Komagataella kurtzmanii sp. nov., a new sibling species of Komagataella (Pichia) pastoris based on multigene sequence analysis

Antonie van Leeuwenhoek, International Journal of General and Molecular Microbiology

Volumn 104, Issue 3, 2013, Pages 339-347

  Naumov, Gennadi I ^a,b   Naumova, Elena S ^a,b   Tyurin, Oleg V ^a   Kozlov, Dmitry G ^a  

^a STATE RESEARCH INSTITUTE OF GENETICS AND SELECTION OF INDUSTRIAL MICROORGANISMS   (Russian Federation)

^b VILAR Research and Training and Methodical Center of Biomedical Technologies   (Russian Federation)

Author keywords

Methanol yeast; New ascosporic yeast; Sibling species of Komagataella pastoris

Indexed keywords

DNA DIRECTED RNA POLYMERASE; ELONGATION FACTOR 1ALPHA; INTERNAL TRANSCRIBED SPACER 1; INTERNAL TRANSCRIBED SPACER 2; RIBOSOME RNA; SMALL SUBUNIT RIBOSOMAL RNA; TREHALOSE;

ARTICLE; CARBOHYDRATE METABOLISM; FUNGAL STRAIN; FUNGUS GROWTH; GENE SEQUENCE; GENETIC VARIABILITY; KOMAGATAELLA KURTZMANII; KOMAGATAELLA PHAFFII; KOMAGATAELLA POPULI; KOMAGATAELLA PSEUDOPASTORIS; KOMAGATAELLA ULMI; NEW SPECIES; NONHUMAN; NUCLEOTIDE SEQUENCE; PICHIA; PICHIA PASTORIS; PRIORITY JOURNAL; SEQUENCE ANALYSIS; SPECIES DIFFERENCE;

ABIES; KOMAGATAELLA PSEUDOPASTORIS; PICHIA;

ARIZONA; CLUSTER ANALYSIS; DNA, FUNGAL; DNA, MITOCHONDRIAL; DNA, RIBOSOMAL; DNA, RIBOSOMAL SPACER; DNA-DIRECTED RNA POLYMERASES; ENVIRONMENTAL MICROBIOLOGY; GENES, RRNA; METHANOL; MICROSCOPY; MOLECULAR SEQUENCE DATA; MYCOLOGICAL TYPING TECHNIQUES; PEPTIDE ELONGATION FACTOR 1; PHYLOGENY; RNA, FUNGAL; RNA, RIBOSOMAL; RNA, RIBOSOMAL, 5.8S; SACCHAROMYCETALES; SEQUENCE ANALYSIS, DNA;

EID: 84882280913     PISSN: 00036072     EISSN: 15729699     Source Type: Journal    
DOI: 10.1007/s10482-013-9956-7     Document Type: Article

References (38)

