1887

Abstract

During a survey of the mycobiota in the stone chamber of the Takamatsu-zuka tumulus in the village of Asuka, Nara Prefecture, Japan, we isolated 19 yeast strains assigned to the genus from various samples, taken mainly from mouldy spots where the colour of the murals had changed to black, white or another tone, and from viscous gels (biofilms) on plaster walls. The 26S rDNA D1/D2 domain sequence-based phylogeny clearly indicates two groups of isolates. Polyphasic characterization, including morphological, physiological and chemotaxonomic characteristics, and sequence analysis of the 26S rDNA D1/D2 domain and ITS regions suggest that each group is assignable to one of two novel species within the clade. Proposed herein are the names sp. nov. (originally T6517-9-5; holotype JCM 15403; isotypes CBS 10917, NBRC 104392) and sp. nov. (originally T4922-1-1; holotype JCM 15410; isotypes CBS 10916, NBRC 104391). The 26S rDNA D1/D2 domain sequence divergence indicates that differs from NBRC 10277, the type strain of the nearest species, in 15 nucleotides (3 %), whereas differs from NBRC 10283 and NBRC 10544, the type strains of the nearest species, in 20 nucleotides (4 %). Both novel species are also clearly distinguishable from the species closest to them by various physiological characteristics.

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.65830-0
2009-01-01
2024-04-20
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/59/1/186.html?itemId=/content/journal/ijsem/10.1099/ijs.0.65830-0&mimeType=html&fmt=ahah

