Two yeast species Cystobasidium psychroaquaticum f.a. sp. nov. and Cystobasidium rietchieii f.a. sp. nov. isolated from natural environments, and the transfer of Rhodotorula minuta clade members to the genus Cystobasidium

Antonie van Leeuwenhoek, International Journal of General and Molecular Microbiology

Volumn 107, Issue 1, 2015, Pages 173-185

  Yurkov, A M ^a   Kachalkin, A V ^b   Daniel, H M ^c   Groenewald, M ^d   Libkind, D ^e   de Garcia, V ^e   Zalar, P ^f   Gouliamova, D E ^g   Boekhout, T ^d,h,i   Begerow, D ^j  

^a LEIBNIZ INSTITUTE DSMZ GERMAN COLLECTION OF MICROORGANISMS AND CELL CULTURES   (Germany)

^b MOSCOW STATE UNIVERSITY   (Russian Federation)

^c UNIVERSITÉ CATHOLIQUE DE LOUVAIN   (Belgium)

^d CBS KNAW FUNGAL BIODIVERSITY CENTRE   (Netherlands)

^e Instituto de Investigaciones en Biodiversidad y Medioambiente Bariloche   (Argentina)

^f UNIVERSITY OF LJUBLJANA   (Slovenia)

^g INSTITUTE OF MICROBIOLOGY   (Bulgaria)

^h SECOND MILITARY MEDICAL UNIVERSITY   (China)

ⁱ INSTITUTE OF MICROBIOLOGY   (China)

^j RUHR UNIVERSITY BOCHUM   (Germany)

more..

Author keywords

Basidiomycetes; Cystobasidium; Fungi; New species; Pucciniomycotina; Rhodotorula; Yeasts

Indexed keywords

ARTICLE; BASIDIOMYCETES; CLADISTICS; CONTROLLED STUDY; CYSTOBASIDIALES; CYSTOBASIDIUM; CYSTOBASIDIUM FIMETARIUM; CYSTOBASIDIUM MINUTUM; CYSTOBASIDIUM PSYCHROAQUATICUM; CYSTOBASIDIUM RIETCHIEII; FUNGAL GENE; FUNGUS IDENTIFICATION; FUNGUS ISOLATION; GENETIC ANALYSIS; GENUS; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; POLYPHYLY; PRIORITY JOURNAL; RHODOTORULA; RHODOTORULA GLUTINIS; RHODOTORULA MINUTA; SPECIES IDENTIFICATION; SPORIDIOBOLALES; BASIDIOMYCOTA; CHEMISTRY; CLASSIFICATION; CLUSTER ANALYSIS; ENVIRONMENTAL MICROBIOLOGY; GENES, RRNA; GENETICS; ISOLATION AND PURIFICATION; MICROBIOLOGY; MICROSCOPY; MOLECULAR SEQUENCE DATA; MYCOLOGICAL TYPING TECHNIQUES; PHYSIOLOGY; PLANTS; SEQUENCE ANALYSIS, DNA;

DNA, FUNGAL; DNA, RIBOSOMAL; DNA, RIBOSOMAL SPACER; PIGMENTS, BIOLOGICAL; RNA, FUNGAL; RNA, RIBOSOMAL; RNA, RIBOSOMAL, 26S;

BASIDIOMYCOTA; CLUSTER ANALYSIS; DNA, FUNGAL; DNA, RIBOSOMAL; DNA, RIBOSOMAL SPACER; ENVIRONMENTAL MICROBIOLOGY; GENES, RRNA; MICROSCOPY; MOLECULAR SEQUENCE DATA; MYCOLOGICAL TYPING TECHNIQUES; PHYLOGENY; PIGMENTS, BIOLOGICAL; PLANTS; RNA, FUNGAL; RNA, RIBOSOMAL; SEQUENCE ANALYSIS, DNA;

EID: 84940102318     PISSN: 00036072     EISSN: 15729699     Source Type: Journal    
DOI: 10.1007/s10482-014-0315-0     Document Type: Article

References (67)

