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Volume 71, Issue 4

Reclassification of as gen. nov., comb. nov., of as comb. nov, with an emended description of the genus , recognition that the genus names and are heterotypic synonyms and description of sp. nov., a halotolerant isolate from surface soil sampled at an ancient copper smelter Free

Abstract

In the course of screening the surface soils of ancient copper mines and smelters (East Harz, Germany) an aerobic, non-motile and halotolerant actinobacterium forming small rods or cocci was isolated. The strain designated F300 developed creamy to yellow colonies on tryptone soy agar and grew optimally at 28 °C, pH 7–8 and with 0.5–2 % (m/v) NaCl. Its peptidoglycan was of type A4α -Lys-Glu (A11.54). The menaquinone profile was dominated by MK-8(II, III-H) and contained minor amounts of MK-8(H), MK-8(H) and MK-9(H). The polar lipids comprised diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, mono and diacylated phosphatidylinositol dimannosides, and components that were not fully characterized, including two phospholipids, two glycolipids and an uncharacterized lipid. Major whole-cell sugars were rhamnose and ribose. The fatty acid profile contained mainly iso and anteiso branched fatty acids (anteiso-C, iso-C) and aldehydes/dimethylacetals (i.e. not fatty acids). Sequence analysis of its genomic DNA and subsequent analysis of the data placed the isolate in the group currently defined by members of the genera and (family , order ) as a sister taxon to the previously described species , sharing an average nucleotide identity and average amino acid identity values of 85.3 and 85.7 %, respectively. Genotypic and chemotaxonomic analyses support the view that strain F300 (=DSM 108350=CIP 111667) is the type strain of a new genus and new species for which the name gen. nov., sp. nov. is proposed. Based on revised chemotaxonomic and additional genome based data, it is necessary to discuss and evaluate the results in the light of the classification and nomenclature of members of the family , i.e. the genera and . Consequently, the reclassification of as comb. nov. and as comb. nov., with an emended description of the genus are proposed.

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  • Accepted:
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Keyword(s): Haloactinobacterium , Occultella aeris gen. nov. , polyphasic taxonomy , Ruania , Ruaniaceae and sp. nov.
© 2021 The Authors
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2021-04-09
2024-04-24
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References

