Genome-Based Metabolic Reconstruction of a Novel Uncultivated Freshwater Magnetotactic coccus “Ca. Magnetaquicoccus inordinatus” UR-1, and Proposal of a Candidate Family “Ca. Magnetaquicoccaceae”
Magnetotactic bacteria are widely represented microorganisms that have the ability to synthesize magnetosomes. The magnetotactic cocci of the order Magnetococcales are the most frequently identified, but their classification remains unclear due to the low number of cultivated representatives. This p...
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| Format: | Article |
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Frontiers Media S.A.
2019-10-01
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| Series: | Frontiers in Microbiology |
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| Online Access: | https://www.frontiersin.org/article/10.3389/fmicb.2019.02290/full |
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| author | Veronika Koziaeva Marina Dziuba Marina Dziuba Pedro Leão Maria Uzun Maria Uzun Maria Krutkina Denis Grouzdev |
| author_facet | Veronika Koziaeva Marina Dziuba Marina Dziuba Pedro Leão Maria Uzun Maria Uzun Maria Krutkina Denis Grouzdev |
| author_sort | Veronika Koziaeva |
| collection | DOAJ |
| description | Magnetotactic bacteria are widely represented microorganisms that have the ability to synthesize magnetosomes. The magnetotactic cocci of the order Magnetococcales are the most frequently identified, but their classification remains unclear due to the low number of cultivated representatives. This paper reports the analysis of an uncultivated magnetotactic coccus UR-1 collected from the Uda River (in eastern Siberia). Genome analyses of this bacterium and comparison to the available Magnetococcales genomes identified a novel species called “Ca. Magnetaquicoccus inordinatus,” and a delineated candidate family “Ca. Magnetaquicoccaceae” within the order Magnetococcales is proposed. We used average amino acid identity values <55–56% and <64–65% as thresholds for the separation of families and genera, respectively, within the order Magnetococcales. Analyses of the genome sequence of UR-1 revealed a potential ability for a chemolithoautotrophic lifestyle, with the oxidation of a reduced sulfur compound and carbon assimilation by rTCA. A nearly complete magnetosome genome island, containing a set of mam and mms genes, was also identified. Further comparative analyses of the magnetosome genes showed vertical inheritance as well as horizontal gene transfer as the evolutionary drivers of magnetosome biomineralization genes in strains of the order Magnetococcales. |
| first_indexed | 2024-12-12T16:26:52Z |
| format | Article |
| id | doaj.art-88cb9e9b7c934e5a903c86586a24ff2d |
| institution | Directory Open Access Journal |
| issn | 1664-302X |
| language | English |
| last_indexed | 2024-12-12T16:26:52Z |
| publishDate | 2019-10-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Microbiology |
| spelling | doaj.art-88cb9e9b7c934e5a903c86586a24ff2d2022-12-22T00:18:52ZengFrontiers Media S.A.Frontiers in Microbiology1664-302X2019-10-011010.3389/fmicb.2019.02290476807Genome-Based Metabolic Reconstruction of a Novel Uncultivated Freshwater Magnetotactic coccus “Ca. Magnetaquicoccus inordinatus” UR-1, and Proposal of a Candidate Family “Ca. Magnetaquicoccaceae”Veronika Koziaeva0Marina Dziuba1Marina Dziuba2Pedro Leão3Maria Uzun4Maria Uzun5Maria Krutkina6Denis Grouzdev7Research Center of Biotechnology of the Russian Academy of Sciences, Institute of Bioengineering, Moscow, RussiaResearch Center of Biotechnology of the Russian Academy of Sciences, Institute of Bioengineering, Moscow, RussiaDepartment of Microbiology, University of Bayreuth, Bayreuth, GermanyInstituto de Microbiologia Paulo de Góes, Universidade Federal Do Rio de Janeiro, Rio de Janeiro, BrazilResearch Center of Biotechnology of the Russian Academy of Sciences, Institute of