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Ecosystem Drivers in a Changing Planet 26–30 May 2019 Lisbon, Portugal

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Ecosystem Drivers in a Changing Planet 26–30 May 2019 Lisbon, Portugal BAGECO 15 15th Symposium on Bacterial Genetics and Ecology © Massimiliano Cardinale, Renato Fani, Anna Maria Puglia Ecosystem drivers in a changing planet 26–30 May 2019 Lisbon, Portugal www.bageco.org © joyfull l Shutterstock.com Abstracts Invited Lectures IL 1–IL 18 ................................................................................................................................................................................................... 3 Oral Presentations O 1–O 42 .................................................................................................................................................................................................. 17 Poster Presenations Session 1 P 1–P 121 .............................................................................................................................................................................. 43 Session 2 P 122–P 250 .......................................................................................................................................................................... 109 Index of Invited Speakers and Abstract Authors ........................................................................................................................................ 179 2 Invited Lectures Horizontal gene transfer, mobile genetic elements and antibiotic resistance IL 1 The transferable resistome of produce – the missing link? K. Smalla Julius Kühn Institut Federal Research Centre for Cultivated Plants, Braunschweig, Germany 4 Microbial adaptation, functioning and biodiversity in a changing planet IL 2 Contaminant antibiotic resistance in water environments C. M. Manaia Centre for Biotechnology and Fine Chemistry, Porto, Portugal IL 3 Life in the dark – patterns and functions of groundwater microbiomes K. Küsel Friedrich-Schiller-Universität Jena, Institut für Biodiversität, Jena, Germany 5 Microbiomes for sustainability – boosting agri- and aquaculture ecosystems IL 4 Probiotic bacteria as disease control agents in marine fish larval rearing L. Gram Technical University of Denmark, DTU Bioengineering, Department of Biotechnology and Biomedicine, Lyngby, Denmark 6 Host-microbe interactions as driving forces of ecosystems/Round table IL 5 Microbiome manipulation of marine hosts and its potential to foster ecosystem resilience R. S. Peixoto Rio de Janeiro Federal University, Brazil, and University of Carlifornia at Davis (UC Davis), USA 7 Host-microbe interactions – ecology and evolution IL 6 Sponge holobionts – from microbes to ecosystems U. Hentschel Helmholtz Centre for Ocean Research, Kiel, Germany IL 7 Modulation of fish microbe-interactions in recirculating aquaculture systems (RAS) N. C. Gomes University of Aveiro, Department of Biology & CESAM, Aveiro, Portugal 8 Microbiomes for sustainability: Environmental pollution and bioremediation – current and future challenges IL 8 Central role of microbial biofilms in the biodegradation of hydrocarbons F. Coulon University of Cranfield, UK IL 9 P. V. Morais Lisbon, PT 9 Microbiology in the metagenomics era – tools, applications, and the emergence of a novel tree of life IL 10 Horizonal transfer of antibiotic resistance genes in urban water systems P. V. Morais 10 The wonders of secondary metabolism – from natural products to novel biocatalysts IL 11 Role of chemical mediators in aquatic interactions across the prokaryote-eukaryote boundary – the sea lettuce Ulva only gets into shape with the right bacteria T. Wichard1, M. Kwantes1, G. Califano1, A. Weiss1 1Friedrich Schiller University Jena, Institute for Inorganic and Analytical Chemistry, Jena, Germany There is a growing interest in the occurrence and diversity of metabolites used as chemical mediators in cross-kingdom interactions within aquatic systems. Bacteria produce metabolites to protect and influence the growth and life cycle of their eukaryotic hosts. In turn, the host provides a nutrient-enriched environment for the bacteria. Here, I discuss the role of waterborne chemical mediators that are responsible for interactions in the green seaweed Ulva (Chlorophyta) and its associated bacteria. Growth and morphogenesis of Ulva depend on associated bacteria which release morphogenetic compounds that induce cell division and differentiation. Under axenic conditions, the model organism Ulva mutabilis develops into a callus-like-phenotype with cell wall protrusions. The combination of two bacteria, Roseovarius sp. MS2 and Maribacter sp. MS6 recovers the morphogenesis completely. Results: Stable community and chemosphere evolution requires several essential steps that integrate the biofilm interface summarized in the