1. Aime MC, Matheny PB, Henk DA, Frieders EM, Nilsson RH, Piepenbring M, McLaughlin DJ, Szabo LJ, Begerow D, Sampaio JP, Bauer R, Weiss M, Oberwinkler F, Hibbett D (2006) An overview of the higher level classification of Pucciniomycotina based on combined analyses of nuclear large and small subunit rDNA sequences. Mycologia 98:896–905
2. Bandoni RJ (1995) Dimorphic heterobasidiomycetes: taxonomy and parasitism. Stud Mycol 38:13–27
3. Bauer R, Begerow D, Sampaio JP, Weiß M, Oberwinkler F (2006) The simple-septate basidiomycetes: a synopsis. Mycological Progress 5:41–66
4. Butinar L, Spencer-Martins I, Gunde-Cimerman N (2007) Yeasts in high Arctic glaciers: the discovery of a new habitat for eukaryotic microorganisms. Antonie Van Leeuwenhoek 91:277–289
5. Buzzini P, Innocenti M, Turchetti B, Libkind D, van Broock M, Mulinacci N (2007) Carotenoid profiles of yeasts belonging to the genera Rhodotorula, Rhodosporidium, Sporobolomyces, and Sporidiobolus. Can J Microbiol 53:1024–1031
6. Connell L, Redman R, Craig S, Scorzetti G, Iszard M, Rodriguez R (2008) Diversity of soil yeasts isolated from South Victoria Land, Antarctica. Microb Ecol 56:448–459
7. Daniel HM, Rosa CA, São Thiago-Calaça PS, Antonini Y, Bastos EM, Evrard P, Huret S, Fidalgo-Jiménez A, Lachance MA (2013) Starmerella neotropicalis f.a. sp. nov., a yeast species found in bees and pollen. Int J Syst Evol Microbiol 63:3896–3903
8. de Azeredo LAI, Gomes EAT, Mendonça-Hagler LC, Hagler AN (1998) Yeast communities associated with sugarcane in Campos, Rio de Janeiro, Brazil. Int Microbiol 1:205–208
9. de García V, Brizzio S, Libkind D, Buzzini P, van Broock M (2007) Biodiversity of cold-adapted yeasts from glacial meltwater rivers in Patagonia, Argentina. FEMS Microbiol Ecol 59:331–341
10. Diederich P (1996) The lichenicolous heterobasidiomycetes. Bibliotheca Lichenologica 61:1-198
11. Fell JW, Boekhout T, Freshwater DW (1995) The role of nucleotide sequence analysis in the systematics of the yeast genera Cryptococcus and Rhodotorula. Stud Mycol 38:129–146
12. Fell JW, 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
13. Fonseca A (1992) Utilization of tartaric acid and related compounds by yeasts: taxonomic implications. Can J Microbiol 38:1242–1251
14. Fonseca A, Inacio J (2006) Phylloplane yeasts. In: Rosa CA, Peter G (eds) Biodiversity and Ecophysiology of Yeasts. The Yeast Handbook. Springer-Verlag, Heidelberg, pp 263–303
15. Glushakova AM, Chernov IY (2010) Seasonal dynamics of the structure of epiphytic yeast communities. Microbiology 79:830–839
16. Glushakova AM, Maximova IA, Kachalkin AV, Yurkov AM (2010) Ogataea cecidiorum sp. nov., a methanol-assimilating yeast isolated from galls on willow leaves. Antonie Van Leeuwenhoek 98:93–101
17. Golubtsova YuV, Glushakova AM, Chernov IYu (2007) The seasonal dynamics of yeast communities in the rhizosphere of soddy-podzolic soils. Eurasian Soil Sci 40:875–879
18. Groenewald M, Smith MTh (2013) The teleomorph state of Candida deformans Langeron & Guerra and description of Yarrowia yakushimensis comb. nov. Anthonie Van Leeuwenhoek 103:1023–1028
19. Hawksworth DL (2011) A new dawn for the naming of fungi: impacts of decisions made in Melbourne in July 2011 on the future publication and regulation of fungal names. IMA Fungus 2:155–162
