Automated biofilm morphology quantification from confocal laser scanning microscopy imaging

Water Science and Technology

Volumn 47, Issue 5, 2003, Pages 31-37

  Xavier, J B ^a   White, D C ^b   Almedia, J S ^c  

^a INSTITUTO DE TECNOLOGIA QUÍMICA E BIOLÓGICA   (Portugal)

^b UNIVERSITY OF TENNESSEE   (United States)

^c MEDICAL UNIVERSITY OF SOUTH CAROLINA   (United States)

Author keywords

Biofilm; Confocal laser scanning microscop; Imaging software

Indexed keywords

FILM GROWTH; IMAGE ANALYSIS; IMAGE SEGMENTATION; IMAGING SYSTEMS; LASER BEAM EFFECTS; MORPHOLOGY;

LASER SCANNING MICROSCOPY;

BIOFILMS;

BIOFILM;

AUTOMATION; BIOFILM; BIOINFORMATICS; COMPUTER PROGRAM; CONFERENCE PAPER; CONFOCAL LASER MICROSCOPY; DENITRIFICATION; EXPERIMENT; EXTRACTION; IMAGING; INFORMATION PROCESSING; INTERNET; MICROBIAL GROWTH; MORPHOLOGY; NONHUMAN; QUANTITATIVE ANALYSIS;

EID: 0037271484     PISSN: 02731223     EISSN: None     Source Type: Journal    
DOI: 10.2166/wst.2003.0273     Document Type: Conference Paper

References (11)

1. Heydorn, A., Nielsen, A.T., Hentzer, M., Sternberg, C., Givskov, M., Ersboll, B.K. and Molin, A. (2000) Quantification of biofilm structures by the novel computer program COMSTAT. Microbiology, 146, 2395-2407.
2. Kreft, J.U., Picioreanu, C., Wimpenny, J.W.T. and Van Loosdrecht, M.C.M. (2001). Individual-based modelling of biofilms. Microbiology-Sgm, 147(147), 2897-2912.
3. Kuehn, M., Hausner, M., Bungartz, H., Wagner, M., Wilderer, P. and Wertz, S. (1998). Automated confocal laser scanning microscopy and semiautomated image processing for analysis of biofilms. Appl. Environ. Microbiol., 64(11). 4115-4127.
4. Lawrence, J.R., Korber, D.R., Hoyle, B.D., Costerton, J.W. and Caldwell, D.E. (1991). Optical sectioning of microbial biofilms. J. Bacteriol., 173, 6558-6567.
5. Lewandowski, Z., Webb, D., Hamilton, M. and Harkin, G. (1999). Quantifying biofilm structure. Wat. Sci. Tech., 39(7), 77-82.
6. Lewandowski, Z. (2000). Notes on biofilm porosity. Wat. Res., 34(9), 2620-2624.
7. Palmer, R.J. (1999). Microscopy flowcells: Perfusion chambers for real-time study of biofilms. Methods Enzymol., 310, 160-166.
8. Xavier, J.B., Malhó, R., Reis, A.M. and Almeida, J.S. (2000). Description of biofilm formation by determination of development axis. Wat. Sci. Tech., 41(4-5), 121-127.
9. Xavier, J.B., Schnell, A., Wuertz, S., Palmer, R., White, D.C. and Almeida, J.S. (2001). Objective threshold selection procedure (OTS) for segmentation of scanning confocal laser microscopy images. J. Microbiol. Meth., 47, 169-180.
10. Xavier, J.B., Reis, A.M., Palmer, R., White, D.C. and Almeida, J.S. (submitted). Scaling in the ontogenesis of biofilms of denitrifying consortia.
11. Yang, X., Beyenal, H., Harkin, G. and Lewandowski, Z. (1999). Quantifying biofilm structure using image analysis. J. Microbiol. Meth., 39, 109-119.