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LeasyScan: a novel concept combining 3D imaging and lysimetry for high-throughput phenotyping of traits controlling plant water budget.

Vadez V, Kholová J, Hummel G, Zhokhavets U, Gupta SK, Hash CT - J. Exp. Bot. (2015)

Bottom Line: Close agreement between scanned and observed leaf area data of individual plants in different crops was found (R(2) between 0.86 and 0.94).Similar agreement was found when comparing scanned and observed area of plants cultivated at densities reflecting field conditions (R(2) between 0.80 and 0.96).This new platform has the potential to phenotype for traits controlling plant water use at a high rate and precision, of critical importance for drought adaptation, and creates an opportunity to harness their genetics for the breeding of improved varieties.

View Article: PubMed Central - PubMed

Affiliation: ICRISAT-Crop Physiology Laboratory, Greater Hyderabad, Patancheru 502324, Telangana, India v.vadez@cgiar.org.

No MeSH data available.


Related in: MedlinePlus

(A–C) Set of environmental sensors: (A) temperature, relative humidity, (B) solar radiation, wind speed, (C) rainfall. (D) Information on plant parameters in time visualized through web-based software interface (HortcontrolR). Environmental data visualized in Hortcontrol, e.g. (E) wind. (F, G) 3D-point clouds accessed from Hortcontrol, at the LeasyScan platform. The HortcontrolR allows the basic data operations and quality control (e.g. data obtained during the windy part of the day (F) are of less quality compared to data obtained during windless part of the day (G) and are filtered for further analysis.
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Figure 3: (A–C) Set of environmental sensors: (A) temperature, relative humidity, (B) solar radiation, wind speed, (C) rainfall. (D) Information on plant parameters in time visualized through web-based software interface (HortcontrolR). Environmental data visualized in Hortcontrol, e.g. (E) wind. (F, G) 3D-point clouds accessed from Hortcontrol, at the LeasyScan platform. The HortcontrolR allows the basic data operations and quality control (e.g. data obtained during the windy part of the day (F) are of less quality compared to data obtained during windless part of the day (G) and are filtered for further analysis.

Mentions: These parameters can be visualised through a web-based software interface (HortControlR), which allows the selection of sectors and performs basic grouping functions to assess how the experiment is progressing (Fig. 3, Sensors and HortControl display). In addition, the platform is equipped with a set of 12 environmental sensors (Campbell Scientific, Logan, Utah, USA) that continuously monitor relative humidity (RH%) and temperature (T°C), integrating values every 30min, one light sensor, one wind sensor and one rain gauge. Each scanner is wirelessly connected to a LAN through which the analysed data are downloaded onto a server, along with the 3D images. The environmental conditions can also be visualised in HortControl. 3D images are stored in the server and are accessible in HortControl. However, the system segregates the 3D data clouds from the analysed parameters and the weather information to keep the latter at a relatively small size. These 3D images can be reused at any time; for example, to recalculate new parameters based on a new algorithm for additional plant traits or for better optimised scanning software. Therefore, the scanning images become a repository of plant measurements, along with environmental metadata, that can be reused at a later date. Work is currently ongoing to perform a meshing of the 3D data cloud toward the segmentation of individual plant organs. An important factor to decide on in the scanning system was the signal noise ratio for our targeted phenotype (leaf area), and then check not only the resolution of the sensor itself but also the noise of the environment e.g. wind, diurnal rhythm of leaves, rain, reflection, conditioning the speed of the scanner movement and the number of images taken per second.


LeasyScan: a novel concept combining 3D imaging and lysimetry for high-throughput phenotyping of traits controlling plant water budget.

Vadez V, Kholová J, Hummel G, Zhokhavets U, Gupta SK, Hash CT - J. Exp. Bot. (2015)

(A–C) Set of environmental sensors: (A) temperature, relative humidity, (B) solar radiation, wind speed, (C) rainfall. (D) Information on plant parameters in time visualized through web-based software interface (HortcontrolR). Environmental data visualized in Hortcontrol, e.g. (E) wind. (F, G) 3D-point clouds accessed from Hortcontrol, at the LeasyScan platform. The HortcontrolR allows the basic data operations and quality control (e.g. data obtained during the windy part of the day (F) are of less quality compared to data obtained during windless part of the day (G) and are filtered for further analysis.
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License 1 - License 2
Show All Figures
getmorefigures.php?uid=PMC4585418&req=5

Figure 3: (A–C) Set of environmental sensors: (A) temperature, relative humidity, (B) solar radiation, wind speed, (C) rainfall. (D) Information on plant parameters in time visualized through web-based software interface (HortcontrolR). Environmental data visualized in Hortcontrol, e.g. (E) wind. (F, G) 3D-point clouds accessed from Hortcontrol, at the LeasyScan platform. The HortcontrolR allows the basic data operations and quality control (e.g. data obtained during the windy part of the day (F) are of less quality compared to data obtained during windless part of the day (G) and are filtered for further analysis.
Mentions: These parameters can be visualised through a web-based software interface (HortControlR), which allows the selection of sectors and performs basic grouping functions to assess how the experiment is progressing (Fig. 3, Sensors and HortControl display). In addition, the platform is equipped with a set of 12 environmental sensors (Campbell Scientific, Logan, Utah, USA) that continuously monitor relative humidity (RH%) and temperature (T°C), integrating values every 30min, one light sensor, one wind sensor and one rain gauge. Each scanner is wirelessly connected to a LAN through which the analysed data are downloaded onto a server, along with the 3D images. The environmental conditions can also be visualised in HortControl. 3D images are stored in the server and are accessible in HortControl. However, the system segregates the 3D data clouds from the analysed parameters and the weather information to keep the latter at a relatively small size. These 3D images can be reused at any time; for example, to recalculate new parameters based on a new algorithm for additional plant traits or for better optimised scanning software. Therefore, the scanning images become a repository of plant measurements, along with environmental metadata, that can be reused at a later date. Work is currently ongoing to perform a meshing of the 3D data cloud toward the segmentation of individual plant organs. An important factor to decide on in the scanning system was the signal noise ratio for our targeted phenotype (leaf area), and then check not only the resolution of the sensor itself but also the noise of the environment e.g. wind, diurnal rhythm of leaves, rain, reflection, conditioning the speed of the scanner movement and the number of images taken per second.

Bottom Line: Close agreement between scanned and observed leaf area data of individual plants in different crops was found (R(2) between 0.86 and 0.94).Similar agreement was found when comparing scanned and observed area of plants cultivated at densities reflecting field conditions (R(2) between 0.80 and 0.96).This new platform has the potential to phenotype for traits controlling plant water use at a high rate and precision, of critical importance for drought adaptation, and creates an opportunity to harness their genetics for the breeding of improved varieties.

View Article: PubMed Central - PubMed

Affiliation: ICRISAT-Crop Physiology Laboratory, Greater Hyderabad, Patancheru 502324, Telangana, India v.vadez@cgiar.org.

No MeSH data available.


Related in: MedlinePlus