20. Hibbett DS (2006) A phylogenetic overview of the Agaricomycotina. Mycologia 98:917–925
21. Huelsenbeck JP, Ronquist F (2001) MRBAYES: bayesian inference of phylogenetic trees. Bioinformatics 17:754–755
22. Inácio J, Landell MF, Valente P, Wang PH, Wang YT, Yang SH, Manson JS, Lachance MA, Rosa CA, Fonseca A (2008) Farysizyma gen. nov., an anamorphic genus in the Ustilaginales to accommodate three novel epiphytic basidiomycetous yeast species from America, Europe and Asia. FEMS Yeast Res 8:499–508
23. Kachalkin AV (2010) New data on the distribution of certain psychrophilic yeasts in Moscow oblast. Microbiology 79:840–844
24. Kachalkin AV (2014) Yeasts of the White Sea intertidal zone and description of Glaciozyma litorale sp. nov. Antonie Van Leeuwenhoek 105:1073–1083
25. Kachalkin AV, Yurkov AM (2012) Yeast communities in Sphagnum phyllosphere along the temperature-moisture ecocline in the boreal forest-swamp ecosystem and description of Candida sphagnicola sp. nov. Antonie Van Leeuwenhoek 102:29–43
26. Kachalkin AV, Glushakova AM, Yurkov AM, Chernov IYu (2008) Characterization of yeast groupings in the phyllosphere of sphagnum mosses. Microbiology 77:474–481
27. Katoh K, Misawa K, Kuma K, Miyata T (2002) MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform (describes the FFT-NS-1, FFT-NS-2 and FFT-NS-i strategies). Nucleic Acids Res 30:3059–3066
28. Kurtzman CP, Fell JW, Boekhout T, Robert V (2011) Methods for isolation, phenotypic characterization and maintenance of yeasts. In: Kurtzman CP, Fell JW, Boekhout T (eds), The yeasts, a taxonomic study, 5th edn, vol. 1. Elsevier, Amsterdam, p 87–111
29. Lachance MA (2012) In defense of yeast sexual life cycles: the forma asexualis: an informal proposal. Yeast Newslett 61:24–25
30. Libkind D, Sampaio JP (2010) Rhodotorula. In: Liu, D. (Ed.). Molecular detection of foodborne pathogens. CRC Press-Taylor & Francis Group, Boca Raton, p 603–618
31. Libkind D, Brizzio S, Ruffini A, Gadanho M, van Broock M, Paulo Sampaio J (2003) Molecular characterization of carotenogenic yeasts from aquatic environments in Patagonia, Argentina. Antonie Van Leeuwenhoek 84:313–322
32. Libkind D, Sommaruga R, Zagarese H, van Broock M (2005) Mycosporines in carotenogenic yeasts. Syst Appl Microbiol 28:749–754
33. Libkind D, Sampaio JP, van Broock M (2010) Cystobasidiomycetes yeasts from Patagonia (Argentina): description of Rhodotorula meli sp. nov. from glacial meltwater. Int J Syst Evol Microbiol 60:2251–2256
34. Matheny PB, Wang Z, Binder M, Curtis JM, Lim YW, Nilsson RH, Hughes KW, Hofstetter V, Ammirati JF, Schoch CL, Langer E, Langer G, McLaughlin DJ, Wilson AW, Frøslev T, Ge ZW, Kerrigan RW, Slot JC, Yang ZL, Baroni TJ, Fischer M, Hosaka K, Matsuura K, Seidl MT, Vauras J, Hibbett DS (2006) Contributions of rpb2 and tef1 to the phylogeny of mushrooms and allies (Basidiomycota, Fungi). Mol Phylogenet Evol 43:430–451
35. McNeill J, Turland NJ (2011) Major changes to the Code of Nomenclature-Melbourne, July 2011. Taxon 60:1495–1497
36. Millanes AM, Diederich P, Ekman S, Wedin M (2011) Phylogeny and character evolution in the jelly fungi (Tremellomycetes, Basidiomycota, Fungi). Mol Phylogenet Evol 61:12–28
