Differentiation of six sibling species in the Saccharomyces sensu stricto complex by multilocus enzyme electrophoresis and UP-PCR analysis

Antonie van Leeuwenhoek, International Journal of General and Molecular Microbiology

Volumn 83, Issue 2, 2003, Pages 155-166

  Naumova, E S ^a   Bulat, S A ^b   Mironenko, N V ^c   Naumov, G I ^a  

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

^b PETERSBURG NUCLEAR PHYSICS INSTITUTE   (Russian Federation)

^c ALL RUSSIAN INSTITUTE OF PLANT PROTECTION   (Russian Federation)

Author keywords

Biological species; MLEE; Saccharomyces sensu stricto; UP PCR

Indexed keywords

FUNGAL DNA; FUNGAL RNA; RNA 18S;

BACTERIUM; IDENTIFICATION METHOD; POLYMERASE CHAIN REACTION;

ARTICLE; CONTROLLED STUDY; FUNGAL GENETICS; FUNGAL STRAIN; GENE SEQUENCE; GENETIC ANALYSIS; INTERMETHOD COMPARISON; MULTILOCUS ENZYME ELECTROPHORESIS; NEW SPECIES; NONHUMAN; PHENOTYPE; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; SACCHAROMYCES BAYANUS; SACCHAROMYCES CARIOCANUS; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES KUDRIAVZEVII; SACCHAROMYCES MIKATAE; SACCHAROMYCES PARADOXUS; SEQUENCE ANALYSIS; SIBLING; SPECIES DIFFERENCE;

BACTERIA (MICROORGANISMS); FUNGI; MYXOGASTRIA; SACCHAROMYCES; SACCHAROMYCES BAYANUS; SACCHAROMYCES CARIOCANUS; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES KUDRIAVZEVII; SACCHAROMYCES MIKATAE; SACCHAROMYCES PARADOXUS;

EID: 0037955955     PISSN: 00036072     EISSN: None     Source Type: Journal    
DOI: 10.1023/A:1023328320228     Document Type: Article

References (63)

