scholarly journals High-Throughput Phenotyping of Indirect Traits for Early-Stage Selection in Sugarcane Breeding

2019 ◽  
Vol 11 (24) ◽  
pp. 2952 ◽  
Author(s):  
Sijesh Natarajan ◽  
Jayampathi Basnayake ◽  
Xianming Wei ◽  
Prakash Lakshmanan
Keyword(s):  
High Throughput ◽  
Early Stage ◽  
Selection Index ◽  
Canopy Cover ◽  
Indirect Selection ◽  
Canopy Height ◽  
Pure Stand ◽  
Single Row ◽  
Sugarcane Breeding ◽  
High Throughput Phenotyping

One of the major limitations for sugarcane genetic improvement is the low heritability of yield in the early stages of breeding, mainly due to confounding inter-plot competition effects. In this study, we investigate an indirect selection index (Si), developed based on traits correlated to yield (indirect traits) that were measured using an unmanned aerial vehicle (UAV), to improve clonal assessment in early stages of sugarcane breeding. A single-row early-stage clonal assessment trial, involving 2134 progenies derived from 245 crosses, and a multi-row experiment representative of pure-stand conditions, with an unrelated population of 40 genotypes, were used in this study. Both experiments were screened at several stages using visual, multispectral, and thermal sensors mounted on a UAV for indirect traits, including canopy cover, canopy height, canopy temperature, and normalised difference vegetation index (NDVI). To construct the indirect selection index, phenotypic and genotypic variance-covariances were estimated in the single-row and multi-row experiment, respectively. Clonal selection from the indirect selection index was compared to single-row yield-based selection. Ground observations of stalk number and plant height at six months after planting made from a subset of 75 clones within the single-row experiment were highly correlated to canopy cover (rg = 0.72) and canopy height (rg = 0.69), respectively. The indirect traits had high heritability and strong genetic correlation with cane yield in both the single-row and multi-row experiments. Only 45% of the clones were common between the indirect selection index and single-row yield based selection, and the expected efficiency of correlated response to selection for pure-stand yield based on indirect traits (44%–73%) was higher than that based on single-row yield (45%). These results highlight the potential of high-throughput phenotyping of indirect traits combined in an indirect selection index for improving early-stage clonal selections in sugarcane breeding.

High-throughput phenotyping platforms enhance genomic selection for wheat grain yield across populations and cycles in early stage

2019 ◽  
Vol 132 (6) ◽  
pp. 1705-1720 ◽  
Author(s):  
Jin Sun ◽  
Jesse A. Poland ◽  
Suchismita Mondal ◽  
José Crossa ◽  
Philomin Juliana ◽  
...  
Keyword(s):  
Grain Yield ◽  
Genomic Selection ◽  
High Throughput ◽  
Early Stage ◽  
Wheat Grain ◽  
High Throughput Phenotyping ◽  
Selection For

scholarly journals Haplotype analysis of data from UAV imagery of rice MAGIC population for the trait dissection of biomass and plant architecture

2020 ◽  
Author(s):  
Daisuke Ogawa ◽  
Toshihiro Sakamoto ◽  
Hiroshi Tsunematsu ◽  
Noriko Kanno ◽  
Yasunori Nonoue ◽  
...  
Keyword(s):  
High Resolution ◽  
High Throughput ◽  
Early Stage ◽  
Association Studies ◽  
Image Data ◽  
Shoot Biomass ◽  
Genome Wide Association Studies ◽  
Vegetation Fraction ◽  
High Throughput Phenotyping ◽  
Uav Images

