Rhodotorula benthica sp. nov. and Rhodotorula calyptogenae sp. nov., novel yeast species from animals collected from the deep-sea floor, and Rhodotorula lysiniphila sp. nov., which is related phylogenetically

International Journal of Systematic and Evolutionary Microbiology

Volumn 53, Issue 3, 2003, Pages 897-903

  Nagahama, Takahiko ^a   Hamamoto, Makiko ^b,c   Nakase, Takashi ^b   Horikoshi, Koki ^a  

^a JAPAN AGENCY FOR MARINE EARTH SCIENCE AND TECHNOLOGY   (Japan)

^b RIKEN BIORESOURCE CENTER   (Japan)

^c RIKEN   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

INTERNAL TRANSCRIBED SPACER; RIBOSOME DNA;

ARTICLE; CONTROLLED STUDY; FUNGAL STRAIN; FUNGUS IDENTIFICATION; FUNGUS ISOLATION; JAPAN; NONHUMAN; NUCLEOTIDE SEQUENCE; PACIFIC OCEAN; PAKISTAN; PHYLOGENY; PRIORITY JOURNAL; RHODOTORULA; RHODOTORULA BENTHICA; RHODOTORULA CALYPTOGENAE; RHODOTORULA LYSINIPHILA; SEA; SEQUENCE HOMOLOGY; SPECIES IDENTIFICATION;

ANIMALS; ANNELIDA; BACTERIAL TYPING TECHNIQUES; BIVALVIA; DNA, RIBOSOMAL SPACER; JAPAN; MOLECULAR SEQUENCE DATA; NUCLEIC ACID HYBRIDIZATION; PACIFIC OCEAN; PHENOTYPE; PHYLOGENY; RHODOTORULA; RNA, RIBOSOMAL, 23S; RNA, RIBOSOMAL, 5.8S; SEQUENCE ANALYSIS, DNA;

ANIMALIA; BIVALVIA; CALYPTOGENA; CALYPTOGENA SP.; FUNGI; LAMELLIBRACHIA; LAMELLIBRACHIA SP.; MYXOGASTRIA; RHODOTORULA LARYNGIS; RHODOTORULA MINUTA; RHODOTORULA PALLIDA; RHODOTORULA SLOOFFIAE;

EID: 0038315432     PISSN: 14665026     EISSN: None     Source Type: Journal    
DOI: 10.1099/ijs.0.02395-0     Document Type: Article

References (27)