37. Nagahama T (2006) Yeast biodiversity in freshwater, marine and deep-sea environments. In: Rosa CA, Peter G (eds) Biodiversity and Ecophysiology of Yeasts. The Yeast Handbook. Springer-Verlag, Heidelberg, pp 241–263
38. Nagahama T, Hamamoto M, Nakase T, Shimamura S, Horikoshi K (2006) Phylogenetic relationship within the Erythrobasidium clade: molecular phylogenies, secondary structure, and intron positions inferred from partial sequences of ribosomal RNA and elongation factor-1 α genes. J Gen Appl Microbiol 52:37–45
39. Norkrans B (1966) On the occurrence of yeasts in an estuary off the Swedish west coast. Svenska Botaniska Foreningen 60:463–482
40. Nylander JA, Ronquist F, Huelsenbeck JP, Nieves-Aldrey JL (2004) Bayesian phylogenetic analysis of combined data. Syst Biol 53:47–67
41. Rehner SA, Buckley E (2005) A Beauveria phylogeny inferred from nuclear ITS and EF1-alpha sequences: evidence for cryptic diversification and links to Cordyceps teleomorphs. Mycologia 97:84–98
42. Sampaio JP (1999) Utilization of low molecular weight aromatic compounds by heterobasidiomycetous yeasts: taxonomic implications. Can J Microbiol 45:491–512
43. Sampaio JP (2011) Rhodotorula Harrison (1928). In: Kurtzman C.P., Fell J.W., Boekhout T (eds), The yeasts, a taxonomic study, 5th edn, vol. 3. Elsevier, Amsterdam, p 1873–1927
44. Sampaio JP, Oberwinkler F (2011a) Cystobasidium (Lagerheim) Neuhoff (1924). In: Kurtzman C.P., Fell J.W., Boekhout T (eds), The yeasts, a taxonomic study, 5th edn, vol. 3. Elsevier, Amsterdam, p 1419–1422
45. Sampaio JP, Oberwinkler F (2011b) Occultifur Oberwinkler (1990). In: Kurtzman C.P., Fell J.W., Boekhout T (eds), The yeasts, a taxonomic study, 5th edn, vol. 3. Elsevier, Amsterdam, p 1515–1518
46. Sampaio JP, Gadanho M, Bauer R, Weiß M (2003) Taxonomic studies in the Microbotryomycetidae: Leucosporidium golubevii sp. nov., Leucosporidiella gen. nov. and the new orders Leucosporidiales and Sporidiobolales. Mycol Prog 2:53–68
47. Satoh K, Maeda M, Umeda Y, Sugamata M, Makimura K (2013) Cryptococcus lacticolor sp. nov. and Rhodotorula oligophaga sp. nov., novel yeasts isolated from the nasal smear microbiota of Queensland koalas kept in Japanese zoological parks. Antonie Van Leeuwenhoek 104:83–93
48. Scorzetti G, Fell JW, Fonseca A, Statzell-Tallman A (2002) Systematics of basidiomycetous yeasts: a comparison of large subunit D1/D2 and internal transcribed spacer rDNA regions. FEMS Yeast Res 2:495–517
49. Selbmann L, Turchetti B, Yurkov A, Cecchini C, Zucconi L, Isola D, Buzzini P, Onofri S (2014) Description of Taphrina antarctica f.a. sp. nov., a new anamorphic ascomycetous yeast species associated with Antarctic endolithic microbial communities and transfer of four Lalaria species in the genus Taphrina. Extremophiles 18:707–721
50. Silvestro D, Michalak I (2012) raxmlGUI: a graphical front-end for RAxML. Org Divers Evol 12:335–337
51. Sláviková E, Vadkertiová R (1997) Seasonal occurrence of yeasts and yeast-like organisms in the river Danube. Antonie Van Leeuwenhoek 72:77–80
52. Stamatakis A, Hoover P, Rougemont J (2008) A rapid bootstrap algorithm for the RAxML web-servers. Syst Biol 75:758–771
53. Suh SO, Maslov DA, Molestina RE, Zhou JJ (2012) Microbotryozyma collariae gen. nov., sp. nov., a basidiomycetous yeast isolated from a plant bug Collaria oleosa (Miridae). Antonie Van Leeuwenhoek 102:99–104
