Construction and characterization of synthetic bacterial community for experimental ecology and evolution

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Cairns , J , Jokela , R , Hultman , J , Tamminen , M , Virta , M & Hiltunen , T 2018 , ' Construction and characterization of synthetic bacterial community for experimental ecology and evolution ' , Frontiers in Genetics , vol. 9 , 312 . https://doi.org/10.3389/fgene.2018.00312

Title: Construction and characterization of synthetic bacterial community for experimental ecology and evolution
Author: Cairns, Johannes; Jokela, Roosa; Hultman, Jenni; Tamminen, Manu; Virta, Marko; Hiltunen, Teppo
Contributor organization: Department of Microbiology
Helsinki Institute of Sustainability Science (HELSUS)
Arctic Microbial Ecology
Doctoral Programme in Microbiology and Biotechnology
Antibiotic resistance in human impacted environments
Date: 2018-08-14
Language: eng
Number of pages: 12
Belongs to series: Frontiers in Genetics
ISSN: 1664-8021
DOI: https://doi.org/10.3389/fgene.2018.00312
URI: http://hdl.handle.net/10138/298346
Abstract: Experimental microbial ecology and evolution have yielded foundational insights into ecological and evolutionary processes using simple microcosm setups and phenotypic assays with one- or two-species model systems. The fields are now increasingly incorporating more complex systems and exploration of the molecular basis of observations. For this purpose, simplified, manageable and well-defined multispecies model systems are required that can be easily investigated using culturing and high-throughput sequencing approaches, bridging the gap between simpler and more complex synthetic or natural systems. Here we address this need by constructing a completely synthetic 33 bacterial strain community that can be cultured in simple laboratory conditions. We provide whole-genome data for all the strains as well as metadata about genomic features and phenotypic traits that allow resolving individual strains by amplicon sequencing and facilitate a variety of envisioned mechanistic studies. We further show that a large proportion of the strains exhibit coexistence in co-culture over serial transfer for 48 days in the absence of any experimental manipulation to maintain diversity. The constructed bacterial community can be a valuable resource in future experimental work.
Subject: 1181 Ecology, evolutionary biology
microbial community
model system
synthetic ecology
experimental evolution
whole-genome sequencing
MICROCOSM EXPERIMENTS
SPECIES INTERACTIONS
LIMITED RELEVANCE
ECOSYSTEM ECOLOGY
ESCHERICHIA-COLI
READ ALIGNMENT
SEARCH TOOL
IN-SITU
SYSTEM
COOPERATION
Peer reviewed: Yes
Rights: cc_by
Usage restriction: openAccess
Self-archived version: publishedVersion


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