1. Ando S., Mikata K., Tahara Y. and Yamada Y. 1996. Phylogenetic relationships of species of the genus Saccharomyces Meyen ex Reess deduced from partial base sequences of 18S and 26S ribosomal RNAs (Saccharomycetaceae). Biosci. Biotech. Biochem. 60: 1070-1075.
2. Baleiras Couto M.M., Eijsma B., Hofstra H., Huis in't Veld J.H.J. and van der Vossen J.M.B.M. 1996. Evaluation of molecular typing techniques to assign genetic diversity among Saccharomyces cerevisiae strains. Appl. Environ. Microbiol. 62: 41-46.
3. Bulat S.A., Kaboev O.K., Mironenko N.V., Ibatullin Ph.M., Luchkina L.A. and Suslov A.V. 1992. Polymerase Chain Reaction with universal primers for the study of genomes. Soviet Genetics 28 (in Russian): 549-557.
4. Bulat S.A., Lübeck M., Mironenko N., dan Jensen F. and Lübeck P.S. 1998. UP-PCR analysis and ITS1 ribotyping of strains of Trichoderma and Gliocladium. Mycol. Res. 102: 933-943.
5. Bulat S.A. and Mironenko N.V. 1990. Species identity of the phytopathogenic fungi Pyrenospora teres Drechsler and P. graminea Ito & Kuribayashi. Mikologia i Phytopatologia 24 (in Russian): 435-441.
6. Bulat S.A. and Mironenko N.V. 1992. Polymorphism of yeast-like fungus Aurebasidium pullulans (De Bary) revealed by universally primed polymerase chain reaction: species divergence state. Soviet Genetics 28: 19-29.
7. Bulat S.A. and Mironenko N.V. 1996. Identification of fungi and analysis of their genetic diversity by polymerase chain reaction (PCR) with gene-specific and non-specific primers. Russ. J. Genet. 32: 143-159.
8. Chen W. 1992. Restriction fragment length polymorphisms in enzymatically amplified ribosomal DNAs of three heterothallic Pythium species. Phytopathology 82: 1467-1472.
9. Chen M., Hoy J.W. and Schneider R.W. 1992. Species-specific polymorphisms in transcribed ribosomal DNA of five Pythium species. Experimental Mycology 16: 22-34.
10. Donhauser S., Friedrichson U., Ritter H. and Schmitt J. 1976. Enzym-Polymorphismen bei Hefen. 1. Genetische Variabilität der PGM, HK, MPI, GPI, G6PD und 6PGD bei Saccharomyces. Brauwissenschaft 29: 306-310.
11. Duarte F., Pais C., Spencer-Martins I. and Leao C. 1999. Distinctive electrophoretic isoenzyme profiles in Saccharomyces sensu stricto. Int. J. Syst. Bacteriol. 49: 1907-1913.
12. Fischer G., James S.A., Roberts I.N., Oliver S.G. and Louis E.J. 2000. Chromosomal evolution in Saccharomyces. Nature 405: 451-454.
13. Felsenstein J. 1993. PHYLIP: Plylogenetic Inference Package. University of Washington, Seattle, version 3.5.
14. Fernández-Espinar M.T., Esteve-Zarzoso B., Querol A. and Barrio E. 2000. RFLP analysis of the ribosomal internal transcribed spacers and the 5.8S rRNA gene region of the genus Saccharomyces: a fast method for species identification and the differentiation of flor yeasts. Antonie van Leeuwenhoek 78: 87-97.
15. Gromadka R., Gora M., Zielenkiewicz Z., Slonimski P.P. and Rytka J. 1996. Subtelomeric duplication in Saccharomyces cerevisiae chromosomes III and XI: topology, arrangements, corrections of sequence and strain-specific polymorphism. Yeast 12: 583-591.
16. Guillamón J.M., Barrio E., Huerta T. and Querol A. 1994. Rapid characterization of four species of the Saccharomyces sensu stricto complex according to mitochondrial DNA patterns. Int. J. Syst. Bacteriol. 44: 708-714.
17. James S.A., Cai J., Roberts I.N. and Collins M.D. 1997. A phylogenetic analysis of the genus Saccharomyces based on 18S rRNA gene sequence: description of Saccharomyces kunashirensis sp. nov. and Saccharomyces martiniae sp. nov. Int. J. Syst. Bacteriol. 47: 453-460.
18. Kaneko Y. and Banno I. 1991. Reexamination of Saccharomyces bayanus strains by DNA-DNA hybridization and electrophoretic karyotyping. IFO Res. Comm. 15: 30-41.
19. Lee S.B., White T.J. and Taylor J.W. 1993. Detection of Phytophthora species by oligonucleotide hybridization of amplified ribosomal DNA spacers. Phytopathology 83: 177-181.
20. Lewicka K., Mallie M. and Bastide J.-M. 1995. Genetic variability in the Saccharomyces sensu stricto complex revealed by multilocus enzyme electrophoresis. Int. J. Syst. Bacteriol. 45: 538-543.
