Characterization of heterotrophic prokaryote subgroups in the Sfax coastal solar salterns by combining flow cytometry cell sorting and phylogenetic analysis
Identifieur interne : 000121 ( Main/Exploration ); précédent : 000120; suivant : 000122Characterization of heterotrophic prokaryote subgroups in the Sfax coastal solar salterns by combining flow cytometry cell sorting and phylogenetic analysis
Auteurs : Hana Trigui [Tunisie, France] ; Salma Masmoudi [Tunisie, France] ; Céline Brochier-Armanet [France] ; Aude Barani [France] ; Gérald Grégori [France] ; Michel Denis [France] ; Sam Dukan [France] ; Sami Maalej [Tunisie]Source :
- Extremophiles [ 1431-0651 ] ; 2011.
Descripteurs français
- KwdFr :
- ADN bactérien (isolement et purification), ADN des archées (isolement et purification), ARN ribosomique 16S (génétique), Alphaproteobacteria (classification), Archéobactéries (classification), Archéobactéries (génétique), Archéobactéries (isolement et purification), Bacteroidetes (classification), Bactéries (classification), Bactéries (génétique), Bactéries (isolement et purification), Biodiversité (MeSH), Cytométrie en flux (MeSH), Eau (composition chimique), Halorubrum (classification), Microbiologie de l'eau (MeSH), Phylogenèse (MeSH), Processus hétérotrophes (MeSH), Ribotypage (MeSH), Salinité (MeSH), Sphingobacterium (classification), Tunisie (MeSH).
- MESH :
- composition chimique : Alphaproteobacteria, Archéobactéries, Bacteroidetes, Bactéries, Eau, Halorubrum, Sphingobacterium.
- génétique : ARN ribosomique 16S, Archéobactéries, Bactéries.
- isolement et purification : ADN bactérien, ADN des archées, Archéobactéries, Bactéries.
- Biodiversité, Cytométrie en flux, Microbiologie de l'eau, Phylogenèse, Processus hétérotrophes, Ribotypage, Salinité, Tunisie.
- Wicri :
- geographic : Tunisie.
English descriptors
- KwdEn :
- Alphaproteobacteria (classification), Archaea (classification), Archaea (genetics), Archaea (isolation & purification), Bacteria (classification), Bacteria (genetics), Bacteria (isolation & purification), Bacteroidetes (classification), Biodiversity (MeSH), DNA, Archaeal (isolation & purification), DNA, Bacterial (isolation & purification), Flow Cytometry (MeSH), Halorubrum (classification), Heterotrophic Processes (MeSH), Phylogeny (MeSH), RNA, Ribosomal, 16S (genetics), Ribotyping (MeSH), Salinity (MeSH), Sphingobacterium (classification), Tunisia (MeSH), Water (chemistry), Water Microbiology (MeSH).
- MESH :
- chemical , chemistry : Water.
- chemical , genetics : RNA, Ribosomal, 16S.
- chemical , isolation & purification : DNA, Archaeal, DNA, Bacterial.
- geographic : Tunisia.
- classification : Alphaproteobacteria, Archaea, Bacteria, Bacteroidetes, Halorubrum, Sphingobacterium.
- genetics : Archaea, Bacteria.
- isolation & purification : Archaea, Bacteria.
- Biodiversity, Flow Cytometry, Heterotrophic Processes, Phylogeny, Ribotyping, Salinity, Water Microbiology.
Abstract
Here, we combined flow cytometry (FCM) and phylogenetic analyses after cell sorting to characterize the dominant groups of the prokaryotic assemblages inhabiting two ponds of increasing salinity: a crystallizer pond (TS) with a salinity of 390 g/L, and the non-crystallizer pond (M1) with a salinity of 200 g/L retrieved from the solar saltern of Sfax in Tunisia. As expected, FCM analysis enabled the resolution of high nucleic acid content (HNA) and low nucleic acid content (LNA) prokaryotes. Next, we performed a taxonomic analysis of the bacterial and archaeal communities comprising the two most populated clusters by phylogenetic analyses of 16S rRNA gene clone library. We show for the first time that the presence of HNA and LNA content cells could also be extended to the archaeal populations.
The online version of this article (doi:10.1007/s00792-011-0364-5) contains supplementary material, which is available to authorized users.
