Microbial Consortium Associated with the Antarctic Marine Ciliate Euplotes focardii: An Investigation from Genomic Sequences
Identifieur interne : 000084 ( Pmc/Checkpoint ); précédent : 000083; suivant : 000085Microbial Consortium Associated with the Antarctic Marine Ciliate Euplotes focardii: An Investigation from Genomic Sequences
Auteurs : Sandra Pucciarelli [Italie] ; Raghul Rajan Devaraj [Italie] ; Alessio Mancini [Italie] ; Patrizia Ballarini [Italie] ; Michele Castelli [Italie] ; Martina Schrallhammer [Allemagne] ; Giulio Petroni [Italie] ; Cristina Miceli [Italie]Source :
- Microbial Ecology [ 0095-3628 ] ; 2015.
Abstract
We report the characterization of the bacterial consortium associated to
The online version of this article (doi:10.1007/s00248-015-0568-9) contains supplementary material, which is available to authorized users.
Url:
DOI: 10.1007/s00248-015-0568-9
PubMed: 25704316
PubMed Central: 4494151
Affiliations:
- Allemagne, Italie
- Bade-Wurtemberg, District de Fribourg-en-Brisgau, Toscane
- Fribourg-en-Brisgau, Pise
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PMC:4494151Le document en format XML
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<sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Microbial Consortium Associated with the Antarctic Marine Ciliate <italic>Euplotes focardii</italic>
: An Investigation from Genomic Sequences</title>
<author><name sortKey="Pucciarelli, Sandra" sort="Pucciarelli, Sandra" uniqKey="Pucciarelli S" first="Sandra" last="Pucciarelli">Sandra Pucciarelli</name>
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<series><title level="j">Microbial Ecology</title>
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<front><div type="abstract" xml:lang="en"><p>We report the characterization of the bacterial consortium associated to <italic>Euplotes focardii</italic>
, a strictly psychrophilic marine ciliate that was maintained in laboratory cultures at 4 °C after its first isolation from Terra Nova Bay, in Antarctica. By Illumina genome analyser, we obtained 11,179 contigs of potential prokaryotic origin and classified them according to the NCBI’s prokaryotic attributes table. The majority of these sequences correspond to either <italic>Bacteroidetes</italic>
(16 %) or <italic>Proteobacteria</italic>
(78 %). The latter were dominated by gamma- (39 %, including sequences related to the pathogenic genus <italic>Francisella</italic>
), and alpha-proteobacterial (30 %) sequences. Analysis of the Pfam domain family and Gene Ontology term variation revealed that the most frequent terms that appear unique to this consortium correspond to proteins involved in “transmembrane transporter activity” and “oxidoreductase activity”. Furthermore, we identified genes that encode for enzymes involved in the catabolism of complex substance for energy reserves. We also characterized members of the transposase and integrase superfamilies, whose role in bacterial evolution is well documented, as well as putative antifreeze proteins. Antibiotic treatments of <italic>E. focardii</italic>
cultures delayed the cell division of the ciliate. To conclude, our results indicate that this consortium is largely represented by bacteria derived from the original Antarctic sample and may contribute to the survival of <italic>E. focardii</italic>
in laboratory condition. Furthermore, our results suggest that these bacteria may have a more general role in <italic>E. focardii</italic>
survival in its natural cold and oxidative environment.</p>
<sec><title>Electronic supplementary material</title>
<p>The online version of this article (doi:10.1007/s00248-015-0568-9) contains supplementary material, which is available to authorized users.</p>
</sec>
</div>
</front>
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<pmc article-type="research-article"><pmc-dir>properties open_access</pmc-dir>
