1887

Abstract

A Gram-staining-negative, rod-shaped, gliding and pale-pink-pigmented bacterium, designated strain ZLM-10, was isolated from a soil sample collected from an arid area in Xinjiang province, China, and characterized in a taxonomic study using a polyphasic approach. The novel strain grew optimally at 30–37 °C and in the presence of 2 % (w/v) sea salts. The only respiratory quinone detected was MK-7 and the major cellular fatty acids were summed feature 3 (iso-C 2-OH and/or Cω7), iso-C and iso-C 3-OH. The polar lipids consisted of diphosphatidylglycerol, phosphatidylethanolamine, an unidentified aminolipid and two unidentified aminophospholipids. The DNA GC content was 45.4 mol%. Flexirubin-type pigments were not produced. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain ZLM-10 was a member of the phylum and appeared most closely related to 311 (90.2 % sequence similarity), LMG 13021 (89.2 %), AMV16 (89.1 %) and DSM 4126 (89.1 %). On the basis of phenotypic and genotypic data and phylogenetic inference, strain ZLM-10 should be classified as a novel species of a new genus in the family , for which the name gen. nov., sp. nov. is proposed. The type strain of the type species is ZLM-10 ( = CCTCC AB 208222 = KCTC 23983).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.044651-0
2013-05-01
2019-10-22
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/63/5/1639.html?itemId=/content/journal/ijsem/10.1099/ijs.0.044651-0&mimeType=html&fmt=ahah

