Digital microfluidics for growing unculturable microorganisms
Identifieur interne : 000044 ( France/Analysis ); précédent : 000043; suivant : 000045Digital microfluidics for growing unculturable microorganisms
Auteurs : Mathieu De La Motte Saint Pierre [France]Source :
Descripteurs français
English descriptors
Abstract
Soil is the natural medium containing the highest microbial diversity (109 cells from 104 different species per gram of soil). Yet we still can’t grow in laboratory more than 5 % of them. Having access to this diversity will lead to crucial applications for farming (production of organic fertilizers or environmentally friendly pesticides) and to pharmacology (discovery of new antibiotics or new anticancer molecules). This work focuses on the study of growth of non culturable micro-organisms from natural samples, like soil. This method uses microfluidics droplets as microreactors to obtain the growth of microbial species encapsulated inside. The first step is to achieve a solution with nothing but the microbes from our natural sample (no minerals) for a successful encapsulation and obtain diversity as close to the one found in the soil. The second step is to encapsulate the cells from this solution with different set of condition like : initial concentration, growth media and incubation time. By coupling observation of the droplets after growth and the rRNA 16S sequencing of their content we demonstrate that it is possible to obtain the growth of up to 40 % of the species. This microfluidic method, besides its use in growing unculturable species in laboratory, opens the way towards high-throughput screening of interactions between a given species (human or plant pathogens, phage/virus) and the microbiota it is likely to contaminate (gut flora, soil, sea …) and obtain the quantitative determination the reaction of microbiota.
Url:
Affiliations:
Links toward previous steps (curation, corpus...)
- to stream Hal, to step Corpus: 000007
- to stream Hal, to step Curation: 000007
- to stream Hal, to step Checkpoint: 000006
- to stream Main, to step Merge: 000B08
- to stream Main, to step Curation: 000B05
- to stream Main, to step Exploration: 000B05
- to stream France, to step Extraction: 000044
Links to Exploration step
Hal:tel-02337717Le document en format XML
<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Digital microfluidics for growing unculturable microorganisms</title>
<title xml:lang="fr">Microfluidique digitale pour la croissance de micro-organismes difficiles à cultiver</title>
<author><name sortKey="De La Motte Saint Pierre, Mathieu" sort="De La Motte Saint Pierre, Mathieu" uniqKey="De La Motte Saint Pierre M" first="Mathieu" last="De La Motte Saint Pierre">Mathieu De La Motte Saint Pierre</name>
<affiliation wicri:level="1"><hal:affiliation type="laboratory" xml:id="struct-252892" status="VALID"> <orgName>Chimie-Biologie-Innovation</orgName>
<orgName type="acronym">CBI</orgName>
<desc> <address> <addrLine>10 rue Vauquelin 75231 Paris Cedex 05</addrLine>
<country key="FR"></country>
</address>
<ref type="url">http://www.lbc.espci.fr/</ref>
</desc>
<listRelation> <relation name="UMR8231" active="#struct-441569" type="direct"></relation>
<relation active="#struct-564134" type="direct"></relation>
<relation active="#struct-564132" type="indirect"></relation>
<relation name="UMR8231" active="#struct-413221" type="direct"></relation>
</listRelation>
<tutelles><tutelle name="UMR8231" active="#struct-441569" type="direct"><org type="institution" xml:id="struct-441569" status="VALID"> <idno type="ISNI">0000000122597504</idno>
<idno type="IdRef">02636817X</idno>
<orgName>Centre National de la Recherche Scientifique</orgName>
<orgName type="acronym">CNRS</orgName>
<date type="start">1939-10-19</date>
<desc> <address> <country key="FR"></country>
</address>
<ref type="url">http://www.cnrs.fr/</ref>
</desc>
</org>
</tutelle>
<tutelle active="#struct-564134" type="direct"><org type="institution" xml:id="struct-564134" status="VALID"> <orgName>Ecole Supérieure de Physique et de Chimie Industrielles de la Ville de Paris</orgName>
