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Abstract

A new aerobic betaproteobacterium, strain SA-152, was isolated from the water of a crater lake. 16S rRNA gene sequence analysis revealed that strain SA-152 belonged to the family (order ) and was phylogenetically related to S20-91 with 97.09 % and to ULPAs1 with 96.00 % 16S rRNA gene pairwise sequence similarity. Cells of strain SA-152 were rod-shaped, non-motile, oxidase-negative and catalase-positive. Its fatty acid profile was dominated by two fatty acids, C 7 and C, the major respiratory quinones were Q-8 and Q-7, and the main polar lipids were phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol. The G+C content of the genomic DNA of strain SA-152 was 48.3 mol%. The new bacterium can be distinguished from closely related genera , , and based on its non-motile and oxidase-negative cells. On the basis of the phenotypic, chemotaxonomic and genomic data, strain SA-152 is considered to represent a novel species of a new genus, for which the name gen. nov., sp. nov. is proposed. The type strain of is SA-152 (=DSM 29805=NCAIM B.02613).

Funding
This study was supported by the:
  • Research Programs Institute of Sapientia Foundation (Award 1293/2005)
    • Principle Award Recipient: Not Applicable
  • Hungarian Ministry of Human Capacities (Award 1783-3/2018/FEKUTSRAT)
    • Principle Award Recipient: Not Applicable
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2019-10-08
2024-04-19
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References

  1. Baldani JI, Rouws L, Cruz LM, Olivares FL, Schmid M. The Family Oxalobacteraceae . In Rosenberg E, Delong EF, Lory S, Stackebrandt E, Thompson F. (editors) The Prokaryotes, Alphaproteobacteria and Betaproteobacteria, 4th ed. Berlin: Springer-Verlag; 2014 pp 919–974
    [Google Scholar]
  2. Yoon S-H, Ha S-M, Kwon S, Lim J, Kim Y et al. Introducing EzBioCloud: a taxonomically united database of 16S rRNA gene sequences and whole-genome assemblies. Int J Syst Evol Microbiol 2017; 67:1613–1617 [View Article]
    [Google Scholar]
  3. Magyari E, Buczkó K, Jakab G, Braun M, Pál Z et al. Palaeolimnology of the last crater lake in the Eastern Carpathian Mountains: a multiproxy study of Holocene hydrological changes. Hydrobiologia 2009; 631:29–63 [View Article]
    [Google Scholar]
  4. Felföldi T, Ramganesh S, Somogyi B, Krett G, Jurecska L et al. Winter planktonic microbial communities in highland aquatic habitats. Geomicrobiol J 2016; 33:494–504 [View Article]
    [Google Scholar]
  5. Máthé I, Tóth E, Mentes A, Szabó A, Márialigeti K et al. A new Rhizobium species isolated from the water of a crater lake, description of Rhizobium aquaticum sp. nov. Antonie van Leeuwenhoek 2018; 111:2175–2183 [View Article]
    [Google Scholar]
  6. Felföldi T, Márton Z, Szabó A, Mentes A, Bóka K et al. Siculibacillus lacustris gen. nov., sp. nov., a new rosette-forming bacterium isolated from a freshwater crater lake (Lake St. Ana, Romania). Int J Syst Evol Microbiol 2019
    [Google Scholar]
  7. Felföldi T, Vengring A, Kéki Z, Márialigeti K, Schumann P et al. Eoetvoesia caeni gen. nov., sp. nov., isolated from an activated sludge system treating coke plant effluent. Int J Syst Evol Microbiol 2014; 64:1920–1925 [View Article]
    [Google Scholar]
  8. Claus D. A standardized gram staining procedure. World J Microbiol Biotechnol 1992; 8:451–452 [View Article]
    [Google Scholar]
  9. Heimbrook ME, Wang WL, Campbell G. Staining bacterial flagella easily. J Clin Microbiol 1989; 27:2612–2615
    [Google Scholar]
  10. Tarrand JJ, Gröschel DH, Rapid GDHM. Rapid, modified oxidase test for oxidase-variable bacterial isolates. J Clin Microbiol 1982; 16:772–774
    [Google Scholar]
  11. Barrow GI, Feltham RKA. Cowan and Steel’s Manual for the Identification of Medical Bacteria , 3rd edn. Cambridge: Cambridge University Press; 2003
    [Google Scholar]
