scholarly journals Seeing the wood for the trees: hyperspectral imaging for high throughput QTL detection in raspberry, a perennial crop species

2021 ◽  
Vol 1 (1) ◽  
pp. 1-11
Author(s):  
Dominic Williams ◽  
◽  
Christine A. Hackett ◽  
Alison Karley ◽  
Susan McCallum ◽  
...  
Keyword(s):  
Hyperspectral Imaging ◽  
High Throughput ◽  
Qtl Detection ◽  
Perennial Crop ◽  
Crop Species

scholarly journals The Performances of Hyperspectral Sensors for Proximal Sensing of Nitrogen Levels in Wheat

Sensors ◽  
2020 ◽  
Vol 20 (16) ◽  
pp. 4550
Author(s):  
Huajian Liu ◽  
Brooke Bruning ◽  
Trevor Garnett ◽  
Bettina Berger
Keyword(s):  
Hyperspectral Imaging ◽  
High Throughput ◽  
Management Practices ◽  
Leaf Tissue ◽  
Plant Phenotyping ◽  
Proximal Sensing ◽  
N Content ◽  
Hyperspectral Sensors ◽  
Wheat Leaves ◽  
Non Destructive

The accurate and high throughput quantification of nitrogen (N) content in wheat using non-destructive methods is an important step towards identifying wheat lines with high nitrogen use efficiency and informing agronomic management practices. Among various plant phenotyping methods, hyperspectral sensing has shown promise in providing accurate measurements in a fast and non-destructive manner. Past applications have utilised non-imaging instruments, such as spectrometers, while more recent approaches have expanded to hyperspectral cameras operating in different wavelength ranges and at various spectral resolutions. However, despite the success of previous hyperspectral applications, some important research questions regarding hyperspectral sensors with different wavelength centres and bandwidths remain unanswered, limiting wide application of this technology. This study evaluated the capability of hyperspectral imaging and non-imaging sensors to estimate N content in wheat leaves by comparing three hyperspectral cameras and a non-imaging spectrometer. This study answered the following questions: (1) How do hyperspectral sensors with different system setups perform when conducting proximal sensing of N in wheat leaves and what aspects have to be considered for optimal results? (2) What types of photonic detectors are most sensitive to N in wheat leaves? (3) How do the spectral resolutions of different instruments affect N measurement in wheat leaves? (4) What are the key-wavelengths with the highest correlation to N in wheat? Our study demonstrated that hyperspectral imaging systems with satisfactory system setups can be used to conduct proximal sensing of N content in wheat with sufficient accuracy. The proposed approach could reduce the need for chemical analysis of leaf tissue and lead to high-throughput estimation of N in wheat. The methodologies here could also be validated on other plants with different characteristics. The results can provide a reference for users wishing to measure N content at either plant- or leaf-scales using hyperspectral sensors.

scholarly journals Four chromosome scale genomes and a pan-genome annotation to accelerate pecan tree breeding

2021 ◽  
Vol 12 (1) ◽  
Author(s):  
John T. Lovell ◽  
Nolan B. Bentley ◽  
Gaurab Bhattarai ◽  
Jerry W. Jenkins ◽  
Avinash Sreedasyam ◽  
...  
Keyword(s):  
Tree Breeding ◽  
Pathogen Resistance ◽  
Perennial Crop ◽  
Crop Species ◽  
Annotation Database ◽  
Pan Genome ◽  
Genome Integration ◽  
Transformative Potential ◽  
Genome Assemblies ◽  
Quantitative Genomics

AbstractGenome-enabled biotechnologies have the potential to accelerate breeding efforts in long-lived perennial crop species. Despite the transformative potential of molecular tools in pecan and other outcrossing tree species, highly heterozygous genomes, significant presence–absence gene content variation, and histories of interspecific hybridization have constrained breeding efforts. To overcome these challenges, here, we present diploid genome assemblies and annotations of four outbred pecan genotypes, including a PacBio HiFi chromosome-scale assembly of both haplotypes of the ‘Pawnee’ cultivar. Comparative analysis and pan-genome integration reveal substantial and likely adaptive interspecific genomic introgressions, including an over-retained haplotype introgressed from bitternut hickory into pecan breeding pedigrees. Further, by leveraging our pan-genome presence–absence and functional annotation database among genomes and within the two outbred haplotypes of the ‘Lakota’ genome, we identify candidate genes for pest and pathogen resistance. Combined, these analyses and resources highlight significant progress towards functional and quantitative genomics in highly diverse and outbred crops.

