A metagenomic insight into our gut's microbiome
Identifieur interne : 005146 ( PascalFrancis/Curation ); précédent : 005145; suivant : 005147A metagenomic insight into our gut's microbiome
Auteurs : Patricia Lepage [France] ; Marion C. Leclerc [France] ; Marie Joossens [Belgique] ; Stanislas Mondot [Australie] ; Herve M. Blottiere [France] ; Jeroen Raes [Belgique] ; Dusko Ehrlich [France] ; Joel Dore [France]Source :
- Gut [ 0017-5749 ] ; 2013.
Descripteurs français
- Pascal (Inist)
English descriptors
- KwdEn :
Abstract
Advances in sequencing technology and the development of metagenomic and bioinformatics methods have opened up new ways to investigate the 1014 microorganisms inhabiting the human gut. The gene composition of human gut microbiome in a large and deeply sequenced cohort highlighted an overall non-redundant genome size 150 times larger than the human genome. The in silico predictions based on metagenomic sequencing are now actively followed, compared and challenged using additional 'omics' technologies. Interactions between the microbiota and its host are of key interest in several pathologies and applying meta-omics to describe the human gut microbiome will give a better understanding of this crucial crosstalk at mucosal interfaces. Adding to the growing appreciation of the importance of the microbiome is the discovery that numerous phages, that is, viruses of prokaryotes infecting bacteria (bacteriophages) or archaea with a high host specificity, inhabit the human gut and impact microbial activity. In addition, gene exchanges within the gut microbiota have proved to be more frequent than anticipated. Taken together, these innovative exploratory technologies are expected to unravel new information networks critical for gut homeostasis and human health. Among the challenges faced, the in vivo validation of these networks, together with their integration into the prediction and prognosis of disease, may require further working hypothesis and collaborative efforts.
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Leclerc</name><affiliation wicri:level="1"><inist:fA14 i1="01"><s1>INRA, MICALIS UMR1319</s1><s2>Jouy-en-Josas</s2><s3>FRA</s3><sZ>1 aut.</sZ><sZ>2 aut.</sZ><sZ>5 aut.</sZ><sZ>7 aut.</sZ><sZ>8 aut.</sZ></inist:fA14><country>France</country></affiliation><affiliation wicri:level="1"><inist:fA14 i1="02"><s1>AgroParisTech, MICALIS UMR1319</s1><s2>Jouy-en-Josas</s2><s3>FRA</s3><sZ>1 aut.</sZ><sZ>2 aut.</sZ><sZ>5 aut.</sZ><sZ>7 aut.</sZ><sZ>8 aut.</sZ></inist:fA14><country>France</country></affiliation></author><author><name sortKey="Joossens, Marie" sort="Joossens, Marie" uniqKey="Joossens M" first="Marie" last="Joossens">Marie Joossens</name><affiliation wicri:level="1"><inist:fA14 i1="03"><s1>Research Group of Bioinformatics and (Eco-) systems Biology, Department of Structural Biology, VIB</s1><s2>Brussels</s2><s3>BEL</s3><sZ>3 aut.</sZ><sZ>6 aut.</sZ></inist:fA14><country>Belgique</country></affiliation><affiliation wicri:level="1"><inist:fA14 i1="04"><s1>Microbiology Unit, Department of Applied Biological Sciences, Vrije Universiteit Brussel</s1><s2>Brussels</s2><s3>BEL</s3><sZ>3 aut.</sZ><sZ>6 aut.</sZ></inist:fA14><country>Belgique</country></affiliation><affiliation wicri:level="1"><inist:fA14 i1="05"><s1>IBD Research Group, TARGID, Department of Gastroenterology, KU Leuven</s1><s2>Leuven</s2><s3>BEL</s3><sZ>3 aut.</sZ></inist:fA14><country>Belgique</country></affiliation></author><author><name sortKey="Mondot, Stanislas" sort="Mondot, Stanislas" uniqKey="Mondot S" first="Stanislas" last="Mondot">Stanislas Mondot</name><affiliation wicri:level="1"><inist:fA14 i1="06"><s1>CSIRO, Division of Livestock Industries, Queensland Biosciences Precinct</s1><s2>St Lucia, Queensland</s2><s3>AUS</s3><sZ>4 aut.</sZ></inist:fA14><country>Australie</country></affiliation></author><author><name sortKey="Blottiere, Herve M" sort="Blottiere, Herve M" uniqKey="Blottiere H" first="Herve M." last="Blottiere">Herve M. Blottiere</name><affiliation wicri:level="1"><inist:fA14 i1="01"><s1>INRA, MICALIS UMR1319</s1><s2>Jouy-en-Josas</s2><s3>FRA</s3><sZ>1 aut.