Url:
DOI: 10.1007/s00792-011-0364-5
PubMed: 21424516
PubMed Central: 3084946
Affiliations:
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xml:lang="fr">France</country><wicri:regionArea>Aix-Marseille Université, Laboratoire de Chimie Bactérienne (UPR 9043), Institut de Microbiologie de la Méditerranée (IFR88), CNRS, 31 Chemin Joseph Aiguier, 13402 Marseille Cedex 20</wicri:regionArea></affiliation></author><author><name sortKey="Masmoudi, Salma" sort="Masmoudi, Salma" uniqKey="Masmoudi S" first="Salma" last="Masmoudi">Salma Masmoudi</name><affiliation wicri:level="1"><nlm:aff id="Aff1">Laboratoire de Microbiologie, Faculté des Sciences de Sfax, B.P. 802, 3000 Sfax, Tunisia</nlm:aff><country xml:lang="fr">Tunisie</country><wicri:regionArea>Laboratoire de Microbiologie, Faculté des Sciences de Sfax, B.P. 802, 3000 Sfax</wicri:regionArea></affiliation><affiliation wicri:level="1"><nlm:aff id="Aff2">Centre d’Océanologie de Marseille, Plateforme Régionale de Cytométrie pour la Microbiologie, UMS2196, Université de la Méditerranée, 163 avenue de Luminy, Case 901, 13288 Marseille Cedex 09, France</nlm:aff><country 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Brochier-Armanet</name><affiliation wicri:level="1"><nlm:aff id="Aff4">Aix-Marseille Université, Laboratoire de Chimie Bactérienne (UPR 9043), Institut de Microbiologie de la Méditerranée (IFR88), CNRS, 31 Chemin Joseph Aiguier, 13402 Marseille Cedex 20, France</nlm:aff><country xml:lang="fr">France</country><wicri:regionArea>Aix-Marseille Université, Laboratoire de Chimie Bactérienne (UPR 9043), Institut de Microbiologie de la Méditerranée (IFR88), CNRS, 31 Chemin Joseph Aiguier, 13402 Marseille Cedex 20</wicri:regionArea></affiliation></author><author><name sortKey="Barani, Aude" sort="Barani, Aude" uniqKey="Barani A" first="Aude" last="Barani">Aude Barani</name><affiliation wicri:level="1"><nlm:aff id="Aff2">Centre d’Océanologie de Marseille, Plateforme Régionale de Cytométrie pour la Microbiologie, UMS2196, Université de la Méditerranée, 163 avenue de Luminy, Case 901, 13288 Marseille Cedex 09, France</nlm:aff><country xml:lang="fr">France</country><wicri:regionArea>Centre d’Océanologie de Marseille, Plateforme Régionale de Cytométrie pour la Microbiologie, UMS2196, Université de la Méditerranée, 163 avenue de Luminy, Case 901, 13288 Marseille Cedex 09</wicri:regionArea></affiliation></author><author><name sortKey="Gregori, Gerald" sort="Gregori, Gerald" uniqKey="Gregori G" first="Gérald" last="Grégori">Gérald Grégori</name><affiliation wicri:level="1"><nlm:aff id="Aff3">Centre d’Océanologie de Marseille, Laboratoire de Microbiologie, Géochimie et Ecologie Marines, CNRS UMR6117, Université de la Méditerranée, 163 avenue de Luminy, Case 901, 13288 Marseille Cedex 09, France</nlm:aff><country xml:lang="fr">France</country><wicri:regionArea>Centre d’Océanologie de Marseille, Laboratoire de Microbiologie, Géochimie et Ecologie Marines, CNRS UMR6117, Université de la Méditerranée, 163 avenue de Luminy, Case 901, 13288 Marseille Cedex 09</wicri:regionArea></affiliation></author><author><name sortKey="Denis, Michel" sort="Denis, Michel" uniqKey="Denis M" first="Michel" last="Denis">Michel Denis</name><affiliation wicri:level="1"><nlm:aff id="Aff3">Centre d’Océanologie de Marseille, Laboratoire de Microbiologie, Géochimie et Ecologie Marines, CNRS UMR6117, Université de la Méditerranée, 163 avenue de Luminy, Case 901, 13288 Marseille Cedex 09, France</nlm:aff><country xml:lang="fr">France</country><wicri:regionArea>Centre d’Océanologie de Marseille, Laboratoire de Microbiologie, Géochimie et Ecologie Marines, CNRS UMR6117, Université de la Méditerranée, 163 avenue de Luminy, Case 901, 13288 Marseille Cedex 09</wicri:regionArea></affiliation></author><author><name sortKey="Dukan, Sam" sort="Dukan, Sam" uniqKey="Dukan S" first="Sam" last="Dukan">Sam Dukan</name><affiliation wicri:level="1"><nlm:aff id="Aff4">Aix-Marseille Université, Laboratoire de Chimie Bactérienne (UPR 9043), Institut de Microbiologie de la Méditerranée (IFR88), CNRS, 31 Chemin Joseph Aiguier, 13402 Marseille Cedex 20, France</nlm:aff><country xml:lang="fr">France</country><wicri:regionArea>Aix-Marseille Université, Laboratoire de Chimie Bactérienne (UPR 9043), Institut de Microbiologie de la Méditerranée (IFR88), CNRS, 31 Chemin Joseph Aiguier, 13402 Marseille Cedex 