1887

Abstract

A motile and rod-shaped bacterium, designated strain KYW1030, was isolated from seawater collected from the Gwangyang bay (Republic of Korea). Cells were Gram-reaction-negative, aerobic, catalase-positive and oxidase-negative. The major fatty acids were summed feature 4 (iso-C I and/or anteiso-C B), iso-C and iso-C 3-OH. The strain contained MK-7 as the major isoprenoid quinone, phosphatidylethanolamine and diphosphatidylglycerol as the major polar lipids and -homospermidine as the major polyamine. The DNA G+C content was 46 mol%. A phylogenetic tree based on 16S rRNA gene sequences showed that strain KYW1030 forms an evolutionary lineage within the radiation enclosing the members of the genus , with AKS 1 (97.9 % 16S rRNA gene sequence similarity) as its nearest neighbour. A number of phenotypic characteristics distinguished strain KYW1030 from the related members of the genus . On the basis of the evidence presented in this study, a novel species, sp. nov., is proposed for strain KYW1030 (=KACC 18739=JCM 31319).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.001362
2016-11-01
2019-12-14
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/66/11/4389.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.001362&mimeType=html&fmt=ahah

References

  1. Bernardet J.-F., Nakagawa Y., Holmes B.. 2002; Proposed minimal standards for describing new taxa of the family Flavobacteriaceae and emended description of the family. Int J Syst Evol Microbiol52:1049–1070 [CrossRef][PubMed]
    [Google Scholar]
  2. Cao H., Nie Y., Zeng X. C., Xu L., He Z., Luo X., Wu R.. 2014; Pontibacter yuliensis sp. nov., isolated from soil. Int J Syst Evol Microbiol64:968–972 [CrossRef][PubMed]
    [Google Scholar]
  3. Chun J., Goodfellow M.. 1995; A phylogenetic analysis of the genus Nocardia with 16S rRNA gene sequences. Int J Syst Bacteriol45:240–245 [CrossRef][PubMed]
    [Google Scholar]
  4. CLSI 2009; Performance Standards for Antimicrobial Susceptibility Testing. 19th Informational Supplement. CLSI Document M100-S19 (ISBN 1-56238-690-5) Wayne, PA: Clinical and Laboratory Standards Institute;
    [Google Scholar]
  5. Collins M. D.. 1994; Isoprenoid quinones. In Chemical Methods in Prokaryotic Systematics , pp.265–309 Edited by Goodfellow M., O’Donnell A. G.. Chichester: Johb Wiley & Sons Ltd;
    [Google Scholar]
  6. Dai J., Xu M., Peng F., Jiang F., Chen X., Wang Z., Fang C.. 2014; Pontibacter soli sp. nov., isolated from the soil of a Populus rhizosphere in Xinjiang, China. Antonie Van Leeuwenhoek105:65–72 [CrossRef][PubMed]
    [Google Scholar]
  7. Dastager S. G., Raziuddin Q. S., Deepa C. K., Li W. J., Pandey A.. 2010; Pontibacter niistensis sp. nov., isolated from forest soil. Int J Syst Evol Microbiol60:2867–2870 [CrossRef][PubMed]
    [Google Scholar]
  8. Dwivedi V., Niharika N., Lal R.. 2013; Pontibacter lucknowensis sp. nov., isolated from a hexachlorocyclohexane dump site. Int J Syst Evol Microbiol63:309–313 [CrossRef][PubMed]
    [Google Scholar]
  9. Felsenstein J.. 1985; Confidence limits on phylogenies:an approach using the bootstrap. Evolution39:783–791 [CrossRef]
    [Google Scholar]
  10. Felsenstein J.. 1993; PHYLIP (phylogeny inference package), version 3.5c. Department of Genetics, University of Washington, Seattle, USA.
  11. Fitch W. M.. 1971; Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool20:406–416 [CrossRef]
    [Google Scholar]
  12. Gordon R. E., Barnett D. A., Handerhan J. E., Pang C. H. N.. 1974; Nocardia coeliaca, Nocardia autotrophica, and the Nocardin Strain. Int J Syst Bacteriol24:54–63 [CrossRef]
    [Google Scholar]
  13. Hall T. A.. 1999; BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucl Acids Symp Ser41:95–98
    [Google Scholar]