</sZ><sZ>2 aut.</sZ><sZ>5 aut.</sZ><sZ>7 aut.</sZ><sZ>8 aut.</sZ></inist:fA14><country>France</country></affiliation><affiliation wicri:level="1"><inist:fA14 i1="02"><s1>AgroParisTech, MICALIS UMR1319</s1><s2>Jouy-en-Josas</s2><s3>FRA</s3><sZ>1 aut.</sZ><sZ>2 aut.</sZ><sZ>5 aut.</sZ><sZ>7 aut.</sZ><sZ>8 aut.</sZ></inist:fA14><country>France</country></affiliation></author><author><name sortKey="Raes, Jeroen" sort="Raes, Jeroen" uniqKey="Raes J" first="Jeroen" last="Raes">Jeroen Raes</name><affiliation wicri:level="1"><inist:fA14 i1="03"><s1>Research Group of Bioinformatics and (Eco-) systems Biology, Department of Structural Biology, VIB</s1><s2>Brussels</s2><s3>BEL</s3><sZ>3 aut.</sZ><sZ>6 aut.</sZ></inist:fA14><country>Belgique</country></affiliation><affiliation wicri:level="1"><inist:fA14 i1="04"><s1>Microbiology Unit, Department of Applied Biological Sciences, Vrije Universiteit Brussel</s1><s2>Brussels</s2><s3>BEL</s3><sZ>3 aut.</sZ><sZ>6 aut.</sZ></inist:fA14><country>Belgique</country></affiliation></author><author><name sortKey="Ehrlich, Dusko" sort="Ehrlich, Dusko" uniqKey="Ehrlich D" first="Dusko" last="Ehrlich">Dusko Ehrlich</name><affiliation wicri:level="1"><inist:fA14 i1="01"><s1>INRA, MICALIS UMR1319</s1><s2>Jouy-en-Josas</s2><s3>FRA</s3><sZ>1 aut.</sZ><sZ>2 aut.</sZ><sZ>5 aut.</sZ><sZ>7 aut.</sZ><sZ>8 aut.</sZ></inist:fA14><country>France</country></affiliation><affiliation wicri:level="1"><inist:fA14 i1="02"><s1>AgroParisTech, MICALIS UMR1319</s1><s2>Jouy-en-Josas</s2><s3>FRA</s3><sZ>1 aut.</sZ><sZ>2 aut.</sZ><sZ>5 aut.</sZ><sZ>7 aut.</sZ><sZ>8 aut.</sZ></inist:fA14><country>France</country></affiliation></author><author><name sortKey="Dore, Joel" sort="Dore, Joel" uniqKey="Dore J" first="Joel" last="Dore">Joel Dore</name><affiliation wicri:level="1"><inist:fA14 i1="01"><s1>INRA, MICALIS UMR1319</s1><s2>Jouy-en-Josas</s2><s3>FRA</s3><sZ>1 aut.</sZ><sZ>2 aut.</sZ><sZ>5 aut.</sZ><sZ>7 aut.</sZ><sZ>8 aut.</sZ></inist:fA14><country>France</country></affiliation><affiliation wicri:level="1"><inist:fA14 i1="02"><s1>AgroParisTech, MICALIS UMR1319</s1><s2>Jouy-en-Josas</s2><s3>FRA</s3><sZ>1 aut.</sZ><sZ>2 aut.</sZ><sZ>5 aut.</sZ><sZ>7 aut.</sZ><sZ>8 aut.</sZ></inist:fA14><country>France</country></affiliation></author></analytic><series><title level="j" type="main">Gut</title><title level="j" type="abbreviated">Gut</title><idno type="ISSN">0017-5749</idno><imprint><date when="2013">2013</date></imprint></series></biblStruct></sourceDesc><seriesStmt><title level="j" type="main">Gut</title><title level="j" type="abbreviated">Gut</title><idno type="ISSN">0017-5749</idno></seriesStmt></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Gastroenterology</term><term>Gut</term></keywords><keywords scheme="Pascal" xml:lang="fr"><term>Intestin</term><term>Gastroentérologie</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Advances in sequencing technology and the development of metagenomic and bioinformatics methods have opened up new ways to investigate the 10<sup>14</sup> microorganisms inhabiting the human gut. The gene composition of human gut microbiome in a large and deeply sequenced cohort highlighted an overall non-redundant genome size 150 times larger than the human genome. The in silico predictions based on metagenomic sequencing are now actively followed, compared and challenged using additional 'omics' technologies. Interactions between the microbiota and its host are of key interest in several pathologies and applying meta-omics to describe the human gut microbiome will give a better understanding of this crucial crosstalk at mucosal interfaces. Adding to the growing appreciation of the importance of the microbiome is the discovery that numerous phages, that is, viruses of prokaryotes infecting bacteria (bacteriophages) or archaea with a high host specificity, inhabit the human gut and impact microbial activity. In addition, gene exchanges within the gut microbiota have proved to be more frequent than anticipated. Taken together, these innovative exploratory technologies are expected to unravel new information networks critical for gut homeostasis and human health. Among the challenges faced, the in vivo validation of these networks, together with their integration into the prediction and prognosis of disease, may require further working hypothesis and collaborative efforts.