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Metagenomic Sequencing of Marine Periphyton: Taxonomic and Functional Insights into Biofilm Communities

Kemal Sanli ; Johan Bengtsson-Palme ; R. Henrik Nilsson ; Erik Kristiansson (Institutionen för matematiska vetenskaper, matematisk statistik) ; Magnus Alm Rosenblad ; Hans Blanck ; Karl Martin Eriksson (Institutionen för sjöfart och marin teknik, Maritim miljö och energisystem)
Frontiers in Microbiology (1664-302X). Vol. 6 (2015), 1192,
[Artikel, refereegranskad vetenskaplig]

Periphyton communities are complex phototrophic, multispecies biofilms that develop on surfaces in aquatic environments. These communities harbor a large diversity of organisms comprising viruses, bacteria, algae, fungi, protozoans and metazoans. However, thus far the total biodiversity of periphyton has not been described. In this study, we use metagenomics to characterize periphyton communities from the marine environment of the Swedish west coast. Although we found approximately ten times more eukaryotic rRNA marker gene sequences compared to prokaryotic, the whole metagenome-based similarity searches showed that bacteria constitute the most abundant phyla in these biofilms. We show that marine periphyton encompass a range of heterotrophic and phototrophic organisms. Heterotrophic bacteria, including the majority of proteobacterial clades and Bacteroidetes, and eukaryotic macro-invertebrates were found to dominate periphyton. The phototrophic groups comprise Cyanobacteria and the alpha-proteobacterial genus Roseobacter, followed by different micro- and macro-algae. We also assess the metabolic pathways that predispose these communities to an attached lifestyle. Functional indicators of the biofilm form of life in periphyton involve genes coding for enzymes that catalyze the production and degradation of extracellular polymeric substances, mainly in the form of complex sugars such as starch and glycogen-like meshes together with chitin. Genes for 278 different transporter proteins were detected in the metagenome, constituting the most abundant protein complexes. Finally, genes encoding enzymes that participate in anaerobic pathways, such as denitrification and methanogenesis, were detected suggesting the presence of anaerobic or low-oxygen micro-zones within the biofilms.

Nyckelord: Shotgun metagenomics, microbial ecology, Marine biofilms, Biofouling, next generation sequencing, Shotgun sequencing, Biodiversity, pathway analysis

Open access

Denna post skapades 2015-10-27. Senast ändrad 2016-10-28.
CPL Pubid: 224888


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Institutioner (Chalmers)

Institutionen för biologi och miljövetenskap (GU)
Institutionen för biomedicin, avdelningen för infektionssjukdomar (GU)
Institutionen för matematiska vetenskaper, matematisk statistik (2005-2016)
Institutionen för kemi och molekylärbiologi (GU)
Institutionen för marina vetenskaper (GU)
Institutionen för sjöfart och marin teknik, Maritim miljö och energisystem


Bioinformatik (beräkningsbiologi)
Vatten i natur och samhälle
Biokemi och molekylärbiologi
Bioinformatik och systembiologi
Marin ekologi
Biologisk systematik
Annan naturvetenskap
Fisk- och akvakulturforskning
Bioteknologi med applikationer på växter och djur

Chalmers infrastruktur