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Services

Lemnatec Scanalyzer HTS 

The Lemnatec Scanalyzer HTS is a powerful, non-destructive, high-throughput phenotyping tool that allows for the collection of sensitive, temporal information regarding plant size, architecture and health.  

It is equipped with 4 different cameras [visible (RGB), fluorescence (FLUO), near infrared (NIR), and far infrared (IR)]. With the visible camera, it is possible to extract information about projected leaf area, caliper length, compactness and chlorosis; the fluorescence and near infrared cameras provide information about in planta chlorophyll fluorescence and water content, respectively and the infrared camera provides information about leaf temperature. 

Additionally, the arm is equipped with humidity and temperature sensors to detect ambient changes within the chamber.  

Images of Arabidopsis taken with the visible, fluorescence, near infrared and infrared cameras.
Scanalyzer Different Setups
Scanalyzer 4 Cameras

Services 

1. The Phenomics Facility regularly and consistently performs assays to evaluate different abiotic stresses including salinity, heat, cold, water limitation, light, nutrient deficit. We evaluate as well the effect of biostimulants in plants.  

2. Various experimental setups that have been optimized in the Phenomics Facility.  

  • Quickpot 15 tray  
  • Multiwell plates can be utilized for seed phenotyping like maize or rice. 
  • Half a gallon pots 
  • One gallon pots 
  • Petri dishes

3. Images analysis with commercial (LemnaGrid) and free algorithms (PlantCV, Phytomorph Image Phenomics Tool Kit Application, and SMART).

Multiwell plates can be utilized for seed phenotyping (e.g. maize, rice, etc) or for assays using plant parts (e.g. leaf disks).​
One gallon pots are ideal for larger, faster growing plants (such as rice, maize, tomato, and common bean).
Petri dishes are ideal for observing differences in seedlings or for root phenotyping (e.g. Arabidopsis, Marchantia) and assessment of plant tissue cultures (e.g. hairy roots).
Quickpot 15 tray setup is well-suited to small, flat plants such as Arabidopsis and Marchantia.
Visible and fluorescence images taken with the Scanalyzer HTS from various species.
Visible and fluorescence images taken with the Scanalyzer HTS from various species.
Visible and fluorescence images taken with the Scanalyzer HTS from various species.
Visible images taken with the Scanalyzer HTS from various species.
Color classified images and the quantitative data that comes with them. (A) A visible image of Arabidopsis after it has been extracted from the background. After processing with LemnaGrid, information such as projected leaf area (graph featured below) can be accurately calculated in square centimeters. (B) The visible image is then color classified to identify chlorotic spots on the leaf. Panel B shows a healthy plant, along with a graph of genotype health over the entire experiment. (C) Color classified image captured by the fluorescence camera and its data below. (D) Color classified image captured by the near infrared camera and the associated water content graph below.​
Morphometric analysis of rice seeds. Images of seeds after they have been extracted from the background we can obtain information about their dimensions (width, length, perimeter, area) and chalkiness using PlantCV 4.0 (https://plantcv.danforthcenter.org/).​
Morphometric analysis of maize kernels. Images of seeds after they have been extracted from the background we can obtain information about their dimensions using Phytomorph available in Cyverse (e.g. width profile, length, perimeter, area, color profiles).

Other services 

The Phenomics Facility offers supplemental services to complement the high-throughput phenotyping provide by the Lemnatec Scanalyzer HTS. 

  1. Measurements with the MultispeQ: a hand held fluorometer, developed by the Kramer Lab at Michigan State that offers a suite of information regarding photosynthetic efficiency.  
  2. The Elmor C3 seed counter allows for accurate seed counts following an experiment to assess yield variability between treatments or genotypes.  
  3. The Decagon water potential meter can help assess soil saturation conditions for more accurate water limitation experiments.

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    Services
    Phenomics Facility Documents
    Contact Phenomics Core Facility

    Dr. Argelia Lorence

    Phone: 870-680-4322

    Room: 310
    Arkansas Biosciences Institute

    Postal Address:
    P.O. Box 639
    State University, AR  72467