Exploring nucleo-cytoplasmic large DNA viruses in Tara Oceans microbial metagenomesReport as inadecuate




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* Corresponding author 1 IGS - Information génomique et structurale 2 BIOM - Biologie intégrative des organismes marins 3 Department of Marine Biology and Oceanography 4 CEA-Institut de génomique-genoscope 5 GENOSCOPE - Genoscope - Centre national de séquençage Evry 6 Department of Structural Biology 7 DBIT - Department of Applied Biological Sciences 8 European Molecular Biology Laboratory 9 Dept Biol Struct, Res Grp Bioinformat & Eco Syst Biol 10 Dept Appl Biol Sci, Microbiol Unit 11 EPEP - Evolution des Protistes et Ecosystèmes Pélagiques ADMM - Adaptation et diversité en milieu marin 12 EMBL - European Molecular Biology Laboratory Heidelberg 13 CEA - Commissariat à l-énergie atomique et aux énergies alternatives 14 DIPO - Diversité et Interactions au sein du Plancton Océanique ADMM - Adaptation et diversité en milieu marin 15 MARUM Center for Marine Environmental Sciences 16 Education academy of computational life sciences

Abstract : Nucleo-cytoplasmic large DNA viruses NCLDVs constitute a group of eukaryotic viruses that can have crucial ecological roles in the sea by accelerating the turnover of their unicellular hosts or by causing diseases in animals. To better characterize the diversity, abundance and biogeography of marine NCLDVs, we analyzed 17 metagenomes derived from microbial samples 0.2-1.6 mu m size range collected during the Tara Oceans Expedition. The sample set includes ecosystems under-represented in previous studies, such as the Arabian Sea oxygen minimum zone OMZ and Indian Ocean lagoons. By combining computationally derived relative abundance and direct prokaryote cell counts, the abundance of NCLDVs was found to be in the order of 104-105 genomes ml-1 for the samples from the photic zone and 102-103 genomes ml-1 for the OMZ. The Megaviridae and Phycodnaviridae dominated the NCLDV populations in the metagenomes, although most of the reads classified in these families showed large divergence from known viral genomes. Our taxon co-occurrence analysis revealed a potential association between viruses of the Megaviridae family and eukaryotes related to oomycetes. In support of this predicted association, we identified six cases of lateral gene transfer between Megaviridae and oomycetes. Our results suggest that marine NCLDVs probably outnumber eukaryotic organisms in the photic layer per given water mass and that metagenomic sequence analyses promise to shed new light on the biodiversity of marine viruses and their interactions with potential hosts.

Keywords : eukaryotic viruses marine NCLDVs taxon co-occurrence oomycetes





Author: Pascal Hingamp - Nigel Grimsley - Silvia G Acinas - Camille Clerissi - Lucie Subirana - Julie Poulain - Isabel Ferrera - Hugo Sar

Source: https://hal.archives-ouvertes.fr/



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