Analysis of Stress Resistance Using Next Generation Techniques

Messerer, Maxim; Lang, Daniel; Mayer, Klaus

doi:10.3390/agronomy8080130

Cited by 11 publications

(6 citation statements)

References 37 publications

(55 reference statements)

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“…How natural stress-tolerant plants can be used to understand and exploit tolerance mechanisms is outlined in the opinion paper by Messerer and coworkers [20]. With a focus on salinity-tolerant quinoa, a crop of less economic importance, they highlight recent next-generation sequencing approaches using RNA-seq as a gold standard to identify novel and stress-associated genes.…”

Section: Abiotic Stress Responses and The Usage Of Rna-seq Methodologymentioning

confidence: 99%

Biotic and Abiotic Stress Responses in Crop Plants

2018

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Agricultural productivity depends on increasingly extreme weather phenomena, and the use of germplasm that has to be continuously improved by plant breeders to become tolerant to various biotic and abiotic stresses. Molecular plant biologists try to understand the mechanisms associated with stress responses and provide knowledge that could be used in breeding programs. To provide a partial overview about our current understanding about molecular and physiological stress responses, and how this knowledge can be used in agriculture, we have edited a special issue on “Biotic and Abiotic Stress Responses in Crop Plants”. Contributions are from different fields including heat stress responses, stress responses during drought and salinity, as well as during flooding, and resistance and susceptibility to pathogenetic stresses and about the role of plant functional metabolites in biotic stress responses. Future research demand in particular areas of crop stress physiology is discussed, as well as the importance of translational research and investigations directly in elite crop plants and in the genetic resources available for breeding.

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Section: Abiotic Stress Responses and The Usage Of Rna-seq Methodologymentioning

confidence: 99%

Biotic and Abiotic Stress Responses in Crop Plants

2018

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“…Breeding of crop cultivars with improved salt tolerance represents one potential pathway toward improving food and water security (Hickey et al, 2019 ; Johansen et al, 2019a ). To do this requires the identification of salt-tolerant genotypes/accessions, whose tolerance traits can then be introgressed into commercial varieties (Munns and Tester, 2008 ; Messerer et al, 2018 ; Morton et al, 2019 ). In order to identify the potential salt tolerance of plant accessions, phenotyping and related approaches that can effectively map, monitor, and predict plant biophysical and biochemical properties are required (Johansen et al, 2019a ).…”

Section: Introductionmentioning

confidence: 99%

Predicting Biomass and Yield in a Tomato Phenotyping Experiment Using UAV Imagery and Random Forest

Johansen

Morton

Malbéteau

et al. 2020

Front. Artif. Intell.

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Biomass and yield are key variables for assessing the production and performance of agricultural systems. Modeling and predicting the biomass and yield of individual plants at the farm scale represents a major challenge in precision agriculture, particularly when salinity and other abiotic stresses may play a role. Here, we evaluate a diversity panel of the wild tomato species ( Solanum pimpinellifolium ) through both field and unmanned aerial vehicle (UAV)-based phenotyping of 600 control and 600 salt-treated plants. The study objective was to predict fresh shoot mass, tomato fruit numbers, and yield mass at harvest based on a range of variables derived from the UAV imagery. UAV-based red–green–blue (RGB) imageries collected 1, 2, 4, 6, 7, and 8 weeks before harvest were also used to determine if prediction accuracies varied between control and salt-treated plants. Multispectral UAV-based imagery was also collected 1 and 2 weeks prior to harvest to further explore predictive insights. In order to estimate the end of season biomass and yield, a random forest machine learning approach was implemented using UAV-imagery-derived predictors as input variables. Shape features derived from the UAV, such as plant area, border length, width, and length, were found to have the highest importance in the predictions, followed by vegetation indices and the entropy texture measure. The multispectral UAV imagery collected 2 weeks prior to harvest produced the highest explained variances for fresh shoot mass (87.95%), fruit numbers (63.88%), and yield mass per plant (66.51%). The RGB UAV imagery produced very similar results to those of the multispectral UAV dataset, with the explained variance reducing as a function of increasing time to harvest. The results showed that predicting the yield of salt-stressed plants produced higher accuracies when the models excluded control plants, whereas predicting the yield of control plants was not affected by the inclusion of salt-stressed plants within the models. This research demonstrates that it is possible to predict the average biomass and yield up to 8 weeks prior to harvest within 4.23% of field-based measurements and up to 4 weeks prior to harvest at the individual plant level. Results from this work may be useful in providing guidance for yield forecasting of healthy and salt-stressed tomato plants, which in turn may inform growing practices, logistical planning, and sales operations.

