FN Archimer Export Format
PT J
TI Niche partitioning in the Rimicaris exoculata holobiont: the case of the first symbiotic Zetaproteobacteria
BT 
AF Cambon-Bonavita, Marie-Anne
   Aubé, Johanne
   Cueff-Gauchard, Valerie
   Reveillaud, Julie
AS 1:1;2:1;3:1;4:2;
FF 1:PDG-REM-EEP-LMEE;2:PDG-REM-EEP-LMEE;3:PDG-REM-EEP-LMEE;4:;
C1 Univ Brest, CNRS, IFREMER, Laboratoire de Microbiologie des Environnements Extrêmes, 29280, Plouzané, France
   MIVEGEC, Univ. Montpellier, INRAe, CNRS, IRD, Montpellier, France
C2 IFREMER, FRANCE
   INRAE, FRANCE
SI BREST
SE PDG-REM-EEP-LMEE
UM BEEP-LM2E
IN WOS Ifremer UMR
   DOAJ
   copubli-france
   copubli-p187
IF 16.837
TC 18
UR https://archimer.ifremer.fr/doc/00689/80089/83128.pdf
   https://archimer.ifremer.fr/doc/00689/80089/83129.docx
   https://archimer.ifremer.fr/doc/00689/80089/83130.docx
   https://archimer.ifremer.fr/doc/00689/80089/83131.docx
   https://archimer.ifremer.fr/doc/00689/80089/83132.docx
   https://archimer.ifremer.fr/doc/00689/80089/83133.xls
   https://archimer.ifremer.fr/doc/00689/80089/83134.docx
   https://archimer.ifremer.fr/doc/00689/80089/83135.docx
   https://archimer.ifremer.fr/doc/00689/80089/83136.docx
   https://archimer.ifremer.fr/doc/00689/80089/83137.docx
   https://archimer.ifremer.fr/doc/00689/80089/83138.docx
   https://archimer.ifremer.fr/doc/00689/80089/83139.xlsx
   https://archimer.ifremer.fr/doc/00689/80089/83140.docx
   https://archimer.ifremer.fr/doc/00689/80089/83141.docx
   https://archimer.ifremer.fr/doc/00689/80089/83142.docx
   https://archimer.ifremer.fr/doc/00689/80089/83143.docx
   https://archimer.ifremer.fr/doc/00689/80089/92634.pdf
LA English
DT Article
CR BICOSE
   BIOBAZ 2013
   MOMAR2008-LEG2
BO Pourquoi pas ?
   L'Atalante
DE ;Niche partitioning;Rimicaris;Metagenome-assembled genomes;Zetaproteobacteria;Holobiont;Hydrothermal vents
AB Background Free-living and symbiotic chemosynthetic microbial communities support primary production and higher trophic levels in deep-sea hydrothermal vents. The shrimp Rimicaris exoculata, which dominates animal communities along the Mid-Atlantic Ridge, houses a complex bacterial community in its enlarged cephalothorax. The dominant bacteria present are from the taxonomic groups Campylobacteria, Desulfobulbia (formerly Deltaproteobacteria), Alphaproteobacteria, Gammaproteobacteria, and some recently discovered iron oxyhydroxide-coated Zetaproteobacteria. This epibiotic consortium uses iron, sulfide, methane, and hydrogen as energy sources. Here, we generated shotgun metagenomes from Rimicaris exoculata cephalothoracic epibiotic communities to reconstruct and investigate symbiotic genomes. We collected specimens from three geochemically contrasted vent fields, TAG, Rainbow, and Snake Pit, to unravel the specificity, variability, and adaptation of Rimicaris–microbe associations. Results Our data enabled us to reconstruct 49 metagenome-assembled genomes (MAGs) from the TAG and Rainbow vent fields, including 16 with more than 90% completion and less than 5% contamination based on single copy core genes. These MAGs belonged to the dominant Campylobacteria, Desulfobulbia, Thiotrichaceae, and some novel candidate phyla radiation (CPR) lineages. In addition, most importantly, two MAGs in our collection were affiliated to Zetaproteobacteria and had no close relatives (average nucleotide identity ANI < 77% with the closest relative Ghiorsea bivora isolated from TAG, and 88% with each other), suggesting potential novel species. Genes for Calvin-Benson Bassham (CBB) carbon fixation, iron, and sulfur oxidation, as well as nitrate reduction, occurred in both MAGs. However, genes for hydrogen oxidation and multicopper oxidases occurred in one MAG only, suggesting shared and specific potential functions for these two novel Zetaproteobacteria symbiotic lineages. Overall, we observed highly similar symbionts co-existing in a single shrimp at both the basaltic TAG and ultramafic Rainbow vent sites. Nevertheless, further examination of the seeming functional redundancy among these epibionts revealed important differences. Conclusion These data highlight microniche partitioning in the Rimicaris holobiont and support recent studies showing that functional diversity enables multiple symbiont strains to coexist in animals colonizing hydrothermal vents. 
PY 2021
PD APR
SO Microbiome
SN 2049-2618
PU Springer Science and Business Media LLC
VL 9
IS 1
UT 000639883500001
DI 10.1186/s40168-021-01045-6
ID 80089
ER

EF