1887

Abstract

A Gram-stain-negative, strictly aerobic, catalase-positive and oxidase-positive bacterium, designated strain YIM MLB12, was isolated from estuary sediment sampled at Maliao River where it flows into a plateau lake (Dianchi) in Yunnan, south-west PR China. Cells were non-motile and rod-shaped. Growth was observed at 15–35 °C (optimum, 25–30 °C), pH 6.0–10.0 (optimum, pH 7.0–8.0) and in the presence of 0–7 % (w/v) NaCl (optimum, 0.5–2 %). Results of phylogenetic analysis based on 16S rRNA gene sequences showed that strain YIM MLB12 formed a tight phylogenic lineage with members of the genus and was closely related to ‘’ 2-bin with 98.3 % sequence similarity and had low similarities to the type strains of ATCC 11041 (96 %) and CT6 (95.5 %). Average nucleotide identity and DNA–DNA hybridization values between strain YIM MLB12 and ‘’ KCTC 32235 were 76.5 and 22.6 %, respectively. Strain YIM MLB12 contained ubiquinone-8 as the major quinone. The predominant cellular fatty acids were summed feature 3 (C ω7 and/or C ω6), C, C 3-OH, summed feature 8 (C ω6 and/or C ω7), C 3-OH and C. The polar lipid profile of strain YIM MLB12 was composed predominantly of diphosphatidylglycerol, phosphatidylmonomethylethanolamine, phosphatidylethanolamine and phosphatidylglycerol. The major polyamine was spermidine. The genomic DNA G+C content of strain YIM MLB12 was 56.8 mol%. Based on its genotypic and chemotaxonomic features and results of phenotypic analyses, strain YIM MLB12 represents a novel species of the genus , for which the name sp. nov. is proposed. The type strain is YIM MLB12 (=KCTC 42886=CGMCC 1.17071).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.003710
2019-09-13
2019-10-14
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/10.1099/ijsem.0.003710/ijsem003710.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.003710&mimeType=html&fmt=ahah

