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Volume 72, Issue 3

sp. nov., isolated from marine waste Open Access

Abstract

A novel Gram-stain-negative, non-motile, halophilic bacterium designated strain M10.9X was isolated from the inner sediment of an aluminium can collected from the Mediterranean Sea (València, Spain). Cells of strain M10.9X were rod-shaped and occasionally formed aggregates. The strain was oxidase-negative and catalase-positive, and showed a slightly psychrophilic, neutrophilic and slightly halophilic metabolism. The phylogenetic analyses revealed that strain M10.9X was closely related to E-37 and F028-2. The genomic G+C content of strain M10.9X was 65.2 mol%. The average nucleotide identity and digital DNA–DNA hybridization values were 76.6 and 20.9 %, respectively, confirming its adscription to a new species within the genus . The major cellular fatty acids were C ω7/C ω6 and C. The polar lipids consisted of phosphatidylglycerol, phosphatidylethanolamine, an unidentified aminolipid, an unidentified glycolipid, an unidentified phospholipid and an unidentified lipid. According to the resuts of a polyphasic study, strain M10.9X represents a novel species of the genus for which the name sp. nov. (type strain M10.9X=DSM 112301=CECT 30307) is proposed.

  • Received:
  • Accepted:
  • Published Online:
Keyword(s): Alphaproteobacteria , marine waste , new species , Rhodobacteraceae and Sagittula
Funding
This study was supported by the:
  • Ministerio de Ciencia, Innovación y Universidades (Award FPU18/02578)
    • Principle Award Recipient: ÀngelaVidal-Verdú
  • Ministerio de Ciencia, Innovación y Universidades (Award FPU17/04184)
    • Principle Award Recipient: EstherMolina-Menor
© 2022 The Authors
  • This is an open-access article distributed under the terms of the Creative Commons Attribution NonCommercial License.
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2022-03-08
2024-05-01
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References