Bioengineering, Moscow, RussiaFaculty of Biology, Lomonosov Moscow State University, Moscow, RussiaResearch Center of Biotechnology of the Russian Academy of Sciences, Institute of Bioengineering, Moscow, RussiaResearch Center of Biotechnology of the Russian Academy of Sciences, Institute of Bioengineering, Moscow, RussiaMagnetotactic bacteria are widely represented microorganisms that have the ability to synthesize magnetosomes. The magnetotactic cocci of the order Magnetococcales are the most frequently identified, but their classification remains unclear due to the low number of cultivated representatives. This paper reports the analysis of an uncultivated magnetotactic coccus UR-1 collected from the Uda River (in eastern Siberia). Genome analyses of this bacterium and comparison to the available Magnetococcales genomes identified a novel species called “Ca. Magnetaquicoccus inordinatus,” and a delineated candidate family “Ca. Magnetaquicoccaceae” within the order Magnetococcales is proposed. We used average amino acid identity values <55–56% and <64–65% as thresholds for the separation of families and genera, respectively, within the order Magnetococcales. Analyses of the genome sequence of UR-1 revealed a potential ability for a chemolithoautotrophic lifestyle, with the oxidation of a reduced sulfur compound and carbon assimilation by rTCA. A nearly complete magnetosome genome island, containing a set of mam and mms genes, was also identified. Further comparative analyses of the magnetosome genes showed vertical inheritance as well as horizontal gene transfer as the evolutionary drivers of magnetosome biomineralization genes in strains of the order Magnetococcales.https://www.frontiersin.org/article/10.3389/fmicb.2019.02290/fullmagnetotactic bacteria (MTB)magnetosomeCandidatus EtaproteobacteriaCandidatus Magnetaquicoccaceaemagnetotactic cocciMagnetococcales |
| spellingShingle | Veronika Koziaeva Marina Dziuba Marina Dziuba Pedro Leão Maria Uzun Maria Uzun Maria Krutkina Denis Grouzdev Genome-Based Metabolic Reconstruction of a Novel Uncultivated Freshwater Magnetotactic coccus “Ca. Magnetaquicoccus inordinatus” UR-1, and Proposal of a Candidate Family “Ca. Magnetaquicoccaceae” Frontiers in Microbiology magnetotactic bacteria (MTB) magnetosome Candidatus Etaproteobacteria Candidatus Magnetaquicoccaceae magnetotactic cocci Magnetococcales |
| title | Genome-Based Metabolic Reconstruction of a Novel Uncultivated Freshwater Magnetotactic coccus “Ca. Magnetaquicoccus inordinatus” UR-1, and Proposal of a Candidate Family “Ca. Magnetaquicoccaceae” |
| title_full | Genome-Based Metabolic Reconstruction of a Novel Uncultivated Freshwater Magnetotactic coccus “Ca. Magnetaquicoccus inordinatus” UR-1, and Proposal of a Candidate Family “Ca. Magnetaquicoccaceae” |
| title_fullStr | Genome-Based Metabolic Reconstruction of a Novel Uncultivated Freshwater Magnetotactic coccus “Ca. Magnetaquicoccus inordinatus” UR-1, and Proposal of a Candidate Family “Ca. Magnetaquicoccaceae” |
| title_full_unstemmed | Genome-Based Metabolic Reconstruction of a Novel Uncultivated Freshwater Magnetotactic coccus “Ca. Magnetaquicoccus inordinatus” UR-1, and Proposal of a Candidate Family “Ca. Magnetaquicoccaceae” |
| title_short | Genome-Based Metabolic Reconstruction of a Novel Uncultivated Freshwater Magnetotactic coccus “Ca. Magnetaquicoccus inordinatus” UR-1, and Proposal of a Candidate Family “Ca. Magnetaquicoccaceae” |
| title_sort | genome based metabolic reconstruction of a novel uncultivated freshwater magnetotactic coccus ca magnetaquicoccus inordinatus ur 1 and proposal of a candidate family ca magnetaquicoccaceae |
| topic | magnetotactic bacteria (MTB) magnetosome Candidatus Etaproteobacteria Candidatus Magnetaquicoccaceae magnetotactic cocci Magnetococcales |
| url | https://www.frontiersin.org/article/10.3389/fmicb.2019.02290/full |
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