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Takashi Nakase

Publications and source records attributed to Takashi Nakase.

At least 19 recordsLinked to original sources
PubMed2003

Bullera anomala sp. nov. and Bullera pseudovariabilis sp. nov., two new ballistoconidium-forming yeast species from Yunnan, China.

Two ballistoconidium-forming yeast strains, CH 2.504 and CH 2.509, were isolated from the wilting leaves of Parthenocissus sp. collected in Yunnan, China in 1996. These two strains were assigned to the genus Bullera Derx by the characteristics of forming rotationally symmetric ballistoconidia, containing xylose in the cell hydrolysates and having Q-10 as the major ubiquinone. Molecular phylogenetic analysis based on small subunit ribosomal RNA gene (18S rDNA) and internal transcribed spacer (ITS) region sequences revealed that CH 2.504 is closely related to B. variabilis Nakase & Suzuki, while CH 2.509 is located in a clearly separate clade among the described Bullera species and related taxa. The results indicated that CH 2.509 represents a new species, for which Bullera anomala sp. nov. is the proposed name (type strain AS 2.2094T). Further DNA-DNA reassociation data showed that CH 2.504 also represents a distinct species, for which the name Bullera pseudovariabilis sp. nov. is given (type strain AS 2.2092T).

Basidiomycota↗
PubMed2003

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.

Three novel species of the genus Rhodotorula are described. Rhodotorula benthica sp. nov. (type strain JCM 10901(T) = SY-91(T)) and Rhodotorula calyptogenae sp. nov. (type strain JCM 10899(T) = SY-86(T)) were respectively isolated from the tubeworm Lamellibrachia sp. and the giant white clam Calyptogena sp., collected from the deep-sea floor of the Pacific Ocean off Japan. Rhodotorula lysiniphila sp. nov. (type strain JCM 5951(T)) is proposed for strains isolated previously in Japan and Pakistan. The three species were placed phylogenetically into a species complex comprising Rhodotorula laryngis, Rhodotorula minuta, Rhodotorula pallida and Rhodotorula slooffiae. R. minuta and R. slooffiae are closely related in both the D1/D2 region of the 26S rDNA and the internal transcribed spacer and 5.8S rDNA regions. R. benthica and R. laryngis were closer to R. pallida based on the D1/D2 region. Other relationships were not clear.

Animals↗
PubMed2003

Three new combinations from the Cryptococcus laurentii complex: Cryptococcus aureus, Cryptococcus carnescens and Cryptococcus peneaus.

Fifteen strains of the Cryptococcus laurentii complex were reclassified based on sequence analyses of 18S rDNA, the D1/D2 region of the 26S rDNA and the internal transcribed spacer regions, as well as physiological and biochemical properties. The strains were divided into phylogenetic groups I and II. The type strain of C. laurentii (CBS 139T=ATCC 18803T=JCM 9066T=MUCL 30398T=NRRL Y-2536T) was in phylogenetic group I. Phylogenetic group II, which was phylogenetically distant from phylogenetic group I, clustered with Cryptococcus dimennae and Bullera globispora. In phylogenetic group I, the type strain of Torula aurea (CBS 318T=ATCC 32063T=IFO 0372T=NRRL Y-1582T) appeared to be a separate species from C. laurentii, and the designation Cryptococcus aureus comb. nov. is proposed for Torula aurea. Cryptococcus flavescens (formerly Torula flavescens, type strain CBS 942T=ATCC 10668T=DBVPG 6007T=MUCL 30414T) was treated as a synonym of C. laurentii; however, this is a distinct species. The type strains of Torulopsis carnescens (CBS 973T=ATCC 32064T=MUCL 30641T=NRRL Y-1503T), Rhodotorula peneaus (CBS 2409T=ATCC 13546T=MUCL 30643T=NRRL Y-2005T) and Cryptococcus victoriae belonged to phylogenetic group II. Two new combinations, Cryptococcus carnescens comb. nov. (type strain CBS 973T=ATCC 32064T=MUCL 30641T=NRRL Y-1503T) and Cryptococcus peneaus comb. nov. (type strain CBS 2409T=ATCC 13546T=MUCL 30643T=NRRL Y-2005T), are proposed from this group.

