Quick Search:

uzh logo
Browse by:

The deadline for the annual report 2015 is January 31st, 2016

Zurich Open Repository and Archive

Maintenance: Tuesday, 16.2.2015, 06:00-08:00

Maintenance work on various system components of ZORA. During this time there will be a brief unavailability for about 1 hour. Please be patient.

Permanent URL to this publication: http://dx.doi.org/10.5167/uzh-27879

Zeder, M; Pernthaler, J (2009). Multi-spot live-image autofocusing for high-throughput microscopy of fluorescently stained bacteria. Cytometry Part A, 75(9):781-788.

Accepted Version
View at publisher


Screening by automated high-throughput microscopy has become a valuable research tool. An essential component of such systems is the autonomous acquisition of focused images. Here we describe the implementation of a high-precision autofocus routine for imaging of fluorescently stained bacteria on a commercially available microscope. We integrate various concepts and strategies that together substantially enhance the performance of autonomous image acquisition. These are (i) nested focusing in brightfield and fluorescence illumination, (ii) autofocusing by continuous life-image acquisition during movement in z-direction rather than at distinct z-positions, (iii) assessment of the quality and topology of a field of view (FOV) by multi-spot focus measurements and (iv) acquisition of z-stacks and application of an extended depth of field algorithm to compensate for FOV unevenness. The freely provided program and documented source code allow ready adaptation of the here presented approach to various platforms and scientific questions.


34 citations in Web of Science®
31 citations in Scopus®
Google Scholar™



35 downloads since deposited on 19 Jan 2010
5 downloads since 12 months

Detailed statistics

Additional indexing

Item Type:Journal Article, refereed, original work
Communities & Collections:07 Faculty of Science > Department of Plant and Microbial Biology
Dewey Decimal Classification:580 Plants (Botany)
Deposited On:19 Jan 2010 18:18
Last Modified:09 Jul 2012 04:08
Additional Information:The definitive version is available at www3.interscience.wiley.com
Publisher DOI:10.1002/cyto.a.20770
PubMed ID:19658173

Users (please log in): suggest update or correction for this item

Repository Staff Only: item control page