Differentiation of species of the genus Saccharomyces using biomolecular fingerprinting methods

Applied Microbiology and Biotechnology

Volumn 97, Issue 10, 2013, Pages 4597-4606

  Blattel V ^a   Petri, A ^a   Rabenstein, A ^b   Kuever, J ^b   Konig H ^a  

^a JOHANNES GUTENBERG UNIVERSITY   (Germany)

^b UNIVERSITY OF BREMEN   (Germany)

Author keywords

Hybrids; Identification; MALDI Biotyper; MALDI TOF MS; Saccharomyces; SAPD PCR

Indexed keywords

BIOTYPER; HYBRIDS; MALDI TOF MS; SACCHAROMYCES; SAPD-PCR;

IDENTIFICATION (CONTROL SYSTEMS); INDUCTIVELY COUPLED PLASMA; MASS SPECTROMETRY; POLYACRYLATES;

POLYMERASE CHAIN REACTION;

FUNGAL DNA; RIBOSOME DNA;

DESORPTION; DIFFERENTIATION; DNA; DNA FINGERPRINTING; GENE; GENETIC DIFFERENTIATION; IONIZATION; LASER; MASS SPECTROMETRY; YEAST;

ARTICLE; DNA FINGERPRINTING; MATRIX ASSISTED LASER DESORPTION IONIZATION TIME OF FLIGHT MASS SPECTROMETRY; NONHUMAN; POLYMERASE CHAIN REACTION; SACCHAROMYCES; SACCHAROMYCES ARBORICOLA; SACCHAROMYCES BAYANUS; SACCHAROMYCES CARIOCANUS; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES EUBAYANUS; SACCHAROMYCES KUDRIAVZEVII; SACCHAROMYCES MIKATAE; SACCHAROMYCES PARADOXUS; SACCHAROMYCES PASTORIANUS; SPECIFICALLY AMPLIFIED POLYMORPHIC DNA POLYMERASE CHAIN REACTION;

CLUSTER ANALYSIS; DNA PRIMERS; POLYMERASE CHAIN REACTION; SACCHAROMYCES; SPECTROMETRY, MASS, MATRIX-ASSISTED LASER DESORPTION-IONIZATION;

EID: 84877763272     PISSN: 01757598     EISSN: 14320614     Source Type: Journal    
DOI: 10.1007/s00253-013-4823-z     Document Type: Article

References (46)