<orgName type="acronym">ESPCI Paris</orgName>
<date type="start">2016-06-01</date>
<desc> <address> <addrLine>10 rue Vauquelin, 75005 Paris</addrLine>
<country key="FR"></country>
</address>
</desc>
<listRelation> <relation active="#struct-564132" type="direct"></relation>
</listRelation>
</org>
</tutelle>
<tutelle active="#struct-564132" type="indirect"><org type="regroupinstitution" xml:id="struct-564132" status="VALID"> <orgName>Université Paris-Sciences-et-Lettres</orgName>
<orgName type="acronym">https://www.psl.eu/</orgName>
<date type="start">2015-01-01</date>
<desc> <address> <addrLine>60 rue Mazarine75006 ParisTel:(33)1.85.76.08.70 </addrLine>
<country key="FR"></country>
</address>
<ref type="url">https://www.psl.eu/</ref>
</desc>
</org>
</tutelle>
<tutelle name="UMR8231" active="#struct-413221" type="direct"><org type="institution" xml:id="struct-413221" status="VALID"> <orgName>Sorbonne Université</orgName>
<orgName type="acronym">SU</orgName>
<date type="start">2018-01-01</date>
<desc> <address> <addrLine>21 rue de l’École de médecine - 75006 Paris</addrLine>
<country key="FR"></country>
</address>
<ref type="url">http://www.sorbonne-universite.fr/</ref>
</desc>
</org>
</tutelle>
</tutelles>
</hal:affiliation>
<country>France</country>
</affiliation>
</author>
</titleStmt>
<publicationStmt><idno type="wicri:source">HAL</idno>
<idno type="RBID">Hal:tel-02337717</idno>
<idno type="halId">tel-02337717</idno>
<idno type="halUri">https://pastel.archives-ouvertes.fr/tel-02337717</idno>
<idno type="url">https://pastel.archives-ouvertes.fr/tel-02337717</idno>
<date when="2017-12-11">2017-12-11</date>
<idno type="wicri:Area/Hal/Corpus">000007</idno>
<idno type="wicri:Area/Hal/Curation">000007</idno>
<idno type="wicri:Area/Hal/Checkpoint">000006</idno>
<idno type="wicri:explorRef" wicri:stream="Hal" wicri:step="Checkpoint">000006</idno>
<idno type="wicri:Area/Main/Merge">000B08</idno>
<idno type="wicri:Area/Main/Curation">000B05</idno>
<idno type="wicri:Area/Main/Exploration">000B05</idno>
<idno type="wicri:Area/France/Extraction">000044</idno>
</publicationStmt>
<sourceDesc><biblStruct><analytic><title xml:lang="en">Digital microfluidics for growing unculturable microorganisms</title>
<title xml:lang="fr">Microfluidique digitale pour la croissance de micro-organismes difficiles à cultiver</title>
<author><name sortKey="De La Motte Saint Pierre, Mathieu" sort="De La Motte Saint Pierre, Mathieu" uniqKey="De La Motte Saint Pierre M" first="Mathieu" last="De La Motte Saint Pierre">Mathieu De La Motte Saint Pierre</name>
<affiliation wicri:level="1"><hal:affiliation type="laboratory" xml:id="struct-252892" status="VALID"> <orgName>Chimie-Biologie-Innovation</orgName>
<orgName type="acronym">CBI</orgName>
<desc> <address> <addrLine>10 rue Vauquelin 75231 Paris Cedex 05</addrLine>
<country key="FR"></country>
</address>
<ref type="url">http://www.lbc.espci.fr/</ref>
</desc>
<listRelation> <relation name="UMR8231" active="#struct-441569" type="direct"></relation>
<relation active="#struct-564134" type="direct"></relation>
<relation active="#struct-564132" type="indirect"></relation>
<relation name="UMR8231" active="#struct-413221" type="direct"></relation>
</listRelation>
<tutelles><tutelle name="UMR8231" active="#struct-441569" type="direct"><org type="institution" xml:id="struct-441569" status="VALID"> <idno type="ISNI">0000000122597504</idno>
<idno type="IdRef">02636817X</idno>
<orgName>Centre National de la Recherche Scientifique</orgName>
<orgName type="acronym">CNRS</orgName>
<date type="start">1939-10-19</date>
<desc> <address> <country key="FR"></country>
</address>
<ref type="url">http://www.cnrs.fr/</ref>
</desc>
</org>
</tutelle>
<tutelle active="#struct-564134" type="direct"><org type="institution" xml:id="struct-564134" status="VALID"> <orgName>Ecole Supérieure de Physique et de Chimie Industrielles de la Ville de Paris</orgName>
<orgName type="acronym">ESPCI Paris</orgName>
<date type="start">2016-06-01</date>
<desc> <address> <addrLine>10 rue Vauquelin, 75005 Paris</addrLine>
<country key="FR"></country>
</address>
</desc>
<listRelation> <relation active="#struct-564132" type="direct"></relation>