  12. Felföldi T, Kéki Z, Sipos R, Márialigeti K, Tindall BJ et al. Ottowia pentelensis sp. nov., a floc-forming betaproteobacterium isolated from an activated sludge system treating coke plant effluent. Int J Syst Evol Microbiol 2011; 61:2146–2150 [View Article]
    [Google Scholar]
  13. 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]
    [Google Scholar]
  14. Gurevich A, Saveliev V, Vyahhi N, Tesler G. QUAST: quality assessment tool for genome assemblies. Bioinformatics 2013; 29:1072–1075 [View Article]
    [Google Scholar]
  15. Bushnell B. 2014; BBMap: a fast, accurate, splice-aware aligner. https://sourceforge.net/projects/bbmap/
  16. Lee I, Chalita M, Ha SM, Na SI, Yoon SH et al. ContEst16S: an algorithm that identifies contaminated prokaryotic genomes using 16S RNA gene sequences. Int J Syst Evol Microbiol 2017; 67:2053–2057 [View Article]
    [Google Scholar]
  17. Marmur J, Doty P. Determination of the base composition of deoxyribonucleic acid from its thermal denaturation temperature. J Mol Biol 1962; 5:109–118 [View Article]
    [Google Scholar]
  18. Mesbah M, Premachandran U, Whitman WB. Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. Int J Syst Bacteriol 1989; 39:159–167 [View Article]
    [Google Scholar]
  19. Tamaoka J, Komagata K. Determination of DNA base composition by reversed-phase high-performance liquid chromatography. FEMS Microbiol Lett 1984; 25:125–128 [View Article]
    [Google Scholar]
  20. Felföldi T, Fikó RD, Mentes A, Kovács E, Máthé I et al. Quisquiliibacterium transsilvanicum gen. nov., sp. nov., a novel betaproteobacterium isolated from a waste-treating bioreactor. Int J Syst Evol Microbiol 2017; 67:4742–4746 [View Article]
    [Google Scholar]
  21. Pruesse E, Peplies J, Glöckner FO. SINA: accurate high-throughput multiple sequence alignment of ribosomal RNA genes. Bioinformatics 2012; 28:1823–1829 [View Article]
    [Google Scholar]
  22. 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]
    [Google Scholar]
  23. Lee I, Ouk Kim Y, Park S-C, Chun J. OrthoANI: an improved algorithm and software for calculating average nucleotide identity. Int J Syst Evol Microbiol 2016; 66:1100–1103 [View Article]
    [Google Scholar]
  24. Rodriguez-R LM, Konstantinidis KT. The enveomics collection: a toolbox for specialized analyses of microbial genomes and metagenomes. PeerJ Preprints 2016; 4:e1900v1
    [Google Scholar]
  25. Vaidya G, Lohman DJ, Meier R. SequenceMatrix: concatenation software for the fast assembly of multi-gene datasets with character set and codon information. Cladistics 2011; 27:171–180 [View Article]
    [Google Scholar]
  26. Huelsenbeck JP, Ronquist F. MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 2001; 17:754–755 [View Article]
    [Google Scholar]
  27. Miller MA, Pfeiffer W, Schwartz T. Creating the CIPRES Science Gateway for inference of large phylogenetic trees. Proceedings of the Gateway Computing Environments Workshop (GCE) New Orleans: 2010 pp 1–8
    [Google Scholar]
  28. Chun J, Oren A, Ventosa A, Christensen H, Arahal DR et al. Proposed minimal standards for the use of genome data for the taxonomy of prokaryotes. Int J Syst Evol Microbiol 2018; 68:461–466 [View Article]
    [Google Scholar]
  29. Luo C, Rodriguez-R LM, Konstantinidis KT. MyTaxa: an advanced taxonomic classifier for genomic and metagenomic sequences. Nucleic Acids Res 2014; 42:e73 [View Article]
    [Google Scholar]
  30. Margesin R, Albuquerque L, Zhang DC, Froufe HJC, Severino R et al. Solimicrobium silvestre gen. nov., sp. nov., isolated from alpine forest soil. Int J Syst Evol Microbiol 2018; 68:2491–2498 [View Article]
    [Google Scholar]
  31. Eder W, Wanner G, Ludwig W, Busse HJ, Ziemke-Kägeler F et al. Description of Undibacterium oligocarboniphilum sp. nov., isolated from purified water, and Undibacterium pigrum strain CCUG 49012 as the type strain of Undibacterium parvum sp. nov., and emended descriptions of the genus Undibacterium and the species Undibacterium pigrum . Int J Syst Evol Microbiol 2011; 61:384–391 [View Article]