</div></front></TEI><inist><standard h6="B"><pA><fA01 i1="01" i2="1"><s0>0017-5749</s0></fA01><fA02 i1="01"><s0>GUTTAK</s0></fA02><fA03 i2="1"><s0>Gut</s0></fA03><fA05><s2>62</s2></fA05><fA06><s2>1</s2></fA06><fA08 i1="01" i2="1" l="ENG"><s1>A metagenomic insight into our gut's microbiome</s1></fA08><fA11 i1="01" i2="1"><s1>LEPAGE (Patricia)</s1></fA11><fA11 i1="02" i2="1"><s1>LECLERC (Marion C.)</s1></fA11><fA11 i1="03" i2="1"><s1>JOOSSENS (Marie)</s1></fA11><fA11 i1="04" i2="1"><s1>MONDOT (Stanislas)</s1></fA11><fA11 i1="05" i2="1"><s1>BLOTTIERE (Herve M.)</s1></fA11><fA11 i1="06" i2="1"><s1>RAES (Jeroen)</s1></fA11><fA11 i1="07" i2="1"><s1>EHRLICH (Dusko)</s1></fA11><fA11 i1="08" i2="1"><s1>DORE (Joel)</s1></fA11><fA14 i1="01"><s1>INRA, MICALIS UMR1319</s1><s2>Jouy-en-Josas</s2><s3>FRA</s3><sZ>1 aut.</sZ><sZ>2 aut.</sZ><sZ>5 aut.</sZ><sZ>7 aut.</sZ><sZ>8 aut.</sZ></fA14><fA14 i1="02"><s1>AgroParisTech, MICALIS UMR1319</s1><s2>Jouy-en-Josas</s2><s3>FRA</s3><sZ>1 aut.</sZ><sZ>2 aut.</sZ><sZ>5 aut.</sZ><sZ>7 aut.</sZ><sZ>8 aut.</sZ></fA14><fA14 i1="03"><s1>Research Group of Bioinformatics and (Eco-) systems Biology, Department of Structural Biology, VIB</s1><s2>Brussels</s2><s3>BEL</s3><sZ>3 aut.</sZ><sZ>6 aut.</sZ></fA14><fA14 i1="04"><s1>Microbiology Unit, Department of Applied Biological Sciences, Vrije Universiteit Brussel</s1><s2>Brussels</s2><s3>BEL</s3><sZ>3 aut.</sZ><sZ>6 aut.</sZ></fA14><fA14 i1="05"><s1>IBD Research Group, TARGID, Department of Gastroenterology, KU Leuven</s1><s2>Leuven</s2><s3>BEL</s3><sZ>3 aut.</sZ></fA14><fA14 i1="06"><s1>CSIRO, Division of Livestock Industries, Queensland Biosciences Precinct</s1><s2>St Lucia, Queensland</s2><s3>AUS</s3><sZ>4 aut.</sZ></fA14><fA20><s1>146-158</s1></fA20><fA21><s1>2013</s1></fA21><fA23 i1="01"><s0>ENG</s0></fA23><fA43 i1="01"><s1>INIST</s1><s2>1722</s2><s5>354000506235790200</s5></fA43><fA44><s0>0000</s0><s1>© 2013 INIST-CNRS. All rights reserved.</s1></fA44><fA45><s0>94 ref.</s0></fA45><fA47 i1="01" i2="1"><s0>13-0043051</s0></fA47><fA60><s1>P</s1></fA60><fA61><s0>A</s0></fA61><fA64 i1="01" i2="1"><s0>Gut</s0></fA64><fA66 i1="01"><s0>GBR</s0></fA66><fC01 i1="01" l="ENG"><s0>Advances in sequencing technology and the development of metagenomic and bioinformatics methods have opened up new ways to investigate the 10<sup>14</sup> microorganisms inhabiting the human gut. The gene composition of human gut microbiome in a large and deeply sequenced cohort highlighted an overall non-redundant genome size 150 times larger than the human genome. The in silico predictions based on metagenomic sequencing are now actively followed, compared and challenged using additional 'omics' technologies. Interactions between the microbiota and its host are of key interest in several pathologies and applying meta-omics to describe the human gut microbiome will give a better understanding of this crucial crosstalk at mucosal interfaces. Adding to the growing appreciation of the importance of the microbiome is the discovery that numerous phages, that is, viruses of prokaryotes infecting bacteria (bacteriophages) or archaea with a high host specificity, inhabit the human gut and impact microbial activity. In addition, gene exchanges within the gut microbiota have proved to be more frequent than anticipated. Taken together, these innovative exploratory technologies are expected to unravel new information networks critical for gut homeostasis and human health. 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