Automated biofilm morphology quantification from confocal laser scanning microscopy imaging

被引:49
作者
Xavier, JB
White, DC
Almeida, JS
机构
[1] Univ Nova Lisboa, Inst Tecnol Quim & Biol, P-2780 Oeiras, Portugal
[2] Univ Tennessee, Ctr Environm Biotechnol, Knoxville, TN 37932 USA
[3] Med Univ S Carolina, Dept Biometry & Epidemiol, Charleston, SC 29425 USA
关键词
biofilm; confocal laser scanning microscopy; imaging software;
D O I
10.2166/wst.2003.0273
中图分类号
X [环境科学、安全科学];
学科分类号
08 ; 0830 ;
摘要
In spite of the immediate visual appeal of confocal laser scanning microscopy images, the extraction of accurate reconstitutions of biofilm morphology requires a lengthy and computational intensive succession of processing steps. However, once performed, it provides ample reward by enabling the quantitative study of biofilm structure. A software suite of image processing tools for full automation of biofilm morphology quantification was developed by integrating preprocessing, segmentation and morphology quantification operations. This software toolbox was implemented in a web server and a user friendly interface was developed to facilitate image submission, storage and sharing, its access being unrestricted for scientific applications. The image bioinformatics tool which results from the integration of the processing operations can be accessed at http://www.itqb.unl.pt:1111/clsmip/. Its use is described in this paper and is illustrated with an example of processing of experimental data describing the growth of a mixed species denitrifying biofilm.
引用
收藏
页码:31 / 37
页数:7
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