Base Composition↗
PubMed2002

Kockovaella barringtoniae sp. nov., a new basidiomycetous yeast species isolated from a plant leaf collected in a tropical rain forest in Thailand.

One yeast strain characterized by the proliferation of non-ballistosporous stalked conidia, budding cells and ballistoconidia, the presence of xylose in whole-cell hydrolysates, the presence of Q-10 as the major ubiquinone isoprenologue, the inability to ferment sugars and positive diazonium blue B (DBB) and urease reactions was isolated from a plant sample collected in a tropical rain forest in Thailand. The isolate clustered with Kockovaella species in the 18S rDNA-based tree. On the basis of the morphological, biochemical and molecular phylogenetic characteristics, the isolate was assigned to the genus Kockovaella. DNA complementarity experiments showed that the isolate was genetically distinct from known species of the genus Kockovaella. The isolate is described as Kockovaella barringtoniae sp. nov. The type strain is strain TY-278T (= JCM 10998T = TISTR 5770T).

Basidiomycota↗
PubMed2002

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.

Fourteen ballistoconidium-forming yeast strains were isolated from leaves of plants collected in the Ogasawara Islands, which are isolated islands in the Pacific Ocean, about 1,000 km south of the Japanese mainland, in the subtropical zone. The 14 isolates were characterized by the absence of xylose in whole-cell hydrolysates, the presence of Q-10(H2) as the major ubiquinone isoprenologue, G+C contents of 47.6-52.0 mol%, the inability to ferment sugars or to assimilate nitrate and positive Diazonium blue B and urease reactions. They formed a phylogenetically coherent cluster within the Erythrobasidium lineage in the Urediniomycetes of the Basidiomycota based on 18S rDNA sequences. Analyses of the nucleotide sequences of internal transcribed spacer regions and DNA complementarity showed that four genospecies were recognized among the 14 isolates. A mating reaction was observed in one of the four genospecies, which produced one-celled basidia on dikaryotic hyphae with clamp connections. On the basis of the morphological, physiological, chemotaxonomic and phylogenetic analyses, a new teleomorphic genus, Bannoa, is proposed, in which one novel species is described, Bannoa hahajimensis gen. nov., sp. nov. (type strain OK-248(T) = JCM 10336T = CBS 9039(T)). The other three anamorphic genospecies are described as Sporobolomyces bischofiae sp. nov. (type strain OK-257T = JCM 10338T =CBS 9041T), Sporobolomyces ogasawarensis sp. nov. (type strain OK-14T = JCM 10326T = CBS 9038T) and Sporobolomyces syzygii sp. nov. (type strain OK-227T = JCM 10337T = CBS 9040T.

Basidiomycota↗
PubMed2002

Vulcanisaeta distributa gen. nov., sp. nov., and Vulcanisaeta souniana sp. nov., novel hyperthermophilic, rod-shaped crenarchaeotes isolated from hot springs in Japan.

Seventeen strains of rod-shaped, heterotrophic, anaerobic, hyperthermophilic crenarchaeotes were isolated from several hot spring areas in eastern Japan, and eight representative strains were characterized further. Cells of these strains were straight to slightly curved rods, 0.4-0.6 microm in width. Occasionally, cells were branched or bore spherical bodies at the poles. They grew optimally at 85-90 degrees C and at pH 4.0-4.5. They utilized yeast extract, peptone, beef extract, Casamino acids, gelatin, starch, maltose and malate as carbon sources and sulfur and thiosulfate as possible electron acceptors. The DNA G+C contents of the novel isolates were 43.9-46.2 mol%. The lipids were mainly cyclic and acyclic tetraether core lipids. Phylogenetic analysis of the 16S rDNA sequences revealed that they represented an independent lineage in the family Thermoproteaceae. Moreover, comparison of the 16S rDNA sequences and a DNA-DNA hybridization study showed that they comprised two species, which could also be differentiated by the maximal growth temperature and degrees of NaCl tolerance. Therefore, a new genus, Vulcanisaeta gen. nov., in the family Thermoproteaceae is proposed to accommodate two novel species, Vulcanisaeta distributa sp. nov. and Vulcanisaeta souniana sp. nov. The type species is V. distributa and the type strains are V. distributa IC 017T (= JCM 11212T = DSM 14429T) and V. souniana IC-059T (= JCM 11219T = DSM 14430T).

