1887

Abstract

A Gram-stain-negative, yellow-pigmented bacterial strain, designated PR0302, was isolated from a car evaporator core collected in Korea. The cells were strictly aerobic, non-spore-forming and rod-shaped. The strain grew at 15–37 °C (optimum, 25 °C), at pH 6.0–8.0 (optimum, 7.0) and in the presence of 0–1 % (w/v) NaCl. Phylogenetically, the strain was closely related to members of the genus (97.04–91.22 % 16S rRNA gene sequence similarities) and showed the highest sequence similarity of 97.04 % to THG-DT81. It contained C, summed feature 8 (Cω7 and/or Cω6) and C 2-OH as the predominant fatty acids and Q-10 as the major ubiquinone. The predominant polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidylcholine and sphingoglycolipid. The major polyamine was -homospermidine. The serine palmitoyl transferase gene () was detected and sphingolipid synthesis was confirmed. The mean DNA G+C content of the strain was 67.8±0.5 mol%. DNA–DNA relatedness between strain PR0302 and closely related type strains of species was less than 30 %. The low levels of DNA–DNA relatedness identified strain PR0302 as a member of a novel species in the genus . Based on phenotypic, genotypic and chemotaxonomic data, strain PR0302 represents a novel species in the genus , for which the name sp. nov. is proposed. The type strain is PR0302 (=KACC 18487=NBRC 111532).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.002250
2017-10-01
2020-01-28
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/67/10/4069.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.002250&mimeType=html&fmt=ahah

