Reconstruction of biofilm images: combining local and global structural parameters

被引:6
作者
Resat, Haluk [1 ]
Renslow, Ryan S. [2 ]
Beyenal, Haluk [1 ]
机构
[1] Washington State Univ, Gene & Linda Voiland Sch Chem Engn & Bioengn, Pullman, WA 99164 USA
[2] Pacific NW Natl Lab, Environm Mol Sci Lab, Richland, WA 99352 USA
基金
美国国家科学基金会;
关键词
biofilm; reconstruction; quantification; image; image analysis; structure; local structure; LASER-SCANNING MICROSCOPY; MICROBIAL BIOFILMS; BACTERIAL BIOFILMS; QUANTIFICATION; PROGRAM; ECOLOGY;
D O I
10.1080/08927014.2014.969721
中图分类号
Q81 [生物工程学(生物技术)]; Q93 [微生物学];
学科分类号
071005 ; 0836 ; 090102 ; 100705 ;
摘要
Digitized images can be used for quantitative comparison of biofilms grown under different conditions. Using biofilm image reconstruction, it was previously found that biofilms with a completely different look can have nearly identical structural parameters and that the most commonly utilized global structural parameters were not sufficient to uniquely define these biofilms. Here, additional local and global parameters are introduced to show that these parameters considerably increase the reliability of the image reconstruction process. Assessment using human evaluators indicated that the correct identification rate of the reconstructed images increased from 50% to 72% with the introduction of the new parameters into the reconstruction procedure. An expanded set of parameters especially improved the identification of biofilm structures with internal orientational features and of structures in which colony sizes and spatial locations varied. Hence, the newly introduced structural parameter sets helped to better classify the biofilms by incorporating finer local structural details into the reconstruction process.
引用
收藏
页码:1141 / 1154
页数:14
相关论文
共 32 条
[1]   NEW LOOK AT STATISTICAL-MODEL IDENTIFICATION [J].
AKAIKE, H .
IEEE TRANSACTIONS ON AUTOMATIC CONTROL, 1974, AC19 (06) :716-723
[2]   Quantifying biofilm structure: Facts and fiction [J].
Beyenal, H ;
Lewandowski, Z ;
Harkin, G .
BIOFOULING, 2004, 20 (01) :1-23
[3]   Combined effect of substrate concentration and flow velocity on effective diffusivity in biofilms [J].
Beyenal, H ;
Lewandowski, Z .
WATER RESEARCH, 2000, 34 (02) :528-538
[4]   Biofilms in the food industry: problems and potential solutions [J].
Brooks, John D. ;
Flint, Steve H. .
INTERNATIONAL JOURNAL OF FOOD SCIENCE AND TECHNOLOGY, 2008, 43 (12) :2163-2176
[5]   MICROBIAL BIOFILMS [J].
COSTERTON, JW ;
LEWANDOWSKI, Z ;
CALDWELL, DE ;
KORBER, DR ;
LAPPINSCOTT, HM .
ANNUAL REVIEW OF MICROBIOLOGY, 1995, 49 :711-745
[6]   BACTERIAL BIOFILMS IN NATURE AND DISEASE [J].
COSTERTON, JW ;
CHENG, KJ ;
GEESEY, GG ;
LADD, TI ;
NICKEL, JC ;
DASGUPTA, M ;
MARRIE, TJ .
ANNUAL REVIEW OF MICROBIOLOGY, 1987, 41 :435-464
[7]   daime, a novel image analysis program for microbial ecology and biofilm research [J].
Daims, H ;
Lücker, S ;
Wagner, M .
ENVIRONMENTAL MICROBIOLOGY, 2006, 8 (02) :200-213
[8]   Microbial biofilms: from ecology to molecular genetics [J].
Davey, ME ;
O'toole, GA .
MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS, 2000, 64 (04) :847-+
[9]   Assessment of three-dimensional biofilm structure using an optical microscope [J].
de Carvalho, Carla C. C. R. ;
da Fonseca, M. Manuela R. .
BIOTECHNIQUES, 2007, 42 (05) :616-620
[10]  
Friedman H. L., 1985, A Course in Statistical Mechanics