</listRelation>
</org>
</tutelle>
<tutelle active="#struct-564132" type="indirect"><org type="regroupinstitution" xml:id="struct-564132" status="VALID"> <orgName>Université Paris-Sciences-et-Lettres</orgName>
<orgName type="acronym">https://www.psl.eu/</orgName>
<date type="start">2015-01-01</date>
<desc> <address> <addrLine>60 rue Mazarine75006 ParisTel:(33)1.85.76.08.70 </addrLine>
<country key="FR"></country>
</address>
<ref type="url">https://www.psl.eu/</ref>
</desc>
</org>
</tutelle>
<tutelle name="UMR8231" active="#struct-413221" type="direct"><org type="institution" xml:id="struct-413221" status="VALID"> <orgName>Sorbonne Université</orgName>
<orgName type="acronym">SU</orgName>
<date type="start">2018-01-01</date>
<desc> <address> <addrLine>21 rue de l’École de médecine - 75006 Paris</addrLine>
<country key="FR"></country>
</address>
<ref type="url">http://www.sorbonne-universite.fr/</ref>
</desc>
</org>
</tutelle>
</tutelles>
</hal:affiliation>
<country>France</country>
</affiliation>
</author>
</analytic>
</biblStruct>
</sourceDesc>
</fileDesc>
<profileDesc><textClass><keywords scheme="mix" xml:lang="en"><term>Diversity</term>
<term>Encapsulation</term>
<term>Microfluidics</term>
<term>Microorganisms</term>
<term>Non-Culturable</term>
<term>Soil</term>
</keywords>
<keywords scheme="mix" xml:lang="fr"><term>Diversité</term>
<term>Encapsulation</term>
<term>Incultivable</term>
<term>Micro-Organismes</term>
<term>Microfluidique</term>
<term>Sol</term>
</keywords>
</textClass>
</profileDesc>
</teiHeader>
<front><div type="abstract" xml:lang="en"> <p>Soil is the natural medium containing the highest microbial diversity (109 cells from 104 different species per gram of soil). Yet we still can’t grow in laboratory more than 5 % of them. Having access to this diversity will lead to crucial applications for farming (production of organic fertilizers or environmentally friendly pesticides) and to pharmacology (discovery of new antibiotics or new anticancer molecules). This work focuses on the study of growth of non culturable micro-organisms from natural samples, like soil. This method uses microfluidics droplets as microreactors to obtain the growth of microbial species encapsulated inside. The first step is to achieve a solution with nothing but the microbes from our natural sample (no minerals) for a successful encapsulation and obtain diversity as close to the one found in the soil. The second step is to encapsulate the cells from this solution with different set of condition like : initial concentration, growth media and incubation time. By coupling observation of the droplets after growth and the rRNA 16S sequencing of their content we demonstrate that it is possible to obtain the growth of up to 40 % of the species. This microfluidic method, besides its use in growing unculturable species in laboratory, opens the way towards high-throughput screening of interactions between a given species (human or plant pathogens, phage/virus) and the microbiota it is likely to contaminate (gut flora, soil, sea …) and obtain the quantitative determination the reaction of microbiota.</p>
</div>
</front>
</TEI>
<affiliations><list><country><li>France</li>
</country>
</list>
<tree><country name="France"><noRegion><name sortKey="De La Motte Saint Pierre, Mathieu" sort="De La Motte Saint Pierre, Mathieu" uniqKey="De La Motte Saint Pierre M" first="Mathieu" last="De La Motte Saint Pierre">Mathieu De La Motte Saint Pierre</name>
</noRegion>
</country>
</tree>
</affiliations>
</record>
Pour manipuler ce document sous Unix (Dilib)
EXPLOR_STEP=$WICRI_ROOT/Sante/explor/MersV1/Data/France/Analysis
HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 000044 | SxmlIndent | more
Ou
HfdSelect -h $EXPLOR_AREA/Data/France/Analysis/biblio.hfd -nk 000044 | SxmlIndent | more
Pour mettre un lien sur cette page dans le réseau Wicri
{{Explor lien |wiki= Sante |area= MersV1 |flux= France |étape= Analysis |type= RBID |clé= Hal:tel-02337717 |texte= Digital microfluidics for growing unculturable microorganisms }}
This area was generated with Dilib version V0.6.33. |