1. Ezaki, T., Hashimoto, Y. & Yabuuchi, E. (1989). 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 Bacteriol 39, 224-229.
2. Fell, J. W. (1976). Yeasts in oceanic regions. In Recent Advances in Aquatic Mycology, pp. 93-124. Edited by E. B. G. Jones. London: Elek Science.
3. Fell, J. W., Boekhout, T., Fonseca, A., Scorzetti, G. & Statzell-Tallman, A. (2000). Biodiversity and systematics of basidiomycetous yeasts as determined by large-subunit rDNA D1/D2 domain sequence analysis. Int J Syst Evol Microbiol 50, 1351-1371.
4. Felsenstein, J. (1981). Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17, 368-376.
5. Felsenstein, J. (1985). Confidence limit on phylogenies: an approach using the bootstrap. Evolution 39, 783-791.
6. Galgóczy, J. & Novák E. K. (1965). Rhodotorula zsoltii n. sp., a new species of yeasts, and some notes on the taxonomy of the genus Rhodotorula. Acta Microbiol Acad Sci Hung 12, 151-155.
7. Hagler, A. N. & Ahearn, D. G. (1987). Ecology of aquatic yeasts. In The Yeasts, 2nd edn, vol. 1, pp. 181-205. Edited by A. H. Rose & J. S. Harrison. London: Academic Press.
8. Hamamoto, M. & Nakase, T. (1995). Ballistosporous yeasts found on the surface of plant materials collected in New Zealand. 1. Six new species in the genus Sporobolomyces. Antonie van Leeuwenhoek 67, 151-171.
9. Hamamoto, M., Thanh, V. N. & Nakase, T. (2002). Bannoa hahajimensis gen. nov., sp. nov., and three related anamorphs, Sporobolomyces bischofiae sp. nov., Sporobolomyces ogasawarensis sp. nov. and Sporobolomyces syzygii sp. nov., yeasts isolated from plants in Japan. Int J Syst Evol Microbiol 52, 1023-1032.
10. Hasegawa, M., Kishino, H. & Yano, T. (1985). Dating of the human-ape splitting by a molecular clock of mitochondrial DNA. J Mol Evol 22, 160-174.
11. Komagata, K. & Nakase, T. (1967). Reitoshokuhin no biseibutsu ni kansuru kenkyu. V. Shihan reitoshokuhin yori bunri shita kobo no seijo (Microbiological studies on frozen foods). Shokuhin Eiseigaku Zasshi 8, 53-57 (in Japanese).
12. Nagahama, T., Hamamoto, M., Nakase, T., Takami, H. & Horikoshi, K. (2001a). Distribution and identification of red yeasts in deep-sea environments around the northwest Pacific Ocean. Antonie van Leeuwenhoek 80, 101-110.
13. Nagahama, T., Hamamoto, M., Nakase, T. & Horikoshi, K. (2001b). Rhodotorula lamellibrachii sp. nov., a new yeast species from a tubeworm collected at the deep-sea floor in Sagami Bay and its phylogenetic analysis. Antonie van Leeuwenhoek 80, 317-323.
14. Nakase, T. & Suzuki, M. (1986). Bullera megalospora, a new species of yeast forming large ballistospores isolated from dead leaves of Oryza sativa, Miscanthus sinensis and Sasa sp. in Japan. J Gen Appl Microbiol 32, 225-240.
15. Novák, E. K. & Vörös-Felkai, C. (1962). Rhodotorula slooffiae n. sp. Acta Microbiol Acad Sci Hung 9, 261-263.
16. Phaff, H. J. & Ahearn, D. G. (1970). Genus 7. Rhodotorula Harrison. In The Yeasts, a Taxonomic Study, pp. 1187-1223. Edited by J. Lodder. Amsterdam: North-Holland.
17. Phaff, H. J., Mrak, E. M. & Williams, O. B. (1952). Yeasts isolated from shrimp. Mycologia 44, 431-451.
18. Reiersøl, S. (1955). Species of Rhodotorula isolated from laryngeal swabs. Antonie van Leeuwenhoek 21, 286-289.
19. Saitou, N. & Nei, M. (1987). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406-425.
20. Sugiyama, J. & Goto, S. (1967). Coprophilous fungi from Karakorum I. J Jpn Bot 42, 75-84.
21. Swofford, D. L. (1998). PAUP 4.0: phylogenetic analysis using parsimony (and other methods). Sunderland, MA: Sinauer Associates.
22. Takami, H., Inoue, A., Fuji, F. & Horikoshi, K. (1997). Microbial flora in the deepest sea mud of the Mariana Trench. FEMS Microbiol Lett 152, 279-285.
23. Tamaoka, J. & Komagata, K. (1984). Determination of DNA base composition by reversed-phase high-performance liquid chromatography. FEMS Microbiol Lett 25, 125-128.
24. 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 Res 22, 4673-4680.
25. White, T. J., Bruns, T., Lee, S. & Taylor, J. W. (1990). Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In PCR Protocols, pp. 315-322. Edited by M. Innis, D. Gelfand, J. J. Sninsky & T. J. White. San Diego: Academic Press.
26. Yamada, Y. & Kondo, K. (1973). Coenzyme Q system in the classification of the yeast genera Rhodotorula and Cryptococcus and the yeast-like genera Sporobolomyces and Rhodosporidium. J Gen Appl Microbiol 19, 59-77.
27. 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.