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      Multiple processes acting from local to large geographical scales shape bacterial communities associated with Phormidium (cyanobacteria) biofilms in French and New Zealand rivers

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          Abstract

          River biofilms dominated by Phormidium (cyanobacteria) are receiving increased attention worldwide because of a recent expansion in their distribution and their ability to produce neurotoxins leading to animal mortalities. Limited data are available on the composition and structure of bacterial communities (BCs) associated with Phormidium biofilms despite the important role they potentially play in biofilm functioning. By using a high-throughput sequencing approach, we compared the BCs associated with Phormidium biofilms in several sampling sites of the Tarn River (France) and in eight New Zealand rivers. The structure of the BCs from both countries displayed spatial and temporal variations but were well conserved at the order level and 28% of the OTUs containing 90% of the reads were shared by these BCs. This suggests that micro-environmental conditions occurring within thick Phormidium biofilms strongly shape the associated BCs. A strong and significant distance-decay relationship (r p = 0.7; P = 0.001) was found in BCs from New Zealand rivers but the Bray-Curtis dissimilarities between French and New Zealand BCs are in the same order of magnitude of those found between New Zealand BCs. All these findings suggest that local environmental conditions seem to have more impact on BCs than dispersal capacities of bacteria.

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          The ecology and biogeochemistry of stream biofilms.

          Streams and rivers form dense networks, shape the Earth's surface and, in their sediments, provide an immensely large surface area for microbial growth. Biofilms dominate microbial life in streams and rivers, drive crucial ecosystem processes and contribute substantially to global biogeochemical fluxes. In turn, water flow and related deliveries of nutrients and organic matter to biofilms constitute major constraints on microbial life. In this Review, we describe the ecology and biogeochemistry of stream biofilms and highlight the influence of physical and ecological processes on their structure and function. Recent advances in the study of biofilm ecology may pave the way towards a mechanistic understanding of the effects of climate and environmental change on stream biofilms and the biogeochemistry of stream ecosystems.
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            'Everything is everywhere, but, the environment selects'; what did Baas Becking and Beijerinck really say?

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              Composition of freshwater bacterial communities associated with cyanobacterial blooms in four Swedish lakes.

              The diversity of freshwater bacterioplankton communities has not been extensively studied despite their key role in foodwebs and the cycling of carbon and associated major elements. In order to explore and characterize the composition of bacterioplankton associated with cyanobacterial blooms, large 16S rRNA clone libraries from four lakes experiencing such blooms were analysed. The four libraries contained 1461 clones, of which 559 were prokaryotic sequences of non-cyanobacterial origin. These clones were classified into 158 operational taxonomic units affiliated mainly with bacterial divisions commonly found in freshwater systems, e.g. Proteobacteria, Bacteriodetes, Actinobacteria, Verrucomicrobia and Planctomycetes. Richness and evenness of non-cyanobacterial clones were similar to other clone libraries obtained for freshwater bacterioplankton, suggesting that bacterial communities accompanying cyanobacterial blooms are as diverse as non-bloom communities. Many of the identified operational taxonomic units grouped with known freshwater clusters but the libraries also contained novel clusters of bacterial sequences that may be characteristic for cyanobacterial blooms. About 25% of the operational taxonomic units were detected in more than one lake. Even so, 16S rRNA heterogeneity analysis demonstrated large differences in community composition between lakes regardless of their similar characteristics and close proximity. Hence even the similar environmental conditions created by different cyanobacterial blooms may foster very dissimilar bacterial communities, which could indicate that the genetic diversity in lake bacteria have been underestimated in the past.
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                Author and article information

                Contributors
                jean-francois.humbert@upmc.fr
                Journal
                Sci Rep
                Sci Rep
                Scientific Reports
                Nature Publishing Group UK (London )
                2045-2322
                26 September 2018
                26 September 2018
                2018
                : 8
                : 14416
                Affiliations
                [1 ]GRID grid.462350.6, INRA, Sorbonne University, iEES Paris, ; 4 Place Jussieu, 75252 Paris, Cedex France
                [2 ]Unité Molécules de Communication et Adaptation des Microorganismes (MCAM, UMR 7245), Muséum National d’Histoire Naturelle, CNRS, Case 39, 57 rue Cuvier, 75005 Paris, France
                [3 ]ISNI 0000 0004 0487 8785, GRID grid.412199.6, Present Address: GEMA Center for Genomics, Ecology and Environment, , Universidad Mayor. Camino La Pirámide, ; 5750 Santiago, Chile
                [4 ]ISNI 0000 0001 2292 3111, GRID grid.267827.e, School of Biological Sciences, , Victoria University of Wellington, ; PO Box 600, Wellington, New Zealand
                [5 ]Present Address: Greater, Wellington Regional Council, Shed 39, 2 Fryatt Quay, Pipitea, Wellington, 6111 New Zealand
                [6 ]ISNI 0000 0001 0740 4700, GRID grid.418703.9, Cawthron Institute, ; Private Bag 2, 7001 Nelson, New Zealand
                [7 ]ISNI 0000 0001 2217 0017, GRID grid.7452.4, Université Paris Diderot, ; 5 rue T. Mann, 75013 Paris, France
                Article
                32772
                10.1038/s41598-018-32772-w
                6158260
                30258224
                5dd5758f-d38c-4a37-a659-128f16553236
                © The Author(s) 2018

                Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

                History
                : 1 February 2018
                : 12 September 2018
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