20</wicri:regionArea></affiliation></author><author><name sortKey="Maalej, Sami" sort="Maalej, Sami" uniqKey="Maalej S" first="Sami" last="Maalej">Sami Maalej</name><affiliation wicri:level="1"><nlm:aff id="Aff1">Laboratoire de Microbiologie, Faculté des Sciences de Sfax, B.P. 802, 3000 Sfax, Tunisia</nlm:aff><country xml:lang="fr">Tunisie</country><wicri:regionArea>Laboratoire de Microbiologie, Faculté des Sciences de Sfax, B.P. 802, 3000 Sfax</wicri:regionArea></affiliation></author></analytic><series><title level="j">Extremophiles</title><idno type="ISSN">1431-0651</idno><idno type="eISSN">1433-4909</idno><imprint><date when="2011">2011</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Alphaproteobacteria (classification)</term><term>Archaea (classification)</term><term>Archaea (genetics)</term><term>Archaea (isolation & purification)</term><term>Bacteria (classification)</term><term>Bacteria (genetics)</term><term>Bacteria (isolation & purification)</term><term>Bacteroidetes (classification)</term><term>Biodiversity (MeSH)</term><term>DNA, Archaeal (isolation & purification)</term><term>DNA, Bacterial (isolation & purification)</term><term>Flow Cytometry (MeSH)</term><term>Halorubrum (classification)</term><term>Heterotrophic Processes (MeSH)</term><term>Phylogeny (MeSH)</term><term>RNA, Ribosomal, 16S (genetics)</term><term>Ribotyping (MeSH)</term><term>Salinity (MeSH)</term><term>Sphingobacterium (classification)</term><term>Tunisia (MeSH)</term><term>Water (chemistry)</term><term>Water Microbiology (MeSH)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>ADN bactérien (isolement et purification)</term><term>ADN des archées (isolement et purification)</term><term>ARN ribosomique 16S (génétique)</term><term>Alphaproteobacteria (classification)</term><term>Archéobactéries (classification)</term><term>Archéobactéries (génétique)</term><term>Archéobactéries (isolement et purification)</term><term>Bacteroidetes (classification)</term><term>Bactéries (classification)</term><term>Bactéries (génétique)</term><term>Bactéries (isolement et purification)</term><term>Biodiversité (MeSH)</term><term>Cytométrie en flux (MeSH)</term><term>Eau (composition chimique)</term><term>Halorubrum (classification)</term><term>Microbiologie de l'eau (MeSH)</term><term>Phylogenèse (MeSH)</term><term>Processus hétérotrophes (MeSH)</term><term>Ribotypage (MeSH)</term><term>Salinité (MeSH)</term><term>Sphingobacterium (classification)</term><term>Tunisie (MeSH)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="chemistry" xml:lang="en"><term>Water</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>RNA, Ribosomal, 16S</term></keywords><keywords scheme="MESH" type="chemical" qualifier="isolation & purification" xml:lang="en"><term>DNA, Archaeal</term><term>DNA, Bacterial</term></keywords><keywords scheme="MESH" type="geographic" xml:lang="en"><term>Tunisia</term></keywords><keywords scheme="MESH" qualifier="classification" xml:lang="en"><term>Alphaproteobacteria</term><term>Archaea</term><term>Bacteria</term><term>Bacteroidetes</term><term>Halorubrum</term><term>Sphingobacterium</term></keywords><keywords scheme="MESH" qualifier="composition chimique" xml:lang="fr"><term>Alphaproteobacteria</term><term>Archéobactéries</term><term>Bacteroidetes</term><term>Bactéries</term><term>Eau</term><term>Halorubrum</term><term>Sphingobacterium</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Archaea</term><term>Bacteria</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>ARN ribosomique 16S</term><term>Archéobactéries</term><term>Bactéries</term></keywords><keywords scheme="MESH" qualifier="isolation & purification" xml:lang="en"><term>Archaea</term><term>Bacteria</term></keywords><keywords scheme="MESH" qualifier="isolement et purification" xml:lang="fr"><term>ADN bactérien</term><term>ADN des archées</term><term>Archéobactéries</term><term>Bactéries</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Biodiversity</term><term>Flow Cytometry</term><term>Heterotrophic Processes</term><term>Phylogeny</term><term>Ribotyping</term><term>Salinity</term><term>Water Microbiology</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Biodiversité</term><term>Cytométrie en flux</term><term>Microbiologie de l'eau</term><term>Phylogenèse</term><term>Processus hétérotrophes</term><term>Ribotypage</term><term>Salinité</term><term>Tunisie</term></keywords><keywords