Conference paper Open Access

Optimal control of an artificial microbial differentiation system for protein bioproduction

Weill, Élise; Andréani, Virgile; Aditya, Chetan; Martinon, Pierre; Ruess, Jakob; Batt, Grégory; Bonnans, Frédéric


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  <identifier identifierType="URL">https://zenodo.org/record/4836268</identifier>
  <creators>
    <creator>
      <creatorName>Weill, Élise</creatorName>
      <givenName>Élise</givenName>
      <familyName>Weill</familyName>
      <affiliation>Inria Saclay Ile-de-France, Institut Pasteur and CNRS, C3BI - USR, Paris, France</affiliation>
    </creator>
    <creator>
      <creatorName>Andréani, Virgile</creatorName>
      <givenName>Virgile</givenName>
      <familyName>Andréani</familyName>
      <affiliation>Inria Saclay Ile-de-France, Institut Pasteur and CNRS, C3BI - USR, Paris, France</affiliation>
    </creator>
    <creator>
      <creatorName>Aditya, Chetan</creatorName>
      <givenName>Chetan</givenName>
      <familyName>Aditya</familyName>
      <affiliation>Inria Saclay Ile-de-France, Institut Pasteur and CNRS, C3BI - USR, Paris, France</affiliation>
    </creator>
    <creator>
      <creatorName>Martinon, Pierre</creatorName>
      <givenName>Pierre</givenName>
      <familyName>Martinon</familyName>
      <affiliation>CMAP, Université Paris Saclay, Saclay, France</affiliation>
    </creator>
    <creator>
      <creatorName>Ruess, Jakob</creatorName>
      <givenName>Jakob</givenName>
      <familyName>Ruess</familyName>
      <affiliation>Inria Saclay Ile-de-France, Institut Pasteur and CNRS, C3BI - USR, Paris, France</affiliation>
    </creator>
    <creator>
      <creatorName>Batt, Grégory</creatorName>
      <givenName>Grégory</givenName>
      <familyName>Batt</familyName>
      <affiliation>Inria Saclay Ile-de-France, Institut Pasteur and CNRS, C3BI - USR, Paris, France</affiliation>
    </creator>
    <creator>
      <creatorName>Bonnans, Frédéric</creatorName>
      <givenName>Frédéric</givenName>
      <familyName>Bonnans</familyName>
      <affiliation>CMAP, Université Paris Saclay, Saclay, France</affiliation>
    </creator>
  </creators>
  <titles>
    <title>Optimal control of an artificial microbial differentiation system for protein bioproduction</title>
  </titles>
  <publisher>Zenodo</publisher>
  <publicationYear>2019</publicationYear>
  <dates>
    <date dateType="Issued">2019-08-15</date>
  </dates>
  <resourceType resourceTypeGeneral="Text">Conference paper</resourceType>
  <alternateIdentifiers>
    <alternateIdentifier alternateIdentifierType="url">https://zenodo.org/record/4836268</alternateIdentifier>
  </alternateIdentifiers>
  <relatedIdentifiers>
    <relatedIdentifier relatedIdentifierType="DOI" relationType="IsIdenticalTo">10.23919/ECC.2019.8795858</relatedIdentifier>
    <relatedIdentifier relatedIdentifierType="URL" relationType="IsPartOf">https://zenodo.org/communities/cosy-bio</relatedIdentifier>
  </relatedIdentifiers>
  <rightsList>
    <rights rightsURI="https://creativecommons.org/licenses/by/4.0/legalcode">Creative Commons Attribution 4.0 International</rights>
    <rights rightsURI="info:eu-repo/semantics/openAccess">Open Access</rights>
  </rightsList>
  <descriptions>
    <description descriptionType="Abstract">&lt;p&gt;Abstract&lt;/p&gt;

&lt;p&gt;The production of recombinant proteins is a problem of significant interest in bioengineering. Because of the existing trade-off between cellular growth and protein production, these two processes are separated in time in most commonly-employed strategies: a growth phase is followed by a production phase. Here, we investigate the potential of an alternative strategy using artificial cell specialization and differentiation systems in which cells either grow (&amp;ldquo;growers&amp;rdquo;) or produce proteins (&amp;ldquo;producers&amp;rdquo;) and growers can irreversibly &amp;ldquo;differentiate&amp;rdquo; into producers. Inspired by an existing two-population system implemented in yeast, we propose a model of a &amp;ldquo;yeast synthetic stem cell system&amp;rdquo; and define an optimal control problem to maximize bioproduction. Analytically, we first establish the well-posedness of the problem. Then, we prove the existence of an optimal control and derive non trivial optimality conditions. We finally use these results to find numerical optimal solutions. We conclude by a discussion of extensions of this work to models that capture the heterogeneity of the cell response to differentiation signals.&lt;/p&gt;</description>
    <description descriptionType="Other">This is a preprint of the conference paper published in "2019 18th European Control Conference (ECC)"</description>
  </descriptions>
  <fundingReferences>
    <fundingReference>
      <funderName>European Commission</funderName>
      <funderIdentifier funderIdentifierType="Crossref Funder ID">10.13039/501100000780</funderIdentifier>
      <awardNumber awardURI="info:eu-repo/grantAgreement/EC/H2020/766840/">766840</awardNumber>
      <awardTitle>Control Engineering of Biological Systems for Reliable Synthetic Biology Applications</awardTitle>
    </fundingReference>
  </fundingReferences>
</resource>
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