" Visualising Plant Development and Gene Expression in 3D using Optical Projection Tomography”

Karen Lee, Jerome Avondo, Harris Morrison, Lilian Blot, Margaret Stark, James Sharpe, Andrew Bangham and Enrico Coen.

John Innes Centre and University of East Anglia both in the Norwich Research Park and MRC Edinburgh

Plant Cell (in press).

Supplementary Data: QtVolView

The QtVolViewLITE program is designed to run on any PC with a 64 Mbyte graphic card. It is suitable for viewing the data shown in Figures 1A and 2A as colour OPT volume and section views of the Antirrhinum flower. Internal floral structures such as anther lobes and the ovary at the base of the carpel are revealed. Three OPT scan channels are visible. Transmission (shown in blue), endogenous fluorescence, Leica TXR filter (shown in red) and GFP fluorescence, GFP1 filter (shown in green).

The data can be viewed interactively as a volume from different angles and as virtual sections. The volume can be clipped to reveal internal structures. See the Quick Start pdf. The full QtVolView program uses more specialised graphic card features and is available on request.

QtVolviewLITE Application

Figure 1 & 2 Dataset

User Manual

Quick Start

Acknowledgements: BBSRC for grant support, JIC/UEA/MRC and MRC Technology.

Software team: Jerome Avondo with help from Lilian Blot and the Bangham group in the Computational Biology Group, Computing Sciences, University of East Anglia, Norwich,

Top row; volume view of mature ATHB8:GUS Arabidopsis leaf with stained veins (m2, 9 dfs) displayed using QtVolView lighting and tone-shader effects. Middle row; combined transmission and fluorescent (GFP1) OPT channels. Visible channel is red, fluorescent channel is green. Bottom row; stained veins extracted using semi-automatic segmentation tools. In the application the leaf can be viewed from any angle, re-coloured, etc.