Advances in protein-based diagnostic tools of plant viruses

Kirankumar, K.C.; Priya, Natarajan Gayatri; Jayasudha, S.M.; Bhat, Goureesh

doi:10.1016/b978-0-12-818654-1.00007-4

Cited by 5 publications

(5 citation statements)

References 43 publications

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“…Furthermore, stress symptoms may occur in one portion of a given potato plant, while leaf reflectance data may be acquired from a different portion of the plant canopy. In case of blight and other plant pathogens, there are ample evidence of disease symptoms and pathogens not being uniformly prevalent within individual plants [ 50 , 51 ]. Thus, in studies involving plants subjected to experimental treatments, it is possible that optical sensing data acquired from leaves were assigned to an incorrect class.…”

Section: Resultsmentioning

confidence: 99%

Experimental data manipulations to assess performance of hyperspectral classification models of crop seeds and other objects

et al. 2022

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Background Optical sensing solutions are being developed and adopted to classify a wide range of biological objects, including crop seeds. Performance assessment of optical classification models remains both a priority and a challenge. Methods As training data, we acquired hyperspectral imaging data from 3646 individual tomato seeds (germination yes/no) from two tomato varieties. We performed three experimental data manipulations: (1) Object assignment error: effect of individual object in the training data being assigned to the wrong class. (2) Spectral repeatability: effect of introducing known ranges (0–10%) of stochastic noise to individual reflectance values. (3) Size of training data set: effect of reducing numbers of observations in training data. Effects of each of these experimental data manipulations were characterized and quantified based on classifications with two functions [linear discriminant analysis (LDA) and support vector machine (SVM)]. Results For both classification functions, accuracy decreased linearly in response to introduction of object assignment error and to experimental reduction of spectral repeatability. We also demonstrated that experimental reduction of training data by 20% had negligible effect on classification accuracy. LDA and SVM classification algorithms were applied to independent validation seed samples. LDA-based classifications predicted seed germination with RMSE = 10.56 (variety 1) and 26.15 (variety 2), and SVM-based classifications predicted seed germination with RMSE = 10.44 (variety 1) and 12.58 (variety 2). Conclusion We believe this study represents the first, in which optical seed classification included both a thorough performance evaluation of two separate classification functions based on experimental data manipulations, and application of classification models to validation seed samples not included in training data. Proposed experimental data manipulations are discussed in broader contexts and general relevance, and they are suggested as methods for in-depth performance assessments of optical classification models.

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Section: Resultsmentioning

confidence: 99%

Experimental data manipulations to assess performance of hyperspectral classification models of crop seeds and other objects

et al. 2022

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“…In the human body, proteins have critical roles in the structure, function, and regulation of cells, tissues, and organs. Currently, protein‐based diagnostics and therapeutics have been broadly applied in clinics and enjoy unprecedented recognition of their potential 91,92 . In recent years, DNA origami nanostructures have been used to spatially organize proteins of interest, such as ligands, antigens, and antibodies.…”

Section: Biomedical Applications Of Dna Origamimentioning

confidence: 99%

“…Currently, protein-based diagnostics and therapeutics have been broadly applied in clinics and enjoy unprecedented recognition of their potential. 91,92 In F I G U R E 6 DNA origami nanostructures for the delivery of nucleic acid drugs. (A) Schematic design of the 30-helix DNA origami tube to deliver CpG ODNs.…”

Section: Drug Deliverymentioning

confidence: 99%

DNA origami technology for biomedical applications: Challenges and opportunities

Nie

et al. 2023

MedComm – Biomaterials and Applications

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DNA origami, a promising branch of structural DNA technology, refers to the technique of folding a single‐stranded DNA scaffold into well‐defined nanostructures. In recent years, DNA origami nanostructures have shown considerable promise in a variety of biomedical applications, owing to their biodegradability, unique programmability, and addressability. Despite their popularity, the biomedical application of DNA origami techniques, which exploits their unique programmability and addressability, is rare in previous studies. Most recently, mounting evidence has demonstrated the robustness of DNA origami nanostructures in the spatial organization of functional components at the nanoscale in the biomedical field. These examples provide typical paradigms to fully realize the potential of DNA origami techniques by taking advantage of their unique programmability and addressability. This minireview summarizes the recent advancements of DNA origami techniques in biosensing, biocatalysis, and drug delivery, and the representative examples using DNA origami nanostructures for the spatial organization of functional molecules with nanometric precision are highlighted. We further discuss the possible limitations and challenges for in vivo applications, including stability issues and potential immunogenicity, and finally, propose some strategies to overcome these obstacles to fully realize the potential of DNA origami techniques in biomedical applications.

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“…Extensive reviews and chapters covering diverse diagnostic methods of viruses infecting plants have been described in the literature [243][244][245][246][247]; therefore, we only provide serological-based and nucleic acid-based approaches that have or could be applied for EFF crops.…”

Section: Diagnosis Of Plant Virus Diseasesmentioning

confidence: 99%

Viruses Infecting Trees and Herbs That Produce Edible Fleshy Fruits with a Prominent Value in the Global Market: An Evolutionary Perspective

Rodríguez‐Verástegui

Ramírez-Zavaleta²,

Capilla-Hernández³

et al. 2022

Plants

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Trees and herbs that produce fruits represent the most valuable agricultural food commodities in the world. However, the yield of these crops is not fully achieved due to biotic factors such as bacteria, fungi, and viruses. Viruses are capable of causing alterations in plant growth and development, thereby impacting the yield of their hosts significantly. In this work, we first compiled the world′s most comprehensive list of known edible fruits that fits our definition. Then, plant viruses infecting those trees and herbs that produce fruits with commercial importance in the global market were identified. The identified plant viruses belong to 30 families, most of them containing single-stranded RNA genomes. Importantly, we show the overall picture of the host range for some virus families following an evolutionary approach. Further, the current knowledge about plant-virus interactions, focusing on the main disorders they cause, as well as yield losses, is summarized. Additionally, since accurate diagnosis methods are of pivotal importance for viral diseases control, the current and emerging technologies for the detection of these plant pathogens are described. Finally, the most promising strategies employed to control viral diseases in the field are presented, focusing on solutions that are long-lasting.

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Advances in protein-based diagnostic tools of plant viruses

Cited by 5 publications

References 43 publications

Experimental data manipulations to assess performance of hyperspectral classification models of crop seeds and other objects

Experimental data manipulations to assess performance of hyperspectral classification models of crop seeds and other objects

DNA origami technology for biomedical applications: Challenges and opportunities

Viruses Infecting Trees and Herbs That Produce Edible Fleshy Fruits with a Prominent Value in the Global Market: An Evolutionary Perspective

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