Anaerobiosis↗
PubMed2002

Udeniomyces pannonicus sp. nov., a ballistoconidium-forming yeast isolated from leaves of plants in Hungary.

Fifteen ballistoconidium-forming yeasts, isolated from the leaves of plants in Hungary, showed morphological, physiological and biochemical characteristics similar to those of Udeniomyces pyricola. The identical sequences of internal transcribed spacer regions for selected strains (HY-16T, HY-29, HY-111 and HY-186) indicated that they should be classified as one species. Although a representative strain, HY-16T, showed a closer relationship to Itersonilia perplexans than to known Udeniomyces species in phylogenetic trees constructed using 18S rDNA and the D1/D2 region of the 26S rDNA sequence, this species was placed in the genus Udeniomyces on the basis of its morphological and chemotaxonomic characteristics. Udeniomycespannonicus sp. nov. (type strain HY-16T = JCM 11145T = NCAIM Y 01556T = CBS 9123T) is proposed.

Base Composition↗
PubMed2002

Reclassification of the Sporobolomyces roseus and Sporidiobolus pararoseus complexes, with the description of Sporobolomyces phaffii sp. nov.

More than 50 ballistoconidium-forming yeast strains, isolated from plant leaves collected in Yunnan, China, were identified as Sporobolomyces roseus Kluyver & van Niel by conventional methods. However, comparison of the internal transcribed spacer (ITS) region and 265 rDNA D1/D2 domain sequences indicated that these strains represented more than one species. Type or authentic strains of the synonyms of Sporobolomyces roseus and the closely related species Sporidiobolus pararoseus Fell & Tallman were employed in the rDNA sequence comparison. Sporobolomyces boleticola Ramírez, Sporobolomyces pollaccii Verona & Ciferri, Sporobolomyces roseus var. madurae Janke and Torulopsis somala Verona were confirmed to be conspecific with Sporobolomyces roseus. Another synonym of this species, Sporobolomyces salmoneus Derx, was located together with Sporobolomyces marcillae Santa Maria in a separate clade. Two synonyms of Sporidiobolus pararoseus, Sporobolomyces carnicolor Yamasaki & Fujii (nom. inval.) and Sporobolomyces japonicus Iizuka & Goto, were revealed to represent two distinct species. The name Sporobolomyces carnicolor is validated, with strain CBS 4215(T) as the type strain. A novel species represented by five of the selected Yunnan strains was confirmed, for which the name Sporobolomyces phaffii sp. nov. is proposed (type strain CH 2.052(T) = AS 2.2137(T) = JCM 11491(T) = CBS 9129(T)). This study also indicates that yeast species with similar ITS sequences may have quite different D1/D2 sequences.

Base Sequence↗
PubMed2002

Dioszegia zsoltii sp. nov., a new ballistoconidium-forming yeast species with two varieties.

As a result of conventional characterization of yeasts isolated from various plant leaves collected in Yunnan, China, six ballistoconidium-forming strains with orange-colored colonies were grouped together. Molecular phylogenetic analysis based on 18S rDNA sequencing showed that two representative strains of this group of yeasts, CH 2.068 and CH 2.497, were closely related to the species in the genus Dioszegia and had signature sequences typical of this genus. However, the six strains from Yunnan differed from the described Dioszegia species remarkably (14.5-17.7% nucleotide divergences) in the ITS (internal transcribed spacer) region sequences, which indicated that they represent a distinct species. Furthermore, among the six strains studied, the ITS region sequence comparison allowed the recognition of two subgroups represented by CH 2.068 and CH 2.497, which differ from each other in three bases in the ITS 2 region. DNA-DNA relatedness revealed that the two subgroups represent two varieties of a new species in the genus Dioszegia, for which Dioszegia zsoltii sp. nov. var. zsoltii and Dioszegia zsoltii var. yunnanensis var. nov. are proposed.

