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2016-10-28 - Colloque/Présentation - poster - Anglais - 1 page(s)

Beraud Mélanie, Wattiez Ruddy , Gillan David , Giambarresi Giuseppe , "Fushing up rare bacterial proteomes using SWATH-MS in synthetic microbial communities" in Annual Meeting of the Belgian Society for Microbiology (BSM) , Brussels, Belgium, 2016

  • Codes CREF : Biochimie (DI3112), Biologie moléculaire (DI3111), Biologie (DI3100), Microbiologie et protistologie [bacteriol.,virolog.,mycolog.] (DI3130)
  • Unités de recherche UMONS : Protéomie et Microbiologie (S828)
  • Instituts UMONS : Institut des Biosciences (Biosciences)
Texte intégral :

Abstract(s) :

(Anglais) Within ecosystems, rare bacteria could be a reservoir of genes and functions helping community survival. However functional description of rare bacteria within complex communities using omics methods remains a challenge. During the present research, we designed a synthetic 9-species community based on a marine community observed in muddy sediments. This community was cultivated in a medium simulating marine conditions and stressed using zinc 0.5 mM. DNA and proteins were then extracted after 28 days to assess taxonomical and functional biodiversity of the community using Quantitative-PCR and proteomics (data-dependent LC-MS/MS; DDA-MS) respectively. The DDA-MS approach failed to catch the proteome for most of the rare species since Pseudomonas putida was dominant (more than 60 % as DNA equivalent). We then used another approach termed SWATH acquisition method (Data-Independent Acquisition-MS) to analyse the proteome of the community. Using SWATH–MS, we successfully fished up the proteins from rare bacteria in the synthetic community. The number of proteins observed for low abundance species was two times more abundant when compared with the DDA-MS approach. The global quantification accuracy was also increased. As a result, we were able to conclude on the effect of metals on rare species in the synthetic community. SWATH-MS represents a major breakthrough in the field of functional microbiology. It is a promising technique to reach the full functional description of a community. Acknowledgements This work is financially supported by Pole d’Attraction Interuniversitaire (PAI) P7/25 MRM (Microbial Resource Management in engineered and natural ecosystems


Mots-clés :
  • (Anglais) synthetic community
  • (Anglais) SWATH-MS
  • (Anglais) Metaproteomics