1. Antunovics Z, Irinyi L, Sipiczki M (2005) Combined application of methods to taxonomic identification of Saccharomyces strains in fermenting botrytized grape must. J Appl Microbiol 98:971-979 (Pubitemid 40477274)
2. Blättel V (2012) Identifizierung, Quantifizierung und Hemmung von ausgewählten Hefen im Wein. Dissertation, Johannes Gutenberg-University Mainz
3. Brito dos Santos SK, Moreira Brasilio AC, Valente Brasileiro BTR, Simoes DA, Alves da Silva-Filho E, de Morais M (2007) Identification of yeasts within Saccharomyces sensu stricto complex by PCR-fingerprinting. World J Microbiol Biotechnol 23:1613-1620 (Pubitemid 47512734)
4. De Barros Lopes M, Soden A, Martens AL, Henschke PA, Langridge P (1998) Differentiation and species identification of yeasts using PCR. Int J Syst Bacteriol 48:279-286 (Pubitemid 28144661)
5. Demuyter C, Lollier M, Legras JL, Le Jeune C (2004) Predominance of Saccharomyces uvarum during spontaneous alcoholic fermentation, for three consecutive years, in an Alsatian winery. J Appl Microbiol 97:1140-1148 (Pubitemid 39573937)
6. Dhiman N, Hall L, Wohlfiel SL, Buckwalter SP, Wengenack NL (2011) Performance and cost analysis of matrix-assisted laser desorption ionization-time of flight mass spectrometry for routine identification of yeast. J Clin Microbiol 49:1614-1616
7. Fernández-Espinar M, Barrio E, Querol A (2003) Analysis of the genetic variability in the species of the Saccharomyces sensu stricto complex. Yeast 20:1213-1226 (Pubitemid 37383689)
8. Fröhlich J, Pfannebecker J (2007) Species-independent DNA fingerprint analysis with primers derived from the NotI identification sequence. Patent number: EP2027285 (A1)
9. González SS, Barrio E, Gafner J, Querol A (2006) Natural hybrids from Saccharomyces cerevisiae, Saccharomyces bayanus and Saccharomyces kudriavzevii in wine fermentations. FEMS Yeast Res 6:1221-1234 (Pubitemid 44800319)
10. González SS, Barrio E, Querol A (2008) Molecular characterization of new natural hybrids of Saccharomyces cerevisiae and S. kudriavzevii in brewing. Appl Environ Microbiol 74:2314-2320 (Pubitemid 351555441)
11. Greig D (2009) Reproductive isolation in Saccharomyces. Heredity 102:39-44 (Pubitemid 50215886)
12. Groth C, Hansen J, Piskur J (1999) A natural chimeric yeast containing genetic material from three species. Int J Syst Bacteriol 49:1933-1938 (Pubitemid 29519128)
13. Hadrys H, Balick M, Schierwater B (1992) Applications of random amplified polymorphic DNA (RAPD) in molecular ecology. Mol Ecol 1:55-63
14. Jensen RH, Arendrup MC (2011) Candida palmioleophila: characterization of a previously overlooked pathogen and its unique susceptibility profile in comparison with five related species. J Clin Microbiol 49:549-556
15. Kawahata M, Fujii T, Iefuji H (2007) Intraspecies diversity of the industrial yeast strains Saccharomyces cerevisiae and Saccharomyces pastorianus based on analysis of the sequences of the internal transcribed spacer (ITS) regions and the D1/D2 region of 26S rDNA. Biosci Biotechnol Biochem 71:1616-1620 (Pubitemid 47358737)
16. Le Jeune C, Lollier M, Demuyter C, Erny C, Legras JL, Aigle M, Masneuf-Pomarède I (2007) Characterization of natural hybrids of Saccharomyces cerevisiae and Saccharomyces bayanus var. uvarum. FEMS Yeast Res 7:540-549 (Pubitemid 46788674)
17. Libkind D, Hittinger CT, Valério E, Gonçalves C, Dover J, Johnston M, Gonçalves P, Sampaio J (2011) Microbe domestication and the identification of the wild genetic stock of lager-brewing yeast. Proc Natl Acad Sci USA 108:14539-14544
18. Liti G, Barton DB, Louis EJ (2006) Sequence diversity, reproductive isolation and species concepts in Saccharomyces. Genetics 174:839-850 (Pubitemid 44656472)
19. Lopandic K, Gangl H, Wallner E, Tscheik G, Leitner G, Querol A, Borth N, Breitenbach M, Prillinger H, Tiefenbrunner W (2007) Genetically different wine yeasts isolated from Austrian vine-growing regions influence wine aroma differently and contain putative hybrids between Saccharomyces cerevisiae and Saccharomyces kudriavzevii. FEMS Yeast Res 7:953-965 (Pubitemid 47256355)
20. Lopes CA, Barrio E, Querol A (2010) Natural hybrids of S. cerevisiae × S. kudriavzevii share alleles with European wild populations of Saccharomyces kudriavzevii. FEMS Yeast Res 10:412-421
21. Marklein G, Josten M, Klanke U, Müller E, Horré R, Maier T, Wenzel T, Kostrzewa M, Bierbaum G, Hoerauf A, Sahl H-G (2009) Matrix-assisted laser desorption ionization-time of flight mass spectrometry for fast reliable identification of clinical yeast isolates. J Clin Microbiol 47:2912-2917
22. Masneuf I, Hansen J, Groth C, Piskur J, Dubourdieu D (1998) New hybrids between Saccharomyces sensu stricto yeast species found among wine and cider production strains. Appl Environ Microbiol 64:3887-3892 (Pubitemid 28462988)
