Functional Approach to High-throughput Plant Growth Analysis

Oliver L Tessmer 1;o , Yuhua Jiao 3;o , Jeffrey A Cruz 3, David M Kramer 2;3;* and Jin Chen 1;3;*
1 - Department of Computer Science and Engineering, Michigan State University, East Lansing, MI 48864 USA
2 - Department of Biochemistry and Molecular Biology, Michigan State University, East Lansing, MI 48864 USA
3 - MSU-DOE Plant Research Laboratory, Michigan State University, East Lansing, MI 48864 USA
o - Equal contributor
* - Contact author



Taking advantage of the current rapid development in imaging systems and computer vision algorithms, we present HPGA, a high-throughput phenotyping platform for plant growth modeling and functional analysis, which produces better understanding of energy distribution in regards of the balance between growth and defense. HPGA has two components, PAE (Plant Area Estimation) and GMA (Growth Modeling and Analysis). In PAE, by taking the complex leaf overlap problem into consideration, the area of every plant is measured from top-view images in four steps. Given the abundant measurements obtained with PAE, in the second module GMA, a nonlinear growth model is applied to generate growth curves, followed by functional data analysis.

Experimental results on model plant Arabidopsis thaliana show that, compared to an existing approach, HPGA reduces the error rate of measuring plant area by half. The application of HPGA on the cfq mutant plants under fluctuating light reveals the correlation between low photosynthetic rates and small plant area (compared to wild type), which raises a hypothesis that knocking out cfq changes the sensitivity of the energy distribution under fluctuating light conditions to repress leaf growth.

Tessmer OL^, Jiao Y^, Cruz JA, Kramer DM* and Chen J*. Functional Approach to High-throughput Plant Growth Analysis. BMC Systems Biology, 2013, 7(Suppl 6):S17

Please refer to the above publication for details.

Software and demo

The software and a runnable demo of the Plant Area Estimation module is here.


Oliver Tessmer -
Yuhua Jiao -