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In silico prediction of horizontal gene transfer in Streptococcus thermophilus

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 com- bining 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 gen- ome 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.
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https://hal.inria.fr/inria-00569081
Contributor : Jean-François Mari <>
Submitted on : Thursday, February 24, 2011 - 11:29:07 AM
Last modification on : Friday, May 29, 2020 - 3:37:54 PM

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Catherine Eng, Annabelle Thibessard, Morten Danielsen, Thomas Bovbjerg Rasmussen, Jean-Francois Mari, et al.. In silico prediction of horizontal gene transfer in Streptococcus thermophilus. Archives of Microbiology, Springer Verlag, 2011, 193 (4), pp.287-297. ⟨10.1007/s00203-010-0671-8⟩. ⟨inria-00569081⟩

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