1887

Abstract

A Gram-stain-negative, non-motile, rod-shaped, red-pigmented strain, designated W37, was isolated from soil near an iron factory in Busan (Republic of Korea). Phylogenetic analysis based on 16S rRNA gene sequences showed that strain W37 was most closely related to YIM 007 (98.3 %) and 8A (96.3 %). The DNA–DNA relatedness between strain W37 and YIM 007 was 50.5 %. The predominant respiratory quinone was MK-8. The major polar lipids were an unidentified phosphoglycolipid, an unidentified aminophospholipid, four unidentified glycolipids, two unidentified phospholipids and an unidentified lipid. The major fatty acids (>5 %) of strain W37 were summed feature 3 (Cω7 and/or iso-C 2-OH), C, Cω8 and iso-Cω9. The DNA G+C content was 69.0 mol%. Moreover, the chemo-physical characteristics of strain W37 clearly differed from those of related species, including ranges of growth temperature and pH, positive activity for 4-hydroxybenzoate and negative activity for cystine arylamidase. Phenotypic, chemotaxonomic and genotypic analyses indicated that strain W37 represents a novel species of the genus , for which the name sp. nov., is proposed. The type strain is W37 (=KCTC 33913=CCTCC AB 2017081).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.002724
2018-05-01
2020-09-23
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/68/5/1622.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.002724&mimeType=html&fmt=ahah

References

  1. Brooks BW, Murray RGE. Nomenclature for "Micrococcus radiodurans" and other radiation-resistant cocci: Deinococcaceae fam. nov. and Deinococcus gen. nov., including five species. Int J Syst Bacteriol 1981;31:353–360 [CrossRef]
    [Google Scholar]
  2. Lee JJ, Lee YH, Park SJ, Lim S, Jeong SW et al. Deinococcus seoulensis sp. nov., a bacterium isolated from sediment at Han River in Seoul, Republic of Korea. J Microbiol 2016;54:537–542 [CrossRef][PubMed]
    [Google Scholar]
  3. Cha S, Srinivasan S, Seo T, Kim MK. Deinococcus soli sp. nov., a gamma-radiation-resistant bacterium isolated from rice field soil. Antonie van Leeuwenhoek 2014;105:229–235[Crossref]
    [Google Scholar]
  4. Mattimore V, Battista JR. Radioresistance of Deinococcus radiodurans: functions necessary to survive ionizing radiation are also necessary to survive prolonged desiccation. J Bacteriol 1996;178:633–637 [CrossRef][PubMed]
    [Google Scholar]
  5. Rainey FA, Ray K, Ferreira M, Gatz BZ, Nobre MF et al. Extensive diversity of ionizing-radiation-resistant bacteria recovered from Sonoran Desert soil and description of nine new species of the genus Deinococcus obtained from a single soil sample. Appl Environ Microbiol 2005;71:5225–5235 [CrossRef][PubMed]
    [Google Scholar]
  6. Zhang YQ, Sun CH, Li WJ, Yu LY, Zhou JQ et al. Deinococcus yunweiensis sp. nov., a gamma- and UV-radiation-resistant bacterium from China. Int J Syst Evol Microbiol 2007;57:370–375 [CrossRef][PubMed]
    [Google Scholar]
  7. Srinivasan S, Lee JJ, Lim SY, Joe MH, Im SH et al. Deinococcus radioresistens sp. nov., a UV and gamma radiation-resistant bacterium isolated from mountain soil. Antonie van Leeuwenhoek 2015;107:539–545 [CrossRef][PubMed]
    [Google Scholar]
  8. Wilson KH, Blitchington RB, Greene RC. Amplification of bacterial 16S ribosomal DNA with polymerase chain reaction. J Clin Microbiol 1990;28:1942–1946[PubMed]
    [Google Scholar]
  9. Fan H, Su C, Wang Y, Yao J, Zhao K et al. Sedimentary arsenite-oxidizing and arsenate-reducing bacteria associated with high arsenic groundwater from Shanyin, Northwestern China. J Appl Microbiol 2008;105:529–539 [CrossRef][PubMed]
    [Google Scholar]
  10. 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]
  11. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG. The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 1997;25:4876–4882 [CrossRef][PubMed]
    [Google Scholar]
  12. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987;4:406–425 [CrossRef][PubMed]
    [Google Scholar]
  13. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981;17:368–376 [CrossRef][PubMed]
    [Google Scholar]
  14. Fitch WM. Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 1971;20:406–416 [CrossRef]
    [Google Scholar]
  15. Tamura K, Stecher G, Peterson D, Filipski A, Kumar S. MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 2013;30:2725–2729 [CrossRef][PubMed]
    [Google Scholar]
  16. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985;39:783–791 [CrossRef][PubMed]
    [Google Scholar]
  17. Kimura M. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 1980;16:111–120 [CrossRef][PubMed]
    [Google Scholar]
  18. Perry LB. Gliding motility in some non-spreading flexibacteria. J Appl Bacteriol 1973;36:227–232 [CrossRef][PubMed]
    [Google Scholar]
  19. Dong XZ, Cai MY. Determinative Manual for Routine Bacteriology Beijing: Scientific Press; 2001; pp.353–412
    [Google Scholar]
  20. 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 [CrossRef]
    [Google Scholar]
  21. Ezaki T, Hashimoto Y, Yabuuchi E. Fluorometric deoxyribnuclic acid-dexxyribonucleic 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 Evol Microbiol 1989;39:224–229
    [Google Scholar]
  22. Collins MD, Pirouz T, Goodfellow M, Minnikin DE. Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 1977;100:221–230 [CrossRef][PubMed]
    [Google Scholar]
  23. Hiraishi A, Ueda Y, Ishihara J, Mori T. Comparative lipoquinone analysis of influent sewage and activated sludge by high-performance liquid chromatography and photodiode array detection. J Gen Appl Microbiol 1996;42:457–469 [CrossRef]
    [Google Scholar]
  24. Tamura K, Peterson D, Peterson N, Stecher G, Nei M et al. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 2011;28:2731–2739 [CrossRef][PubMed]
    [Google Scholar]
  25. Wayne LG, Brenner DJ, Colwell RR, Grimont PAD, Kandler O et al. International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 1987;37:463–464[Crossref]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.002724
Loading
/content/journal/ijsem/10.1099/ijsem.0.002724
Loading

Data & Media loading...

Supplements

Supplementary File 1

PDF

Most cited this month Most Cited RSS feed

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