References

  1. Bernardet J.-F., Nakagawa Y., Holmes B..Subcommittee on the taxonomy of Flavobacterium and Cytophaga-like bacteria of the International Committee on Systematics of Prokaryotes ( 2002;). Proposed minimal standards for describing new taxa of the family Flavobacteriaceae and emended description of the family. . Int J Syst Evol Microbiol 52:, 1049–1070. [CrossRef][PubMed]
    [Google Scholar]
  2. Bowman J. P.. ( 2000;). Description of Cellulophaga algicola sp. nov., isolated from the surfaces of Antarctic algae, and reclassification of Cytophaga uliginosa (ZoBell and Upham 1944) Reichenbach 1989 as Cellulophaga uliginosa comb. nov.. Int J Syst Evol Microbiol 50:, 1861–1868.[PubMed]
    [Google Scholar]
  3. Buczolits S., Denner E. B. M., Vybiral D., Wieser M., Kämpfer P., Busse H.-J.. ( 2002;). Classification of three airborne bacteria and proposal of Hymenobacter aerophilus sp. nov.. Int J Syst Evol Microbiol 52:, 445–456.[PubMed]
    [Google Scholar]
  4. Cha I. T., Oh Y. S., Park S. J., Park B. J., Lee J. K., Lim C. S., Park A. R., Yoo J. S., Lee D. H.. & other authors ( 2011;). Reichenbachiella faecimaris sp. nov., isolated from a tidal flat of Yellow Sea, Korea, and emended descriptions of the genus Reichenbachiella and of Reichenbachiella agariperforans. . Int J Syst Evol Microbiol 61:, 1994–1999. [CrossRef][PubMed]
    [Google Scholar]
  5. Cleenwerck I., Vandemeulebroecke K., Janssens D., Swings J.. ( 2002;). Re-examination of the genus Acetobacter, with descriptions of Acetobacter cerevisiae sp. nov. and Acetobacter malorum sp. nov.. Int J Syst Evol Microbiol 52:, 1551–1558. [CrossRef][PubMed]
    [Google Scholar]
  6. Doetsch R. N.. ( 1981;). Determinative methods of light microscopy. . In Manual of Methods for General Bacteriology, pp. 21–33. Edited by Gerdhardt P., Murray R. G. E., Costilow R. N., Nester E. W., Wood W. A., Krieg N. R., Phillips G. B... Washington, DC:: American Society for Microbiology;.
    [Google Scholar]
  7. Felsenstein J.. ( 1985;). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39:, 783–791. [CrossRef]
    [Google Scholar]
  8. Fitch W. M.. ( 1971;). Towards defining the course of evolution: minimum change for a specific tree topology. . Syst Zool 20:, 406–416. [CrossRef]
    [Google Scholar]
  9. Garrity G. M., Holt J. G.. ( 2001;). The road map to the Manual. . In Bergey’s Manual of Systematic Bacteriology, , 2nd edn., vol. 1, pp. 119–166. Edited by Boone D. R., Castenholz R. W., Garrity G. M... New York:: Springer;. [CrossRef]
    [Google Scholar]
  10. Hosoya S., Yokota A.. ( 2007a;). Flammeovirga kamogawensis sp. nov., isolated from coastal seawater in Japan. . Int J Syst Evol Microbiol 57:, 1327–1330. [CrossRef][PubMed]
    [Google Scholar]
  11. Hosoya S., Yokota A.. ( 2007b;). Reclassification of Flexibacter aggregans (Lewin 1969) Leadbetter 1974 as a later heterotypic synonym of Flexithrix dorotheae Lewin 1970. . Int J Syst Evol Microbiol 57:, 1086–1088. [CrossRef][PubMed]
    [Google Scholar]
  12. Khan S. T., Nakagawa Y., Harayama S.. ( 2007;). Sediminitomix flava gen. nov., sp. nov., of the phylum Bacteroidetes, isolated from marine sediment. . Int J Syst Evol Microbiol 57:, 1689–1693. [CrossRef][PubMed]
    [Google Scholar]
  13. Kim O. S., Cho Y. J., Lee K., Yoon S. H., Kim M., Na H., Park S. C., Jeon Y. S., Lee J. H.. & other authors ( 2012;). Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. . Int J Syst Evol Microbiol 62:, 716–721. [CrossRef][PubMed]
    [Google Scholar]
  14. Kimura M.. ( 1980;). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. . J Mol Evol 16:, 111–120. [CrossRef][PubMed]
    [Google Scholar]
  15. Lane D. J.. ( 1991;). 16S–23S rRNA sequencing. . In Nucleic Acid Techniques in Bacterial Systematics, pp. 125–175. Edited by Stackebrandt E., Goodfellow M... Chichester:: Wiley;.
    [Google Scholar]
  16. Lau S. C., Tsoi M. M., Li X., Plakhotnikova I., Dobretsov S., Wu M., Wong P. K., Pawlik J. R., Qian P. Y.. ( 2006;). Description of Fabibacter halotolerans gen. nov., sp. nov. and Roseivirga spongicola sp. nov., and reclassification of [Marinicola] seohaensis as Roseivirga seohaensis comb. nov.. Int J Syst Evol Microbiol 56:, 1059–1065. [CrossRef][PubMed]
    [Google Scholar]
  17. Leifson E.. ( 1963;). Determination of carbohydrate metabolism of marine bacteria. . J Bacteriol 85:, 1183–1184.[PubMed]
    [Google Scholar]
