Functional Genomics Using the Saccharomyces cerevisiae Yeast Deletion Collections

2016 ◽  
Vol 2016 (9) ◽  
pp. pdb.top080945
Author(s):  
Corey Nislow ◽  
Lai Hong Wong ◽  
Amy Huei-Yi Lee ◽  
Guri Giaever
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Functional Genomics ◽  
Yeast Deletion

scholarly journals The Yeast Deletion Collection: A Decade of Functional Genomics

Genetics ◽  
2014 ◽  
Vol 197 (2) ◽  
pp. 451-465 ◽  
Author(s):  
Guri Giaever ◽  
Corey Nislow
Keyword(s):  
Functional Genomics ◽  
Yeast Deletion

scholarly journals Mapping Gene-Microbe Interactions: Insights from Functional Genomics Co-culture Experiments between Saccharomyces cerevisiae and Pseudomonas spp

2020 ◽  
Author(s):  
Guillaume Quang N’guyen ◽  
Mani Jain ◽  
Christian R Landry ◽  
Marie Filteau
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Functional Genomics ◽  
Gene List ◽  
Biotic Interactions ◽  
Microbial Evolution ◽  
Microbial Interactions ◽  
Variable Degree ◽  
Evolutionary Trajectory ◽  
Microbe Interactions ◽  
The Impact

AbstractMicrobial interactions contribute to shape ecosystems and their functions. The interplay between microorganisms also shapes the evolutionary trajectory of each species, by imposing metabolic and physiological selective pressures. The mechanisms underlying these interactions are thus of interest to improve our understanding of microbial evolution at the genetic level. Here we applied a functional genomics approach in the model yeast Saccharomyces cerevisiae to identify the fitness determinants of naïve biotic interactions. We used a barcoded prototroph yeast deletion collection to perform pooled fitness competitions in co-culture with seven Pseudomonas spp natural isolates. We found that co-culture had a positive impact on fitness profiles, as in general the deleterious effects of loss of function in our nutrient-poor media were mitigated. In total, 643 genes showed a fitness difference in co-culture, most of which can be explained by a media diversification procured by bacterial metabolism. However, a large fraction (36%) of gene-microbe interactions could not be recaptured in cell-free supernatant experiments, showcasing that feedback mechanisms or physical contacts modulate these interactions. Also, the gene list of some co-cultures was enriched with homologs in other eukaryote species, suggesting a variable degree of specificity underlying the mechanisms of biotic interactions and that these interactions could also exist in other organisms. Our results illustrate how microbial interactions can contribute to shape the interplay between genomes and species interactions, and that S. cerevisiae is a powerful model to study the impact of biotic interactions.

Functional Genomics of Wine Yeast Saccharomyces cerevisiae

2007 ◽  
pp. 65-121 ◽  
Author(s):  
Linda F. Bisson ◽  
Jonathan E. Karpel ◽  
Vidhya Ramakrishnan ◽  
Lucy Joseph*
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Functional Genomics ◽  
Wine Yeast ◽  
Yeast Saccharomyces Cerevisiae

scholarly journals Functional Genomics Analysis of the Saccharomyces cerevisiae Iron Responsive Transcription Factor Aft1 Reveals Iron-Independent Functions

Genetics ◽  
2010 ◽  
Vol 185 (3) ◽  
pp. 1111-1128 ◽  
Author(s):  
Sharon Berthelet ◽  
Jane Usher ◽  
Kristian Shulist ◽  
Akil Hamza ◽  
Nancy Maltez ◽  
...  
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Transcription Factor ◽  
Functional Genomics ◽  
Independent Functions

scholarly journals Functional genomics analysis of n-alkyl sulfates toxicity in the yeast Saccharomyces cerevisiae

2008 ◽  
Vol 8 (3) ◽  
pp. 69-84
Author(s):  
Sophon Sirisatta ◽  
Emiko Kitagawa ◽  
Masami Yonekura ◽  
Hitoshi Iwahashi
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Functional Genomics ◽  
Yeast Saccharomyces Cerevisiae ◽  
Alkyl Sulfates

scholarly journals Functional genomics in yeast

2007 ◽  
Vol 28 (2) ◽  
pp. 51
Author(s):  
Ian W Dawes ◽  
Geoffrey D Kornfeld ◽  
Gabriel G Perrone
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Functional Genomics ◽  
Genome Sequencing ◽  
Genome Sequencing Project ◽  
Sequencing Project ◽  
Cellular Processes ◽  
Genome Wide ◽  
A Genome ◽  
Wide Scale ◽  
And Function

Completion of the Saccharomyces cerevisiae genome sequencing project in 1996 led to an incredible explosion of research on basic cellular processes and has provided the opportunity to determine how genes and their products are regulated and function on a genome-wide scale. The technologies that were developed from this provided an incredible array of tools to study cellular processes in great detail and were a paradigm for developments from subsequent sequencing projects.

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