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REMI-seq: Development of methods and resources for functional genomics in Dictyostelium

Nicole Gruenheit, Amy Baldwin, Balint Stewart, Sarah Jaques, Thomas Keller, Katie Parkinson, Rex Chisholm, Adrian Harwood, Christopher R. L. Thompson
doi: https://doi.org/10.1101/582072
Nicole Gruenheit
1Centre for Life’s Origins and Evolution, Department of Genetics, Evolution and Environment, University College London, Darwin Building, Gower Street, London, WC1E 6BT, UK
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Amy Baldwin
2Cardiff School of Biosciences, Hadyn Ellis Building, Maindy Road, Cardiff University, Cardiff, UK, CF24 4HQ
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Balint Stewart
1Centre for Life’s Origins and Evolution, Department of Genetics, Evolution and Environment, University College London, Darwin Building, Gower Street, London, WC1E 6BT, UK
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Sarah Jaques
2Cardiff School of Biosciences, Hadyn Ellis Building, Maindy Road, Cardiff University, Cardiff, UK, CF24 4HQ
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Thomas Keller
3Division of Developmental Biology and Medicine, Faculty of Biology, Medicine and Health, The University of Manchester, Michael Smith Building, Oxford Road, Manchester, M13 9PT, UK
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Katie Parkinson
3Division of Developmental Biology and Medicine, Faculty of Biology, Medicine and Health, The University of Manchester, Michael Smith Building, Oxford Road, Manchester, M13 9PT, UK
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Rex Chisholm
4Feinberg School of Medicine, Northwestern University, Chicago, Illinois, USA, 60611
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Adrian Harwood
2Cardiff School of Biosciences, Hadyn Ellis Building, Maindy Road, Cardiff University, Cardiff, UK, CF24 4HQ
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Christopher R. L. Thompson
1Centre for Life’s Origins and Evolution, Department of Genetics, Evolution and Environment, University College London, Darwin Building, Gower Street, London, WC1E 6BT, UK
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Abstract

Genomes can be sequenced with relative ease, but ascribing gene function remains a major challenge. Genetically tractable model systems are crucial to meet this challenge. One powerful model is the social amoeba Dictyostelium discoideum, a eukaryotic microbe widely used to study diverse questions in cell, developmental and evolutionary biology. However, its utility is hampered by the inefficiency with which sequence, transcriptome or proteome variation can be linked to phenotype. To address this, we have developed methods (REMI-seq) to (1) generate a near genome-wide resource of individual mutants (2) allow large-scale parallel phenotyping. We demonstrate that integrating these resources allows novel regulators of cell migration, phagocytosis and macropinocytosis to be rapidly identified. Therefore, these methods and resources provide a step change for high throughput gene discovery in a key model system, and the study of genes affecting traits associated with higher eukaryotes.

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Posted March 19, 2019.
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REMI-seq: Development of methods and resources for functional genomics in Dictyostelium
Nicole Gruenheit, Amy Baldwin, Balint Stewart, Sarah Jaques, Thomas Keller, Katie Parkinson, Rex Chisholm, Adrian Harwood, Christopher R. L. Thompson
bioRxiv 582072; doi: https://doi.org/10.1101/582072
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REMI-seq: Development of methods and resources for functional genomics in Dictyostelium
Nicole Gruenheit, Amy Baldwin, Balint Stewart, Sarah Jaques, Thomas Keller, Katie Parkinson, Rex Chisholm, Adrian Harwood, Christopher R. L. Thompson
bioRxiv 582072; doi: https://doi.org/10.1101/582072

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