  14. Jukes T. H., Cantor C. R.. 1969; Evolution of protein molecules. In Mammalian Protein Metabolism pp.21–132 Edited by Munro H. N.. New York: Academic Press;[CrossRef]
    [Google Scholar]
  15. Kang J. Y., Joung Y., Chun J., Kim H., Joh K., Jahng K. Y.. 2013; Pontibacter saemangeumensis sp. nov., isolated from seawater. Int J Syst Evol Microbiol63:565–569 [CrossRef][PubMed]
    [Google Scholar]
  16. Kim O. S., Cho Y. J., Lee K., Yoon S. H., Kim M., Na H., Park S. C., Jeon Y. S., Lee J. H. et al. 2012; Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol62:716–721 [CrossRef][PubMed]
    [Google Scholar]
  17. Klassen J. L., Foght J. M.. 2008; Differences in carotenoid composition among Hymenobacter and related strains support a tree-like model of carotenoid evolution. Appl Environ Microbiol74:2016–2022 [CrossRef][PubMed]
    [Google Scholar]
  18. Komagata K., Suzuki K.. 1987; Lipids and cell-wall analysis in bacterial systematics. Methods Microbiol19:161–207[CrossRef]
    [Google Scholar]
  19. Kovacs N.. 1956; Identification of Pseudomonas pyocyanea by the oxidase reaction. Nature178:703 [CrossRef][PubMed]
    [Google Scholar]
  20. Lee J. S., Lee K. C., Pyun Y. R., Bae K. S.. 2003; Arthrobacter koreensis sp. nov., a novel alkalitolerant bacterium from soil. Int J Syst Evol Microbiol53:1277–1280 [CrossRef][PubMed]
    [Google Scholar]
  21. Mahato N. K., Tripathi C., Nayyar N., Singh A. K., Lal R.. 2015; Pontibacter ummariensis sp. nov., isolated from a hexachlorocyclohexane-contaminated soil. Int J Syst Evol Microbiol66:1080–1087 [CrossRef]
    [Google Scholar]
  22. Marmur J., Doty P.. 1962; Determination of the base composition of deoxyribonucleic acid from its thermal denaturation temperature. J Mol Biol5:109–118 [CrossRef][PubMed]
    [Google Scholar]
  23. Minnikin D. E., O'Donnell A. G., Goodfellow M., Alderson G., Athalye M., Schaal A., Parlett J. H.. 1984; An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods2:233–241 [CrossRef]
    [Google Scholar]
  24. Nayyar N., Kohli P., Mahato N. K., Lal R.. 2016; Pontibacter mucosus sp. nov., isolated from hexachlorocyclohexane-contaminated pond sediment. Int J Syst Evol Microbiol66:2234–2240 [CrossRef][PubMed]
    [Google Scholar]
  25. Nedashkovskaya O. I., Kim S. B., Suzuki M., Shevchenko L. S., Lee M. S., Lee K. H., Park M. S., Frolova G. M., Oh H. W. et al. 2005; Pontibacter actiniarum gen. nov., sp. nov., a novel member of the phylum ‘Bacteroidetes’, and proposal of Reichenbachiella gen. nov. as a replacement for the illegitimate prokaryotic generic name Reichenbachia Nedashkovskaya et al. 2003. Int J Syst Evol Microbiol55:2583–2588 [CrossRef][PubMed]
    [Google Scholar]
  26. Saitou N., Nei M.. 1987; The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol4:406–425[PubMed]
    [Google Scholar]
  27. Schenkel E., Berlaimont V., Dubois J., Helson-Cambier M., Hanocq M.. 1995; Improved high-performance liquid chromatographic method for the determination of polyamines as their benzoylated derivatives: application to P388 cancer cells. J Chromatogr B Biomed Appl668:189–197 [CrossRef][PubMed]
    [Google Scholar]
  28. Singh A. K., Garg N., Sangwan N., Negi V., Kumar S., Vikram S., Lal R.. 2013; Pontibacter ramchanderi sp. nov., isolated from hexachlorocyclohexane (HCH) contaminated pond sediment located in the vicinity of a lindane production unit. Int J Syst Evol Microbiol63:2829–2834[CrossRef]
    [Google Scholar]
  29. Singh A. K., Garg N., Lata P., Kumar R., Negi V., Vikram S., Lal R.. 2014; Pontibacter indicus sp. nov., isolated from hexachlorocyclohexane-contaminated soil. Int J Syst Evol Microbiol64:254–259 [CrossRef][PubMed]
    [Google Scholar]
  30. Singh A. K., Garg N., Lal R.. 2015; Pontibacter chinhatensis sp. nov., isolated from pond sediment containing discarded hexachlorocyclohexane isomer waste. Int J Syst Evol Microbiol65:2248–2254 [CrossRef][PubMed]
    [Google Scholar]