scholarly journals From the Laboratory to The Vineyard—Evolution of The Measurement of Grape Composition using NIR Spectroscopy towards High-Throughput Analysis

2019 ◽  
Vol 8 (4) ◽  
pp. 21
Author(s):  
Aoife Power ◽  
Vi Khanh Truong ◽  
James Chapman ◽  
Daniel Cozzolino
Keyword(s):  
Chemical Composition ◽  
Hyperspectral Imaging ◽  
High Throughput ◽  
Analytical Methods ◽  
Near Infrared ◽  
Nir Spectroscopy ◽  
Chemical Compounds ◽  
Spectroscopic Techniques ◽  
High Throughput Analysis ◽  
Laboratory Methods

Compared to traditional laboratory methods, spectroscopic techniques (e.g., near infrared, hyperspectral imaging) provide analysts with an innovative and improved understanding of complex issues by determining several chemical compounds and metabolites at once, allowing for the collection of the sample “fingerprint”. These techniques have the potential to deliver high-throughput options for the analysis of the chemical composition of grapes in the laboratory, the vineyard and before or during harvest, to provide better insights of the chemistry, nutrition and physiology of grapes. Faster computers, the development of software and portable easy to use spectrophotometers and data analytical methods allow for the development of innovative applications of these techniques for the analyses of grape composition.

scholarly journals Hyperspectral imaging-based exosome microarray for rapid molecular profiling of extracellular vesicles

Lab on a Chip ◽  
2021 ◽  
Vol 21 (1) ◽  
pp. 196-204
Author(s):  
Yifei Wang ◽  
Qinming Zhang ◽  
Wang Yuan ◽  
Yixuan Wang ◽  
Hannah J. Loghry ◽  
...  
Keyword(s):  
Hyperspectral Imaging ◽  
Extracellular Vesicles ◽  
High Throughput ◽  
Hyperspectral Image ◽  
Cell Types ◽  
Molecular Profiling ◽  
Microarray Technology ◽  
Similar Cell

A high-throughput hyperspectral image-based exosome (EV) microarray technology to differentiate EVs released by similar cell types or phenotypes.

scholarly journals Agrobiodiversity and Public Food Procurement Programs in Brazil: Influence of Local Stakeholders in Configuring Green Mediated Markets

2019 ◽  
Vol 11 (5) ◽  
pp. 1425 ◽  
Author(s):  
Antonio L. Resque ◽  
Emilie Coudel ◽  
Marie-Gabrielle Piketty ◽  
Nathalie Cialdella ◽  
Tatiana Sá ◽  
...  
Keyword(s):  
Ecosystem Services ◽  
Production Systems ◽  
Cropping Systems ◽  
Local Context ◽  
Perennial Crop ◽  
Crop Species ◽  
Key Stakeholders ◽  
Local Stakeholders ◽  
Food Procurement ◽  
Agroecological Transition

The last few years have seen the emergence of different initiatives designed to promote the biodiversification of agroecosystems as a counterpoint to the global expansion of homogenized industrial agriculture. In Brazil, two food procurement programs demonstrate the potential to promote discussions related to this agroecological transition: the National School Meal Program (Programa Nacional de Alimentação Escolar, PNAE) and the Food Procurement Program (Programa de Aquisição de Alimentos, PAA). The objectives of this paper are to analyze: (a) how these procurement programs currently integrate agrobiodiversity (crops and cropping systems) according to the local context; (b) the main challenges that key stakeholders perceive for the adoption of biodiverse systems; and (c) the extent to which the key stakeholders involved in these programs associate agrobiodiversity with the provision of ecosystem services. We carried out this research in 2017 in two contrasting municipalities in the eastern part of the Brazilian Amazon, Paragominas and Irituia. Our research shows that these programs have included up to 42 species in Irituia and 32 species in Paragominas. Perennial crop species are the most common type of culture in Irituia (up to 50%), while vegetables are the most common in Paragominas (up to 47%). Although in both municipalities stakeholders identify a large number of ecosystem services (up to 17), services mentioned in Irituia were more closely related to agrobiodiversity. Stakeholders indirectly associated with the programs have a broader view of ecosystem services. We conclude that these procurement programs can be useful tools to promote the biodiversification of local production systems, but their potential may depend on involving institutions not directly associated with their administration. Additionally, despite the observed differences in production context, providing more ecosystem services appears to be a compelling motivation for promoting changes in agroecosystems.

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