Three bacterial strains producing blue-violet pigmented colonies on R2A agar were isolated from a wet rock wall and lakes in the deglaciated northern part of James Ross Island, Antarctica. The isolated strains inhibited phytopathogenic Gram-positive bacteria Clavibacter spp., Curtobacterium flacumfaciens, and Paenarthrobacter ilicis. Phylogenetic analysis based on the 16S rRNA gene indicated that the isolates belonged to the genus Massilia and the closest relatives were Massilia violaceinigra B2T, Massilia rubra CCM 8692T, Massilia frigida CCM 8695T, Massilia antarctica CCM 8941T, and Massilia aquatica CCM 8693T. A polyphasic taxonomic study based on lepA genes sequencing, automated ribotyping, MALDI-TOF MS, chemotaxonomy analyses, extensive biotyping, average nucleotide identity, and digital DNA-DNA hybridization calculations based on whole-genome sequences proved that the isolates represent a novel Massilia species for which the names Massilia pseudoviolaceinigra sp. nov. and Massilia scottii sp. nov. are suggested, with the type strains P3689T (= CCM 9206T = LMG 33568T) and P5043T (= CCM 9029T = LMG 32502T), respectively. These two bioactive metabolite-producing species may play an important role in shaping the composition of fresh-water Antarctic microbiomes due to the inhibition of various Gram-positive bacteria.

Central European Institute of Technology Masaryk University Kamenice 5 625 00 Brno Czech Republic

Department of Biomedical Engineering Faculty of Electrical Engineering and Communication Brno University of Technology Technická 12 616 00 Brno Czech Republic

Department of Experimental Biology Czech Collection of Microorganisms Faculty of Science Masaryk University Kamenice 5 625 00 Brno Czech Republic

Division of Microbial Ecology Centre for Microbiology and Environmental Systems Science University of Vienna Vienna Austria

Global Change Research Institute of the Czech Academy of Sciences Bělidla 986 4a 60300 Brno Czech Republic

RECETOX Faculty of Science Masaryk University Kamenice 5 625 00 Brno Czech Republic

See more in PubMed

Sharma, A., Gupta, A. K. & Devi, B. Current trends in management of bacterial pathogens infecting plants. PubMed

Hogenhout, S. A. & Loria, R. Virulence mechanism of Gram-positive plant pathogenic bacteria. PubMed

Tambong, J. T. Comparative genomics of PubMed PMC

Li, X. et al. Re-classification of PubMed PMC

Tian, Q. et al. Description of PubMed PMC

López-Ramírez, V. et al. PubMed

Evseev, P. et al. PubMed PMC

Styczynski, M. et al. Application of psychrotolerant Antarctic bacteria and their metabolites as efficient plant growth promoting agents. PubMed PMC

Torracchi, J. E. et al. Fighting plant pathogens with cold-active microorganisms: Biopesticide development and agriculture intensification in cold climates. PubMed

Barnes, D. K. A. Polar marine ecosystems. In

Dahal, R. H., Chaudhary, D. K., Kim, D.-U. & Kim, J. Cold-shock gene PubMed

Gu, Z. et al. PubMed

Guo, B. et al. PubMed

Holochová, P. et al. Description of PubMed

Sedláček, I. et al. Characterization of waterborne psychrophilic PubMed PMC

Miess, H., Frediansyah, A., Göker, M. & Gross, H. Draft genome sequences of six type strains of the genus PubMed PMC

Amirhosseini, K., Alizadeh, M. & Azarbad, H. Harnessing the ecological and genomic adaptability of the bacterial genus PubMed PMC

Ho, S.-T. et al. Integrated omics strategy reveals cyclic lipopeptides empedopeptins from PubMed PMC

Lombe, B. K. et al. Discovery, biosynthetic origin, and heterologous production of massinidine, an antiplasmodial alkaloid. PubMed

Frediansyah, A., Straetener, J., Brötz-Oesterhelt, H. & Gross, H. Massiliamide, a cyclic tetrapeptide with potent tyrosinase inhibitory properties from the Gram-negative bacterium PubMed PMC

Li, C. et al. PubMed

Logan, N. A. Numerical taxonomy of violet-pigmented, gram-negative bacteria and description of

Srinivas, T. N. R. et al. PubMed

Wang, H. et al. PubMed

Yang, E. et al. PubMed

Kämpfer, P., Busse, H.-J. & Scholz, H. C. PubMed

Lopes, S. C. P. et al. Violacein extracted from PubMed PMC

Li, W.-J. et al. PubMed

Hettiarachchi, S. A. et al. A rapid and efficient screening method for antibacterial compound-producing bacteria. PubMed

Tejero-Sarinena, S., Barlow, J., Costabile, A., Gibson, G. R. & Rowland, I. In vitro evaluation of the antimicrobial activity of a range of probiotics against pathogens: Evidence for the effects of organic acids. PubMed

Saitou, N. & Nei, M. The neighbor-joining method: A new method for reconstructing phylogenetic trees. PubMed

Felsenstein, J. Evolutionary trees from DNA sequences: A maximum likelihood approach. PubMed

Tamura, K., Stecher, G. & Kumar, S. MEGA 11: Molecular evolutionary genetics analysis version 11. PubMed PMC

Ewels, P., Magnusson, M., Lundin, S. & Käller, M. MultiQC: Summarize analysis results for multiple tools and samples in a single report. PubMed PMC

Bolger, A. M., Lohse, M. & Usadel, B. Trimmomatic: A flexible trimmer for Illumina sequence data. PubMed PMC

