Temporal Dynamics of Active Prokaryotic Nitrifiers and Archaeal Communities from River to Sea

Mylène Hugoni; Hélène Agogué; Najwa Taib; Isabelle Domaizon; Anne Moné; Pierre E. Galand; Gisèle Bronner; Didier Debroas; Isabelle Mary

doi:10.1007/s00248-015-0601-z

Temporal Dynamics of Active Prokaryotic Nitrifiers and Archaeal Communities from River to Sea

Mylène Hugoni ¹ Hélène Agogué ² Najwa Taib ¹ Isabelle Domaizon ³ Anne Moné ¹ Pierre E. Galand ⁴ Gisèle Bronner ¹ Didier Debroas ¹ Isabelle Mary ^{1, *}

* Corresponding author

1 LMGE - Laboratoire Microorganismes : Génome et Environnement

2 LIENSs - LIttoral ENvironnement et Sociétés - UMR 7266

3 CARRTEL - Centre Alpin de Recherche sur les Réseaux Trophiques et Ecosystèmes Limniques

4 LECOB - Laboratoire d'Ecogéochimie des environnements benthiques

Abstract : To test if different niches for potential nitrifiers exist in estuarine systems, we assessed by pyrosequencing the diversity of archaeal gene transcript markers for taxonomy (16S ribosomal RNA (rRNA)) during an entire year along a salinity gradient in surface waters of the Charente estuary (Atlantic coast, France). We further investigated the potential for estuarine prokaryotes to oxidize ammonia and hydrolyze urea by quantifying thaumarchaeal amoA and ureC and bacterial amoA transcripts. Our results showed a succession of different nitrifiers from river to sea with bacterial amoA transcripts dominating in the freshwater station while archaeal transcripts were predominant in the marine station. The 16S rRNA sequence analysis revealed that Thaumarchaeota marine group I (MGI) were the most abundant overall but other archaeal groups like Methanosaeta were also potentially active in winter (December–March) and Euryarchaeota marine group II (MGII) were dominant in seawater in summer (April–August). Each station also contained different Thaumarchaeota MGI phylogenetic clusters, and the clusters' microdiversity was associated to specific environmental conditions suggesting the presence of ecotypes adapted to distinct ecological niches. The amoA and ureC transcript dynamics further indicated that some of the Thaumarchaeota MGI sub-clusters were involved in ammonia oxidation through the hy-drolysis of urea. Our findings show that ammonia-oxidizing Archaea and Bacteria were adapted to contrasted conditions and that the Thaumarchaeota MGI diversity probably corresponds to distinct metabolisms or life strategies.

Keywords : diversity archaea gradient ammonia oxidation amoA

Document type :

Journal articles

Domain :

Environmental Sciences / Biodiversity and Ecology

Life Sciences [q-bio] / Biodiversity / Systematics, Phylogenetics and taxonomy

Life Sciences [q-bio] / Microbiology and Parasitology / Bacteriology

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Hugoni,Agoguéetal, MicrobEcol...

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