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Spotsizer: High-throughput quantitative analysis of microbial growth

Bischof, L; Převorovský, M; Rallis, C; Jeffares, DC; Arzhaeva, Y; Bähler, J; (2016) Spotsizer: High-throughput quantitative analysis of microbial growth. BioTechniques , 61 (4) pp. 191-201. 10.2144/000114459. Green open access

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Abstract

Microbial colony growth can serve as a useful readout in assays for studying complex genetic interactions or the effects of chemical compounds. Although computational tools for acquiring quantitative measurements of microbial colonies have been developed, their utility can be compromised by inflexible input image requirements, non-trivial installation procedures, or complicated operation. Here, we present the Spotsizer software tool for automated colony size measurements in images of robotically arrayed microbial colonies. Spotsizer features a convenient graphical user interface (GUI), has both single-image and batch-processing capabilities, and works with multiple input image formats and different colony grid types. We demonstrate how Spotsizer can be used for high-throughput quantitative analysis of fission yeast growth. The user-friendly Spotsizer tool provides rapid, accurate, and robust quantitative analyses of microbial growth in a high-throughput format. Spotsizer is freely available at https://data.csiro.au/dap/landingpage?pid=csiro:15330 under a proprietary CSIRO license.

Type: Article
Title: Spotsizer: High-throughput quantitative analysis of microbial growth
Location: England
Open access status: An open access version is available from UCL Discovery
DOI: 10.2144/000114459
Publisher version: http://dx.doi.org/10.2144/000114459
Language: English
Additional information: This version is the author accepted manuscript. For information on re-use, please refer to the publisher’s terms and conditions.
Keywords: bacteria, colony array, large-scale screen, microorganism, synthetic genetic array, yeast
UCL classification: UCL > Provost and Vice Provost Offices
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Life Sciences
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Life Sciences > Div of Biosciences
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Life Sciences > Div of Biosciences > Genetics, Evolution and Environment
URI: http://discovery.ucl.ac.uk/id/eprint/1522531
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