54. Tamura K, Stecher G, Peterson D, Filipski A, Kumar S (2013) MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 30:2725–2729
55. Toome M, Roberson RW, Aime MC (2013) Meredithblackwellia eburnea gen. et sp. nov., Kriegeriaceae fam. nov. and Kriegeriales ord. nov. – toward resolving higher-level classification in Microbotryomycetes. Mycologia 105:486–495
56. Tuon FF, Costa SF (2008) Rhodotorula infection. A systematic rewiew of 128 cases from literature. Revista Iberoamericana de Micologia 25:135–140
57. Turchetti B, Thomas Hall SR, Connell LB, Branda E, Buzzini P, Theelen B, Müller WH, Boekhout T (2011) Psychrophilic yeasts from Antarctica and European glaciers: description of Glaciozyma gen. nov., Glaciozyma martinii sp. nov. and Glaciozyma watsonii sp. nov. Extremophiles 15:573–586
58. Valente P, Boekhout T, Landell MF, Crestani J, Pagnocca FC, Sette LD, Passarini MR, Rosa CA, Brandão LR, Pimenta RS, Ribeiro JR, Garcia KM, Lee CF, Suh SO, Péter G, Dlauchy D, Fell JW, Scorzetti G, Theelen B, Vainstein MH (2012) Bandoniozyma gen. nov., a genus of fermentative and non-fermentative tremellaceous yeast species. PLoS One 7:e46060
59. Wang QM, Bai FY (2008) Molecular phylogeny of basidiomycetous yeasts in the Cryptococcus luteolus lineage (Tremellales) based on nuclear rRNA and mitochondrial cytochrome b gene sequence analyses: proposal of Derxomyces gen. nov. and Hannaella gen. nov., and description of eight novel Derxomyces species. FEMS Yeast Res 8:799–814
60. Wang QM, Bai FY, Fungsin B, Boekhout T, Nakase T (2011) Proposal of Mingxiaea gen. nov. for the anamorphic basidiomycetous yeast species in the Bulleribasidium clade (Tremellales) based on molecular phylogenetic analysis, with six new combinations and four novel species. Int J Syst Evol Microbiol 61:210–219
61. Wilgenbusch JC, Swofford D (2003) Inferring evolutionary trees with PAUP*. Current protocols in bioinformatics. Chap 6: Unit 6.4. John Wiley & Sons, Inc., Somerset, NJ
62. Wuczkowski M, Passoth V, Turchetti B, Andersson AC, Olstorpe M, Laitila A, Theelen B, van Broock M, Buzzini P, Prillinger H, Sterflinger K, Schnürer J, Boekhout T, Libkind D (2011) Description of Holtermanniella gen. nov., including Holtermanniella takashimae sp. nov. and four new combinations, and proposal of the order Holtermanniales to accommodate tremellomycetous yeasts of the Holtermannia clade. Int J Syst Evol Microbiol 61:680–689
63. Yarrow D (1998) Methods for the isolation, maintenance and identification of yeasts. In: Kurtzman CP, Fell JW (eds) The yeasts: a taxonomic study, 4th edn. Elsevier, Amsterdam, pp 77–100
64. Yurkov AM, Chernov IY, Tiunov AV (2008a) Influence of Lumbricus terrestris earthworms on the structure of the yeast community of forest litter. Microbiology 77:107–111
65. Yurkov AM, Vustin MM, Tyaglov BV, Maksimova IA, Sineokiy SP (2008b) Pigmented basidiomycetous yeasts are a promising source of carotenoids and ubiquinone Q(10). Microbiology 77:5–10
66. Yurkov AM, Kemler M, Begerow D (2012) Assessment of yeast diversity in soils under different management regimes. Fungal Ecol 5:23–35
67. Zhou J, Chen M, Chen H, Pan W, Liao W (2014) Rhodotorula minuta as onychomycosis agent in a Chinese patient: first report and literature review. Mycoses 57:191–195