Base Sequence↗
PubMed2002

Bullera taiwanensis sp nov and Bullera formosensis sp nov, two new ballistoconidium-forming yeast species isolated from plant leaves in Taiwan.

Two strains of ballistoconidiogenous yeasts that contain xylose and form Q-10 ubiquinone were isolated from plant leaves collected in Taiwan and were found to represent two new species. The taxonomic properties of both coincide with the genus Bullera so they are described as Bullera taiwanensis sp. nov. and Bullera formosensis sp. nov. In a phylogenetic tree based on the nucleotide sequences of 18S ribosomal DNAs, these two species are distant from the clusters where the remaining members of the genus Bullera are located, i.e., Bullera taiwanensis is located in the Filobasidium lineage (Filobasidiales clade) and Bullera formosensis is located in the Cryptococcus humicola-Trichosporon lineage (Trichosporonales clade).

Basidiomycota↗
PubMed2002

A phylogenetic study of ubiquinone-7 species of the genus Candida based on 18S ribosomal DNA sequence divergence.

To clarify phylogenetic relationships among ubiquinone 7 (Q7)-forming species of the genus Candida, we analyzed the nearly complete sequences of 18S ribosomal RNA genes (18S rDNAs) from fifty strains (including 46 type strains) of Candida species, and from 8 type strains of species/varieties of the genera Issatchenkia, Pichia and Saturnispora. Q7-forming Candida species were divided into three major groups (Group I, II, and III) and were phylogenetically distant from a group that includes the type species of the genus Candida. Group I included four clusters with basal branches that were weakly supported. The first cluster comprised C. vartiovaarae, C. maritima, C. utilis, C. freyschussii, C. odintsovae, C. melinii, C. quercuum, Williopsis saturnus var. saturnus, and W. mucosa. The second cluster comprised C. norvegica, C. montana, C. stellimalicola, C. solani, C. berthetii, and C. dendrica. Williopsis pratensis, W. californica, Pichia opuntiae and 2 related species, P. amethionina (two varieties), and P. caribaea were also included in this cluster. The third cluster comprised C. pelliculosa (anamorph of P. anomala), C. nitrativorans, and C. silvicultrix. The fourth cluster comprised C. wickerhamii and C. peltata, which were placed in the P. holstii - C. ernobii clade with Q8-containing species. Group II comprised C. pignaliae, C. nemodendra, C. methanolovescens, C. maris, C. sonorensis, C. pini, C. llanquihuensis, C. cariosilignicola, C. ovalis, C. succiphila (including its two synonyms), C. methanosorbosa, C. nitratophila, C. nanaspora, C. boidinii (including its two synonyms), W. salicorniae, and P. methanolica. Group III was composed of four clusters with strong bootstrap support. The first cluster comprised C. valida (anamorph of P. membranifaciens), C. ethanolica, C. pseudolambica, C. citrea, C. inconspicua, C. norvegensis, C. rugopelliculosa, and C. lambica. Three species and two varieties of the genus Issatchenkia were also included in this cluster. The second cluster comprised C. diversa, C. silvae, 4 Saturnispora species, and P. besseyi. The third comprised C. sorboxylosa, and the fourth comprised C. vini. Based on this 18S rDNA sequence analysis, it is evident that Q7-forming Candida species and the genera Pichia and Williopsis are polyphyletic. The genus Issatchenkia is suggested to be congeneric with the genus Pichia. The genus Saturnispora is phylogenetically definable.

Ascomycota↗
PubMed2001

Emendation of Dioszegia with redescription of Dioszegia hungarica and two new combinations, Dioszegia aurantiaca and Dioszegia crocea.