21. Lübeck M., Alekhina I.A., Lübeck P.S., Jense and Bulat S.A. 1999. Deliniation of Trichoderma harzianum Rifai into two different genotypic groups by a highly robust fingerprinting method, UP-PCR, and UP-PCR product cross-hybridisation. Mycol. Res. 103: 289-298.
22. Mayr E. 1942. Systematics and the origin of species. Columbia University Press, N.Y.
23. Mokrousov I.V. and Bulat S.A. 1992. Distinguishing between the biological species of the fungus Aureobasidium pullulans (De Bary) by the universally primed polymerase chain reaction. Soviet Genetics 28: 402-407.
24. Molina F.I., Shen P. and Jong S.-C. 1992. Molecular evidence supports the separation of Lentinula edodes from Lentinus and related genera. Can. J. Botany 70: 2446-2452.
25. Molnar O., Messner R., Prillinger H., Stahl U. and Slavikova E. 1995. Genotypic identification of Saccharomyces species using random amplified polymeric DNA analysis. Syst. Appl. Microbiol. 18: 136-145.
26. Montrocher R., Verner M.-C., Briolay J., Gautier C. and Marmeisse R. 1998. Phylogenetic analysis of the Saccharomyces cerevisiae group based on polymorphisms of rDNA spacer sequences. Int. J. Syst. Bacteriol. 48: 295-303.
27. Naumov G.I. 1986. Genetic differentiation and ecology of the yeast Saccharomyces paradoxus Batschinskaia. Dokl. Biol. Sci. 289-291: 213-216.
28. Naumov G.I. 1987. Genetic basis for classification and identification of the ascomycetous yeasts. Stud. Mycol. 30: 469-475.
29. Naumov G.I. 1996. Genetic identification of biological species in the Saccharomyces sensu stricto complex. J. Ind. Microbiol. 17: 295-302.
30. Naumov G.I. 1999. Divergent population of Saccharomyces paradoxus in the Hawaii Islands: an in statu nascendi yeast species. Dokl. Biol. Sci. 364: 51-53.
31. Naumov G.I., James S.A., Naumova E.S., Louis E.J. and Roberts I.N. 2000. Three new species in the Saccharomyces sensu stricto complex: Saccharomyces cariocanus, Saccharomyces kudriavzevii and Saccharomyces mikatae. Int. J. Syst. Evol. Microbiol. 50: 1931-1942.
32. Naumov G.I., Kondratieva V.I., Naumova T.I. and Gudkova N.K. 1983. Genetic bases for classification of Saccharomyces cerevisiae. A study of survival of hybrid ascospores. Zh. Obs. Biol. 44 (in Russian): 648-660.
33. Naumov G.I., Naumova E.S., Hagler A.N., Mendonça-Hagler L.C. and Louis E.J. 1995a. A new genetically isolated population of the Saccharomyces sensu stricto complex from Brazil. Antonie van Leeuwenhoek 67: 351-355.
34. Naumov G.I., Naumova E.S., Kondratieva V.I., Bulat S.A., Mironenko N.V., Mendonça-Hagler L.C. et al. 1997a. Genetic and molecular delineation of three sibling species in the Hansenula polymorpha complex. System. Appl. Microbiol. 20: 50-56.
35. Naumov G.I., Naumova E.S. and Korhola M. 1992a. Genetic identification of natural Saccharomyces sensu stricto yeasts from Finland, Holland and Slovakia. Antonie van Leeuwenhoek 61: 237-243.
36. Naumov G.I., Naumova E.S., Lantto R.A., Louis E.J. and Korhola M. 1992b. Genetic homology between Saccharomyces cerevisiae and its sibling species S. paradoxus and S. bayanus: electrophoretic karyotypes. Yeast 8: 599-612.
37. Naumov G.I., Naumova E.S. and Louis E.J. 1995b. Two new genetically isolated populations of the Saccharomyces sensu stricto complex from Japan. J. Gen. Appl. Microbiol. 41: 499-505.
38. Naumov G.I., Naumova E.S. and Sancho E.D. 1994. Sibling species of the Saccharomyces sensu stricto complex in Spain. Microbiologia SEM 10: 403-412.
39. Naumov G.I., Naumova E.S. and Sniegowski P.D. 1997b. Differentiation of European and Far East Asian populations of Saccharomyces paradoxus by allozyme analysis. Int. J. Syst. Bacteriol. 47: 341-344.
40. Naumov G.I. and Nikonenko T.A. 1988. The East Asia is a probable native land of the cultured yeasts Saccharomyces cerevisiae. Izv. Sibirsk. Otd. Akad. Nauk SSSR, Ser. Biol. Nauk 20 (in Russian): 97-101.
41. Naumov G.I. and Nikonenko T.A. 1989. Occurrence and physiological characteristics of biological species Saccharomyces bayanus from hybridological analysis. Microbiology (Moscow) 57: 526-530.
