Plant Image Analysis Plant Image Analysis


Robatzek Group @ The Sainsbury Laboratory
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Scientific article
An automated quantitative image analysis tool for the identification of microtubule patterns in plants.
C. Faulkner, J. Zhou, A. Evrard, G. Bourdais, D. MacLean, H. Häweker, P. Eckes, S. Robatzek,
2017 , Traffic , 0(0), 0
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CellArchitect is an Acapella-based automated image analysis tool that batch processes images from high throughput confocal microscopy of genetically encoded microtubule markers expressed in Arabidopsis. In particular, CellArchitect is designed to recognise microtubule (MT) and measure MT pattern changes induced by different chemicals. The algorithm is capable of detecting other microfilament structure such as actin as well. Output fields (in a variety of CSV files) quantify features such as size, shape, fluorescent signal intensity, and MT patterns (e.g. MT lengths).

CellArchitect can detect subcellular patterns tagged by actin and endoplasmic reticulum markers. Thus, the platform developed here can be used to automate image analysis of complex subcellular patterns for purposes such as herbicide discovery and mode of action characterisation. The capacity to use this tool to quantitatively characterise cellular responses lends itself to application across many areas of biology.

This software solution performs traditional image analysis functions such as image enhancement, object segmentation, denoise, edge-based measurements, and skeletonisation. When adding new functions to CellArchitect, please add them as external procedures or internal functions to maintain software architecture.

Source: Faulkner, Christine, et al. "An automated quantitative image analysis tool for the identification of microtubule patterns in plants." Traffic (2017).

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Operating system


Measured variables
size, shape, count,

Automation level

Plant requirements

Image requirements

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Requires Acapella software

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