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dc.contributor.author
Marinkovic, Zoran S.
dc.contributor.author
Vulin, Clément
dc.contributor.author
Acman, Mislav
dc.contributor.author
Song, Xiaohu
dc.contributor.author
Di Meglio, Jean M.
dc.contributor.author
Lindner, Ariel B.
dc.contributor.author
Hersen, Pascal
dc.date.accessioned
2021-03-26T16:17:53Z
dc.date.available
2021-02-05T04:09:35Z
dc.date.available
2021-02-17T09:48:43Z
dc.date.available
2021-03-26T16:17:53Z
dc.date.issued
2020
dc.identifier.issn
2331-8325
dc.identifier.other
10.21769/BioProtoc.3668
en_US
dc.identifier.uri
http://hdl.handle.net/20.500.11850/467901
dc.description.abstract
The natural environment of microbial cells like bacteria and yeast is often a complex community in which growth and internal organization reflect morphogenetic processes and interactions that are dependent on spatial position and time. While most of research is performed in simple homogeneous environments (e.g., bulk liquid cultures), which cannot capture full spatiotemporal community dynamics, studying biofilms or colonies is complex and usually does not give access to the spatiotemporal dynamics at single cell level. Here, we detail a protocol for generation of a microfluidic device, the "yeast machine", with arrays of long monolayers of yeast colonies to advance the global understanding of how intercellular metabolic interactions affect the internal structure of colonies within defined and customizable spatial dimensions. With Saccharomyces cerevisiae as a model yeast system we used the "yeast machine" to demonstrate the emergence of glucose gradients by following expression of fluorescently labelled hexose transporters. We further quantified the expression spatial patterns with intra-colony growth rates and expression of other genes regulated by glucose availability. In addition to this, we showed that gradients of amino acids also form within a colony, potentially opening similar approaches to study spatiotemporal formation of gradients of many other nutrients and metabolic waste products. This approach could be used in the future to decipher the interplay between long-range metabolic interactions, cellular development, and morphogenesis in other same species or more complex multi-species systems at single-cell resolution and timescales relevant to ecology and evolution.
en_US
dc.language.iso
en
en_US
dc.publisher
Bio-protocol
en_US
dc.subject
Yeast colony
en_US
dc.subject
Microfluidics
en_US
dc.subject
Gene expression
en_US
dc.subject
Spatial organization
en_US
dc.subject
Metabolism
en_US
dc.subject
Microbial ecology
en_US
dc.subject
Emerging properties
en_US
dc.title
Observing Nutrient Gradients, Gene Expression and Growth Variation Using the "Yeast Machine" Microfluidic Device
en_US
dc.type
Journal Article
dc.date.published
2020-07-05
ethz.journal.title
Bio-protocol
ethz.journal.volume
10
en_US
ethz.journal.issue
13
en_US
ethz.pages.start
e3668
en_US
ethz.size
16 p.
en_US
ethz.identifier.wos
ethz.publication.place
Sunnyvale, CA
en_US
ethz.publication.status
published
en_US
ethz.date.deposited
2021-02-05T04:09:40Z
ethz.source
WOS
ethz.eth
yes
en_US
ethz.availability
Metadata only
en_US
ethz.rosetta.installDate
2021-03-26T16:18:04Z
ethz.rosetta.lastUpdated
2021-03-26T16:18:04Z
ethz.rosetta.versionExported
true
ethz.COinS
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