During phylogenetic analyses of hymenomycetous yeasts based on 18S rDNA sequences, we found that Bullera armeniaca showed an extremely close phylogenetic relationship to Cryptococcus hungaricus. The analyses of internal transcribed spacer (ITS) regions of the two yeasts and the phylogenetically related species, Bullera aurantiaca and Bullera crocea, showed that B. armeniaca and C. hungaricus had identical sequences, indicating that these were conspecific. B. aurantiaca and B. crocea also showed high sequence similarity, 97.1% for ITS1, 100% for ITS2, and 98.7% for overall ITS regions. A DNA-DNA reassociation experiment revealed that B. armeniaca and C. hungaricus were conspecific and B. aurantiaca and B. crocea were two distinct species. These species occurred at a phylogenetically different lineage from that of Bulleromyces albus (anamorph: Bullera alba, type species of Bullera) and Filobasidiella neoformans (anamorph: Cryptococcus neoformans, neotype species of Cryptococcus). Based on these results, we emend the genus Dioszegia to include both ballistoconidium-forming and non-ballistoconidium-forming yeasts and redescribe the species Dioszegia hungarica. B. aurantiaca and B. crocea are also transferred to Dioszegia as Dioszegia aurantiaca comb. nov. and Dioszegia crocea comb. nov.

Journal Article↗
PubMed2000

Expanding world of ballistosporous yeasts: Distribution in the phyllosphere, systematics and phylogeny.

Ecological and systematic aspects of ballistosporous yeasts inhabiting the phyllosphere of the Asia-Pacific region were reviewed in the light of recent advances. In the past 20 years, the extensive isolation studies of ballistosporous yeasts were carried out in the Asia-Pacific region, and the following new species were found in the phyllosphere of the main island of Japan, of the Ogasawara Islands in the Pacific Ocean, and of Thailand, New Zealand, and the Yunnan Province of China: Bensingtonia ingoldii, B. intermedia, B. miscanthi, B. naganoensis, B. musae, B. sakaguchii, B. subrosea, B. thailandica, and B. yamatoana; Bullera boninensis, B. coprosmaensis, B. hannae, B. huiaensis, B. miyagiana, B. mrakii, B. oryzae, B. penniseticola, B. pseudoalba, B. schimicola, B. sinensis, B. unica, B. variabilis, and B. waltii; Kockovaella imperatae, K. machilophila, K. phaffii, K. sacchari, K. schimae, and K. thailandica; Sporobolomyces blumeae, S. coprosmae, S. coprosmicola, S. dimmenae, S. draycophyllus, S. falcatus, S. griseoflavus, S. inositophilus, S. lactophilus, S. linderae, S. novazealandicus, S. nylandii, S. oryzicola, S. poonsookiae, S. ruber, S. sasicola, S. subbrunneus, S. taupoensis, S. vermiculatus, S. xanthus, and S. yunnanensis; and Udeniomyces megalosporus. Yeast species containing Q-10(H(2)), a monohydrated ubiquinone, have long been considered to be rare yeasts; however, these yeasts were proved to be common in the tropical and subtropical phyllosphere of Asia. The chemotaxonomic and molecular phylogenetic studies based on the sequence analysis of 18S rDNA revealed the heterogeneity of ballistosporous yeasts, which comprised species with polyphyletic phylogenetic origins. A new phylogenetic cluster, Subbrunneus, was newly found in the class Urediniomycetes as the fifth phylogenetical cluster of this class, based on the analysis of 18S rDNA sequences. The Subbrunneus cluster comprises four ballistosporous yeast species found in the phyllosphere of Japan and New Zealand. The future perspectives of basidiomycetous yeast systematics are discussed.

Journal Article↗
PubMed2000

Four new species of Kockovaella isolated from plant leaves collected in Vietnam.

Five ballistoconidiogenous yeast strains, isolated from plant leaves at Cuc Phuong National Forest of Ninh Binh, Vietnam, were assigned to the genus Kockovaella based on morphological and chemotaxonomical characteristics. They represent four new species based on analyses of 18S rDNA sequence, sequences of internal transcribed spacer regions, and DNA-DNA reassociation experiments. Four new species, Kockovaella calophylli (1 strain), Kockovaella cucphuongensis (2 strains), Kockovaella litseae (1 strain), and Kockovaella vietnamensis (1 strain) are proposed for these strains.

Journal Article↗
PubMed1999

A phylogenetic study on galactose-containing Candida species based on 18S ribosomal DNA sequences.

