X-ray computed tomography to study rice (<i>Oryza sativa</i>L.) panicle development

Jhala, Vibhuti M.; Thaker, Vrinda S.

doi:10.1093/jxb/erv387

Cited by 17 publications

(10 citation statements)

References 24 publications

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“…Florets from the middle zone of the spike were collected from different-sized spikes and fixed in paraformalehyde and then embedded in technovit resin in order to determine reproductive development stage. Fixation and staging occurred following the protocol of [ 29 ], sections were obtained using the Bright 5040 microtome (Bright Instruments, UK). Slides were stained with 0.05% (w/v) toludine blue prior to imaging.…”

Section: Methodsmentioning

confidence: 99%

“…More recent analysis has moved towards living tissue, as both the contrast and speed of the µCT scanners has increased, allowing external and internal structures to be visualised without fixing and staining. For example, studies of rice panicle development over time [ 29 ]. The main limitation of in vivo analysis is that there is a resolution versus sample size trade off, where fine detail scans require lengthy scanning and processing times, whilst larger samples adversely affect spatial resolution and the ability to differentiate tissue/cells.…”

Section: Introductionmentioning

confidence: 99%

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Non-destructive determination of floral staging in cereals using X-ray micro computed tomography (µCT)

et al. 2017

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BackgroundAccurate floral staging is required to aid research into pollen and flower development, in particular male development. Pollen development is highly sensitive to stress and is critical for crop yields. Research into male development under environmental change is important to help target increased yields. This is hindered in monocots as the flower develops internally in the pseudostem. Floral staging studies therefore typically rely on destructive analysis, such as removal from the plant, fixation, staining and sectioning. This time-consuming analysis therefore prevents follow up studies and analysis past the point of the floral staging.ResultsThis study focuses on using X-ray µCT scanning to allow quick and detailed non-destructive internal 3D phenotypic information to allow accurate staging of Arabidopsis thaliana L. and Barley (Hordeum vulgare L.) flowers. X-ray µCT has previously relied on fixation methods for above ground tissue, therefore two contrast agents (Lugol’s iodine and Bismuth) were observed in Arabidopsis and Barley in planta to circumvent this step. 3D models and 2D slices were generated from the X-ray µCT images providing insightful information normally only available through destructive time-consuming processes such as sectioning and microscopy. Barley growth and development was also monitored over three weeks by X-ray µCT to observe flower development in situ. By measuring spike size in the developing tillers accurate non-destructive staging at the flower and anther stages could be performed; this staging was confirmed using traditional destructive microscopic analysis.ConclusionThe use of X-ray micro computed tomography (µCT) scanning of living plant tissue offers immense benefits for plant phenotyping, for successive developmental measurements and for accurate developmental timing for scientific measurements. Nevertheless, X-ray µCT remains underused in plant sciences, especially in above-ground organs, despite its unique potential in delivering detailed non-destructive internal 3D phenotypic information. This work represents a novel application of X-ray µCT that could enhance research undertaken in monocot species to enable effective non-destructive staging and developmental analysis for molecular genetic studies and to determine effects of stresses at particular growth stages.Electronic supplementary materialThe online version of this article (doi:10.1186/s13007-017-0162-x) contains supplementary material, which is available to authorized users.

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Section: Methodsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Non-destructive determination of floral staging in cereals using X-ray micro computed tomography (µCT)

et al. 2017

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“…To benefit more labs, it is important to decrease the unit cost associated with high-throughput phenotyping not only in the lab but also in the field (Hawkesford and Lorence, 2017). Another trend is to increase the number and quality of quantified traits, especially novel traits or those requiring labor-intensive and destructive measurement; i.e., tiller growth (Wu et al, 2019) or panicle development (Jhala and Thaker, 2015) by X-ray CT.…”

Section: Groundmentioning

confidence: 99%

Crop Phenomics and High-Throughput Phenotyping: Past Decades, Current Challenges, and Future Perspectives

et al. 2020

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Since whole-genome sequencing of many crops has been achieved, crop functional genomics studies have stepped into the big-data and high-throughput era. However, acquisition of large-scale phenotypic data has become one of the major bottlenecks hindering crop breeding and functional genomics studies. Nevertheless, recent technological advances provide us potential solutions to relieve this bottleneck and to explore advanced methods for large-scale phenotyping data acquisition and processing in the coming years. In this article, we review the major progress on high-throughput phenotyping in controlled environments and field conditions as well as its use for post-harvest yield and quality assessment in the past decades. We then discuss the latest multi-omics research combining high-throughput phenotyping with genetic studies. Finally, we propose some conceptual challenges and provide our perspectives on how to bridge the phenotype-genotype gap. It is no doubt that accurate high-throughput phenotyping will accelerate plant genetic improvements and promote the next green revolution in crop breeding.

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“…These 3D digital models then can be used to extract quantitative data (features) from plant structures. X-rays have been used to quantify wheat and rice seed and inflorescence traits from intact samples for non-destructive yield calculations (Jhala & Thaker, 2015; Hughes et al , 2017), internal anatomy of willow trees (Brereton et al , 2015), stem morphology and anatomy in sorghum (Gomez et al , 2018), root structure of barley seedlings (Pfeifer et al , 2015), leaf anatomy in monocots and dicots (Mathers et al , 2018), and dynamic starch accumulation in living grapevine stems (Earles et al , 2018), among others. Most critically, whereas manual measurements can be laborious and destructive, non-destructive sampling for XRT analysis facilitates comprehensive quantification of complex morphological traits.…”

Section: Introductionmentioning

confidence: 99%

Characterizing 3D inflorescence architecture in grapevine using X-ray imaging and advanced morphometrics: implications for understanding cluster density

Klein

Duncan

et al. 2019

Journal of Experimental Botany

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X-ray computed tomography to study rice (Oryza sativaL.) panicle development

Abstract: HighlightThe computed tomography (CT) scanning method is used for the temporal analysis of panicle development in two rice varieties varying in their yield, in order to understand seed development and its correlation with growth parameters.

Cited by 17 publications

References 24 publications

Non-destructive determination of floral staging in cereals using X-ray micro computed tomography (µCT)

Non-destructive determination of floral staging in cereals using X-ray micro computed tomography (µCT)

Crop Phenomics and High-Throughput Phenotyping: Past Decades, Current Challenges, and Future Perspectives

Characterizing 3D inflorescence architecture in grapevine using X-ray imaging and advanced morphometrics: implications for understanding cluster density

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