References

  1. Yabuuchi E, Yano I, Oyaizu H, Hashimoto Y, Ezaki T et al. Proposals of Sphingomonas paucimobilis gen. nov. and comb. nov., Sphingomonas parapaucimobilis sp. nov., Sphingomonas yanoikuyae sp. nov., Sphingomonas adhaesiva sp. nov., Sphingomonas capsulata comb. nov., and two genospecies of the genus Sphingomonas. Microbiol Immunol 1990;34:99–119 [CrossRef][PubMed]
    [Google Scholar]
  2. Yabuuchi E, Kosako Y, Naka T, Suzuki S, Yano I. Proposal of Sphingomonas suberifaciens (van Bruggen, Jochimsen and Brown 1990) comb. nov., Sphingomonas natatoria (Sly 1985) comb. nov., Sphingomonas ursincola (Yurkov et al. 1997) comb. nov., and emendation of the genus Sphingomonas. Microbiol Immunol 1999;43:339–349 [CrossRef][PubMed]
    [Google Scholar]
  3. Takeuchi M, Hamana K, Hiraishi A. Proposal of the genus Sphingomonas sensu stricto and three new genera, Sphingobium, Novosphingobium and Sphingopyxis, on the basis of phylogenetic and chemotaxonomic analyses. Int J Syst Evol Microbiol 2001;51:1405–1417 [CrossRef][PubMed]
    [Google Scholar]
  4. Yabuuchi E, Kosako Y, Fujiwara N, Naka T, Matsunaga I et al. Emendation of the genus Sphingomonas Yabuuchi et al. 1990 and junior objective synonymy of the species of three genera, Sphingobium, Novosphingobium and Sphingopyxis, in conjunction with Blastomonas ursincola. Int J Syst Evol Microbiol 2002;52:1485–1496 [CrossRef][PubMed]
    [Google Scholar]
  5. Busse HJ, Denner EB, Buczolits S, Salkinoja-Salonen M, Bennasar A et al. Sphingomonas aurantiaca sp. nov., Sphingomonas aerolata sp. nov. and Sphingomonas faeni sp. nov., air- and dustborne and Antarcticantarctic, orange-pigmented, psychrotolerant bacteria, and emended description of the genus Sphingomonas.. Int J Syst Evol Microbiol 2003;53:1253–1260 [CrossRef][PubMed]
    [Google Scholar]
  6. Chen H, Jogler M, Rohde M, Klenk HP, Busse HJ et al. Reclassification and emended description of Caulobacter leidyi as Sphingomonas leidyi comb. nov., and emendation of the genus Sphingomonas. Int J Syst Evol Microbiol 2012;62:2835–2843 [CrossRef][PubMed]
    [Google Scholar]
  7. Kim DU, Ka JO. Roseomonas soli sp. nov., isolated from an agricultural soil cultivated with Chinese cabbage (Brassica campestris). Int J Syst Evol Microbiol 2014;64:1024–1029 [CrossRef][PubMed]
    [Google Scholar]
  8. Yoon SH, Ha SM, 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 [CrossRef][PubMed]
    [Google Scholar]
  9. Pruesse E, Peplies J, Glöckner FO. SINA: accurate high-throughput multiple sequence alignment of ribosomal RNA genes. Bioinformatics 2012;28:1823–1829 [CrossRef][PubMed]
    [Google Scholar]
  10. Kimura M. A simple method for estimating evolutionary raterates of base substitutions through comparative studies of nucleotide sequences.. J Mol Evol 1980;16:111–120 [CrossRef][PubMed]
    [Google Scholar]
  11. Fitch WM. Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 1971;20:406–416 [CrossRef]
    [Google Scholar]
  12. Kumar S, Stecher G, Tamura K. MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 2016;33:1870–1874 [CrossRef][PubMed]
    [Google Scholar]
  13. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985;39:783–791 [CrossRef][PubMed]
    [Google Scholar]
  14. Ezaki T, Hashimoto Y, Yabuuchi E. Fluorometric deoxyribonucleic acid-deoxyribonucleic acid hybridization in microdilution wells as an alternative to membrane filter hybridization in which radioisotopes are used to determine genetic relatedness among bacterial strains. Int J Syst Bacteriol 1989;39:224–229 [CrossRef]
    [Google Scholar]
  15. Yim MS, Yau YC, Matlow A, So JS, Zou J et al. A novel selective growth medium-PCR assay to isolate and detect Sphingomonas in environmental samples. J Microbiol Methods 2010;82:19–27 [CrossRef][PubMed]
    [Google Scholar]
  16. Breznak JA, Costilow RN. Physicochemical factors in growth. In Beveridge TJ, Breznak JA, Marzluf GA, Schmidt TM, Snyder LR et al. (editors) Methods for General and Molecular Bacteriology Washington, DC: American Society For Microbiology; 2007; pp.309–329
    [Google Scholar]
  17. Smibert R, Krieg N. Phenotypic characterization. In Gerhardt P, Murra RGE, Wood WA, Krieg NR. (editors) Methods for General and Molecular Bacteriology Washington, DC: American Society for Microbiology; 1994; pp.607–654
    [Google Scholar]
  18. Ten LN, Xu JL, Jin FX, Im WT, Oh HM et al. Spirosoma panaciterrae sp. nov., isolated from soil. Int J Syst Evol Microbiol 2009;59:331–335 [CrossRef][PubMed]
    [Google Scholar]
  19. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids, MIDI Technical Note 101. Newark, DE: MIDI Inc; 1990
    [Google Scholar]
  20. Komagata K, Suzuki K-I. Lipid and cell-wall analysis in bacterial systematics. Methods Microbiol 1987;19:161–207[Crossref]
    [Google Scholar]
  21. Minnikin DE, O'Donnell AG, Goodfellow M, Alderson G, Athalye M et al. An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 1984;2:233–241 [CrossRef]
    [Google Scholar]
  22. Embley TM, Wait R. Structural lipids of eubacteria. In Goodfellow M, O’Donnell AG. (editors) Chemical Methods in Prokaryotic Systematics Chichester: Wiley; 1994; pp.121–161
    [Google Scholar]
  23. Schenkel E, Berlaimont V, Dubois J, Helson-Cambier M, Hanocq M. Improved high-performance liquid chromatographic method for the determination of polyamines as their benzoylated derivatives: application to P388 cancer cells. J Chromatogr B Biomed Appl 1995;668:189–197 [CrossRef][PubMed]
    [Google Scholar]
  24. Gonzalez JM, Saiz-Jimenez C. A fluorimetric method for the estimation of G+C mol% content in microorganisms by thermal denaturation temperature. Environ Microbiol 2002;4:770–773 [CrossRef][PubMed]
    [Google Scholar]
  25. Wayne LG, Moore WEC, Stackebrandt E, Kandler O, Colwell RR et al. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Evol Microbiol 1987;37:463–464 [CrossRef]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.002250
Loading
/content/journal/ijsem/10.1099/ijsem.0.002250
Loading

Data & Media loading...

Most cited articles

This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error