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  Quantifying the efficiency and biases of forest Saccharomyces sampling strategies

Boynton, P., Kowallik, V., Landermann, D., & Stukenbrock, E. H. (2019). Quantifying the efficiency and biases of forest Saccharomyces sampling strategies. Yeast, 0(0), 1-12. doi:10.1101/559724.

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Item Permalink: http://hdl.handle.net/21.11116/0000-0004-4C79-0 Version Permalink: http://hdl.handle.net/21.11116/0000-0004-C18F-1
Genre: Journal Article

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 Creators:
Boynton, Primrose1, Author              
Kowallik, Vienna2, Author              
Landermann, Doreen1, Author              
Stukenbrock, Eva H.1, Author              
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1Max Planck Fellow Group Environmental Genomics, Max Planck Institute for Evolutionary Biology, Max Planck Society, ou_2068284              
2External Organizations, ou_persistent22              

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 Abstract: Saccharomyces yeasts are emerging as model organisms for ecology and evolution, and researchers need environmental Saccharomyces isolates to test ecological and evolutionary hypotheses. However, methods for isolating Saccharomyces from nature have not been standardized and isolation methods may influence the genotypes and phenotypes of studied strains. We compared the effectiveness and potential biases of an established enrichment culturing method against a newly developed direct plating method for isolating forest floor Saccharomyces spp. In a European forest, enrichment culturing was both less successful at isolating S. paradoxus per sample collected and less labor intensive per isolated S. paradoxus colony than direct isolation. The two methods sampled similar S. paradoxus diversity: the number of unique genotypes sampled (i.e., genotypic diversity) per S. paradoxus isolate and average growth rates of S. paradoxus isolates did not differ between the two methods, and growth rate variances (i.e., phenotypic diversity) only differed in one of three tested environments. However, enrichment culturing did detect rare S. cerevisiae in the forest habitat, and also found two S. paradoxus isolates with outlier phenotypes. Our results validate the historically common method of using enrichment culturing to isolate representative collections of environmental Saccharomyces. We recommend that researchers choose a Saccharomyces sampling method based on resources available for sampling and isolate screening. Researchers interested in discovering new Saccharomyces phenotypes or rare Saccharomyces species from natural environments may also have more success using enrichment culturing. We include step-by-step sampling protocols in the supplemental materials.

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Language(s): eng - English
 Dates: 2019-07-182019-03-062019-07-192019-07-262019
 Publication Status: Published in print
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 Identifiers: DOI: 10.1101/559724
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Funding program : Max Planck Fellowship
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Title: Yeast
Source Genre: Journal
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Publ. Info: New York, NY : John Wiley & Sons
Pages: - Volume / Issue: 0 (0) Sequence Number: - Start / End Page: 1 - 12 Identifier: ISSN: 0749-503X
CoNE: https://pure.mpg.de/cone/journals/resource/110990112651288_1