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SUMMARY:A Bayesian approach to inferring the phylogenetic structure of mic
 robial communities: the case of a seasonal Antarctic lake - O'Brien\, J (B
 owdoin College)
DTSTART:20140326T134500Z
DTEND:20140326T143000Z
UID:TALK51636@talks.cam.ac.uk
CONTACT:Mustapha Amrani
DESCRIPTION:Co-authors: Daniel Falush (Max Planck Evolutionary Anthropolog
 y)\, Xavier Didelot (Imperial College London) \n\nWhole-genome metagenomic
  sampling allows researchers to investigate microbial communities as they 
 shape and are shaped by their environments. A particularly interesting cas
 e occurs when a species (or closely-related species) evolves within a set 
 of samples. As the samples are often mixtures of these recently-evolved li
 neages\, a statistical difficulty arises in attempting to infer the clonal
  history of this differentiation while accounting for the mixture among sa
 mples. In this talk\, I present the lineage model\, a Bayesian attempt to 
 simultaneously infer both the underlying phylogeny and the sample mixing u
 sing metagenomic data. I discuss the assumptions of the model\, how it dif
 fers from other approaches\, and simulation results. I conclude with an ex
 tended example on Chlorobium limicola\, an important photosynthetic bacter
 ia\, found to be the dominant species in samples from a seasonal lake in A
 ntarctica. \n\nRelated Links: http://arxiv.org/abs/1306.6313 - The lineage
  model paper\, currently under review \n\n
LOCATION:Seminar Room 1\, Newton Institute
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