1. Chen MT, Lin S, Shandil I, Andrews D, Stadheim TA, Choi BK (2012) Generation of diploid Pichia pastoris strains by mating and their application for recombinant protein production. Microb Cell Factories 11:91
2. Cregg JM, Madden KR (1988) Development of the methylotrophic yeast, Pichia pastoris, as a host system for the production of foreign proteins. Dev Ind Microbiol 29:33-41
3. Cregg JM, Vedvick TS, Raschke WC (1993) Recent advances in the expression of foreign genes in Pichia pastoris. Biotechnology 11:905-910
4. Cregg JM, Latham J, Litton M, Schatzman R, Tolstorukov II (2012) Methods of synthesizing heteromultimeric polypeptides in yeast using a haploid mating strategy. US Patent 8.268.582
5. Dlauchy D, Tornai-Lehoczki J, Fülöp L, Péter G (2003) Pichia (Komagataella) pseudopastoris sp. nov., a new yeast species from Hungary. Antonie Van Leeuwenhoek 83:327-332
6. Kudrjawzev WI (1960) Die systematic der Hefen. Academic Verlag, Berlin
7. Kurtzman CP (1984) Synonymy of the yeast genera Hansenula and Pichia demonstrated through comparisons of deoxyribonucleic acid relatedness. Antonie Van Leeuwenhoek 50:209-217
8. Kurtzman CP (1998) Pichia E.C. Hansen emend. Kurtzman. In: Kurtzman CP, Fell JW (eds) The yeasts, a taxonomic study, 4th edn. Elsevier, Amsterdam, pp 273-352
9. Kurtzman CP (2005) Description of Komagataella phaffii sp. nov. and the transfer of Pichia pseudopastoris to the methylotrophic yeast genus Komagataella. Int J Syst Evol Microbiol 55:973-976
10. Kurtzman CP (2009) Biotechnological strains of Komagataella (Pichia) pastoris are Komagataella phaffii as determined from multigene sequence analysis. J Ind Microbiol Biotechnol 36:1435-1438
11. Kurtzman CP (2011) Komagataella Y. Yamada, Matsuda, Maeda, Mikata (1995). In: Kurtzman CP, Fell JW, Boekhout T (eds) The yeasts, a taxonomic study, 5th edn. Elsevier Science B.V, Amsterdam, pp 491-495
12. Kurtzman CP (2012) Komagataella populi sp. nov. and Komagataella ulmi sp. nov., two new methanol assimilating yeasts from exudates of deciduous trees. Antonie Van Leeuwenhoek 101:859-868
13. Kurtzman CP, Robnett CJ (1998) Identification and phylogeny of ascomycetous yeasts from analysis of nuclear large subunit (26S) ribosomal DNA partial sequences. Antonie Van Leeuwenhoek 73:331-371
14. Kurtzman CP, Robnett CJ (2003) Phylogenetic relationships among yeasts of the "Saccharomyces complex" determined from multigene sequence analyses. FEMS Yeast Res 3:417-432
15. Kurtzman CP, Robnett CJ, Basehoar-Powers E (2008) Relationships among species of Pichia, Issatchenkia and Williopsis determined from multigene phylogenetic analysis and the proposal of Barnettozyma gen. nov., Lindnera gen. nov. and Wickerhamomyces gen. nov. FEMS Yeast Res 8:939-954
16. 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. Elsevier Science B.V, Amsterdam, pp 87-110
17. Macauley-Patrick S, Fazenda ML, McNeil B, Harvey LM (2005) Heterologous protein production using the Pichia pastoris expression system. Yeast 22:249-270
18. McClary DD, Nulty WL, Miller GR (1959) Effect of potassium versus sodium in the sporulation of Saccharomyces. J Bacteriol 78:362-368
19. Naumov GI (1979) Genetic concept of genus in fungi. Dokl Biol Sci 241(4):345-347
20. Naumov GI (1986) Genosystematics of yeast genus Zygofabospora Kudriavzev emend. G. Naumov. Mol Genet Microbiol Virol (Moscow) 5:10-14
21. Naumov GI (1987a) Genetic basis for classification and identification of the ascomycetous yeasts. Stud Mycol 30:469-475
22. Naumov GI (1987b) Results of the genosystematics of the yeast Williopsis Zender and Zygowilliopsis Kudriavzev. Mol Genet Microbiol Virol (Moscow) 2:1-7
23. Naumov GI (1988) Genus as a genetic system. In: Aspects of microevolution. Nauka, Moscow, pp 112-113 (in Russian)
24. Naumov GI (1996) Genetic identification of biological species in the Saccharomyces sensu stricto complex. J Ind Microbiol 17:295-302
25. Naumov GI, Naumova ES (2002) Five new combinations in the yeast genus Zygofabospora Kudriavzev emend. G. Naumov (pro parte Kluyveromyces) based on genetic data. FEMS Yeast Res 2:39-46
26. Naumov GI, Naumova ES, Kondratieva VI, Bulat SA, Mironenko NV, Mendonça-Hagler LC, Hagler AN (1997) Genetic and molecular delineation of three sibling species in the Hansenula polymorpha complex. Syst Appl Microbiol 20:50-56
27. Naumov GI, James SA, Naumova ES, Louis EJ, Roberts IN (2000) Three new species in the Saccharomyces sensu stricto complex: Saccharomyces cariocanus, Saccharomyces kudriavzevii and Saccharomyces mikatae. Int J Syst Evol Microbiol 50:193-1942
28. Naumov GI, Naumova ES, Smith MT, de Hoog GS (2006) Molecular-genetic diversity of the genus Arthroascus: Arthroascus babieviae sp.nov., Arthroascus fermentans var. arxii nov. var. and geographic populations of Arthroascus schoenii. Int J Syst Evol Microbiol 56:1997-2007
29. Naumov GI, Kondratieva VI, Naumova ES (2009) Taxonomic genetics of Zygowilliopsis yeasts. Russ J Genet 45:1422-1427
30. Naumov GI, Naumova ES, Masneuf-Pomarède I (2010) Genetic identification of new biological species Saccharomyces arboricolus Wang et Bai. Antonie Van Leeuwenhoek 98:1-7
31. Naumova ES, Smith MTh, Boekhout T, Hoog GS, Naumov GI (2001) Molecular differentiation of sibling species in the Galactomyces geotrichum complex. Antonie Van Leeuwenhoek 80:263-273
32. Scheda R, Yarrow D (1966) The instability of physiological properties used as criteria in the taxonomy of yeasts. Arch Mikrobiol 55:209-225
33. Schoch CL, Seifert KA, Huhndorf S, Robert V, Spouge JL, Levesque CA, Chen W, Fungal Barcoding Consortium (2012) Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for Fungi. Proc Natl Acad Sci (USA) 109:6241-6246
34. Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S (2011) MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28:2731-2739
35. Wegner EH (1983) Biochemical conversions by yeast fermentation at high-cell densities. US Patent 44114329
36. Wu Q, James SA, Roberts IN, Moulton V, Huber KT (2008) Exploring contradictory phylogenetic relations in yeasts. FEMS Yeast Res 8:641-650
37. Yamada Y, Matsuda M, Maeda K, Mikata K (1995) The phylogenetic relationships of methanol-assimilating yeasts based on the partial sequences of 18S and 26S ribosomal RNAs: the proposal of Komagataella gen. nov. (Saccharomycetaceae). Biosci Biotechnol Biochem 59:439-444
38. 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