Deep ocean metagenomes provide insight into the metabolic architecture of bathypelagic microbial communities - Archive ouverte HAL Access content directly
Journal Articles Communications Biology Year : 2021

Deep ocean metagenomes provide insight into the metabolic architecture of bathypelagic microbial communities

Silvia Acinas
Pablo Sánchez
  • Function : Author
Guillem Salazar
  • Function : Author
Francisco Cornejo-Castillo
  • Function : Author
Marta Sebastián
Ramiro Logares
Marta Royo-Llonch
  • Function : Author
Lucas Paoli
  • Function : Author
Shinichi Sunagawa
  • Function : Author
Pascal Hingamp
Hiroyuki Ogata
Gipsi Lima-Mendez
  • Function : Author
Simon Roux
José González
  • Function : Author
Jesús Arrieta
  • Function : Author
Intikhab Alam
  • Function : Author
Allan Kamau
  • Function : Author
Chris Bowler
Jeroen Raes
  • Function : Author
Stéphane Pesant
  • Function : Author
Peer Bork
  • Function : Author
Susana Agustí
  • Function : Author
Takashi Gojobori
  • Function : Author
Dolors Vaqué
  • Function : Author
Matthew Sullivan
Carlos Pedrós-Alió
  • Function : Author
Ramon Massana
Carlos Duarte
  • Function : Author
Josep Gasol

Abstract

Abstract The deep sea, the largest ocean’s compartment, drives planetary-scale biogeochemical cycling. Yet, the functional exploration of its microbial communities lags far behind other environments. Here we analyze 58 metagenomes from tropical and subtropical deep oceans to generate the Malaspina Gene Database. Free-living or particle-attached lifestyles drive functional differences in bathypelagic prokaryotic communities, regardless of their biogeography. Ammonia and CO oxidation pathways are enriched in the free-living microbial communities and dissimilatory nitrate reduction to ammonium and H 2 oxidation pathways in the particle-attached, while the Calvin Benson-Bassham cycle is the most prevalent inorganic carbon fixation pathway in both size fractions. Reconstruction of the Malaspina Deep Metagenome-Assembled Genomes reveals unique non-cyanobacterial diazotrophic bacteria and chemolithoautotrophic prokaryotes. The widespread potential to grow both autotrophically and heterotrophically suggests that mixotrophy is an ecologically relevant trait in the deep ocean. These results expand our understanding of the functional microbial structure and metabolic capabilities of the largest Earth aquatic ecosystem.
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hal-03238997 , version 1 (30-05-2021)

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Silvia Acinas, Pablo Sánchez, Guillem Salazar, Francisco Cornejo-Castillo, Marta Sebastián, et al.. Deep ocean metagenomes provide insight into the metabolic architecture of bathypelagic microbial communities. Communications Biology, 2021, 4 (1), ⟨10.1038/s42003-021-02112-2⟩. ⟨hal-03238997⟩
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