<front><journal-meta><journal-id journal-id-type="nlm-ta">Microb Ecol</journal-id>
<journal-id journal-id-type="iso-abbrev">Microb. Ecol</journal-id>
<journal-title-group><journal-title>Microbial Ecology</journal-title>
</journal-title-group>
<issn pub-type="ppub">0095-3628</issn>
<issn pub-type="epub">1432-184X</issn>
<publisher><publisher-name>Springer US</publisher-name>
<publisher-loc>New York</publisher-loc>
</publisher>
</journal-meta>
<article-meta><article-id pub-id-type="pmid">25704316</article-id>
<article-id pub-id-type="pmc">4494151</article-id>
<article-id pub-id-type="publisher-id">568</article-id>
<article-id pub-id-type="doi">10.1007/s00248-015-0568-9</article-id>
<article-categories><subj-group subj-group-type="heading"><subject>Genes and Genomes</subject>
</subj-group>
</article-categories>
<title-group><article-title>Microbial Consortium Associated with the Antarctic Marine Ciliate <italic>Euplotes focardii</italic>
: An Investigation from Genomic Sequences</article-title>
</title-group>
<contrib-group><contrib contrib-type="author" corresp="yes"><name><surname>Pucciarelli</surname>
<given-names>Sandra</given-names>
</name>
<address><phone>+39 0737 403276</phone>
<email>sandra.pucciarelli@unicam.it</email>
</address>
<xref ref-type="aff" rid="Aff1"></xref>
</contrib>
<contrib contrib-type="author"><name><surname>Devaraj</surname>
<given-names>Raghul Rajan</given-names>
</name>
<xref ref-type="aff" rid="Aff1"></xref>
</contrib>
<contrib contrib-type="author"><name><surname>Mancini</surname>
<given-names>Alessio</given-names>
</name>
<xref ref-type="aff" rid="Aff1"></xref>
</contrib>
<contrib contrib-type="author"><name><surname>Ballarini</surname>
<given-names>Patrizia</given-names>
</name>
<xref ref-type="aff" rid="Aff1"></xref>
</contrib>
<contrib contrib-type="author"><name><surname>Castelli</surname>
<given-names>Michele</given-names>
</name>
<xref ref-type="aff" rid="Aff2"></xref>
</contrib>
<contrib contrib-type="author"><name><surname>Schrallhammer</surname>
<given-names>Martina</given-names>
</name>
<xref ref-type="aff" rid="Aff3"></xref>
</contrib>
<contrib contrib-type="author"><name><surname>Petroni</surname>
<given-names>Giulio</given-names>
</name>
<xref ref-type="aff" rid="Aff2"></xref>
</contrib>
<contrib contrib-type="author"><name><surname>Miceli</surname>
<given-names>Cristina</given-names>
</name>
<xref ref-type="aff" rid="Aff1"></xref>
</contrib>
<aff id="Aff1"><label></label>
School of Biosciences and Veterinary Medicine, University of Camerino, Camerino, 62032 Italy</aff>
<aff id="Aff2"><label></label>
Department of Biology, University of Pisa, Pisa, 56126 Italy</aff>
<aff id="Aff3"><label></label>
Institute of Biology II, University of Freiburg, Freiburg, 79104 Germany</aff>
</contrib-group>
<pub-date pub-type="epub"><day>24</day>
<month>2</month>
<year>2015</year>
</pub-date>
<pub-date pub-type="pmc-release"><day>24</day>
<month>2</month>
<year>2015</year>
</pub-date>
<pub-date pub-type="ppub"><year>2015</year>
</pub-date>
<volume>70</volume>
<issue>2</issue>
<fpage>484</fpage>
<lpage>497</lpage>
<history><date date-type="received"><day>13</day>
<month>6</month>
<year>2014</year>
</date>
<date date-type="accepted"><day>8</day>
<month>1</month>
<year>2015</year>
</date>
</history>
<permissions><copyright-statement>© The Author(s) 2015</copyright-statement>
<license license-type="OpenAccess"><license-p><bold>Open Access</bold>
This article is distributed under the terms of the Creative Commons Attribution License which permits any use, distribution, and reproduction in any medium, provided the original author(s) and the source are credited.</license-p>
</license>
</permissions>
<abstract id="Abs1"><p>We report the characterization of the bacterial consortium associated to <italic>Euplotes focardii</italic>
