Change search
ReferencesLink to record
Permanent link

Direct link
Microbial and viral-like rhodopsins present in coastal marine sediments from four polar and subpolar regions.
Universidad de Buenos Aires, Argentina.
Hospital de Pediatría "Juan P. Garrahan", Argentina.
UNSAM Campus Miguelete, Argentina / Universidad de Buenos Aires, Argentina.
Centro Nacional Patagónico-CONICET, Argentina.
Show others and affiliations
2016 (English)In: FEMS Microbiology Ecology, ISSN 0168-6496, E-ISSN 1574-6941Article in journal (Refereed) Epub ahead of print
Abstract [en]

Rhodopsins are broadly distributed. In this work we analyzed 23 metagenomes corresponding to marine sediment samples from four regions which share cold climate conditions (Norway; Sweden; Argentina and Antarctica). In order to investigate the genes evolution of viral-rodopsins, an initial set of 6224 bacterial rhodopsins sequences according COG5524 were retrieved from the 23 metagenomes. After selection by the presence of transmembrane domains and alignment 123 viral (51) and non-viral (72) sequences (>50 aminoacids) were finally included in further analysis. Viral rhodopsin genes were homologues of Phaeocystis globosa virus and Organic lake Phycodnavirus Non-viral microbial rhodopsin genes were ascribed to Bacteroidetes, Planctomycetes, Firmicutes, Actinobacteria, Cyanobacteria, Proteobacteria, Deinococcus-Thermus as well as Cryptophyta and Fungi. A re-screening using Blastp, using as queries the viral sequences previously described, retrieved 30 sequences (>100 aminoacids). Phylogeographic analysis revealed a geographycal clustering of the sequences affiliated to the viral group. This clustering was not observed for the microbial non-viral sequences. The phylogenetic reconstruction allowed us to propose the existence of a putative ancestor of viral rhodopsins (PAVR) genes related to Actinobacteria and Chloroflexi This is the first report about the existence of a phylogeographic association of the viral rhodopsins sequences from marine sediments.

Place, publisher, year, edition, pages
Keyword [en]
polar/subpolar, marine sediment, metagenomes, microbial rhodopsin, viral rhodopsin, phylogeography
National Category
Environmental Sciences
Research subject
Environmental Studies
URN: urn:nbn:se:sh:diva-31124DOI: 10.1093/femsec/fiw216PubMedID: 27815287OAI: diva2:1045933
Available from: 2016-11-11 Created: 2016-11-11 Last updated: 2016-11-11Bibliographically approved

Open Access in DiVA

No full text

Other links

Publisher's full textPubMed

Search in DiVA

By author/editor
Sjöling, Sara
By organisation
In the same journal
FEMS Microbiology Ecology
Environmental Sciences

Search outside of DiVA

GoogleGoogle Scholar

Altmetric score

Total: 25 hits
ReferencesLink to record
Permanent link

Direct link