    [Google Scholar]
  32. Fernandes C, Rainey FA, Nobre MF, Pinhal I, Folhas F et al. Herminiimonas fonticola gen. nov., sp. nov., a betaproteobacterium isolated from a source of bottled mineral water. Syst Appl Microbiol 2005; 28:596–603 [View Article]
    [Google Scholar]
  33. Kämpfer P, Busse HJ, Falsen E. Herminiimonas aquatilis sp. nov., a new species from drinking water. Syst Appl Microbiol 2006; 29:287–291 [View Article]
    [Google Scholar]
  34. Muller D, Simeonova DD, Riegel P, Mangenot S, Koechler S et al. Herminiimonas arsenicoxydans sp. nov., a metalloresistant bacterium. Int J Syst Evol Microbiol 2006; 56:1765–1769 [View Article]
    [Google Scholar]
  35. Kämpfer P, Glaeser SP, Lodders N, Busse HJ, Falsen E. Herminiimonas contaminans sp. nov., isolated as a contaminant of biopharmaceuticals. Int J Syst Evol Microbiol 2013; 63:412–417 [View Article]
    [Google Scholar]
  36. Loveland-Curtze J, Miteva VI, Brenchley JE. Herminiimonas glaciei sp. nov., a novel ultramicrobacterium from 3042 m deep greenland glacial ice. Int J Syst Evol Microbiol 2009; 59:1272–1277 [View Article]
    [Google Scholar]
  37. Lang E, Swiderski J, Stackebrandt E, Schumann P, Spröer C et al. Herminiimonas saxobsidens sp. nov., isolated from a lichen-colonized rock. Int J Syst Evol Microbiol 2007; 57:2618–2622 [View Article]
    [Google Scholar]
  38. Kämpfer P, Rosselló-Mora R, Hermansson M, Persson F, Huber B et al. Undibacterium pigrum gen. nov., sp. nov., isolated from drinking water. Int J Syst Evol Microbiol 2007; 57:1510–1515 [View Article]
    [Google Scholar]
  39. Chen WM, Hsieh TY, Young CC, Sheu SY. Undibacterium amnicola sp. nov., isolated from a freshwater stream. Int J Syst Evol Microbiol 2017; 67:5094–5101 [View Article]
    [Google Scholar]
  40. Du J, Akter S, Won K, Singh H, Shik Yin C et al. Undibacterium aquatile sp. nov., isolated from a waterfall. Int J Syst Evol Microbiol 2015; 65:4128–4133 [View Article]
    [Google Scholar]
  41. Li X, Chang X, Zhang Y, Liu Z, Da X et al. Undibacterium arcticum sp. nov., isolated from arctic alpine soil. Int J Syst Evol Microbiol 2016; 66:2797–2802 [View Article]
    [Google Scholar]
  42. Kämpfer P, Irgang R, Busse HJ, Poblete-Morales M, Kleinhagauer T et al. Undibacterium danionis sp. nov. isolated from a zebrafish (Danio rerio). Int J Syst Evol Microbiol 2016; 66:3625–3631 [View Article]
    [Google Scholar]
  43. Kim SJ, Moon JY, Weon HY, Hong SB, Seok SJ et al. Undibacterium jejuense sp. nov. and Undibacterium seohonense sp. nov., isolated from soil and freshwater, respectively. Int J Syst Evol Microbiol 2014; 64:236–241 [View Article]
    [Google Scholar]
  44. Sheu SY, Lin YS, Chen JC, Chen WM. Undibacterium macrobrachii sp. nov., isolated from a freshwater shrimp culture pond. Int J Syst Evol Microbiol 2014; 64:1036–1042 [View Article]
    [Google Scholar]
  45. Sheu SY, Lin YS, Chen JC, Kwon SW, Chen WM. Undibacterium squillarum sp. nov., isolated from a freshwater shrimp culture pond. Int J Syst Evol Microbiol 2014; 64:3459–3466 [View Article]
    [Google Scholar]
  46. Liu YQ, Wang BJ, Zhou N, Liu SJ. . Undibacterium terreum sp. nov., isolated from permafrost soil. Int J Syst Evol Microbiol 2013; 63:2296–2300 [View Article]
    [Google Scholar]
  47. Austin DA, Moss MO. Numerical taxonomy of red-pigmented bacteria isolated from a lowland river, with the description of a new taxon, Rugamonas rubra gen. nov., sp. nov. Microbiology 1986; 132:1899–1909 [View Article]
    [Google Scholar]
  48. Parte AC. LPSN - List of Prokaryotic names with standing in nomenclature (bacterio.net), 20 years on. Int J Syst Evol Microbiol 2018; 68:1825–1829 [View Article]
    [Google Scholar]
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