1887

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 67, Issue 8

sp. nov., a novel member of the family ‘’, isolated from tetrabromobisphenol A-contaminated soil Free

Abstract

Bacterial strain ZZ-4, a Gram-stain-negative, aerobic, non-spore-forming, non-motile, non-flagellated, rod-shaped bacterium, was isolated from tetrabromobisphenol A-contaminated soil in PR China. The taxonomic position of this strain was investigated using a polyphasic approach. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain ZZ-4 was a member of the genus and showed the highest sequence similarity to IMCC1731 (98.0 %) and Gsoil 085 (97.2 %), and lower (<97 %) sequence similarity to other known species. Chemotaxonomic analysis revealed that strain ZZ-4 possessed menaquinone MK-7 as the major isoprenoid quinone; and iso-C, summed feature 3 (Cω6 and/or Cω7), iso-C 3-OH and Cω5 were the predominant fatty acids. Strain ZZ-4 showed low DNA–DNA relatedness with IMCC1731 (39.8±3.1 %) and Gsoil 085 (44.51±1.5 %). The DNA G+C content was 38.3 mol%. Based on the phylogenetic and phenotypic characteristics, chemotaxonomic data and DNA–DNA hybridization results, strain ZZ-4 is considered to represent a novel species of the genus , for which the name sp. nov. is proposed. The type strain is ZZ-4 (=KCTC 52344=CCTCC AB 2016137).

  • Received:
  • Accepted:
  • Published Online:
Keyword(s): 16S rRNA gene , Emticicia soli sp. nov. , Gram-stain negative and taxonomy
© 2017 IUMS
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.002041
2017-08-01
2024-04-19
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/67/8/2885.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.002041&mimeType=html&fmt=ahah

References

  1. Saha P, Chakrabarti T. Emticicia oligotrophica gen. nov., sp. nov., a new member of the family 'Flexibacteraceae', phylum Bacteroidetes. Int J Syst Evol Microbiol 2006; 56:991–995 [View Article][PubMed]
     [Google Scholar]
  2. Liu QM, Ten LN, Yu HS, Jin FX, Im WT et al. Emticicia ginsengisoli sp. nov., a species of the family 'Flexibacteraceae' isolated from soil of a ginseng field. Int J Syst Evol Microbiol 2008; 58:1100–1105 [View Article][PubMed]
     [Google Scholar]
  3. Park SE, Lee S, Kim H, Ahn TY. Emticicia sediminis sp. nov. isolated from sediment of a shallow stream. Int J Syst Evol Microbiol 2015; 65:2496–2499 [View Article][PubMed]
     [Google Scholar]
  4. Kang H, Kim H, Joung Y, Joh K. Emticicia paludis sp. nov., isolated from wetland freshwater. Int J Syst Evol Microbiol 2016; 66:3383–3387 [View Article][PubMed]
     [Google Scholar]
  5. Nam GG, Joung Y, Song J, Lim Y, Cho JC. Emticicia fontis sp. nov., isolated from a freshwater pond. Int J Syst Evol Microbiol 2016; 66:5161–5166 [View Article][PubMed]
     [Google Scholar]
  6. Li R, Zheng J, Wang R, Song Y, Chen Q et al. Biochemical degradation pathway of dimethoate by Paracoccus sp. Lgjj-3 isolated from treatment wastewater. Int Biodeterior Biodegradation 2010; 64:51–57 [View Article]
     [Google Scholar]
  7. Buck JD. Nonstaining (KOH) method for determination of gram reactions of marine bacteria. Appl Environ Microbiol 1982; 44:992–993[PubMed]
     [Google Scholar]
  8. Bernardet JF, Nakagawa Y, Holmes B. Subcommittee on the taxonomy of Flavobacterium and Cytophaga-like bacteria of the International Committee on Systematics of Prokaryotes 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]
  9. Mccarthy AJ, Cross T. A taxonomic study of Thermomonospora and other monosporic actinomycetes. Microbiology 1984; 130:5–25 [View Article]
     [Google Scholar]
  10. Atlas RM. Handbook of Microbiological Media Parks LC. (editor) Boca Raton, FL: CRC Press; 1993
     [Google Scholar]
  11. Ten LN, Im WT, Kim MK, Kang MS, Lee ST. Development of a plate technique for screening of polysaccharide-degrading microorganisms by using a mixture of insoluble chromogenic substrates. J Microbiol Methods 2004; 56:375–382 [View Article][PubMed]
     [Google Scholar]
  12. Sambrook J, Russell DW. Molecular Cloning: A Laboratory Manual, 3rd ed. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory; 2001
     [Google Scholar]
  13. Lane DL. 16S/23S rRNA sequencing. In Stackebrandt ER, Goodfellow M. (editors) Nucleic Acid Techniques in Bacterial Systematics Chichester, UK: John Wiley & Sons; 1991 pp. 115–175
     [Google Scholar]
  14. Kim OS, Cho YJ, Lee K, Yoon SH, Kim M et al. Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 2012; 62:716–721 [View Article][PubMed]
     [Google Scholar]
  15. 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 [View Article][PubMed]
     [Google Scholar]
  16. Hall TA. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 1999; 41:95–98
     [Google Scholar]
  17. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987; 4:406–425[PubMed]
     [Google Scholar]
  18. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981; 17:368–376 [View Article][PubMed]
     [Google Scholar]
  19. 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 [View Article][PubMed]
     [Google Scholar]
  20. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985; 39:783–791 [View Article][PubMed]
     [Google Scholar]
  21. Mandel M, Marmur J. Use of ultraviolet absorbance-temperature profile for determining the guanine plus cytosine content of DNA. Methods Enzymol 1968; 12B:195–206 [CrossRef]
     [Google Scholar]
  22. 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 [View Article]
     [Google Scholar]
  23. Wayne LG, Brenner DJ, Colwell RR. 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]
  24. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids, MIDI Technical Note 101. Newark, DE: MIDI; 1990
     [Google Scholar]
  25. Tindall BJ. A comparative study of the lipid composition of Halobacterium saccharovorum from various sources. Syst Appl Microbiol 1990; 13:128–130 [View Article]
     [Google Scholar]
  26. Tindall BJ. Lipid composition of Halobacterium lacusprofundi. FEMS Microbiol Lett 1990; 66:199–202 [View Article]
     [Google Scholar]
  27. Collins MD, Pirouz T, Goodfellow M, Minnikin DE. Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 1977; 100:221–230 [View Article][PubMed]
     [Google Scholar]
  28. Tamaoka J, Katayama-Fujimura Y, Kuraishi H. Analysis of bacterial menaquinone mixtures by high performance liquid chromatography. J Appl Bacteriol 1983; 54:31–36 [View Article][PubMed]
     [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.002041
Loading
Emticicia soli sp. nov., a novel member of the family ‘Flexibacteraceae’, isolated from tetrabromobisphenol A-contaminated soil
Int J Syst Evol Microbiol 67, 2885 (2017); https://doi.org/10.1099/ijsem.0.002041
/content/journal/ijsem/10.1099/ijsem.0.002041
/content/journal/ijsem/10.1099/ijsem.0.002041
Loading

Data & Media loading...

Supplements

Supplementary File 1

PDF

Most cited 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