  18. Lewin R. A.. ( 1970;). Flexithrix dorotheae gen. et sp. nov. (Flexibacterales); and suggestions for reclassifying sheathed bacteria. . Can J Microbiol 16:, 511–515. [CrossRef]
    [Google Scholar]
  19. Liu M., Qi H., Luo X., Dai J., Peng F., Fang C.. ( 2012;). Cesiribacter roseus sp. nov., a pink-pigmented bacterium isolated from desert sand. . Int J Syst Evol Microbiol 62:, 96–99. [CrossRef][PubMed]
    [Google Scholar]
  20. Ludwig W., Euzéby J., Whitman W. B.. ( 2010;). Taxonomic outlines of the phyla Bacteroidetes, Spirochaetes, Tenericutes (Mollicutes), Acidobacteria, Fibrobacteres, Fusobacteria, Dictyoglomi, Gemmatimonadetes, Lentisphaerae, Verrucomicrobia, Chlamydiae, and Planctomycetes. . In Bergey’s Manual of Systematic Bacteriology, , 2nd edn., vol. 4, pp. 21–24. Edited by Krieg N. R., Staley J. T., Brown D. R., Hedlund B. P., Paster B. J., Ward N. L., Ludwig W., Whitman W. B... New York:: Springer;. [CrossRef]
    [Google Scholar]
  21. McCammon S. A., Bowman J. P.. ( 2000;). Taxonomy of Antarctic Flavobacterium species: description of Flavobacterium gillisiae sp. nov., Flavobacterium tegetincola sp. nov., and Flavobacterium xanthum sp. nov., nom. rev. and reclassification of [Flavobacterium] salegens as Salegentibacter salegens gen. nov., comb. nov.. Int J Syst Evol Microbiol 50:, 1055–1063. [CrossRef][PubMed]
    [Google Scholar]
  22. Mesbah M., Premachandran U., Whitman W. B.. ( 1989;). Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. . Int J Syst Bacteriol 39:, 159–167. [CrossRef]
    [Google Scholar]
  23. Muramatsu Y., Takahashi M., Kaneyasu M., Iino T., Suzuki K., Nakagawa Y.. ( 2010;). Persicobacter psychrovividus sp. nov., isolated from shellfish, and emended descriptions of the genus Persicobacter and Persicobacter diffluens. . Int J Syst Evol Microbiol 60:, 1735–1739. [CrossRef][PubMed]
    [Google Scholar]
  24. Nedashkovskaya O. I., Suzuki M., Vysotskii M. V., Mikhailov V. V.. ( 2003;). Reichenbachia agariperforans gen. nov., sp. nov., a novel marine bacterium in the phylum Cytophaga–Flavobacterium–Bacteroides. . Int J Syst Evol Microbiol 53:, 81–85. [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.. & other authors ( 2005a;). 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 Microbiol 55:, 2583–2588. [CrossRef][PubMed]
    [Google Scholar]
  26. Nedashkovskaya O. I., Kim S. B., Lee D. H., Lysenko A. M., Shevchenko L. S., Frolova G. M., Mikhailov V. V., Lee K. H., Bae K. S.. ( 2005b;). Roseivirga ehrenbergii gen. nov., sp. nov., a novel marine bacterium of the phylum ‘Bacteroidetes’, isolated from the green alga Ulva fenestrata. . Int J Syst Evol Microbiol 55:, 231–234. [CrossRef][PubMed]
    [Google Scholar]
  27. Nedashkovskaya O. I., Kim S. B., Lysenko A. M., Park M. S., Mikhailov V. V., Bae K. S., Park H. Y.. ( 2005;c). Roseivirga echinicomitans sp. nov., a novel marine bacterium isolated from the sea urchin Strongylocentrotus intermedius, and emended description of the genus Roseivirga. . Int J Syst Evol Microbiol 55:, 1797–1800. [CrossRef][PubMed]
    [Google Scholar]
  28. Nedashkovskaya O. I., Kim S. B., Shin D. S., Beleneva I. A., Mikhailov V. V.. ( 2007;). Fulvivirga kasyanovii gen. nov., sp. nov., a novel member of the phylum Bacteroidetes isolated from seawater in a mussel farm. . Int J Syst Evol Microbiol 57:, 1046–1049. [CrossRef][PubMed]
    [Google Scholar]
  29. Nedashkovskaya O. I., Kim S. B., Lysenko A. M., Kalinovskaya N. I., Mikhailov V. V.. ( 2008;). Reclassification of Roseivirga seohaensis (Yoon et al. 2005) Lau et al. 2006 as a later synonym of Roseivirga ehrenbergii Nedashkovskaya et al. 2005 and emendation of the species description. . Int J Syst Evol Microbiol 58:, 1194–1197. [CrossRef][PubMed]
    [Google Scholar]
  30. Nedashkovskaya O. I., Vancanneyt M., Kim S. B., Bae K. S.. ( 2010;). Reclassification of Flexibacter tractuosus (Lewin 1969) Leadbetter 1974 and ‘Microscilla sericea’ Lewin 1969 in the genus Marivirga gen. nov. as Marivirga tractuosa comb. nov. and Marivirga sericea nom. rev., comb. nov.. Int J Syst Evol Microbiol 60:, 1858–1863. [CrossRef][PubMed]
    [Google Scholar]
  31. Nupur, Sharma S., Kumar Singh P., Suresh K., Anil Kumar P.. ( 2012;). Fulvivirga imtechensis sp. nov., a member of the phylum Bacteroidetes. . Int J Syst Evol Microbiol 62:, 2213–2217. doi: [CrossRef][PubMed]
    [Google Scholar]
