Learning from remote sensing data: a case study in the Trentino region 

Recent developments in satellite technology have yielded a substantial volume of data, providing a foundation for various machine learning approaches. These applications, utilizing extensive datasets, offer valuable insights into Earth’s conditions. Examples include climate change analysis, risk and damage assessment, water quality evaluation, and crop monitoring. Our study focuses on exploiting satellite thermal and multispectral imaging, and vegetation indexes, such as NDVI, in conjunction with ground truth information about soil type, land usage (forest, urban, crop cultivation), and irrigation water sources in the Trentino region in North-East of Italy.

High throughput winter pruning weight estimation based on wood volume evaluation 

There is currently a real need to improve and speed-up phenotyping in experimental set-ups to increase the number of modalities studied. Accurate information acquisition on plant status with high-throughput capacity is the main appeal of on-board systems.
A proximal sensing camera for a proxy of winter pruning weight was tested. We estimated the shoot volume of the vine by image analysis using algorithms that integrate the local shoot section area estimate along the shoot skeleton obtained by a morphological distance transform.
The study was carried out on the GreffAdapt experimental vineyard in Guyot simple training and a canopy management using vertical trellising. The planting density is 6250 vines/ha with a row spacing of 1.6×1m. Five scions grafted onto 55 rootstocks are present and the combination rootstock×scion is different every five plants.

Revisiting the effect of subsurface irrigation and partial rootzone drying on canopy size and yield of Cabernet Sauvignon using remote sensing techniques

Irrigation is an essential tool for grape production, especially where rainfall does not meet the optimal water requirements needed to achieve yield and quality targets. Increased evaporative demand of grapevines due to changing climate conditions, and a growing awareness for sustainable farming, require the improvement of irrigation techniques to maximize water use efficiency, i.e. using less water to achieve the same yields or the same water but larger yields. In this study, the performance of Cabernet Sauvignon vines was compared under three irrigation techniques: conventional aboveground drip irrigation, subsurface irrigation installed directly under the vine row, and partial rootzone drying in which two subsurface lines were buried in the middle of the two interrow spacings on each side of the vine row with irrigation alternated between the two lines based on soil moisture content.

Rootstock x environment interaction shapes shoot system phenotypic variation in grafted ‘Chambourcin’

Recent advances in phenomics and transcriptomics have the enhanced capacity for understanding how clonally propagated perennial crops like grapevines respond to their environments seasonally and over the course of multiple years. Because most grapevines are grafted, above-ground grapevine traits reflect scion genotype and its interaction with the local environment. In addition, traits expressed by the scion reflect rootstock genotype and how that rootstock is interacting with its environment seasonally and across years. To investigate rootstock x environment interaction on shoot systems in grafted grapevines we characterized comprehensive phenotypic variation in an experimental vineyard in Mount Vernon, Missouri, USA where the grapevine cultivar ‘Chambourcin’ is growing on its own roots and is grafted to three different rootstocks (‘1103P’, ‘3309C’, ‘SO4’).

Hyperspectral imaging and machine learning for monitoring grapevine physiology

Rootstocks are gaining importance in viticulture as a strategy to combat abiotic challenges, as well as enhancing scion physiology and attributes. Therefore, understanding how the rootstock affects photosynthesis is insightful for genetic improvement of either genotype in the grafted grapevines. Photosynthetic parameters such as maximum rate of carboxylation of RuBP (Vcmax) and the maximum rate of electron transport driving RuBP regeneration (Jmax) have been identified as ideal targets for breeding and genetic studies. However, techniques used to directly measure these photosynthetic parameters are limited to the single leaf level and are time-consuming measurements.

Physical-mechanical berry skin traits as powerful indicators of resistance to botrytis bunch rot

The ongoing climate change results in increasing mean air temperature, which is manifested by weather extremes or sudden changes between drought and local heavy rainfalls. These changing conditions are especially challenging for the established grapevine varieties growing under cool climate conditions due to an increased biotic infection pressure. Thus, the scope of most grapevine breeding programs is the selection of mildew fungus-resistant and climatic adapted grapevines with balanced, healthy yield and outstanding wine quality. Since no resistances or candidate genes have yet been described for Botrytis bunch rot (BBR), physical-mechanical traits like berry size and thick, impermeable berry cuticles phenotyped with high-throughput sensors represent novel effective parameters to predict BBR.

