Automated counting of bacterial colony forming units on agar plates.

Brugger, Silvio D.; Baumberger, Christian; Jost, Marcel; Jenni, Werner; Brugger, Urs; Mühlemann, Kathrin (2012). Automated counting of bacterial colony forming units on agar plates. PLoS ONE, 7(3), e33695. Public Library of Science 10.1371/journal.pone.0033695

[img]
Preview
Text
fetchObject.pdf - Published Version
Available under License Creative Commons: Attribution (CC-BY).

Download (569kB) | Preview

Manual counting of bacterial colony forming units (CFUs) on agar plates is laborious and error-prone. We therefore implemented a colony counting system with a novel segmentation algorithm to discriminate bacterial colonies from blood and other agar plates.A colony counter hardware was designed and a novel segmentation algorithm was written in MATLAB. In brief, pre-processing with Top-Hat-filtering to obtain a uniform background was followed by the segmentation step, during which the colony images were extracted from the blood agar and individual colonies were separated. A Bayes classifier was then applied to count the final number of bacterial colonies as some of the colonies could still be concatenated to form larger groups. To assess accuracy and performance of the colony counter, we tested automated colony counting of different agar plates with known CFU numbers of S. pneumoniae, P. aeruginosa and M. catarrhalis and showed excellent performance.

Item Type:

Journal Article (Original Article)

Division/Institute:

04 Faculty of Medicine > Department of General Internal Medicine (DAIM) > Clinic of General Internal Medicine > Centre of Competence for General Internal Medicine

UniBE Contributor:

Brugger, Silvio

ISSN:

1932-6203

Publisher:

Public Library of Science

Language:

English

Submitter:

Silvio Brugger

Date Deposited:

24 Nov 2014 08:55

Last Modified:

28 Dec 2014 08:24

Publisher DOI:

10.1371/journal.pone.0033695

PubMed ID:

22448267

BORIS DOI:

10.7892/boris.60136

URI:

https://boris.unibe.ch/id/eprint/60136

Actions (login required)

Edit item Edit item
Provide Feedback