Genetics, Vol. 166, 43-52, January 2004, Copyright © 2004

Population Genetics of the Wild Yeast Saccharomyces paradoxus

Louise J. Johnsona, Vassiliki Koufopanoua, Matthew R. Goddardb, Richard Hetheringtona, Stefanie M. Schäfera, and Austin Burta
a Department of Biological Sciences, Imperial College at Silwood Park, Ascot SL5 7PY, United Kingdom
b NERC Centre for Population Biology, Imperial College at Silwood Park, Ascot SL5 7PY, United Kingdom

Corresponding author: Louise J. Johnson, University of Nottingham, Queens Medical Centre, Nottingham NG7 2UH, United Kingdom., l.j.johnson{at}nottingham.ac.uk (E-mail)

Communicating editor: D. CHARLESWORTH

Saccharomyces paradoxus is the closest known relative of the well-known S. cerevisiae and an attractive model organism for population genetic and genomic studies. Here we characterize a set of 28 wild isolates from a 10-km2 sampling area in southern England. All 28 isolates are homothallic (capable of mating-type switching) and wild type with respect to nutrient requirements. Nine wild isolates and two lab strains of S. paradoxus were surveyed for sequence variation at six loci totaling 7 kb, and all 28 wild isolates were then genotyped at seven polymorphic loci. These data were used to calculate nucleotide diversity and number of segregating sites in S. paradoxus and to investigate geographic differentiation, population structure, and linkage disequilibrium. Synonymous site diversity is ~0.3%. Extensive incompatibilities between gene genealogies indicate frequent recombination between unlinked loci, but there is no evidence of recombination within genes. Some localized clonal growth is apparent. The frequency of outcrossing relative to inbreeding is estimated at 1.1% on the basis of heterozygosity. Thus, all three modes of reproduction known in the lab (clonal replication, inbreeding, and outcrossing) have been important in molding genetic variation in this species.




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