Exploring zoxamide sensitivity in Plasmopara viticola populations: implications for fungicide management in precision agriculture

Fungicides play a critical role in managing grapevine downy mildew caused by the oomycete Plasmopara viticola, a biotrophic and polycyclic pathogen with a high risk of fungicide resistance. Zoxamide, categorized as a low to medium resistance risk, disrupts cell division by inhibiting tubulin polymerization. Resistance to zoxamide is uncommon in field isolates. This six-year study (2017-2022) aimed to detect and quantify zoxamide sensitivity in P. viticola populations across varying resistance pressures in Italian grapevine regions. Analysis of 126 samples from 57 vineyards, mainly in North-Eastern Italy, revealed that most samples exhibited EC50, EC95, and MIC values below 0.1 and 10 mg/L of zoxamide, respectively. Nineteen vineyards showed reduced sensitivity (MIC>100 mg/L), but only four samples were characterized by 24-54% resistant oospores at >100 mg/L of zoxamide.

Implementing VIS-NIR spectroscopy as a rapid and non-intrusive technique for assessing anthocyanin and phenolic concentrations in Vitis vinifera L. Grenache whole grape berries

Anthocyanins and phenolic compounds play a crucial role in winemaking, contributing to the profile, flavor, color, texture, and stability of wine. Grape clusters, specifically Vitis vinifera L. cv. Grenache, were handpicked from a commercial vineyard sited in Tudelilla, La Rioja, Spain (42°18′ 52.26″, Long. -2°7′ 59.15″, Alt. 582 m) on five distinct dates from veraison to harvest during the 2015 season. Non-contact spectral measurements were conducted on intact grape berries using a VIS-NIR spectrometer operating in the 570 – 1000 nm spectral range under controlled laboratory conditions, positioned at a distance of 25 cm from the berries. The quantification of 16 anthocyanins and phenols in 120 grape clusters was performed using HPLC, established as the reference method for validating the spectral tool.

Characterization of bunch compactness and identification of associated genes in a diverse collection of cultivars of Vitis vinifera L.

Compactness is a complex trait of V. vinifera L. and is defined ultimately by the portion of free space within the bunch which is not occupied by the berries. A high degree of compactness results in poor ventilation and consequently a higher susceptibility to fungal diseases, diminishing the quality of the fruit. The easiness to conceptualize the trait and its importance arguably contrasts with the difficulty to measure and quantify it. However, recent technical advancements have allowed to study this attribute more accurately over the last decade. Our main objective was to explore the underlying genetics determining bunch compactness by applying updated phenotyping methods in a collection of V. vinifera L. cultivars with a wide genetic diversity.

Techniques for sunburn reduction in bunches in Vitis vinifera L. cv. Graciano

Sunburn results from a combination of excessive photosynthetically active radiation (PAR) and UV radiation and temperature that can be exacerbated by other stress factors such as water deficit. Sunburn is a physiological disorder that affects the visual and organoleptic properties of grapes. The appearance of brown and necrotic spots severely affects the commercial value of the fruit, and in extreme cases, significantly decreases yield. This damage occurs with some frequency in sensitive varieties such as Graciano.

High-resolution aerial thermography for water stress estimation in grapevines

Aerial thermography has emerged as a promising tool for water stress detection in grapevines, but there are still challenges associated with this technology, particularly concerning the methodology employed to extract reliable canopy temperature values. This consideration is relevant especially in vertically trained vineyards, due to the presence of multiple surfaces which are captured by drone thermal cameras with high-resolution. To test the technology and the data analysis required, a field study was conducted during the 2022-2023 season in a model vineyard with multiple scions-rootstock combinations trained on a vertical shoot-positioning (VSP) system. Additionally, three irrigation regimes were implemented to introduce variability in water stress levels.