Abstract Unmanned aerial vehicles (UAVs) are popular tools for high-throughput phenotyping of crops in the field. However, their use for evaluation of individual lines is limited in crop breeding because research on what the UAV image data represent is still developing. Here, we investigated the connection between shoot biomass of rice plants and the vegetation fraction (VF) estimated from high-resolution orthomosaic images taken by a UAV 10 m above a field during the vegetative stage. Haplotype-based genome-wide association studies of multi-parental advanced generation inter-cross (MAGIC) lines revealed four QTL for VF. VF was correlated with shoot biomass, but the haplotype effect on VF was better correlated with that on shoot biomass at these QTL. Further genetic characterization revealed the relationships between these QTL and plant spreading habit, final shoot biomass and panicle weight. Thus, genetic analysis using high-throughput phenotyping data derived from low-altitude, high-resolution UAV images during early stage of rice in the field provides insight into plant growth, architecture, final biomass and yield.

scholarly journals Aerial high‐throughput phenotyping enables indirect selection for grain yield at the early generation, seed‐limited stages in breeding programs

Crop Science ◽  
2020 ◽  
Vol 60 (6) ◽  
pp. 3096-3114 ◽  
Author(s):  
Margaret R. Krause ◽  
Suchismita Mondal ◽  
José Crossa ◽  
Ravi P. Singh ◽  
Francisco Pinto ◽  
...  
Keyword(s):  
Grain Yield ◽  
High Throughput ◽  
Indirect Selection ◽  
Early Generation ◽  
Breeding Programs ◽  
High Throughput Phenotyping ◽  
Selection For

scholarly journals High-Throughput Phenotyping of Canopy Cover and Senescence in Maize Field Trials Using Aerial Digital Canopy Imaging

2018 ◽  
Vol 10 (2) ◽  
pp. 330 ◽  
Author(s):  
Richard Makanza ◽  
Mainassara Zaman-Allah ◽  
Jill Cairns ◽  
Cosmos Magorokosho ◽  
Amsal Tarekegne ◽  
...  
Keyword(s):  
High Throughput ◽  
Canopy Cover ◽  
Field Trials ◽  
Maize Field ◽  
High Throughput Phenotyping

scholarly journals Combining High-Throughput Phenotyping with Overall Growth Measurements of Indica Rice (Oryza Sativa L Spp. Indica) Cultivars over the Whole Life Cycle

2021 ◽  
Author(s):  
Cattarin Theerawitaya ◽  
Cattleya Chutteang ◽  
Anuruck Arunyanark ◽  
Narubodin Kwangern ◽  
Nattapol Rachsapa ◽  
...  
Keyword(s):  
Life Cycle ◽  
Leaf Area ◽  
High Throughput ◽  
Positive Relationship ◽  
Canopy Height ◽  
Area Measurement ◽  
Rice Cultivars ◽  
High Throughput Phenotyping ◽  
Whole Life Cycle ◽  
Non Destructive

Abstract Background: High-throughput phenotyping systems containing non-destructive and non-invasive characterizations of phenotypic traits throughout the whole life cycle of plant development have prevailed over the conventional method. The aim of this investigation was to evaluate the phenotypic characteristics of indica rice genotypes using RGB high-throughput phenotyping over the whole life cycle in relation to biomass and yield components. Results: Plant canopy width, canopy height and leaf area values of the rice cultivars RD41, Pathumthani1 (PT1), Homchonlasit, IR64, Riceberry and RD43 were measured using RGB imagery estimation together with actual measurements at 45, 60, 75, 90, 105 and 120 DAP. Canopy width and canopy height values obtained from actual measurements were linearly related to RGB-estimated values in all rice cultivars with r = 0.87-0.93 and r = 0.90-0.99, respectively. Interestingly, a positive relationship between plant projected area from RGB imagery and leaf area measurement was observed, especially at the vegetative stage (r = 0.93- 0.99). At harvest, a positive relationship between aboveground biomass and total yield was also found (R2 = 0.44). Conclusion: The agronomical traits and plant characterizations of RD41, PT1, Homchonlasit, IR64, Riceberry and RD43 were validated over the whole life cycle of rice crops in the present investigation. Based on this study, we confirm that high-throughput phenotyping data collection should overcome conventional measurements due to its non-destructive, rapid, and automated production of big data and high accuracy in indica rice crops.