scheme="Wicri" type="geographic" xml:lang="fr"><term>Tunisie</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>Here, we combined flow cytometry (FCM) and phylogenetic analyses after cell sorting to characterize the dominant groups of the prokaryotic assemblages inhabiting two ponds of increasing salinity: a crystallizer pond (TS) with a salinity of 390 g/L, and the non-crystallizer pond (M1) with a salinity of 200 g/L retrieved from the solar saltern of Sfax in Tunisia. As expected, FCM analysis enabled the resolution of high nucleic acid content (HNA) and low nucleic acid content (LNA) prokaryotes. Next, we performed a taxonomic analysis of the bacterial and archaeal communities comprising the two most populated clusters by phylogenetic analyses of 16S rRNA gene clone library. We show for the first time that the presence of HNA and LNA content cells could also be extended to the archaeal populations. <italic>Archaea</italic> were detected in all M1 and TS samples, whereas representatives of <italic>Bacteria</italic> were detected only in LNA for M1 and HNA for TS. Although most of the archaeal sequences remained undetermined, other clones were most frequently affiliated to <italic>Haloquadratum</italic> and <italic>Halorubrum</italic>. In contrast, most bacterial clones belonged to the <italic>Alphaproteobacteria</italic> class (<italic>Phyllobacterium</italic> genus) in M1 samples and to the <italic>Bacteroidetes</italic> phylum (<italic>Sphingobacteria</italic> and <italic>Salinibacter</italic> genus) in TS samples.</p><sec><title>Electronic supplementary material</title><p>The online version of this article (doi:10.1007/s00792-011-0364-5) contains supplementary material, which is available to authorized users.</p></sec></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Alavi, M" uniqKey="Alavi M">M Alavi</name></author><author><name sortKey="Miller, T" uniqKey="Miller T">T Miller</name></author><author><name sortKey="Erlandson, K" uniqKey="Erlandson K">K Erlandson</name></author><author><name sortKey="Schneider, R" uniqKey="Schneider R">R Schneider</name></author><author><name sortKey="Belas, R" uniqKey="Belas R">R 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Amann</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Zubkov, Mv" uniqKey="Zubkov M">MV Zubkov</name></author><author><name sortKey="Fuchs, Bm" uniqKey="Fuchs B">BM Fuchs</name></author><author><name sortKey="Tarran, Ga" uniqKey="Tarran G">GA Tarran</name></author><author><name sortKey="Burkill, Ph" uniqKey="Burkill P">PH Burkill</name></author><author><name sortKey="Amann, R" uniqKey="Amann R">R Amann</name></author></analytic></biblStruct></listBibl></div1></back></TEI><affiliations><list><country><li>France</li><li>Tunisie</li></country></list><tree><country name="Tunisie"><noRegion><name sortKey="Trigui, Hana" sort="Trigui, Hana" uniqKey="Trigui H" first="Hana" last="Trigui">Hana Trigui</name></noRegion><name sortKey="Maalej, Sami" sort="Maalej, Sami" uniqKey="Maalej S" first="Sami" last="Maalej">Sami Maalej</name><name sortKey="Masmoudi, Salma" sort="Masmoudi, Salma" uniqKey="Masmoudi S" first="Salma" last="Masmoudi">Salma Masmoudi</name></country><country name="France"><noRegion><name sortKey="Trigui, Hana" sort="Trigui, Hana" uniqKey="Trigui H" first="Hana" last="Trigui">Hana Trigui</name></noRegion><name sortKey="Barani, Aude" sort="Barani, Aude" uniqKey="Barani A" first="Aude" last="Barani">Aude Barani</name><name sortKey="Brochier Armanet, Celine" sort="Brochier Armanet, Celine" uniqKey="Brochier Armanet C" first="Céline" last="Brochier-Armanet">Céline Brochier-Armanet</name><name sortKey="Denis, Michel" sort="Denis, Michel" uniqKey="Denis M" first="Michel" last="Denis">Michel Denis</name><name sortKey="Dukan, Sam" sort="Dukan, Sam" uniqKey="Dukan S" first="Sam" last="Dukan">Sam Dukan</name><name sortKey="Gregori, Gerald" sort="Gregori, Gerald" uniqKey="Gregori G" first="Gérald" last="Grégori">Gérald Grégori</name><name sortKey="Masmoudi, Salma" sort="Masmoudi, Salma" uniqKey="Masmoudi S" first="Salma" last="Masmoudi">Salma Masmoudi</name><name sortKey="Masmoudi, Salma" sort="Masmoudi, Salma" uniqKey="Masmoudi S" first="Salma" last="Masmoudi">Salma Masmoudi</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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