  1. Gu Q, Paściak M, Luo H, Gamian A, Liu Z et al. Ruania albidiflava gen. nov., sp. nov., a novel member of the suborder Micrococcineae . Int J Syst Evol Microbiol 2007; 57:809–814 [View Article][PubMed]
     [Google Scholar]
  2. Tang S-K, Zhi X-Y, Wang Y, Wu J-Y, Lee J-C et al. Haloactinobacterium album gen. nov., sp. nov., a halophilic actinobacterium, and proposal of Ruaniaceae fam. nov. Int J Syst Evol Microbiol 2010; 60:2113–2119 [View Article][PubMed]
     [Google Scholar]
  3. Wang F, Liu Y, Wang N, Xu B, Shen L et al. Haloactinobacterium glacieicola sp. nov., isolated from an ice core. Int J Syst Evol Microbiol 2019; 69:3519–3523 [View Article][PubMed]
     [Google Scholar]
  4. Cao J, Kürsten D, Krause K, Kothe E, Martin K et al. Application of micro-segmented flow for two-dimensional characterization of the combinatorial effect of zinc and copper ions on metal-tolerant Streptomyces strains. Appl Microbiol Biotechnol 2013; 97:8923–8930 [View Article][PubMed]
     [Google Scholar]
  5. Kelly AT, Fulton M. Use of triphenyl tetrazolium in motility test medium. Am J Clin Pathol 1953; 23:512 [View Article][PubMed]
     [Google Scholar]
  6. Brewer JH. Clear liquid mediums for the aerobic cultivation of anaerobes. J Am Med Assoc 1940; 115:598–600 [View Article]
     [Google Scholar]
  7. Schumann P. Peptidoglycan structure. Methods Microbiol 2011; 38:101–129
     [Google Scholar]
  8. Collins MD, Jones D. Distribution of isoprenoid quinone structural types in bacteria and their taxonomic implication. Microbiol Rev 1981; 45:316–354 [View Article][PubMed]
     [Google Scholar]
  9. Groth I, Schumann P, Rainey FA, Martin K, Schuetze B et al. Demetria terragena gen. nov., sp. nov., a new genus of actinomycetes isolated from compost soil. Int J Syst Bacteriol 1997; 47:1129–1133 [View Article][PubMed]
     [Google Scholar]
  10. Collins MD, Kroppenstedt RM, Támaoka J, Komagata K, Kinoshita T. Structures of the tetrahydrogenated menaquinones from Actinomadura angiospora, Faenia rectivirgula, and Saccharothrix australiensis . Curr Microbiol 1988; 17:275–279 [View Article]
     [Google Scholar]
  11. Tindall BJ. Lipid composition of Halobacterium lacusprofundi . FEMS Microbiol Lett 1990; 66:199–202 [View Article]
     [Google Scholar]
  12. Tindall BJ, Sikorski J, Smibert RM, Kreig NR. Phenotypic characterization and the principles of comparative systematics. Methods for General and Molecular Microbiology, 3rd ed. ASM; 2007 pp 330–393
     [Google Scholar]
  13. Minnikin DE, Patel PV, Alshamaony L, GOODFELLOW M. Polar lipid composition in the classification of Nocardia and related bacteria. Int J Syst Bacteriol 1977; 27:104–117 [View Article]
     [Google Scholar]
  14. Stead DE, Sellwood JE, Wilson J, Viney I. Evaluation of a commercial microbial identification system based on fatty acid profiles for rapid, accurate identification of plant pathogenic bacteria. J Appl Bacteriol 1992; 72:315–321 [View Article]
     [Google Scholar]
  15. Gerritsen J, Fuentes S, Grievink W, van Niftrik L, Tindall BJ et al. Characterization of Romboutsia ilealis gen. nov., sp. nov., isolated from the gastro-intestinal tract of a rat, and proposal for the reclassification of five closely related members of the genus Clostridium into the genera Romboutsia gen. nov., Intestinibacter gen. nov., Terrisporobacter gen. nov. and Asaccharospora gen. nov. Int J Syst Evol Microbiol 2014; 64:1600–1616 [View Article][PubMed]
     [Google Scholar]
  16. Kumar S, Stecher G, Tamura K. MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 2016; 33:1870–1874 [View Article][PubMed]
     [Google Scholar]
  17. Meier-Kolthoff JP, Auch AF, Klenk H-P, Göker M. Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 2013; 14:60 [View Article][PubMed]
     [Google Scholar]
  18. 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:pii: btv681 [View Article][PubMed]
     [Google Scholar]
  19. Rodriguez-R LM, Konstantinidis KT. The enveomics collection: a toolbox for specialized analyses of microbial genomes and metagenomes. PeerJ Preprints 2016; 4:
     [Google Scholar]
  20. Meier-Kolthoff JP, Göker M. TYGS is an automated high-throughput platform for state-of-the-art genome-based taxonomy. Nat Commun 2019; 10:2182 [View Article][PubMed]
     [Google Scholar]
  21. Ondov BD, Treangen TJ, Melsted P, Mallonee AB, Bergman NH et al. Mash: fast genome and metagenome distance estimation using MinHash. Genome Biol 2016; 17:1–14 [View Article]
     [Google Scholar]
  22. Lefort V, Desper R, Gascuel O. FastME 2.0: a comprehensive, accurate, and fast distance-based phylogeny inference program. Mol Biol Evol 2015; 32:2798–2800 [View Article][PubMed]
     [Google Scholar]
  23. Farris JS. Estimating phylogenetic trees from distance matrices. Am Nat 1972; 106:645–668 [View Article]
     [Google Scholar]
  24. Kanehisa M, Sato Y. KEGG Mapper for inferring cellular functions from protein sequences. Protein Sci 2020; 29:28–35 [View Article][PubMed]
     [Google Scholar]
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Reclassification of Haloactinobacterium glacieicola as Occultella glacieicola gen. nov., comb. nov., of Haloactinobacterium album as Ruania alba comb. nov, with an emended description of the genus Ruania, recognition that the genus names Haloactinobacterium and Ruania are heterotypic synonyms and description of Occultella aeris sp. nov., a halotolerant isolate from surface soil sampled at an ancient copper smelter
Int J Syst Evol Microbiol 71, 004769 (2021); https://doi.org/10.1099/ijsem.0.004769
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