scholarly journals High-Throughput Field-Phenotyping Tools for Plant Breeding and Precision Agriculture

Agronomy ◽  
2019 ◽  
Vol 9 (5) ◽  
pp. 258 ◽  
Author(s):  
Aakash Chawade ◽  
Joost van Ham ◽  
Hanna Blomquist ◽  
Oscar Bagge ◽  
Erik Alexandersson ◽  
...  
Keyword(s):  
Plant Breeding ◽  
High Throughput ◽  
Precision Agriculture ◽  
Plant Traits ◽  
Early Stage ◽  
Plant Phenotyping ◽  
Plant Cultivation ◽  
Field Phenotyping ◽  
High Throughput Phenotyping ◽  
Major Attention

High-throughput field phenotyping has garnered major attention in recent years leading to the development of several new protocols for recording various plant traits of interest. Phenotyping of plants for breeding and for precision agriculture have different requirements due to different sizes of the plots and fields, differing purposes and the urgency of the action required after phenotyping. While in plant breeding phenotyping is done on several thousand small plots mainly to evaluate them for various traits, in plant cultivation, phenotyping is done in large fields to detect the occurrence of plant stresses and weeds at an early stage. The aim of this review is to highlight how various high-throughput phenotyping methods are used for plant breeding and farming and the key differences in the applications of such methods. Thus, various techniques for plant phenotyping are presented together with applications of these techniques for breeding and cultivation. Several examples from the literature using these techniques are summarized and the key technical aspects are highlighted.

High‐throughput phenotyping of canopy height in cool‐season crops using sensing techniques

2021 ◽  
Author(s):  
Chongyuan Zhang ◽  
Wilson A. Craine ◽  
Rebecca J. McGee ◽  
George J. Vandemark ◽  
James B. Davis ◽  
...  
Keyword(s):  
High Throughput ◽  
Canopy Height ◽  
Cool Season ◽  
High Throughput Phenotyping

Towards high-throughput phenotyping of complex patterned behaviors: Lessons from mouse self-grooming

2011 ◽  
Author(s):  
E. Kyzar ◽  
S. Gaikwad ◽  
M. Pham ◽  
J. Green ◽  
A. Roth ◽  
...  
Keyword(s):  
High Throughput ◽  
High Throughput Phenotyping

scholarly journals High-throughput microbioreactor provides a capable tool for early stage bioprocess development

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Mathias Fink ◽  
Monika Cserjan-Puschmann ◽  
Daniela Reinisch ◽  
Gerald Striedner
Keyword(s):  
High Throughput ◽  
Process Development ◽  
Early Stage ◽  
Explanatory Power ◽  
Batch Mode ◽  
E Coli ◽  
Speed Up ◽  
Bioreactor System ◽  
Cell Densities ◽  
Microbial Systems

AbstractTremendous advancements in cell and protein engineering methodologies and bioinformatics have led to a vast increase in bacterial production clones and recombinant protein variants to be screened and evaluated. Consequently, an urgent need exists for efficient high-throughput (HTP) screening approaches to improve the efficiency in early process development as a basis to speed-up all subsequent steps in the course of process design and engineering. In this study, we selected the BioLector micro-bioreactor (µ-bioreactor) system as an HTP cultivation platform to screen E. coli expression clones producing representative protein candidates for biopharmaceutical applications. We evaluated the extent to which generated clones and condition screening results were transferable and comparable to results from fully controlled bioreactor systems operated in fed-batch mode at moderate or high cell densities. Direct comparison of 22 different production clones showed great transferability. We observed the same growth and expression characteristics, and identical clone rankings except one host-Fab-leader combination. This outcome demonstrates the explanatory power of HTP µ-bioreactor data and the suitability of this platform as a screening tool in upstream development of microbial systems. Fast, reliable, and transferable screening data significantly reduce experiments in fully controlled bioreactor systems and accelerate process development at lower cost.

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