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Article

Filling the Gaps in the Cyanobacterial Tree of Life—Metagenome Analysis of Stigonema ocellatum DSM 106950, Chlorogloea purpurea SAG 13.99 and Gomphosphaeria aponina DSM 107014

1
Leibniz-Institut DSMZ—Deutsche Sammlung von Mikroorganismen und Zellkulturen, 38124 Braunschweig, Germany
2
Helmholtz-Zentrum für Infektionsforschung, 38124 Braunschweig, Germany
*
Author to whom correspondence should be addressed.
These authors contributed equally to this work.
Academic Editors: Denis Baurain, Luc Cornet and Eduardo Santero
Genes 2021, 12(3), 389; https://doi.org/10.3390/genes12030389
Received: 17 November 2020 / Revised: 18 February 2021 / Accepted: 3 March 2021 / Published: 9 March 2021
Cyanobacteria represent one of the most important and diverse lineages of prokaryotes with an unparalleled morphological diversity ranging from unicellular cocci and characteristic colony-formers to multicellular filamentous strains with different cell types. Sequencing of more than 1200 available reference genomes was mainly driven by their ecological relevance (Prochlorococcus, Synechococcus), toxicity (Microcystis) and the availability of axenic strains. In the current study three slowly growing non-axenic cyanobacteria with a distant phylogenetic positioning were selected for metagenome sequencing in order to (i) investigate their genomes and to (ii) uncover the diversity of associated heterotrophs. High-throughput Illumina sequencing, metagenomic assembly and binning allowed us to establish nearly complete high-quality draft genomes of all three cyanobacteria and to determine their phylogenetic position. The cyanosphere of the limnic isolates comprises up to 40 heterotrophic bacteria that likely coexisted for several decades, and it is dominated by Alphaproteobacteria and Bacteriodetes. The diagnostic marker protein RpoB ensured in combination with our novel taxonomic assessment via BLASTN-dependent text-mining a reliable classification of the metagenome assembled genomes (MAGs). The detection of one new family and more than a dozen genera of uncultivated heterotrophic bacteria illustrates that non-axenic cyanobacteria are treasure troves of hidden microbial diversity. View Full-Text
Keywords: metagenome binning; phylogeny; text mining; classification; cyanosphere; non-axenic; microbial dark matter; culture collection metagenome binning; phylogeny; text mining; classification; cyanosphere; non-axenic; microbial dark matter; culture collection
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MDPI and ACS Style

Marter, P.; Huang, S.; Brinkmann, H.; Pradella, S.; Jarek, M.; Rohde, M.; Bunk, B.; Petersen, J. Filling the Gaps in the Cyanobacterial Tree of Life—Metagenome Analysis of Stigonema ocellatum DSM 106950, Chlorogloea purpurea SAG 13.99 and Gomphosphaeria aponina DSM 107014. Genes 2021, 12, 389. https://doi.org/10.3390/genes12030389

AMA Style

Marter P, Huang S, Brinkmann H, Pradella S, Jarek M, Rohde M, Bunk B, Petersen J. Filling the Gaps in the Cyanobacterial Tree of Life—Metagenome Analysis of Stigonema ocellatum DSM 106950, Chlorogloea purpurea SAG 13.99 and Gomphosphaeria aponina DSM 107014. Genes. 2021; 12(3):389. https://doi.org/10.3390/genes12030389

Chicago/Turabian Style

Marter, Pia; Huang, Sixing; Brinkmann, Henner; Pradella, Silke; Jarek, Michael; Rohde, Manfred; Bunk, Boyke; Petersen, Jörn. 2021. "Filling the Gaps in the Cyanobacterial Tree of Life—Metagenome Analysis of Stigonema ocellatum DSM 106950, Chlorogloea purpurea SAG 13.99 and Gomphosphaeria aponina DSM 107014" Genes 12, no. 3: 389. https://doi.org/10.3390/genes12030389

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