Challenges for a Massive Implementation of Phenomics in Plant Breeding Programs

Lobos, Germán; Estrada, Félix; Pozo, Alejandro del; Romero-Bravo, Sebastián; Astudillo, César; Mora‐Poblete, Freddy

doi:10.1007/978-1-0716-2537-8_13

Cited by 3 publications

(3 citation statements)

References 95 publications

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“…The speed of obtaining a new variety using traditional breeding methods is limited by the acquisition of crop phenotypic data, particularly on tissue inclusions, so it is imperative to develop a high-throughput plant phenotyping analysis. Non-destructive data collected via groundbased and aerial HTP techniques are highly desirable for application in plant breeding since they can be used to assess different traits in large-scale field trials [90][91][92]. RGB cameras produce digital images, can mimic human visual perception and are available at a low price and a high resolution on the market, and image analysis using free software is simple and easy to learn and requires little training.…”

Section: Model Applicationmentioning

confidence: 99%

Phenotyping the Anthocyanin Content of Various Organs in Purple Corn Using a Digital Camera

Wang,

Liu,

Wang

et al. 2024

Agriculture

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Anthocyanins are precious industrial raw materials. Purple corn is rich in anthocyanins, with large variation in their content between organs. It is imperative to find a rapid and non-destructive method to determine the anthocyanin content in purple corn. To this end, a field experiment with ten purple corn hybrids was conducted, collecting plant images using a digital camera and determining the anthocyanin content of different organ types. The average values of red (R), green (G) and blue (B) in the images were extracted. The color indices derived from RGB arithmetic operations were applied in establishing a model for estimation of the anthocyanin content. The results showed that the specific color index varied with the organ type in purple corn, i.e., ACCR for the grains, BRT for the cobs, ACCB for the husks, R for the stems, ACCB for the sheaths and BRT for the laminae, respectively. Linear models of the relationship between the color indices and anthocyanin content for different organs were established with R2 falling in the range of 0.64–0.94. The predictive accuracy of the linear models, assessed according to the NRMSE, was validated using a sample size of 2:1. The average NRMSE value was 11.68% in the grains, 13.66% in the cobs, 8.90% in the husks, 27.20% in the stems, 7.90% in the sheaths and 15.83% in the laminae, respectively, all less than 30%, indicating that the accuracy and stability of the model was trustworthy and reliable. In conclusion, this study provided a new method for rapid, non-destructive prediction of anthocyanin-rich organs in purple corn.

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Section: Model Applicationmentioning

confidence: 99%

Phenotyping the Anthocyanin Content of Various Organs in Purple Corn Using a Digital Camera

Wang,

Liu,

Wang

et al. 2024

Agriculture

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“…A phenome is a set of phenotypes, which are defined as organism characteristics arising as a result of interactions between genotype, environment, and agricultural technologies [ 5 , 8 , 9 ]. A feature of plant phenomics is the necessity to take into account the wide range of conditions (temperature, humidity, light, soil type, etc.)…”

Section: Introductionmentioning

confidence: 99%

“…In these latter years, plant phenotyping technologies have become widespread based on the study of images and the calculation of phenotypes through the accurate analysis of a large number of plants during the short period of time [ 9 , 18 , 19 ]. This involves the use of an automated equipment complex for non-contact analysis of plants [ 20 , 21 ].…”

Section: Introductionmentioning

confidence: 99%

Phenotyping of Potato Plants Using Morphological and Physiological Tools

Rozentsvet,

Bogdanova,

Nesterov

et al. 2024

Plants

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Potato (Solanum tuberosum L.) is one of the main non-grain agricultural crops and one of the main sources of food for humanity. Currently, growing potatoes requires new approaches and methods for cultivation and breeding. Phenotyping is one of the important tools for assessing the characteristics of a potato variety. In this work, 29 potato varieties of different ripeness groups were studied. Linear leaf dimensions, leaf mass area, number of stems, number of tubers per plant, average tuber weight, signs of virus infection, dry weight, pigment content, and number of stomata per unit leaf area were used as phenotyping tools. The strongest positive relationship was found between yield and bush area in the stage of full shoots (R = 0.77, p = 0.001), linear dimensions of a complex leaf (R = 0.44, p = 0.002; R = 0.40, p = 0.003), number of stems (R = 0.36, p = 0.05), and resistance to viruses X (R = 0.42, p = 0.03) and S (R = 0.43, p = 0.02). An inverse relationship was found between growth dynamics and yield (R = −0.29, p = 0.05). Thus, the use of morphological and physiological phenotyping tools in the field is informative for predicting key agricultural characteristics such as yield and/or stress resistance.

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Phenotypic Plasticity Index as a Strategy for Selecting Water-Stress-Adapted Coffee Genotypes

dos Santos,

de Freitas,

da Silva

et al. 2023

Plants

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The adaptive potential of plants is commonly used as an indicator of genotypes with higher breeding program potential. However, the complexity and interaction of plant metabolic parameters pose a challenge to selection strategies. In this context, this study aimed to explore phenotypic plasticity within the germplasm of Hybrid Timor coffee. Additionally, we assessed the utility of the multivariate phenotypic plasticity index (MVPi) as a promising tool to predict genotype performance across diverse climatic conditions. To achieve this, we evaluated the performance of seven accessions from the Hybrid Timor germplasm in comparison to the Rubi and IPR 100 cultivars, known for their susceptibility and resistance to drought, respectively. The experiment took place in a greenhouse under two conditions: one with normal soil moisture levels near maximum capacity, and the other with a water deficit scenario involving a period of no irrigation followed by rehydration. Data on physiological and biochemical factors were collected at three stages: before applying the water deficit, during its imposition, and after rehydration. Growth data were obtained by the difference between the beginning and end of the experimental period Furthermore, field evaluations of the productivity of the same genotypes were carried out over two consecutive seasons. Based on physiological and biochemical assessments, the MVPi was computed, employing Euclidean distance between principal component multivariate analysis scores. Subsequently, this index was correlated with growth and productivity data through linear regressions. Our findings reveal that the plastic genotypes that are capable of significantly altering physiological and biochemical parameters in response to environmental stimuli exhibited reduced biomass loss in both aerial and root parts. As a result, this positively influenced their productivity. Enhanced plasticity was particularly prominent in accessions from the MG Germplasm Collection: MG 311—Hybrid Timor UFV 428-02, MG 270—Hybrid Timor UFV 377-21, and MG 279—Hybrid Timor UFV 376-31, alongside the Rubi MG 1192 cultivar. The MVPi emerged as a valuable instrument to assess genotype adaptability and predict their performance under varying climatic scenarios.

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Challenges for a Massive Implementation of Phenomics in Plant Breeding Programs

Cited by 3 publications

References 95 publications

Phenotyping the Anthocyanin Content of Various Organs in Purple Corn Using a Digital Camera

Phenotyping the Anthocyanin Content of Various Organs in Purple Corn Using a Digital Camera

Phenotyping of Potato Plants Using Morphological and Physiological Tools

Phenotypic Plasticity Index as a Strategy for Selecting Water-Stress-Adapted Coffee Genotypes

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