References

  1. Schroeter J. In Cohn F. (editor) In Kryptogamenflora von Schlesien, Bd. 3, Heft 3, Pilze Breslau: J.U. Kem’s Verlag; 1886
    [Google Scholar]
  2. Tripathi C, Mahato NK, Singh AK, Kamra K, Korpole S et al. Lampropedia cohaerens sp. nov. a biofilm forming bacterium isolated from the microbial mats of a hot water spring, located atop the Himalayan ranges at Manikaran, India. Int J Syst Evol Microbiol 2016;66:1156–1162
    [Google Scholar]
  3. Murray RGE. Genus Lampropedia Schroeter1986, 151AL. In Krieg NR, Holt G. (editors) Bergey’s Manual of Systematic Bacteriologyvol. 1 Baltimore: Williams &Wilkins; 1984; pp.402–406
    [Google Scholar]
  4. Lee N, Cellamare CM, Bastianutti C, Rosselló-Mora R, Kämpfer P et al. Emended description of the species Lampropedia hyalina. Int J Syst Evol Microbiol 2004;54:1709–1715 [CrossRef][PubMed]
    [Google Scholar]
  5. Li Y, Wang T, Piao CG, Wang LF, Tian GZ et al. Lampropedia puyangensis sp. nov., isolated from symptomatic bark of Populus × euramericana canker and emended description of Lampropedia hyalina (Ehrenberg 1832) Lee et al. 2004. Antonie van Leeuwenhoek 2015;108:321–328 [CrossRef][PubMed]
    [Google Scholar]
  6. Magee CM, Rodeheaver G, Edgerton MT, Edlich RF. A more reliable gram staining technic for diagnosis of surgical infections. Am J Surg 1975;130:341–346 [CrossRef][PubMed]
    [Google Scholar]
  7. Gregersen T. Rapid method for distinction of Gram-negative from Gram-positive bacteria. Eur Journal of Microbiol Biotechnol 1978;5:123–127 [CrossRef]
    [Google Scholar]
  8. Murray RGE, Doetsch RN, Robinow CF. In Gephardt P, Murray RGE, Wood WA, Krieg NR. (editors) Light microscopyMethods for General Molecular Bacteriology Washington, DC: American Society for Microbiology; 1994
    [Google Scholar]
  9. Kovacs N. Identification of Pseudomonas pyocyanea by the oxidase reaction. Nature 1956;178:703–704 [CrossRef][PubMed]
    [Google Scholar]
  10. Lányí B. Classical and rapid identification methods for medically important bacteria. Methods Microbiol 1988;19:1–67
    [Google Scholar]
  11. Smibert RM, Krieg NR. Phenotypic characterization. In Gerhardt P. (editor) Methods for General and Molecular Bacteriology Washington, DC: American Society for Microbiology; 1994; pp.607–654
    [Google Scholar]
  12. 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]
  13. Tamaoka J, Katayama-Fujimura Y, Kuraishi H. Analysis of bacterial menaquinone mixtures by reverse-phase high-performance liquid chromatography. Methods Enzymol 1986;123:31–36 [CrossRef][PubMed]
    [Google Scholar]
  14. 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 [CrossRef]
    [Google Scholar]
  15. Tindall BJ. A comparative study of the lipid composition of Halobacterium saccharovorum from various sources. Syst Appl Microbiol 1990;13:128–130 [CrossRef]
    [Google Scholar]
  16. Tindall BJ. Lipid composition of Halobacterium lacusprofundi. FEMS Microbiol Lett 1990;66:199–202 [CrossRef]
    [Google Scholar]
  17. Sasser M. Identification of bacteria by gas chromatography of cellular fatty acids. USFCC Newsl 1990;20:16
    [Google Scholar]
  18. Busse J, Auling G. Polyamine pattern as a chemotaxonomic marker within the Proteobacteria. Syst Appl Microbiol 1988;11:1–8 [CrossRef]
    [Google Scholar]
  19. Cui XL, Mao PH, Zeng M, Li WJ, Zhang LP et al. Streptimonospora salina gen. nov., sp. nov., a new member of the family Nocardiopsaceae. Int J Syst Evol Microbiol 2001;51:357–363 [CrossRef][PubMed]
    [Google Scholar]
  20. Altschul SF, Madden TL, Schäffer AA, Zhang J, Zhang Z et al. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 1997;25:3389–3402 [CrossRef][PubMed]
    [Google Scholar]
  21. 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]
  22. 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]
  23. 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]
  24. Fitch WM. Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 1971;20:406–416 [CrossRef]
    [Google Scholar]
  25. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981;17:368–376 [CrossRef][PubMed]
    [Google Scholar]
  26. Kumar S, Stecher G, Tamura K. MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 2016;33:1870–1874 [CrossRef][PubMed]
    [Google Scholar]
  27. 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]
  28. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985;39:783–791 [CrossRef][PubMed]
    [Google Scholar]
  29. Lee I, Ouk Kim Y, Park SC, Chun J. OrthoANI: an improved algorithm and software for calculating average nucleotide identity. Int J Syst Evol Microbiol 2016;66:1100–1103 [CrossRef][PubMed]
    [Google Scholar]
  30. Meier-Kolthoff JP, Auch AF, Klenk HP, Göker M. Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 2013;14:60 [CrossRef][PubMed]
    [Google Scholar]
  31. Stackebrandt E, Frederiksen W, Garrity GM, Grimont PA, Kämpfer P et al. Report of the ad hoc committee for the re-evaluation of the species definition in bacteriology. Int J Syst Evol Microbiol 2002;52:1043–1047 [CrossRef][PubMed]
    [Google Scholar]
  32. Stackebrandt E, Ebers J. Taxonomic parameters revisited: tarnished gold standards. Microbiol Today 2006;33:152–155
    [Google Scholar]
  33. Kim M, Oh HS, Park SC, Chun J. Towards a taxonomic coherence between average nucleotide identity and 16S rRNA gene sequence similarity for species demarcation of prokaryotes. Int J Syst Evol Microbiol 2014;64:346–351 [CrossRef][PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.003710
Loading
/content/journal/ijsem/10.1099/ijsem.0.003710
Loading

Data & Media loading...

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