, a strictly psychrophilic marine ciliate that was maintained in laboratory cultures at 4 °C after its first isolation from Terra Nova Bay, in Antarctica. By Illumina genome analyser, we obtained 11,179 contigs of potential prokaryotic origin and classified them according to the NCBI’s prokaryotic attributes table. The majority of these sequences correspond to either <italic>Bacteroidetes</italic>
(16 %) or <italic>Proteobacteria</italic>
(78 %). The latter were dominated by gamma- (39 %, including sequences related to the pathogenic genus <italic>Francisella</italic>
), and alpha-proteobacterial (30 %) sequences. Analysis of the Pfam domain family and Gene Ontology term variation revealed that the most frequent terms that appear unique to this consortium correspond to proteins involved in “transmembrane transporter activity” and “oxidoreductase activity”. Furthermore, we identified genes that encode for enzymes involved in the catabolism of complex substance for energy reserves. We also characterized members of the transposase and integrase superfamilies, whose role in bacterial evolution is well documented, as well as putative antifreeze proteins. Antibiotic treatments of <italic>E. focardii</italic>
cultures delayed the cell division of the ciliate. To conclude, our results indicate that this consortium is largely represented by bacteria derived from the original Antarctic sample and may contribute to the survival of <italic>E. focardii</italic>
in laboratory condition. Furthermore, our results suggest that these bacteria may have a more general role in <italic>E. focardii</italic>
survival in its natural cold and oxidative environment.</p>
<sec><title>Electronic supplementary material</title>
<p>The online version of this article (doi:10.1007/s00248-015-0568-9) contains supplementary material, which is available to authorized users.</p>
</sec>
</abstract>
<kwd-group xml:lang="en"><title>Keyword</title>
<kwd>Psychrophile</kwd>
<kwd><italic>Proteobacteria</italic>
</kwd>
<kwd><italic>Bacteroidetes</italic>
</kwd>
<kwd>Catabolism</kwd>
<kwd>Gene transfer</kwd>
<kwd>Antifreeze proteins</kwd>
</kwd-group>
<custom-meta-group><custom-meta><meta-name>issue-copyright-statement</meta-name>
<meta-value>© Springer Science+Business Media New York 2015</meta-value>
</custom-meta>
</custom-meta-group>
</article-meta>
</front>
</pmc>
<affiliations><list><country><li>Allemagne</li>
<li>Italie</li>
</country>
<region><li>Bade-Wurtemberg</li>
<li>District de Fribourg-en-Brisgau</li>
<li>Toscane</li>
</region>
<settlement><li>Fribourg-en-Brisgau</li>
<li>Pise</li>
</settlement>
</list>
<tree><country name="Italie"><noRegion><name sortKey="Pucciarelli, Sandra" sort="Pucciarelli, Sandra" uniqKey="Pucciarelli S" first="Sandra" last="Pucciarelli">Sandra Pucciarelli</name>
</noRegion>
<name sortKey="Ballarini, Patrizia" sort="Ballarini, Patrizia" uniqKey="Ballarini P" first="Patrizia" last="Ballarini">Patrizia Ballarini</name>
<name sortKey="Castelli, Michele" sort="Castelli, Michele" uniqKey="Castelli M" first="Michele" last="Castelli">Michele Castelli</name>
<name sortKey="Devaraj, Raghul Rajan" sort="Devaraj, Raghul Rajan" uniqKey="Devaraj R" first="Raghul Rajan" last="Devaraj">Raghul Rajan Devaraj</name>
<name sortKey="Mancini, Alessio" sort="Mancini, Alessio" uniqKey="Mancini A" first="Alessio" last="Mancini">Alessio Mancini</name>
<name sortKey="Miceli, Cristina" sort="Miceli, Cristina" uniqKey="Miceli C" first="Cristina" last="Miceli">Cristina Miceli</name>
<name sortKey="Petroni, Giulio" sort="Petroni, Giulio" uniqKey="Petroni G" first="Giulio" last="Petroni">Giulio Petroni</name>
</country>
<country name="Allemagne"><region name="Bade-Wurtemberg"><name sortKey="Schrallhammer, Martina" sort="Schrallhammer, Martina" uniqKey="Schrallhammer M" first="Martina" last="Schrallhammer">Martina Schrallhammer</name>
</region>
</country>
</tree>
</affiliations>
</record>
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