FN Archimer Export Format
PT J
TI Distribution and genomic variation of ammonia-oxidizing archaea in abyssal and hadal surface sediments
BT 
AF Trouche, Blandine
   Schauberger, Clemens
   Bouderka, Feriel
   Auguet, Jean-Christophe
   Belser, Caroline
   Poulain, Julie
   Thamdrup, Bo
   Wincker, Patrick
   Arnaud-Haond, Sophie
   Glud, Ronnie N.
   Maignien, Lois
AS 1:1,2,8;2:2;3:8;4:9;5:4;6:4;7:2;8:4;9:3;10:2,5,6;11:7,8;
FF 1:;2:;3:;4:;5:;6:;7:;8:;9:PDG-RBE-MARBEC-LEGPM;10:;11:;
C1 Univ Brest, CNRS, Ifremer, UMR6197 Biologie et Ecologie des Ecosystèmes marins Profonds, F-29280, Plouzané, France
   Hadal & Nordcee, Department of Biology, University of Southern Denmark, Odense, Denmark
   MARBEC, Univ Montpellier, Ifremer, IRD, CNRS, Sète, France
   Génomique Métabolique, Genoscope, Institut François Jacob, CEA, CNRS, University of Évry, Université Paris-Saclay, 91057, Evry, France
   Department of Ocean and Environmental Sciences, Tokyo University of Marine Science and Technology, Tokyo, Japan
   Danish Institute for Advanced Study (DIAS), University of Southern Denmark, Campusvej 55, 5230, Odense, Denmark
   Marine Biological Laboratory, Josephine Bay Paul Center for Comparative Molecular Biology and Evolution, Woods Hole, MA, USA
   Univ Brest, CNRS, Ifremer, UMR6197 Biologie et Ecologie des Ecosystèmes marins Profonds, F-29280, Plouzané, France
   MARBEC, Univ Montpellier, Ifremer, IRD, CNRS, Sète, France
C2 IFREMER, FRANCE
   UNIV SOUTHERN DENMARK, DENMARK
   IFREMER, FRANCE
   UNIV EVRY, FRANCE
   UNIV TOKYO, JAPAN
   UNIV SOUTHERN DENMARK, DENMARK
   MARINE BIOLOGICAL LAB, USA
   UBO, FRANCE
   CNRS, FRANCE
SI BREST
   SETE
SE PDG-REM-BEEP-LMEE
   PDG-RBE-MARBEC-LEGPM
UM BEEP-LM2E
   MARBEC
IN WOS Ifremer UMR
   WOS Cotutelle UMR
   DOAJ
   copubli-france
   copubli-europe
   copubli-univ-france
   copubli-int-hors-europe
TC 1
UR https://archimer.ifremer.fr/doc/00869/98089/107337.pdf
   https://archimer.ifremer.fr/doc/00869/98089/107338.pdf
   https://archimer.ifremer.fr/doc/00869/98089/107339.xlsx
   https://archimer.ifremer.fr/doc/00869/98089/107340.xlsx
   https://archimer.ifremer.fr/doc/00869/98089/107341.xlsx
   https://archimer.ifremer.fr/doc/00869/98089/107342.xlsx
   https://archimer.ifremer.fr/doc/00869/98089/107343.xlsx
LA English
DT Article
AB Ammonia-oxidizing archaea of the phylum Thaumarchaeota play a central role in the biogeochemical cycling of nitrogen in benthic sediments, at the interface between pelagic and subsurface ecosystems. However, our understanding of their niche separation and of the processes controlling their population structure in hadal and abyssal surface sediments is still limited. Here, we reconstructed 47 AOA metagenome-assembled genomes (MAGs) from surface sediments of the Atacama and Kermadec trench systems. They formed deep-sea-specific groups within the family Nitrosopumilaceae and were assigned to six amoA gene-based clades. MAGs from different clades had distinct distribution patterns along oxygen-ammonium counter gradients in surface sediments. At the species level, MAGs thus seemed to form different ecotypes and follow deterministic niche-based distributions. In contrast, intraspecific population structure, defined by patterns of Single Nucleotide Variants (SNV), seemed to reflect more complex contributions of both deterministic and stochastic processes. Firstly, the bathymetric range had a strong effect on population structure, with distinct populations in abyssal plains and hadal trenches. Then, hadal populations were clearly separated by trench system, suggesting a strong isolation-by-topography effect, whereas abyssal populations were rather controlled by sediment depth or geographic distances, depending on the clade considered. Interestingly, genetic variability between samples was lowest in sediment layers where the mean MAG coverage was highest, highlighting the importance of selective pressure linked with each AOA clade’s ecological niche. Overall, our results show that deep-sea AOA genome distributions seem to follow both deterministic and stochastic processes, depending on the genomic variability scale considered. 
PY 2023
PD DEC
SO Isme Communications
SN 2730-6151
PU Oxford University Press (OUP)
VL 3
IS 1
UT 001129007200001
DI 10.1038/s43705-023-00341-6
ID 98089
ER

EF