Massive isolation and identification of Saccharomyces paradoxus yeasts from plant phyllosphere

Glushakova, A. M.; IuV, Ivannikova; Es, Naumova; IIu, Chernov; Gi, Naumov

doi:10.1134/s0026261707020129

Cited by 25 publications

(33 citation statements)

References 9 publications

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“…We collected most samples (75%) between 25th August and 7th September, therefore it is unsurprising that we did not detect the seasonal variation that others have observed for S. paradoxus abundance (Glushakova et al. ; Charron et al. ).…”

Section: Resultsmentioning

confidence: 65%

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Summer temperature can predict the distribution of wild yeast populations

Robinson

Pinharanda

Bensasson

2016

Ecology and Evolution

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The wine yeast, Saccharomyces cerevisiae, is the best understood microbial eukaryote at the molecular and cellular level, yet its natural geographic distribution is unknown. Here we report the results of a field survey for S. cerevisiae,S. paradoxus and other budding yeast on oak trees in Europe. We show that yeast species differ in their geographic distributions, and investigated which ecological variables can predict the isolation rate of S. paradoxus, the most abundant species. We find a positive association between trunk girth and S. paradoxus abundance suggesting that older trees harbor more yeast. S. paradoxus isolation frequency is also associated with summer temperature, showing highest isolation rates at intermediate temperatures. Using our statistical model, we estimated a range of summer temperatures at which we expect high S. paradoxus isolation rates, and show that the geographic distribution predicted by this optimum temperature range is consistent with the worldwide distribution of sites where S. paradoxus has been isolated. Using laboratory estimates of optimal growth temperatures for S. cerevisiae relative to S. paradoxus, we also estimated an optimum range of summer temperatures for S. cerevisiae. The geographic distribution of these optimum temperatures is consistent with the locations where wild S. cerevisiae have been reported, and can explain why only human‐associated S. cerevisiae strains are isolated at northernmost latitudes. Our results provide a starting point for targeted isolation of S. cerevisiae from natural habitats, which could lead to a better understanding of climate associations and natural history in this important model microbe.

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Section: Resultsmentioning

confidence: 65%

“…); the availability of nutrients (Sampaio and Gonçalvez ), water or oxygen (Deak ); acidity (Deak ) or sampling season (Glushakova et al. ; Charron et al. ).…”

Section: Discussionmentioning

confidence: 99%

Summer temperature can predict the distribution of wild yeast populations

Robinson

Pinharanda

Bensasson

2016

Ecology and Evolution

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“…Secondly, we know very little about the natural conditions of growth of wild yeast. It can be reliably isolated from plant surfaces such as tree bark and leaves (Naumov et al 1998;Glushakova et al 2007;Replansky 2007), but its physical and chemical conditions of life, and its interactions with the community in which it is embedded, are very poorly understood. Finally, field experiments have not yet been attempted because suitable experimental material is not available.…”

Section: Discussion: How Does Selection Maintain Genetic Integrity Inmentioning

confidence: 99%

Experimental genomics of fitness in yeast

Bell

2010

Proc. R. Soc. B.

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The set of single-gene deletions in yeast can be used to evaluate the effect of mutation on fitness over the whole genome. The measurement of growth in pure culture or relative growth in mixtures has confirmed that most deletions have little effect in laboratory culture. Moreover, there is a sharp distinction between lethality and a very mild impairment of growth, with very few intermediate cases. Different components of fitness, such as growth rate and yield, are positively correlated. Growth is also positively correlated across environments, although new conditions of growth usually identify a few conditionally impaired strains. Double mutants on average show alleviating epistasis, although a few per cent of combinations are synthetic lethal. The properties of the yeast deletion set provide us with the first genome-wide account of fitness, although transferring these conclusions to the field is a task for the future.

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“…; Glushakova et al . ; Vaughan‐Martini & Martini ). We found S. paradoxus strains on the leaf litter of several tree species in a mixed forest in northern Germany.…”

Section: Introductionmentioning

confidence: 99%

Measuring microbial fitness in a field reciprocal transplant experiment

Boynton

Stelkens

Kowallik

et al. 2016

Molecular Ecology Resources

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Microbial fitness is easy to measure in the laboratory, but difficult to measure in the field. Laboratory fitness assays make use of controlled conditions and genetically modified organisms, neither of which are available in the field. Among other applications, fitness assays can help researchers detect adaptation to different habitats or locations. We designed a competitive fitness assay to detect adaptation of Saccharomyces paradoxus isolates to the habitat they were isolated from (oak or larch leaf litter). The assay accurately measures relative fitness by tracking genotype frequency changes in the field using digital droplet PCR (DDPCR). We expected locally adapted S. paradoxus strains to increase in frequency over time when growing on the leaf litter type from which they were isolated. The DDPCR assay successfully detected fitness differences among S. paradoxus strains, but did not find a tendency for strains to be adapted to the habitat they were isolated from. Instead, we found that the natural alleles of the hexose transport gene we used to distinguish S. paradoxus strains had significant effects on fitness. The origin of a strain also affected its fitness: strains isolated from oak litter were generally fitter than strains from larch litter. Our results suggest that dispersal limitation and genetic drift shape S. paradoxus populations in the forest more than local selection does, although further research is needed to confirm this. Tracking genotype frequency changes using DDPCR is a practical and accurate microbial fitness assay for natural environments.

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Massive isolation and identification of Saccharomyces paradoxus yeasts from plant phyllosphere

Cited by 25 publications

References 9 publications

Summer temperature can predict the distribution of wild yeast populations

Summer temperature can predict the distribution of wild yeast populations

Experimental genomics of fitness in yeast

Measuring microbial fitness in a field reciprocal transplant experiment

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