following working model for Ulva: (1) Finding a partner: Macroalgae release dimethylsulfoniopropionate (DMSP), chemotactically attracting Roseovarius sp. MS2 (and other bacteria). (2) Providing a carbon source: Ulva delivers a glycerol boundary layer as a carbon source for Roseovarius sp., supporting biofilm formation. Bacteria successively assemble, depositing a self-produced mucilage layer. (3) Inducing algal growth: Upon establishing initial interactions, morphogenetic compounds stimulate Ulva cell divisions (Roseovarius-factor) and rhizoid formation (Maribacter-factor), promoting biomass production and connecting the alga directly with the bacterial biofilm through rhizoid formation induction. Higher algal biomass implies higher glycerol production, promoting bacterial growth. (4) Exploiting a common chemosphere: Close vicinity allows mutual benefit via the production of, for example, antibiotics or organic ligands for recruiting essential trace metals (Figure 1). Conclusion: We conclude that many bacteria can use DMSP as a reliable signal indicating a food source and promote the subsequent development and morphogenesis in Ulva via morphogens. References: Wichard and Beemelmanns (2018) Journal of Chemical Ecology 44:1008–1021 (review); Wichard et al. (2015) Frontiers in Plant Science 6:86 (review); Kessler et al. (2018) Molecular Ecology 27: 1808-1819; DeClerck et al. (2018) Current Biology 28: 2921-2933. Fig. 1 11 Sattellite meeting: COST Action HUPLANTcontrol – Control of human pathogenic microorganisms in plant production systems IL 12 Plasmid mediated adaptation of plant-associated bacteria K. Smalla Julius Kühn Institut Federal Research Centre for Cultivated Plants, Braunschweig, Germany IL 13 The natural resistome of microbial communities in plants and lichens T. Cernava 12 Sattellite meeting: COST Action HUPLANTcontrol – Control of human pathogenic microorganisms in plant production systems IL 14 Microbial interactions as potential drivers for small scale spatial organisation of the plant root microbiome S. Sørensen University of Copenhagen, Denmark IL 15 Evolution of microbiome traits and antibiotic resistances J. D. van Elsas University of Groningen, RUG Department of Microbial Ecology, Groningen, Denmark 13 Sattellite meeting: COST Action HUPLANTcontrol – Control of human pathogenic microorganisms in plant production systems IL 16 The plant microbiome within the one health concept G. Berg Technical University of Graz, Austria 14 Living in an increasingly aseptic world? Microbiology in the built and social environment IL 17 Built environments – new insights into the microbiome and resistome G. Berg Technical University of Graz, Austria 15 Building a modern microbial ecological theory – conceptual and technical advances IL 18 What are the mechanisms behind alternative community states and how do we distinguish between them? K. Faust University of Leuven, Belgium 16 Oral Presentations Horizontal gene transfer, mobile genetic elements and antibiotic resistance O 1 Mobile DNA in arctic and antarctic microbiocenoses – diversity, horizontal transfer and role of plasmids in adaptation of psychrotolerant bacteria to extreme environments K. Romaniuk1, A. Ciok1, P. Decewicz1, A. Gorecki1, M. Dziurzynski1, M. Styczynski1, P. Golec1, L. Dziewit1 1University of Warsaw, Department of Bacterial Genetics, Warsaw, Poland Introduction: Plasmids, are self-replicating, extrachromosomal mobile genetic elements, and thus play a key role in horizontal gene transfer between bacteria. However, the knowledge about plasmids of cold-active bacteria originating from Arctic and Antarctica is scarce. Objectives: The aim of the study was to reveal the diversity and role of plasmids in adaptation of psychrotolerant bacteria to extreme environments, and to analyze the range and directions of horizontal gene transfer in polar microbiocenoses. Materials and methods: Standard molecular biology methods were used. Growth kinetics, biofilm formation and minimum inhibitory concentrations of toxicants were analyzed according standard procedures. Results: Over 150 plasmids originating from cultivable psychrotolerant bacteria, as well as various plasmid contigs retrieved from metagenomic data were characterized. Identified replicons are mostly small, cryptic plasmids, including miniature replicons (<1 kb) found in glacier-inhabitants - Variovorax spp. Detailed analysis of larger (>10 kb) plasmids revealed the presence of numerous genes, that seem to affect bacterial adaptation to extreme environmental conditions. Amongst identified genes of adaptive value, we found and characterized determinants that: (i) protect bacteria against reactive oxygen species and UV radiation, (ii) confer resistance to heavy metals, (iii) enable assembly of iron-sulfur [Fe-S] clusters, (iv) enable utilization of hardly-degradable carbon sources and (v) increase
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