23. Masneuf-Pomarède I, Bely M, Marullo P, Lonvaud-Funel A, Dubourdieu D (2010) Reassessment of phenotypic traits for Saccharomyces bayanus var. uvarum wine yeast strains. Int J Food Microbiol 139:79-86
24. Mellmann A, Cloud J, Maier T, Keckevoet U, Ramminger I, Iwen P, Dunn J, Hall G, Wilson D, Lasala P, Kostrzewa M, Harmsen D (2008) Evaluation of matrix-assisted laser desorption ionization-time-of-flight mass spectrometry in comparison to 16S rRNA gene sequencing for species identification of nonfermenting bacteria. J Clin Microbiol 46:1946-1954 (Pubitemid 351831825)
25. Montrocher R, Verner MC, Briolay J, Gautier C, Marmeisse R (1998) Phylogenetic analysis of the Saccharomyces cerevisiae group based on polymorphisms of rDNA spacer sequences. Int J Syst Bacteriol 48:295-303 (Pubitemid 28144663)
26. Naumov GI, James SA, Naumova ES, Louis DJ, Roberts IN (2000) Three new species in the Saccharomyces sensu stricto complex: Saccharomyces cariocanus, Saccharomyces kudriavzevii and Saccharomyces mikatae. Int J Syst Evol Microbiol 50:1931-1942
27. Naumov GI, Lee C-F, Naumova ES (2013) Molecular genetic diversity of the Saccharomyces yeasts in Taiwan: S. arboricola, S. cerevisiae and S. kudriavzevii. Antonie van Leeuwenhoek 103:217-228
28. Naumova ES, Naumov GI, Masneuf-Pomarède I, Aigle M, Dubourdieu D (2005) Molecular genetic study of introgression between Saccharomyces bayanus and S. cerevisiae. Yeast 22:1099-1115 (Pubitemid 41684142)
29. Page RDM (1996) TreeView: an application to display phylogenetic trees on personal computers. Comput Appl Biosci 12:357-358
30. Pfannebecker J, Fröhlich J (2008) Use of a species-specific multiplex PCR for the identification of pediococci. Int J Food Microbiol 128:288-296
31. Querol A, Bond U (2009) The complex and dynamic genomes of industrial yeasts. FEMS Microbiol Lett 293:1-10
32. Rainieri S, Zambonelli C, Kaneko Y (2003) Saccharomyces sensu stricto: systematics, genetic diversity and evolution. J Biosci Bioeng 96:1-9 (Pubitemid 37026296)
33. Redzepović S, Orlić S, Sikora S, Majdak A, Pretorius IS (2002) Identification and characterization of Saccharomyces cerevisiae and Saccharomyces paradoxus strains isolated from Croatian vineyards. Lett Appl Microbiol 35:305-310 (Pubitemid 35205353)
34. Saitou N, Nei M (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406-425
35. Sampaio JP, Gonçalves P (2008) Natural populations of Saccharomyces kudriavzevii in Portugal are associated with oak bark and are sympatric with S. cerevisiae and S. paradoxus. Appl Environ Microbiol 74:2144-2152 (Pubitemid 351522069)
36. Sebastian P, Herr P, Fischer U, König H (2011) Molecular identification of lactic acid bacteria occurring in must and wine. S Afr J Enol Vitic 32:300-309
37. Seng P, Drancourt M, Gouriet F, La Scola B, Fournier PE, Rolain JM, Raoult D (2009) Ongoing revolution in bacteriology: routine identification of bacteria by matrix-assisted laser desorption ionization time-of-flight mass spectrometry. Clin Infect Dis 49:543-551
38. Sicard D, Legras JL (2011) Bread, beer and wine: yeast domestication in the Saccharomyces sensu stricto complex. C R Biol 334:229-236
39. Sipiczki M (2008) Interspecies hybridization and recombination in Saccharomyces wine yeasts. FEMS Yeast Res 8:996-1007
40. Stevenson LG, Drake SK, Shea YR, Zelazny M, Murray PR (2010) Evaluation of matrix-assisted laser desorption ionization-time of flight mass spectrometry for identification of clinically important yeast species. J Clin Microbiol 48:3482-3486
41. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG (1997) The ClustalX windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 24:4876-4882 (Pubitemid 28022245)
42. Tornai-Lehoczki J, Péter G, Dlauchy D, Deák T (1996) Some remarks on "a taxonomic key for the genus Saccharomyces" (Vaughan Martini and Martini 1993). Antonie van Leeuwenhoek 69:229-233 (Pubitemid 26122982)
43. Torriani S, Zapparoli G, Suzzi G (1999) Genetic and phenotypic diversity of Saccharomyces sensu stricto strains isolated from Amarone wine. Diversity of Saccharomyces strains from Amarone wine. Antonie van Leeuwenhoek 75:207-215 (Pubitemid 29324752)
44. Torriani S, Zapparoli G, Malacrinò P, Suzzi G, Dellaglio F (2004) Rapid identification and differentiation of Saccharomyces cerevisiae, Saccharomyces bayanus and their hybrids by multiplex PCR. Lett Appl Microbiol 38:239-244 (Pubitemid 38297061)
45. Vaughan-Martini A, Martini A (2011) Saccharomyces Meyen ex Reess (1870). In: Kurtzman CP, Fell JW, Boekhout T (eds) The yeasts, a taxonomic study, 5th edn. Elsevier, Amsterdam, pp 733-746
46. Wang SA, Bai FY (2008) Saccharomyces arboricolus sp. nov., a yeast species from tree bark. Int J Syst Evol Microbiol 58:510-514 (Pubitemid 351298434)