In silico prediction of horizontal gene transfer in Streptococcus thermophilus
Identifieur interne : 002681 ( Main/Exploration ); précédent : 002680; suivant : 002682In silico prediction of horizontal gene transfer in Streptococcus thermophilus
Auteurs : Catherine Eng [France] ; Annabelle Thibessard [France] ; Morten Danielsen [Danemark] ; Thomas Bovbjerg Rasmussen [Danemark] ; Jean-François Mari [France] ; Pierre Leblond [France]Source :
- Archives of Microbiology [ 0302-8933 ] ; 2011-04-01.
Descripteurs français
- Pascal (Inist)
English descriptors
- KwdEn :
- mix :
Abstract
Abstract: A combination of gene loss and acquisition through horizontal gene transfer (HGT) is thought to drive Streptococcus thermophilus adaptation to its niche, i.e. milk. In this study, we describe an in silico analysis combining a stochastic data mining method, analysis of homologous gene distribution and the identification of features frequently associated with horizontally transferred genes to assess the proportion of the S. thermophilus genome that could originate from HGT. Our mining approach pointed out that about 17.7% of S. thermophilus genes (362 CDSs of 1,915) showed a composition bias; these genes were called ‘atypical’. For 22% of them, their functional annotation strongly support their acquisition through HGT and consisted mainly in genes encoding mobile genetic recombinases, exopolysaccharide (EPS) biosynthesis enzymes or resistance mechanisms to bacteriophages. The distribution of the atypical genes in the Firmicutes phylum as well as in S. thermophilus species was sporadic and supported the HGT prediction for more than a half (52%, 189). Among them, 46 were found specific to S. thermophilus. Finally, by combining our method, gene annotation and sequence specific features, new genome islands were suggested in the S. thermophilus genome.
Url:
DOI: 10.1007/s00203-010-0671-8
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Finally, by combining our method, gene annotation and sequence specific features, new genome islands were suggested in the S. thermophilus genome.</div></front></TEI><affiliations><list><country><li>Danemark</li><li>France</li></country><region><li>Grand Est</li><li>Lorraine (région)</li></region><settlement><li>Vandœuvre-lès-Nancy</li></settlement><orgName><li>Université de Lorraine</li></orgName></list><tree><country name="France"><region name="Grand Est"><name sortKey="Eng, Catherine" sort="Eng, Catherine" uniqKey="Eng C" first="Catherine" last="Eng">Catherine Eng</name></region><name sortKey="Eng, Catherine" sort="Eng, Catherine" uniqKey="Eng C" first="Catherine" last="Eng">Catherine Eng</name><name sortKey="Eng, Catherine" sort="Eng, Catherine" uniqKey="Eng C" first="Catherine" last="Eng">Catherine Eng</name><name sortKey="Leblond, Pierre" sort="Leblond, Pierre" uniqKey="Leblond P" first="Pierre" last="Leblond">Pierre Leblond</name><name sortKey="Leblond, Pierre" sort="Leblond, Pierre" uniqKey="Leblond P" first="Pierre" last="Leblond">Pierre Leblond</name><name sortKey="Mari, Jean Francois" sort="Mari, Jean Francois" uniqKey="Mari J" first="Jean-François" last="Mari">Jean-François Mari</name><name sortKey="Mari, Jean Francois" sort="Mari, Jean Francois" uniqKey="Mari J" first="Jean-François" last="Mari">Jean-François Mari</name><name sortKey="Thibessard, Annabelle" sort="Thibessard, Annabelle" uniqKey="Thibessard A" first="Annabelle" last="Thibessard">Annabelle Thibessard</name><name sortKey="Thibessard, Annabelle" sort="Thibessard, Annabelle" uniqKey="Thibessard A" first="Annabelle" last="Thibessard">Annabelle Thibessard</name></country><country name="Danemark"><noRegion><name sortKey="Danielsen, Morten" sort="Danielsen, Morten" uniqKey="Danielsen M" first="Morten" last="Danielsen">Morten Danielsen</name></noRegion><name sortKey="Danielsen, Morten" sort="Danielsen, Morten" uniqKey="Danielsen M" first="Morten" last="Danielsen">Morten Danielsen</name><name sortKey="Rasmussen, Thomas Bovbjerg" sort="Rasmussen, Thomas Bovbjerg" uniqKey="Rasmussen T" first="Thomas Bovbjerg" last="Rasmussen">Thomas Bovbjerg Rasmussen</name><name sortKey="Rasmussen, Thomas Bovbjerg" sort="Rasmussen, Thomas Bovbjerg" uniqKey="Rasmussen T" first="Thomas Bovbjerg" last="Rasmussen">Thomas Bovbjerg Rasmussen</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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