  32. Saitou N., Nei M.. ( 1987;). The neighbor-joining method: a new method for reconstructing phylogenetic trees. . Mol Biol Evol 4:, 406–425.[PubMed]
    [Google Scholar]
  33. Sasser, M. (1990). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. Newark, DE: MIDI Inc.
  34. Smibert R. M., Krieg N. R.. ( 1994;). Phenotypic characterization. . In Methods for General and Molecular Bacteriology, pp. 607–654. Edited by Gerhardt P., Murray R. G. E., Woods W. A., Krieg N. R... Washington, DC:: American Society for Microbiology;.
    [Google Scholar]
  35. Srinivas T. N. R., Anil Kumar P., Madhu S., Sunil B., Sharma T. V. R. S., Shivaji S.. ( 2011;). Cesiribacter andamanensis gen. nov., sp. nov., isolated from a soil sample from a mud volcano. . Int J Syst Evol Microbiol 61:, 1521–1527. [CrossRef][PubMed]
    [Google Scholar]
  36. Srisukchayakul P., Suwanachart C., Sangnoi Y., Kanjana-Opas A., Hosoya S., Yokota A., Arunpairojana V.. ( 2007;). Rapidithrix thailandica gen. nov., sp. nov., a marine gliding bacterium isolated from samples collected from the Andaman sea, along the southern coastline of Thailand. . Int J Syst Evol Microbiol 57:, 2275–2279. [CrossRef][PubMed]
    [Google Scholar]
  37. Takahashi M., Suzuki K., Nakagawa Y.. ( 2006;). Emendation of the genus Flammeovirga and Flammeovirga aprica with the proposal of Flammeovirga arenaria nom. rev., comb. nov. and Flammeovirga yaeyamensis sp. nov.. Int J Syst Evol Microbiol 56:, 2095–2100. [CrossRef][PubMed]
    [Google Scholar]
  38. Tamura K., Dudley J., Nei M., Kumar S.. ( 2007;). mega4: molecular evolutionary genetics analysis (mega) software version 4.0. . Mol Biol Evol 24:, 1596–1599. [CrossRef][PubMed]
    [Google Scholar]
  39. Thompson J. D., Gibson T. J., Plewniak F., Jeanmougin F., Higgins D. G.. ( 1997;). The clustal_x windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. . Nucleic Acids Res 25:, 4876–4882. [CrossRef][PubMed]
    [Google Scholar]
  40. Tindall B. J.. ( 1990;). A comparative study of the lipid composition of Halobacterium saccharovorum from various sources. . Syst Appl Microbiol 13:, 128–130. [CrossRef]
    [Google Scholar]
  41. Wilson K.. ( 1987;). Preparation of genomic DNA from bacteria. . In Current Protocols in Molecular Biology, pp. 2.4.1–2.4.5. Edited by Ausubel F. M., Brent R., Kingston R. E., Moore D. D., Seidman J. G., Smith J. A., Struhl K... New York:: Greene Publishing &Wiley-Interscience;.
    [Google Scholar]
  42. Xie C. H., Yokota A.. ( 2003;). Phylogenetic analyses of Lampropedia hyalina based on the 16S rRNA gene sequence. . J Gen Appl Microbiol 49:, 345–349. [CrossRef][PubMed]
    [Google Scholar]
  43. Xu H., Fu Y., Yang N., Ding Z., Lai Q., Zeng R.. ( 2012;). Flammeovirga pacifica sp. nov., isolated from deep-sea sediment. . Int J Syst Evol Microbiol 62:, 937–941. [CrossRef][PubMed]
    [Google Scholar]
  44. Yoon J., Ishikawa S., Kasai H., Yokota A.. ( 2007;). Perexilibacter aurantiacus gen. nov., sp. nov., a novel member of the family ‘Flammeovirgaceae’ isolated from sediment. . Int J Syst Evol Microbiol 57:, 964–968. [CrossRef][PubMed]
    [Google Scholar]
  45. Yoon J., Matsuo Y., Kasai H., Yokota A.. ( 2008;). Limibacter armeniacum gen. nov., sp. nov., a novel representative of the family ‘Flammeovirgaceae’ isolated from marine sediment. . Int J Syst Evol Microbiol 58:, 982–986. [CrossRef][PubMed]
    [Google Scholar]
  46. Yoon J., Adachi K., Park S., Kasai H., Yokota A.. ( 2011a;). Aureibacter tunicatorum gen. nov., sp. nov., a marine bacterium isolated from a coral reef sea squirt, and description of Flammeovirgaceae fam. nov.. Int J Syst Evol Microbiol 61:, 2342–2347. [CrossRef][PubMed]
    [Google Scholar]
  47. Yoon J., Oku N., Park S., Kasai H., Yokota A.. ( 2011b;). Porifericola rhodea gen. nov., sp. nov., a new member of the phylum Bacteroidetes isolated by the bait-streaked agar technique. . Antonie van Leeuwenhoek 100:, 145–153. [CrossRef][PubMed]
    [Google Scholar]
  48. Yoon J., Oku N., Park S., Katsuta A., Kasai H.. ( 2012;). Tunicatimonas pelagia gen. nov., sp. nov., a novel representative of the family Flammeovirgaceae isolated from a sea anemone by the differential growth screening method. . Antonie van Leeuwenhoek 101:, 133–140. [CrossRef][PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.044651-0
Loading
/content/journal/ijsem/10.1099/ijs.0.044651-0
Loading

Data & Media loading...

Supplements

Supplementary material 

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