References

  1. Felsenstein, J.(1985). Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39, 783–791.[CrossRef] [Google Scholar]
  2. Gadanho, M. & Sampaio, J. P.(2005). Occurrence and diversity of yeasts in the mid-Atlantic ridge hydrothermal fields near the Azores Archipelago. Microb Ecol 50, 408–417.[CrossRef] [Google Scholar]
  3. Hwang, S.-K. & Kim, J.-G.(2000). Secondary structural and phylogenetic implications of nuclear large subunit ribosomal RNA in the ectomycorrhizal fungus Tricholoma matsutake. Curr Microbiol 40, 250–256.[CrossRef] [Google Scholar]
  4. Kigawa, R., Sano, C. & Miura, S.(2004). Past and present situation of microorganisms in Takamatsuzuka tumulus. Sci Conserv 43, 79–85. [Google Scholar]
  5. Kigawa, R., Sano, C., Ishizaki, T. & Miura, S.(2006). Concept and measures of the conservation of Takamatsuzuka tumulus for thirty years and the present situation of biodeterioration. Sci Conserv 45, 33–58. [Google Scholar]
  6. Kumar, S., Tamura, K. & Nei, M.(2004).mega3: integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief Bioinform 5, 150–163.[CrossRef] [Google Scholar]
  7. Kuraishi, H., Katayama-Fujimura, Y., Sugiyama, J. & Yokoyama, T.(1985). Ubiquinone systems in fungi. I. Distribution of ubiquinones in the major families of ascomycetes, basidiomycetes, and deuteromycetes, and their taxonomic implications. Trans Mycol Soc Jpn 26, 383–395. [Google Scholar]
  8. Kurtzman, C. P.(1998).Pichia mexicana Miranda, Holzschu, Phaff & Starmer. In The Yeasts, a Taxonomic Study, 4th edn, pp. 322–323. Edited by C. P. Kurtzman & J. W. Fell. Amsterdam: Elsevier.
  9. Kurtzman, C. P. & Robnett, C. J.(1998). Identification and phylogeny of ascomycetous yeasts from analysis of nuclear large subunit (26S) ribosomal DNA partial sequences. Antonie van Leeuwenhoek 73, 331–371.[CrossRef] [Google Scholar]
  10. Marmur, J.(1961). A procedure for the isolation of deoxyribonucleic acid from microorganisms. J Mol Biol 3, 208–218.[CrossRef] [Google Scholar]
  11. Meyer, S. A., Payne, R. W. & Yarrow, D.(1998a).Candida friedrichii van Uden & Windisch. In The Yeasts, a Taxonomic Study, 4th edn, pp. 506–507. Edited by C. P. Kurtzman & J. W. Fell. Amsterdam: Elsevier.
  12. Meyer, S. A., Payne, R. W. & Yarrow, D.(1998b).Candida insectorum D. S. Scott, van der Walt & van der Klift (van der Walt et al.) Windisch. In The Yeasts, a Taxonomic Study, 4th edn, pp. 515–516. Edited by C. P. Kurtzman & J. W. Fell. Amsterdam: Elsevier.
  13. Meyer, S. A., Payne, R. W. & Yarrow, D.(1998c).Candida Berkhout. In The Yeasts, a Taxonomic Study, 4th edn, pp. 454–573. Edited by C. P. Kurtzman & J. W. Fell. Amsterdam: Elsevier.
  14. Nagatsuka, Y., Kawasaki, H., Limtong, S., Mikata, K. & Seki, T.(2002).Citeromyces siamensis sp. nov., a novel halotolerant yeast isolated in Thailand. Int J Syst Evol Microbiol 52, 2315–2319.[CrossRef] [Google Scholar]
  15. Nagatsuka, Y., Kawasaki, H., Mikata, K. & Seki, T.(2005).Candida khmerensis sp. nov., a novel cation-tolerant yeast isolated from dry salted shrimp and sewage in Cambodia. J Gen Appl Microbiol 51, 235–243.[CrossRef] [Google Scholar]
  16. Sugita, T., Nishikawa, A., Ikeda, R. & Shinoda, T.(1999). Identification of medically relevant Trichosporon species based on sequences of internal transcribed spacer regions and construction of a database for Trichosporon identification. J Clin Microbiol 37, 1985–1993. [Google Scholar]
  17. Suh, S. O., Nguyen, N. H. & Blackwell, M.(2005). Nine new Candida species near C. membranifaciens isolated from insects. Mycol Res 109, 1045–1056.[CrossRef] [Google Scholar]
  18. Tamaoka, J. & Komagata, K.(1984). Determination of DNA base composition by reversed-phase high-performance liquid chromatography. FEMS Microbiol Lett 25, 125–128.[CrossRef] [Google Scholar]
  19. Thompson, J. D., Higgins, D. G. & Gibson, T. J.(1994).clustalw: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22, 4673–4680.[CrossRef] [Google Scholar]
  20. Yamada, Y., Okada, T., Ueshima, O. & Kondō, K.(1973). Coenzyme Q system in the classification of the ascosporogenous yeast genera Hansenula and Pichia. J Gen Appl Microbiol 19, 189–208.[CrossRef] [Google Scholar]
  21. Yamada, Y., Kawasaki, H., Nagatsuka, Y., Mikata, K. & Seki, T.(1999). The phylogeny of the cactophilic yeasts based on the 18S ribosomal RNA gene sequences: the proposals of Phaffomyces antillensis and Starmera caribaea, new combinations. Biosci Biotechnol Biochem 63, 827–832.[CrossRef] [Google Scholar]
  22. Yarrow, D.(1998). Methods for the isolation, maintenance and identification of yeasts. In The Yeasts, a Taxonomic Study, 4th edn, pp. 77–100. Edited by C. P. Kurtzman & J. W. Fell. Amsterdam: Elsevier.
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.65830-0
Loading
/content/journal/ijsem/10.1099/ijs.0.65830-0
Loading

Data & Media loading...

Supplements

vol. , part 1, pp. 186 - 194

Phylogenetic position of sp. nov. T6517-9-5 (group A) and sp. nov. T4922-1-1 (group B) in the clade, excluding subclade C, following maximum-parsimony analysis of 26S rDNA D1/D2 domain sequences (497 nt). [PDF](30 KB)



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