Classification of a Violacein-Producing Psychrophilic Group of Isolates Associated with Freshwater in Antarctica and Description of Rugamonas violacea sp. nov

• Published in: Microbiology spectrum 2021-09, Vol.9 (1), p.e0045221-e0045221
• Main Authors: Sedláček, Ivo, Holochová, Pavla, Sobotka, Roman, Busse, Hans-Jürgen, Švec, Pavel, Králová, Stanislava, Šedo, Ondrej, Pilný, Jan, Staňková, Eva, Koublová, Vendula, Sedlář, Karel
• Format: Article
• Language: English
• Subjects: Antarctic Regions; Antarctica; Bacterial Typing Techniques; Bacteriology; Base Composition; DNA, Bacterial - genetics; Indoles - metabolism; Lakes; Phylogeny; Pseudomonadaceae - classification; Pseudomonadaceae - genetics; Pseudomonadaceae - isolation & purification; Pseudomonadaceae - metabolism; psychrophiles; Research Article; RNA, Ribosomal, 16S - genetics; Rugamonas; Soil Microbiology; species description; taxonomy; violacein
• ISSN: 2165-0497; 2165-0497
• DOI: 10.1128/Spectrum.00452-21

A group of 11 bacterial strains was isolated from streams and lakes located in a deglaciated northern part of James Ross Island, Antarctica. They were rod-shaped, Gram-stain-negative, motile, and catalase-positive and produced blue-violet-pigmented colonies on R2A agar. A polyphasic taxonomic approach based on 16S rRNA gene sequencing, whole-genome sequencing, automated ribotyping, repetitive element sequence-based PCR (rep-PCR), MALDI-TOF MS, fatty acid profile, chemotaxonomy analyses, and extensive biotyping was applied in order to clarify the taxonomic position of these isolates. Phylogenetic analysis based on the 16S rRNA gene indicated that all the isolates constituted a coherent group belonging to the genus . The closest relatives to the representative isolate P5900 were Rugamonas rubra CCM 3730 , FT103W , and FT29W , exhibiting 99.2%, 99.1%, and 98.6% 16S rRNA pairwise similarity, respectively. The average nucleotide identity and digital DNA-DNA hybridization values calculated from the whole-genome sequencing data clearly proved that P5900 represents a distinct species. The G+C content of genomic DNAs was 66.1 mol%. The major components in fatty acid profiles were summed feature 3 (C /C ), C , and C . The cellular quinone content contained exclusively ubiquinone Q-8. The predominant polar lipids were diphosphatidylglycerol, phosphatidylglycerol, and phosphatidylethanolamine. The polyamine pattern was composed of putrescine, 2-hydroxputrescine, and spermidine. Our polyphasic approach provides a new understanding of the taxonomy of novel pigmented species isolated from freshwater samples in Antarctica. The isolates showed considerable extracellular bactericidal secretions. The antagonistic activity of studied isolates against selected pathogens was proved by this study and implied the importance of such compounds' production among aquatic bacteria. The psychrophilic and violacein-producing species may play a role in the diverse consortium among pigmented bacteria in the Antarctic water environment. Based on all the obtained results, we propose a novel species for which the name sp. nov. is suggested, with the type strain P5900 (CCM 8940 ; LMG 32105 ). Isolates of were obtained from different aquatic localities, and they represent the autochthonous part of the water microbiome in Antarctica.