Viral Metagenomic Content Reflects Seawater Ecological Quality in the Coastal Zone.
Type
ArticleAuthors
Tsiola, Anastasia
Michoud, Gregoire

Fodelianakis, Stylianos

Karakassis, Ioannis
Kotoulas, Georgios
Pavlidou, Alexandra

Pavloudi, Christina

Pitta, Paraskevi

Simboura, Nomiki
Daffonchio, Daniele

Tsapakis, Manolis
KAUST Department
Biological and Environmental Sciences and Engineering (BESE) DivisionBioscience Program
Extreme Systems Microbiology Lab
Date
2020-07-26Submitted Date
2020-06-01Permanent link to this record
http://hdl.handle.net/10754/664516
Metadata
Show full item recordAbstract
Viruses interfere with their host's metabolism through the expression of auxiliary metabolic genes (AMGs) that, until now, are mostly studied under large physicochemical gradients. Here, we focus on coastal marine ecosystems and we sequence the viral metagenome (virome) of samples with discrete levels of human-driven disturbances. We aim to describe the relevance of viromics with respect to ecological quality status, defined by the classic seawater trophic index (TRIX). Neither viral (family level) nor bacterial (family level, based on 16S rRNA sequencing) community structure correlated with TRIX. AMGs involved in the Calvin and tricarboxylic acid cycles were found at stations with poor ecological quality, supporting viral lysis by modifying the host's energy supply. AMGs involved in "non-traditional" energy-production pathways (3HP, sulfur oxidation) were found irrespective of ecological quality, highlighting the importance of recognizing the prevalent metabolic paths and their intermediate byproducts. Various AMGs explained the variability between stations with poor vs. good ecological quality. Our study confirms the pivotal role of the virome content in ecosystem functioning, acting as a "pool" of available functions that may be transferred to the hosts. Further, it suggests that AMGs could be used as an ultra-sensitive metric of energy-production pathways with relevance in the vulnerable coastal zone and its ecological quality.Citation
Tsiola, A., Michoud, G., Fodelianakis, S., Karakassis, I., Kotoulas, G., Pavlidou, A., … Tsapakis, M. (2020). Viral Metagenomic Content Reflects Seawater Ecological Quality in the Coastal Zone. Viruses, 12(8), 806. doi:10.3390/v12080806Sponsors
The authors would like to thank the Captain and the crew of R/V Philia as well as Ioanna Kalantzi (ORCID 0000-0002-6539-4739), Eleni Rouselaki, and Irini Tsikopoulou (ORCID 0000-0002-8525-3466) for their help at sea. Eleftheria Papadopoulou (ORCID 0000-0002-4438-4531) and Jon Bent Kristoffersen are thanked for their help during laboratory analyses. Matthew Sullivan (ORCID 0000-0001-8398-8234) and Bonnie Poulos from the Texas University, Pascal Hingamp (ORCID 0000-0002-7463-2444) from the Aix-Marseille Université, and Nigel Grimsley (ORCID 0000-0001-9323-417X) and Hugo Lebredonchel from the Laboratoire Oceanographie de Banuyls sur Mer are especially thanked for their immediate responses during and after sampling expeditions regarding viral DNA collection and sequencing issues. We thank Anna Tsiola for providing professional English editing of the text. Finally, we especially thank the two anonymous reviewers who greatly improved the quality of this manuscript.This work was supported by the European Water Framework Directive (2000/60/EC), the EU FP7 project “MicroB3 (Marine Microbial Biodiversity, Bioinformatics, Biotechnology, grant agreement ID: 287589)”, the project RECONNECT (MIS 5017160) financed by the Transnational Cooperation Programme Interreg V-B “Balkan-Mediterranean 2014-2020” and co-funded by the European Union and national funds of the participating countries and by baseline funding to D.D. (KAUST).
Publisher
MDPI AGJournal
VirusesPubMed ID
32722579ae974a485f413a2113503eed53cd6c53
10.3390/v12080806
Scopus Count
Except where otherwise noted, this item's license is described as This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license.
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