Wick, R. R., Judd, L. M., Gorrie, C. L. & Holt, K. E. Unicycler: Resolving bacterial genome assemblies from short and long sequencing reads. PubMed PMC

Tatusova, T. et al. NCBI prokaryotic genome annotation pipeline. PubMed PMC

Parks, D. H., Imelfort, M., Skennerton, C. T., Hugenholtz, P. & Tyson, G. W. CheckM: Assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes. PubMed PMC

Chklovski, A., Parks, D. H., Woodcroft, B. J. & Tyson, G. W. CheckM2: A rapid, scalable and accurate tool for assessing microbial genome quality using machine learning. PubMed

Cantalapiedra, C. P. et al. eggNOG-mapper v2: Functional annotation, orthology assignments, and domain prediction at the metagenomic scale. PubMed PMC

Couvin, D. et al. CRISPRCasFinder, an update of CRISRFinder, includes a portable version, enhanced performance and integrates search for Cas proteins. PubMed PMC

Wishart, D. S. et al. PHASTEST: Faster than PHASTER, better than PHAST. PubMed PMC

Alcock, B. P. et al. CARD 2023: Expanded curation, support for machine learning, and resistome prediction at the comprehensive antibiotic resistance database. PubMed PMC

Blin, K. et al. antiSMASH 7.0: New and improved predictions for detection, regulation, chemical structures and visualisation. PubMed PMC

Navarro-Munoz, J. C. et al. A computational framework to explore large-scale biosynthetic diversity. PubMed PMC

Shannon, P. et al. Cytoscape: A software environment for integrated models of biomolecular interaction networks. PubMed PMC

Goris, J. et al. DNA–DNA hybridization values and their relationship to whole-genome sequence similarities. PubMed

Richter, M., Rosselló-Móra, R., Glöckner, F. O. & Peplies, J. JSpeciesWS: A web server for prokaryotic species circumscription based on pairwise genome comparison. PubMed PMC

Meier-Kolthoff, J. P. & Göker, M. TYGS is an automated high-throughput platform for state-of-the-art genome-based taxonomy. PubMed PMC

O’Leary, N. A. et al. Reference sequence (RefSeq) database at NCBI: Current status, taxonomic expansion, and functional annotation. PubMed PMC

Chaudhari, N. M., Gupta, V. K. & Dutta, Ch. BPGA: An ultra-fast pan-genome analysis pipeline. PubMed PMC

Edgar, R. C. Search and clustering orders of magnitude faster than BLAST. PubMed

Edgar, R. C. MUSCLE: A multiple sequence alignment method with reduced time and space complexity. PubMed PMC

Kimura, M. A simple method for estimating evolutionary rate of base substitutions through comparative studies of nucleotide sequences. PubMed

Freiwald, A. & Sauer, S. Phylogenetic classification and identification of bacteria by mass spectrometry. PubMed

Sedláček, I. et al. Classification of violacein-producing psychrophilic group of isolates associated with freshwater in Antarctica and description of PubMed PMC

Tindall, B.J., Sikorski, J., Smibert, R.M. & Kreig, N.R. Phenotypic characterization and the principles of comparative systematics. In:

Vieira, S. et al. PubMed

EUCAST. Breakpoint tables for interpretation of MICs and zone diameters, version 12.0. The European committee on antimicrobial susceptibility testing, 2022, www.eucast.org.

Jung, W. J. et al. Antibacterial activity of antagonistic bacterium PubMed

Gautam, S., Chauhan, A., Sharma, R., Sehgal, R. & Shirkot, C. K. Potential of PubMed

Torres, M. J., Petroselli, G., Daz, M., Erra-Balsells, R. & Audisio, M. C. PubMed

Calderón-de la Sancha, F. J., Carrasco-Navarro, U., Santander, G., Barrios-González, J. & Mejía, A. Novel antimicrobial activity of protein produced by PubMed

Shaffer, J. M., Giddings, L.-A., Samples, R. M. & Mikucki, J. A. Genomic and phenotypic characterization of a red-pigmented strain of PubMed PMC

Xiao, Y. et al. A symbiotic bacterium of Antarctic fish reveals environmental adaptability mechanisms and biosynthetic potential towards antibacterial and cytotoxic activities. PubMed PMC

Snopková, K., Dufková, K. & Šmajs, D.

Snopková, K. et al. Pyocin-mediated antagonistic interactions in PubMed

Artini, M. et al. Antarctic marine bacteria as a source of anti-biofilm molecules to combat ESKAPE pathogens. PubMed PMC

Chun, J. et al. Proposed minimal standards for the use of genome data for the taxonomy of prokaryotes. PubMed

Singh, H. et al. PubMed

Riesco, R. & Trujillo, M. E. Update on the proposed minimal standards for the use of genome data for the taxonomy of prokaryotes. PubMed PMC

Rajwani, R., Ohlemacher, S. I., Zhao, G., Liu, H.-B. & Bewley, C. A. Genome-guided discovery of natural products through multiplexed low-coverage whole-genome sequencing of soil actinomycetes on Oxford Nanopore Flongle. PubMed PMC

Goldstein, S., Beka, L., Graf, J. & Klassen, J. L. Evaluation of strategies for the assembly of diverse bacterial genomes using MinION long-read sequencing. PubMed PMC

O’Sullivan, J. et al. Lysobactin, a novel antibacterial agent produced by PubMed

Black, C. M., Chu, A., Thomas, G. H., Routledge, A. & Duhme-Klair, A.-K. Synthesis and antimicrobial activity of an SO PubMed