Phenotype microarrays for high-throughput phenotypic testing and assay of gene function.

By B. Bochner, Peter Gadzinski, Eugenia Panomitros. Genome Research, 2001

708 citations recorded by the source corpus.

The bacterium Escherichia coli is used as a model cellular system to test and validate a new technology called Phenotype MicroArrays (PMs). PM technology is a high-throughput technology for simultaneous testing of a large number of cellular phenotypes. It consists of preconfigured well arrays in which each well tests a different cellular phenotype and an automated instrument that continuously monitors and records the response of the cells in all wells of the arrays. For example, nearly 700 phenotypes of E. coli can be assayed by merely pipetting a cell suspension into seven microplate arrays. PMs can be used to directly assay the effects of genetic changes on cells, especially gene knock-outs. Here, we provide data on phenotypic analysis of six strains and show that we can detect expected phenotypes as well as, in some cases, unexpected phenotypes.

Subfields: Genetics, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/10241c92fcc2ab860d00c1881e680461de589a4b

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Citations in the corpus

EcoCyc: fusing model organism databases with systems biology (2012, background): “For example, E. coli K-12 is able to use pyruvate as a sole carbon and energy source (16), but no transport reaction for pyruvate was present in EcoCyc.”
Plant metabolomics: large-scale phytochemistry in the functional genomics era. (2003, methodology): “Phenotype microarrays Although not strictly a metabolic profiling method, an interesting alternative method of assessing metabolism entitled ‘‘Phenotype Microarrays’’, has recently been demonstrated in Escherichia coli (Bochner et al., 2001).”
Genome-scale models of bacterial metabolism: reconstruction and applications (2008, background): “Phenotype Microarrays from Biolog Inc. typically report growth phenotypes for several hundreds of media in a single experiment (Bochner et al ., 2001).”
Biology and biotechnology of Trichoderma (2010, methodology): “A further useful tool for characterization of newly isolated Trichoderma species (but also recombinant strains) are phenotype microarrays, which allow for investigation of carbon utilization patters for 96 carbon sources (Bochner et al. 2001; Kubicek et al. 2003; Druzhinina et al. 2006b).”
Trichoderma: A significant fungus for agriculture and environment (2016, background): “Additionally, phenotype microarrays are useful for classification of new species which allow analysis of carbon utilization patters for 96 carbon sources (Bochner et al., 2001).”
Guidelines for the validation and application of typing methods for use in bacterial epidemiology. (2007, background): “The main power of the system lies in its ability to distinguish among strains within a species [115,116].”
Metabolomics technology and bioinformatics (2006, methodology): “Other alternatives include thin-layer chromatography [6, 97], HPLC with UV/visible absorbance, photodiode array (PDA) [49] or electrochemical detectors [98–100], FT-IR [34, 35, 101], ‘phenotype microarrays’ [102] and variety of other enzymatic assays.”