  31. Smibert R. M., Krieg N. R.. 1994; Phenotypic characterization. Methods for General and Molecular Bacteriology pp.607–654 Edited by Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R.. Washington, DC: American Society for Microbiology;
    [Google Scholar]
  32. Srinivasan S., Lee J. J., Lee S. S., Kim M. K.. 2014; Pontibacter humi sp. nov., isolated from mountain soil. Curr Microbiol69:263–269 [CrossRef][PubMed]
    [Google Scholar]
  33. Subhash Y., Tushar L., Sasikala C., Ramana Ch V.. 2013; Erythrobacter odishensis sp. nov. and Pontibacter odishensis sp. nov. isolated from dry soil of a solar saltern. Int J Syst Evol Microbiol63:4524–4532 [CrossRef][PubMed]
    [Google Scholar]
  34. Subhash Y., Sasikala Ch., Ramana Ch V.. 2014; Pontibacter ruber sp. nov. and Pontibacter deserti sp. nov., isolated from the desert. Int J Syst Evol Microbiol64:1006–1011 [CrossRef][PubMed]
    [Google Scholar]
  35. Suresh K., Mayilraj S., Chakrabarti T.. 2006; Effluviibacter roseus gen. nov., sp. nov., isolated from muddy water, belonging to the family ‘Flexibacteraceae'. Int J Syst Evol Microbiol56:1703–1710 [CrossRef][PubMed]
    [Google Scholar]
  36. Tamura K., Stecher G., Peterson D., Filipski A., Kumar S.. 2013; mega6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol30:2725–2729 [CrossRef][PubMed]
    [Google Scholar]
  37. Thompson J. D., Higgins D. G., Gibson T. J.. 1994; clustal w: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res22:4673–4680 [CrossRef][PubMed]
    [Google Scholar]
  38. Wang Y., Zhang K., Cai F., Zhang L., Tang Y., Dai J., Fang C.. 2010; Pontibacter xinjiangensis sp. nov., in the phylum ‘Bacteroidetes’ , and reclassification of [Effluviibacter] roseus as Pontibacter roseus comb. nov. Int J Syst Evol Microbiol60:99–103 [CrossRef][PubMed]
    [Google Scholar]
  39. Wayne L. G., Brenner D. J., Colwell R. R., Grimont P. A. D., Kandler O., Krichevsky M. I., Moore L. H, Moore W. E. C., Murray R. G. E. et al. 1987; Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol37:463–464 [CrossRef]
    [Google Scholar]
  40. Wu Y. H., Zhou P., Jian S. L., Liu Z. S., Wang C. S., Oren A., Xu X. W.. 2016; Pontibacter amylolyticus sp. nov., isolated from a deep-sea sediment hydrothermal vent field on the southwest indian ridge. Int J Syst Evol Microbiol66:1760–1767 [CrossRef][PubMed]
    [Google Scholar]
  41. Xu M., Wang Y., Dai J., Jiang F., Rahman E., Peng F., Fang C.. 2012; Pontibacter populi sp. nov., isolated from the soil of a Euphrates poplar (Populus euphratica) forest. Int J Syst Evol Microbiol62:665–670 [CrossRef][PubMed]
    [Google Scholar]
  42. Xu L., Zeng X. C., Nie Y., Luo X., Zhou E., Zhou L., Pan Y., Li W.. 2014; Pontibacter diazotrophicus sp. nov., a novel nitrogen-fixing bacterium of the family Cytophagaceae. PLoS One9:e92294 [CrossRef][PubMed]
    [Google Scholar]
  43. Zhang L., Zhang Q., Luo X., Tang Y., Dai J., Li Y., Wang Y., Chen G., Fang C.. 2008; Pontibacter korlensis sp. nov., isolated from the desert of Xinjiang, China. Int J Syst Evol Microbiol58:1210–1214 [CrossRef][PubMed]
    [Google Scholar]
  44. Zhang L., Zhu L., Wei L., Li C., Wang Y., Shen X.. 2013; Pontibacter toksunensis sp. nov., isolated from soil, and emended descriptions of Pontibacter roseus and Pontibacter akesuensis. Int J Syst Evol Microbiol63:4462–4468 [CrossRef][PubMed]
    [Google Scholar]
  45. Zhou Y., Wang X., Liu H., Zhang K. Y., Zhang Y. Q., Lai R., Li W. J.. 2007; Pontibacter akesuensis sp. nov., isolated from a desert soil in China. Int J Syst Evol Microbiol57:321–325 [CrossRef][PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.001362
Loading
/content/journal/ijsem/10.1099/ijsem.0.001362
Loading

Data & Media loading...

Supplements

Supplementary File 1

PDF

Most Cited This Month

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