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Rapid ID of yeasts by gene sequences

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Domains 1 and 2 (D1/D2) of LSU rDNA. Easy to PCR (universal primers), sequence, align… Short (400-650 bp) but variable enough to distinguish most of yeast species Universally available database for all known yeast species Kurtzman and Robnett (1998) - ascomycete yeasts

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slide1

Domains 1 and 2 (D1/D2) of LSU rDNA

  • Easy to PCR (universal primers), sequence, align…
  • Short (400-650 bp) but variable enough to
  • distinguish most of yeast species
  • Universally available database for all known yeast species
  • Kurtzman and Robnett (1998) - ascomycete yeasts
  • Fell et al. (2000) - basidiomycete yeasts

Rapid ID of yeasts by gene sequences

slide2

Correlation of nDNA relatedness and D1/D2 sequence

divergence among ascomycetous yeasts

Strain pairs % nDNA D1/D2 nucleotide

relatedness differences

Conspecific >70% 0-3

Unrelated <20% 6-250

Kurtzman 2006, Mycoscience 47: 65-71

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D1/D2 sequencing

Database

686 strains - Known yeasts

81 ascomycetous spp.

39 basidiomycetous spp.

1241 strains - New yeasts

214 ascomycete spp.

31 basidiomycete spp.

18S, ITS,

phenotypic characters

618 strains - Described

as 66 novel ascomycete spp.

1927 yeast strains from insect guts

slide4

C

Is single gene enough for ID?

B

A

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Other genes

  • ITS - widely, useful for closely related taxa
  • cytochrome oxidase II - Belloch et al. 2000
  • actin-1 - Daniel et al. 2001
  • EF1-a, RPB II, mSSU - Kurtzman & Robnett 2003, 2007
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