  1. Gonzalez JM, Mayer F, Moran MA, Hodson RE, Whitman WB. Sagittula stellata gen. nov., sp. nov., a lignin-transforming bacterium from a coastal environment. Int J Syst Bacteriol 1997; 47:773–780 [View Article]
     [Google Scholar]
  2. Lee DH, Cho SJ, Kim SM, Lee SB. Sagittula marina sp. nov., isolated from seawater and emended description of the genus Sagittula . Int J Syst Evol Microbiol 2013; 63:2101–2107 [View Article] [PubMed]
     [Google Scholar]
  3. Frank AM, Chua MJ, Gulvik CA, Buchan A. Functional redundancy in the hydroxycinnamate catabolism pathways of the salt marsh bacterium Sagittula stellata E-37. Appl Environ Microbiol 2018; 84:e02027-18 [View Article] [PubMed]
     [Google Scholar]
  4. Vidal-Verdú À, Latorre-Pérez A, Molina-Menor E, Baixeras J, Peretó J et al. Living in a bottle: bacteria from sediment-associated mediterranean waste and potential growth on polyethylene terephthalate (petpet). MicrobiologyOpen 2021; 1:e1259 [View Article]
     [Google Scholar]
  5. Tanner K, Mancuso CP, Peretó J, Khalil AS, Vilanova C et al. Sphingomonas solaris sp. nov., isolated from a solar panel in Boston, Massachusetts. Int J Syst Evol Microbiol 2020; 70:1814–1821 [View Article] [PubMed]
     [Google Scholar]
  6. Busse H-J, Kämpfer P, Szostak MP, Spergser J. Entomomonas asaccharolytica sp. nov., isolated from Acheta domesticus . Int J Syst Evol Microbiol 2021; 71: [View Article] [PubMed]
     [Google Scholar]
  7. Bernardet J-F, Nakagawa Y, Holmes B. Proposed minimal standards for describing new taxa of the family Flavobacteriaceae and emended description of the family. Int J Syst Evol Microbiol 2002; 52:1049–1070 [View Article] [PubMed]
     [Google Scholar]
  8. Sasser M. Identification of bacteria by gas chromatography of cellular fatty acids. MIDI Technical Note 101 Newark: DE: MIDI; 1990
     [Google Scholar]
  9. MIDI Sherlock Microbial Identification System Operating Manual, version 6.1 Newark, DE: MIDI Inc; 2008
     [Google Scholar]
  10. Edwards U, Rogall T, Blöcker H, Emde M, Böttger EC. Isolation and direct complete nucleotide determination of entire genes. Characterization of a gene coding for 16S ribosomal RNA. Nucleic Acids Res 1989; 17:7843–7853 [View Article] [PubMed]
     [Google Scholar]
  11. Stackebrandt E, Liesack W. Nucleic acids and classification. In Goodfellow M, O’Donnell AG. eds Handbook of New Bacterial Systematics London: Academic Press; 1993 pp 152–189
     [Google Scholar]
  12. Molina-Menor E, Gimeno-Valero H, Pascual J, Peretó J, Porcar M. High culturable bacterial diversity from a European desert: the Tabernas desert. Front Microbiol 2020; 11:3253 [View Article] [PubMed]
     [Google Scholar]
  13. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981; 17:368–376 [View Article] [PubMed]
     [Google Scholar]
  14. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987; 4:406–425 [View Article] [PubMed]
     [Google Scholar]
  15. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985; 39:783–791 [View Article] [PubMed]
     [Google Scholar]
  16. Andrews S. FastQC UK: Babraham Institute; https://www.bioinformatics.babraham.ac.uk/projects/fastqc/
  17. Bankevich A, Nurk S, Antipov D, Gurevich AA, Dvorkin M et al. SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. J Comput Biol 2012; 19:455–477 [View Article] [PubMed]
     [Google Scholar]
  18. Gurevich A, Saveliev V, Vyahhi N, Tesler G. QUAST: quality assessment tool for genome assemblies. Bioinformatics 2013; 29:1072–1075 [View Article] [PubMed]
     [Google Scholar]
  19. Parks DH, Imelfort M, Skennerton CT, Hugenholtz P, Tyson GW. CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes. Genome Res 2015; 25:1043–1055 [View Article] [PubMed]
     [Google Scholar]
  20. Brettin T, Davis JJ, Disz T, Edwards RA, Gerdes S et al. RASTtk: a modular and extensible implementation of the RAST algorithm for building custom annotation pipelines and annotating batches of genomes. Sci Rep 2015; 5:1–6 [View Article] [PubMed]
     [Google Scholar]
  21. Meier-Kolthoff JP, Göker M. TYGS is an automated high-throughput platform for state-of-the-art genome-based taxonomy. Nat Commun 2019; 10:1–10 [View Article] [PubMed]
     [Google Scholar]
  22. Richter M, Rosselló-Móra R, Oliver Glöckner F, Peplies J. JSpeciesWS: a web server for prokaryotic species circumscription based on pairwise genome comparison. Bioinformatics 2016; 32:929–931 [View Article] [PubMed]
     [Google Scholar]
  23. Na S-I, Kim YO, Yoon S-H, Ha S-M, Baek I et al. UBCG: Up-to-date bacterial core gene set and pipeline for phylogenomic tree reconstruction. J Microbiol 2018; 56:280–285 [View Article] [PubMed]
     [Google Scholar]
  24. Amoozegar MA, Safarpour A, Noghabi KA, Bakhtiary T, Ventosa A. Halophiles and their vast potential in biofuel production. Front Microbiol 2019; 10:1895 [View Article] [PubMed]
     [Google Scholar]
  25. Kushner DJ. Life in high salt and solute concentrations: halophilic bacteria. In Kushner DJ. eds Microbial Life in Extreme Environments London, United Kingdom: Academic Press, Ltd; 1978 pp 317–336
     [Google Scholar]
  26. Meier-Kolthoff JP, Auch AF, Klenk HP, Göker M. Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 2013; 14:1–14 [View Article] [PubMed]
     [Google Scholar]
  27. Richter M, Rosselló-Móra R. Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci USA 2009; 106:19126–19131 [View Article] [PubMed]
     [Google Scholar]
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Sagittula salina sp. nov., isolated from marine waste
Int J Syst Evol Microbiol 72, 005240 (2022); https://doi.org/10.1099/ijsem.0.005240
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