Development of a semi-controlled setup for manipulating drought and heat stress in open field trials

Drought and heat stress will pose challenges for the future of viticulture and wine quality, as grapevine biological processes are pushed beyond their optimum conditions. Efforts are increasing to study and predict the effects of drought spells and heatwaves on grapevine physiology and resulting harvest quality. This calls for the development of adequate systems to induce and manipulate the required stress, especially in open field trials where conditions are more difficult to control. We present a semi-controlled system for studying drought and heat stress in grapevine in the field.

Spatial variability of grape berry maturation program at the molecular level 

The application of sensors in viticulture is a fast and efficient method to monitor grapevine vegetative, yield and quality parameters and determine their spatial intra-vineyard variability. Molecular analysis at the gene expression level can further contribute to the understanding of the observed variability by elucidating how pathways responsible for different grape quality traits behave in zones diverging for one or the other parameter. The intra-vineyard variability of a Cabernet Sauvignon vineyard was evaluated by a standard Normalized Difference Vegetation Index (NDVI) mapping approach, employing UAV platform, accompanied by detailed ground-truthing (e.g. vegetative, yield, and berry ripening compositional parameters) that was applied in 14 spots in the vineyard. Berries from different spots were additionally investigated by microarray gene expression analysis, performed at five time points from fruit set to full ripening.

Dry leaf hyperspectral reflectance predicts leaf elemental composition in grafted hybrids

Elemental composition, measured as the concentrations of different elements present in a given tissue at a given time point, is a key indicator of vine health and development. While elemental composition and other high-throughput phenotyping approaches yield tremendous insight into the growth, physiology, and health of vines, costs and labor associated with repeated measures over time can be cost-prohibitive. Recent advances in handheld sensors that measure hyperspectral reflectance patterns of leaf tissue may serve as an affordable proxy for other types of phenotypic data, including elemental composition. Here, we ask if reflectance patterns of dried Chambourcin leaf tissue from an experimental grafting vineyard can predict the known elemental composition of those leaves.

Which potential for Near Infrared Spectroscopy to characterize rootstock effects on grapevines?

Developing rootstocks adapted to environmental constraints constitutes a key lever for grapevine adaptation to climate change. In this context, Near Infrared Spectroscopy (NIRS) could be used as a high-throughput phenotyping technique to simplify the study of rootstocks in grafted situations. This study is an exploratory analysis to evaluate the potential of NIRS acquired on grafted tissues to reveal rootstock effects as well as the plasticity of combinations of scion/rootstock to better characterize these interactions.
Through the study of 25 combinations (5 scions times 5 rootstocks) in a dedicated experimental vineyard, we showed that NIRS obtained from grafted tissues capture rootstock and scion/rootstock interaction signals, up to 20% of the total variance at specific wavelengths.

Combination of NIR multispectral information acquired from a ground moving vehicle with AI methods to assess the vine water status in a Tempranillo (Vitis vinifera L.) commercial vineyard

Increasing water scarcity and unpredictable rainfall patterns necessitate efficient water management in grape production. This study proposes a novel approach for monitoring grapevine water status in a commercial vertically-shoot-positioned Vitis vinifera L. Tempranillo vineyard using non-invasive spectroscopy with a battery of different AI methods to assess vineyard water status, that could drive precise irrigation. A contactless, miniature NIR spectrometer (900-1900 nm) mounted on a moving vehicle (3 Km/h) was employed to collect spectral data from the vines’ northeast side along six dates in season 2021.

A comprehensive and accurate annotation for the grapevine T2T genome 

Addressing the opportunities and challenges of genomics methods in grapevine (Vitis vinifera L.) requires the development of a comprehensive and accurate reference genome and annotation. We aimed to create a new gene annotation for the PN40024 grapevine reference genome by integrating the highly accurate and complete T2T assembly and the manually curated PN40024.v4 annotation. Here, we present a novel workflow to enhance the annotation of the T2T genome by incorporating past community input found in PN40024.v4. The pipeline’s containerization will improve the workflow’s reproducibility and flexibility, facilitating its inclusion as a shared workflow on the Grapedia portal, the grapevine genomics encyclopedia.