42. Naumova E.S., Naumov G.I., Michels C.A. and Beritashvili D.R. 1991. Identification of chromosomal DNA patterns of the species Saccharomyces bayanus and S. pastorianus. Dokl. Biol. Sci. 316: 744-746.
43. Nilsson-Tillgren T., Kieland-Branst M.C., Holmberg S., Petersen J.G.L. and Gjermansen T.C. 1983. Is larger yeast a species hybrid? Utilization of intrinsic genetic variation in breeding. In: Ikeda Y. and Beppu T. (eds), Genetics of Industrial Microorganisms. Kodanska Ltd., Tokyo, pp. 143-147.
44. Oda Y., Yabuki M., Tonomura K. and Fukunaga M. 1997. A phylogenetic analysis of Saccharomyces species by the sequence of 18S-28S rRNA spacer regions. Yeast 13: 1243-1250.
45. Paffetti D., Barberio C., Casalone E., Cavalieri D., Fani R., Fia G. et al. 1995. DNA fingerprinting by random amplified polymorphic DNA and restriction fragment length polymorphism is useful for yeast typing. Res. Microbiol. 146: 587-594.
46. Poncet S., Montrocher R. and Couble A. 1992. Electrophoretic isoenzyme patterns of some yeast strains used in wine industry. Cryptog. Mycol. 13: 283-293.
47. Quesada M.P. and Cenis J.L. 1995. Use of random amplified polymorphic DNA (RAPD PCR) in characterization of wine yeasts. Am. J. Enol. Viticult. 46: 204-208.
48. Richardson B.J., Baverstock P.R. and Adams M. 1986. Allozyme electrophoresis. A handbook for animal systematics and population studies. Academic Press, New York.
49. Ryu S.-L., Mikata K., Murooka Y. and Kaneko Y. 1998a. A simple PCR method for distinguishing Saccharomyces cerevisiae from its sibling species by amplification of the PRL2 region. J. Ferment. Bioeng. 86: 249-252.
50. Ryu S.-L., Murooka Y. and Kaneko Y. 1998b. Reciprocal translocation at duplicated RPL2 loci might cause speciation of Saccharomyces bayanus and Saccharomyces cerevisiae. Curr. Genet. 33: 345-351.
51. Selander R.K., Caugant D.A., Ochman H., Musser J.M., Gilmour M.N. and Whittam T.S. 1986. Methods of multilocus enzyme electrophoresis for bacterial population genetics and systematics. Appl. Environ. Microbiol. 51: 873-884.
52. Subden R.E. and Irwin D. 1982. Wine yeast isozymes. I. Genetic differences in 18 stock cultures. Can. J. Microbiol. 28: 1047-1050.
53. Vaughan-Martini A. 1989. Saccharomyces paradoxus comb. nov., a newly separated species of the Saccharomyces sensu stricto complex based upon nDNA/nDNA homologies. Syst. Appl. Microbiol. 12: 179-182.
54. Vaughan-Martini A. and Kurtzman C.P. 1985. Deoxyribonucleic acid relatedness among species of the genus Saccharomyces sensu stricto. Int. J. Syst. Bacteriol. 35: 508-511.
55. Vaughan-Martini A. and Martini A. 1987. Three newly delimited species of Saccharomyces sensu stricto. Antonie van Leeuwenhoek 53: 77-84.
56. Vaughan-Martini A. and Martini M. 1998. Saccharomyces Meyen ex Reess. In: Kurtzman C.P. and Fell J.W. (eds), The Yeasts, a Taxonomic Study. 4th edn. Elsevier, Amsterdam, pp. 358-370.
57. van der Walt J.P. 1970. The genus Saccharomyces emend. Reess. In: Lodder J. (ed.), The Yeasts, a Taxonomic Study. 2nd edn. North-Holland Publishing, Amsterdam, pp. 575-618.
58. Vezinhet F., Blondin B. and Hallet J.H. 1990. Chromosomal DNA patterns and mitochondrial DNA polymorphism as tools for identification of enological strains of Saccharomyces cerevisiae. Appl Microbiol Biotechnol 32: 568-571.
59. Williams J.G.K., Kubelik A.R., Livak K.J., Rafaski J.A. and Tingey S.V. 1990. DNA polymorphisms amplified by arbitrary primers are useful as genetic markers. Nucleic Acid Research 18: 6531-6535.
60. Xue B., Goodwin P.H. and Annis S.L. 1992. Pathotype identification of Leptosphaeria maculans with PCR and oligonucleotide primers from ribosomal internal transcribed spacer sequences. Physiol. Molecul. Plant. Pathology 41: 179-188.
61. Yamada Y., Mikata K. and Banno I. 1993. Reidentification of 121 strains of the genus Saccharomyces. Bull. JFCC 9 (in Japanese): 95-119.
62. Yamazaki M., Goto S. and Komagata K. 1983. An electrophoretic comparison of the enzymes of Saccharomyces yeasts. J. Gen. Appl. Microbiol. 29: 305-318.
63. Yarrow D. 1984. Genus 22, Saccharomyces Meyen ex Reess. In: Kreger-van Rij N.J.W. (ed.), The Yeasts, a Taxonomic Study. 3rd edn. Elsevier Science Publishers, Amsterdam, pp. 379-395.