Print Email Facebook Twitter Quenching of microbial samples for increased reliability of microarray data Title Quenching of microbial samples for increased reliability of microarray data Author Pieterse, B. Jellema, R.H. van der Werf, M.J. TNO Kwaliteit van Leven Publication year 2006 Abstract Messenger RNA levels change on a minutes scale due to both degradation and de novo transcription. Consequently, alterations in the transcript profiles that are not representative for the condition of interest are easily introduced during sample harvesting and work-up. In order to avoid these unwanted changes we have validated a - 45°C methanol-based quenching method for obtaining reliable and reproducible 'snapshot' samples of Lactobacillus plantarum cells for transcriptome analyses. Transcript profiles of cells harvested with the quenching method were compared with transcript profiles of cells that were harvested according to two different commonly applied protocols. Significant differences between the transcript profiles of cells harvested by the different methods from the same steady-state culture were observed. In total, 42 genes or operons were identified from which the transcript levels were altered when the cells were not immediately quenched upon harvesting. Among these, several have previously been associated with cold-shock response. Furthermore, the reproducibility of transcript profiles improved, as indicated by the fact that the variation in the data sets obtained from the quenched cells was smaller than in the data sets obtained from the cells that were harvested under non-quenched conditions. © 2005 Elsevier B.V. All rights reserved. Subject BiologyBiotechnologyMicroarray dataMicrobial samplesQuenchingmessenger RNAtranscriptomearticlecytolysisgenehybridizationimage analysisLactobacillus plantarummicroarray analysisnonhumanoperonpriority journalRNA isolationsteady statetechniqueLactobacillusMethanolProtein Array AnalysisReproducibility of ResultsRNA, BacterialRNA, MessengerTranscription, GeneticLactobacillus plantarum To reference this document use: http://resolver.tudelft.nl/uuid:ecee9f23-4bfe-44b8-884d-759db782fb00 DOI https://doi.org/10.1016/j.mimet.2005.04.035 TNO identifier 239127 ISSN 0167-7012 Source Journal of Microbiological Methods, 64 (2), 207-216 Document type article Files To receive the publication files, please send an e-mail request to TNO Library.