Automatic detection and morphological delineation of bacteriophages in electron microscopy images

Abstract Automatic detection, recognition and geometric characterization of bacteriophages in electron microscopy images was the main objective of this work. A novel technique, combining phase congruency-based image enhancement, Hough transform-, Radon transform- and open active contours with free b...

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Bibliographic Details
Published in:Computers in biology and medicine 2015-09, Vol.64, p.101-116
Main Authors: Gelzinis, A, Verikas, A, Vaiciukynas, E, Bacauskiene, M, Sulcius, S, Simoliunas, E, Staniulis, J, Paskauskas, R
Format: Article
Language:English
Subjects:
Accuracy
Algorithms
Aphanizomenon - virology
Aphanizomenon flos-aquae
Atoms & subatomic particles
Automation
Bacteria
Bacteriophage
Bacteriophages - classification
Bacteriophages - ultrastructure
Bland–Altman
Capsid - classification
Capsid - ultrastructure
Cyanobacteria
Cyanophage
Electron microscopy
Hypotheses
Hypothesis testing
Image Processing, Computer-Assisted - methods
Infections
Internal Medicine
Microscopy
Microscopy, Electron - methods
Morphology
Mortality
Open active contours
Other
Pattern recognition
Pattern Recognition, Automated - methods
Population
Random forest
Standard deviation
Vb-AphaS- CL131
Viruses
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Summary:Abstract Automatic detection, recognition and geometric characterization of bacteriophages in electron microscopy images was the main objective of this work. A novel technique, combining phase congruency-based image enhancement, Hough transform-, Radon transform- and open active contours with free boundary conditions-based object detection was developed to detect and recognize the bacteriophages associated with infection and lysis of cyanobacteria Aphanizomenon flos-aquae . A random forest classifier designed to recognize phage capsids provided higher than 99% accuracy, while measurable phage tails were detected and associated with a correct capsid with 81.35% accuracy. Automatically derived morphometric measurements of phage capsids and tails exhibited lower variability than the ones obtained manually. The technique allows performing precise and accurate quantitative (e.g. abundance estimation) and qualitative (e.g. diversity and capsid size) measurements for studying the interactions between host population and different phages that infect the same host.
ISSN:0010-4825
1879-0534
1879-0534
DOI:10.1016/j.compbiomed.2015.06.015