Phylogenetic relationships of 33 Candida species containing galactose in the cells were investigated by using 18S ribosomal DNA sequence analysis. Galactose-containing Candida species and galactose-containing species from nine ascomycetous genera were a heterogeneous assemblage. They were divided into three clusters (II, III, and IV) which were phylogenetically distant from cluster I, comprising 9 galactose-lacking Candida species, C. glabrata, C. holmii, C. krusei, C. tropicalis (the type species of Candida), C. albicans, C. viswanathii, C. maltosa, C. parapsilosis, C. guilliermondii, and C. lusitaniae, and 17 related ascomycetous yeasts. These three clusters were also phylogenetically distant from Schizosaccharomyces pombe, which contains galactomannan in its cell wall. Cluster II comprised C. magnoliae, C. vaccinii, C. apis, C. gropengiesseri, C. etchellsii, C. floricola, C. lactiscondensi, Wickerhamiella domercqiae, C. versatilis, C. azyma, C. vanderwaltii, C. pararugosa, C. sorbophila, C. spandovensis, C. galacta, C. ingens, C. incommunis, Yarrowia lipolytica, Galactomyces geotrichum, and Dipodascus albidus. Cluster III comprised C. tepae, C. antillancae and its synonym C. bondarzewiae, C. ancudensis, C. petrohuensis, C. santjacobensis, C. ciferrii (anamorph of Stephanoascus ciferrii), Arxula terrestris, C. castrensis, C. valdiviana, C. paludigena, C. blankii, C. salmanticensis, C. auringiensis, C. bertae, and its synonym C. bertae var. chiloensis, C. edax (anamorph of Stephanoascus smithiae), Arxula adeninivorans, and C. steatolytica (synonym of Zygoascus hellenicus). Cluster IV comprised C. cantarellii, C. vinaria, Dipodascopsis uninucleata, and Lipomyces lipofer. Two galactose-lacking and Q-8-forming species, C. stellata and Pichia pastoris, and 5 galactose-lacking and Q-9-forming species, C. apicola, C. bombi, C. bombicola, C. geochares, and C. insectalens, were included in Cluster II. Two galactose-lacking and Q-9-forming species, C. drimydis and C. chiropterorum, were included in Cluster III.

Journal Article↗
PubMed1999

A phylogenetic study of ubiquinone Q-8 species of the genera Candida, Pichia, and Citeromyces based on 18S ribosomal DNA sequence divergence.

To clarify phylogenetic relationships among species of the anamorphic ascomycetous genus Candida with ubiquinone Q-8, we determined complete sequences of 18S ribosomal RNA genes (18S rDNAs) from the type strains of 20 species of the genus Candida and 7 of the teleomorphic ascomycetous genera Pichia and Citeromyces, which have Q-8 as the major ubiquinone. Q-8-forming Candida species were divided into six clusters and were phylogenetically distant from a group of Candida species that included the type species of the genus. One Q-8-forming species from each of the genera Pichia, Citeromyces, or Clavispora was included in five of six clusters. Cluster 1 comprised C. ishiwadae, C. ernobii, C. karawaiewii, C. anatomiae, C. populi, and Pichia holstii. Cluster 2 comprised C. globosa and its teleomorph, Citeromyces matritensis. Cluster 3 comprised C. molischiana and Pichia capsulata. Cluster 4 comprised C. silvanorum, C. sequanensis, C. fennica, C. entomophila, C. homilentoma, C. rhagii, C. gotoi, and Pichia burtonii. Cluster 5 comprised C. fructus, C. musae, and C. lusitaniae (anamorph of Clavispora lusitaniae). Cluster 6 comprised C. stellata, C. lactiscondensi, C. galacta, and C. incommunis and was a heterogeneous group with large interspecific divergence. Pichia pastoris was quite divergent and phylogenetically distant from other Pichia species examined. Pichia methanolica and its synonym, P. cellobiosa, which have both Q-7 and Q-8 as major ubiquinones, were closely associated with Q-7-forming Williopsis salicorniae. Based on this comparative analysis of 18S rDNA sequences, it is evident that Q-8 Candida species and Q-8 Pichia species are polyphyletic.

Journal Article↗