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“…Ultimately, excess salts cause a water deficit in plants due to osmotic stress and lead to the accumulation of sodium ions in plant shoots where they disrupt key biochemical processes (Zhang and Blumwald, 2001; Rao et al, 2013), resulting in yield losses. With estimates of global crop production needing to increase by more than 60% by 2050 (United Nations World Water Assessment Programme [WWAP], 2014; Senthilnath et al, 2016), breeding crops with improved salt tolerance represents a research priority (Munns and Tester, 2008; Messerer et al, 2018).…”

Section: Introductionmentioning

confidence: 99%

Unmanned Aerial Vehicle-Based Phenotyping Using Morphometric and Spectral Analysis Can Quantify Responses of Wild Tomato Plants to Salinity Stress

et al. 2019

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With salt stress presenting a major threat to global food production, attention has turned to the identification and breeding of crop cultivars with improved salt tolerance. For instance, some accessions of wild species with higher salt tolerance than commercial varieties are being investigated for their potential to expand food production into marginal areas or to use brackish waters for irrigation. However, assessment of individual plant responses to salt stress in field trials is time-consuming, limiting, for example, longitudinal assessment of large numbers of plants. Developments in Unmanned Aerial Vehicle (UAV) sensing technologies provide a means for extensive, repeated and consistent phenotyping and have significant advantages over standard approaches. In this study, 199 accessions of the wild tomato species, Solanum pimpinellifolium , were evaluated through a field assessment of 600 control and 600 salt-treated plants. UAV imagery was used to: (1) delineate tomato plants from a time-series of eight RGB and two multi-spectral datasets, using an automated object-based image analysis approach; (2) assess four traits, i.e., plant area, growth rates, condition and Plant Projective Cover (PPC) over the growing season; and (3) use the mapped traits to identify the best-performing accessions in terms of yield and salt tolerance. For the first five campaigns, >99% of all tomato plants were automatically detected. The omission rate increased to 2–5% for the last three campaigns because of the presence of dead and senescent plants. Salt-treated plants exhibited a significantly smaller plant area (average control and salt-treated plant areas of 0.55 and 0.29 m 2 , respectively), maximum growth rate (daily maximum growth rate of control and salt-treated plant of 0.034 and 0.013 m 2 , respectively) and PPC (5–16% difference) relative to control plants. Using mapped plant condition, area, growth rate and PPC, we show that it was possible to identify eight out of the top 10 highest yielding accessions and that only five accessions produced high yield under both treatments. Apart from showcasing multi-temporal UAV-based phenotyping capabilities for the assessment of plant performance, this research has implications for agronomic studies of plant salt tolerance and for optimizing agricultural production under saline conditions.

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Analysis of Stress Resistance Using Next Generation Techniques

Cited by 11 publications

References 37 publications

Biotic and Abiotic Stress Responses in Crop Plants

Biotic and Abiotic Stress Responses in Crop Plants

Predicting Biomass and Yield in a Tomato Phenotyping Experiment Using UAV Imagery and Random Forest

Unmanned Aerial Vehicle-Based Phenotyping Using Morphometric and Spectral Analysis Can Quantify Responses of Wild Tomato Plants to Salinity Stress

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