1887

Abstract

Strain SH9, an aerobic bacterium isolated from a paddy soil sample collected in Shanghai, China, was characterized using a polyphasic approach. It grew optimally at pH 7.0, temperatures of 30–35 °C and in the presence of 1 % (w/v) NaCl. Comparative analysis of 16S rRNA gene sequences showed that strain SH9 fell within the genus Alsobacter , forming a clear cluster with the type strain of Alsobacter metallidurans , with which it exhibited a 16S rRNA gene sequence similarity value of 98.5 %. Cells of strain SH9 were Gram-stain-negative, motile, non-spore-forming, rod-shaped, positive for catalase and oxidase activity, and negative for atmospheric nitrogen fixation and nitrate reduction. The strain was a chemo-organotrophic bacterium, incapable of growth on C1 substrates. The chemotaxonomic properties of strain SH9 were consistent with those of the genus Alsobacter: the predominant ubiquinone was Q-10, and the major fatty acid was summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c). The major polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylcholine and phosphatidylmonomethylethanolamine. The DNA G+C content was 68.5 mol%. Strain SH9 exhibited a DNA–DNA relatedness level of 20±2 % with A. metallidurans NBRC 107718. Based on the data obtained, strain SH9 represents a novel species of the genus Alsobacter , for which the name Alsobacter soli sp. nov. is proposed. The type strain is SH9 (=JCM 32501=CCTCC AB 2017284). A new family, Alsobacteraceae fam. nov., is also proposed encompassing strain SH9 and Alsobacter metallidurans NBRC 107718.

Keyword(s): Alsobacter and new taxa
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.003088
2018-10-26
2024-12-14
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/68/12/3902.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.003088&mimeType=html&fmt=ahah

References

  1. Bao Z, Sato Y, Fujimura R, Ohta H. Alsobacter metallidurans gen. nov., sp. nov., a thallium-tolerant soil bacterium in the order Rhizobiales. Int J Syst Evol Microbiol 2014; 64:775–780 [View Article][PubMed]
    [Google Scholar]
  2. Nazaries L, Murrell JC, Millard P, Baggs L, Singh BK. Methane, microbes and models: fundamental understanding of the soil methane cycle for future predictions. Environ Microbiol 2013; 15:2395–2417 [View Article][PubMed]
    [Google Scholar]
  3. Dedysh SN, Haupt ES, Dunfield PF. Emended description of the family Beijerinckiaceae and transfer of the genera Chelatococcus and Camelimonas to the family Chelatococcaceae fam. nov. Int J Syst Evol Microbiol 2016; 66:3177–3182 [View Article][PubMed]
    [Google Scholar]
  4. Kulichevskaya IS, Danilova OV, Tereshina VM, Kevbrin VV, Dedysh SN. Descriptions of Roseiarcus fermentans gen. nov., sp. nov., a bacteriochlorophyll a-containing fermentative bacterium related phylogenetically to alphaproteobacterial methanotrophs, and of the family Roseiarcaceae fam. nov. Int J Syst Evol Microbiol 2014; 64:2558–2565 [View Article][PubMed]
    [Google Scholar]
  5. Sun LN, Zhang J, Gong FF, Wang X, Hu G et al. Nocardioides soli sp. nov., a carbendazim-degrading bacterium isolated from soil under the long-term application of carbendazim. Int J Syst Evol Microbiol 2014; 64:2047–2052 [View Article][PubMed]
    [Google Scholar]
  6. Suzuki M, Nakagawa Y, Harayama S, Yamamoto S. Phylogenetic analysis and taxonomic study of marine Cytophaga-like bacteria: proposal for Tenacibaculum gen. nov. with Tenacibaculum maritimum comb. nov. and Tenacibaculum ovolyticum comb. nov., and description of Tenacibaculum mesophilum sp. nov. and Tenacibaculum amylolyticum sp. nov. Int J Syst Evol Microbiol 2001; 51:1639–1652 [View Article][PubMed]
    [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. Ohta H, Hattori T. Agromonas oligotrophica gen. nov., sp. nov., a nitrogen-fixing oligotrophic bacterium. Antonie van Leeuwenhoek 1983; 49:429–446[PubMed]
    [Google Scholar]
  9. Sambrock J, Russel D. Molecular Cloning A Laboratory Manual, 3rd ed. 2001
    [Google Scholar]
  10. Lane DJ. 16S/23S rRNA Sequencing. In Nucleic Acid Techniques in Bacterial Systematics 1991
    [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 [View Article][PubMed]
    [Google Scholar]
  12. 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 [View Article][PubMed]
    [Google Scholar]
  13. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987; 4:406–425 [View Article][PubMed]
    [Google Scholar]
  14. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981; 17:368–376 [View Article][PubMed]
    [Google Scholar]
  15. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985; 39:783–791 [View Article][PubMed]
    [Google Scholar]
  16. Ishii S, Ohno H, Tsuboi M, Otsuka S, Senoo K. Identification and isolation of active N2O reducers in rice paddy soil. Isme J 2011; 5:1936–1945 [View Article][PubMed]
    [Google Scholar]
  17. Rintala H, Pitkäranta M, Toivola M, Paulin L, Nevalainen A. Diversity and seasonal dynamics of bacterial community in indoor environment. BMC Microbiol 2008; 8:56–68 [View Article][PubMed]
    [Google Scholar]
  18. 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 Evol Microbiol 1989; 39:224–229
    [Google Scholar]
  19. 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][PubMed]
    [Google Scholar]
  20. Wayne LG. International Committee on systematic bacteriology: announcement of the report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Zentralbl Bakteriol Mikrobiol Hyg A 1988; 268:433–434[PubMed]
    [Google Scholar]
  21. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids, MIDI technical note 101. Newark: MIDI; 1990
    [Google Scholar]
  22. Komagata K, Susuki K. Lipid and cell-wall systematics in bacterial systematics. Methods in Microbiology 1987; 19:161–207
    [Google Scholar]
  23. Minnikin DE, Collins MD, Goodfellow M. Fatty acid and polar lipid composition in the classification of Cellulomonas, Oerskovia and related taxa. J Appl Bacteriol 1979; 47:87–95 [View Article]
    [Google Scholar]
/content/journal/ijsem/10.1099/ijsem.0.003088
Loading
/content/journal/ijsem/10.1099/ijsem.0.003088
Loading

Data & Media loading...

Supplements

Supplementary File 1

PDF
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