Long and short-read sequencing data for 35 Saccharomyces cerevisiae strains associated with beer brewing clades
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ABSTRACT:
PROVIDER: PRJEB46384 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| ERR6318530.fastq.gz | Fastqsanger.gz | |||
| ERR6318540.fastq.gz | Fastqsanger.gz | |||
| ERR6318550.fastq.gz | Fastqsanger.gz | |||
| ERR6318531.fastq.gz | Fastqsanger.gz | |||
| ERR6318541.fastq.gz | Fastqsanger.gz |
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Project description:The dynamics of the Saccharomyces carlsbergensis brewing yeast transcriptome during a production scale lager beer fermentation. The transcriptome of a lager brewing yeast (Saccharomyces carlsbergensis, syn. of S. pastorianus), was analysed at 12 different time points spanning a production-scale lager beer fermentation. Generally, the average expression rapidly increased and had a maximum value on day 2, then decreased as the sugar got consumed. Especially genes involved in protein and lipid biosynthesis or glycolysis were highly expressed during the beginning of the fermentation. Similarities as well as significant differences in expression profiles could be observed when comparing to a previous transcriptome analysis of a laboratory yeast grown in YPD. The regional distribution of various expression levels on the chromosomes appeared to be random or near-random and no reduction in expression near telomeres was observed.
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Project description:Rapid Long-Read Sequencing of Beer Metagenomes
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Project description:Beer is one of the oldest and most widely consumed beverages in the world. It contains a complex mixture of proteins from several organisms including plants (barley, hops, rice, wheat) and yeast, depending on the beer. It has been argued that fermentation of grains was responsible for our shift away from being a hunter-gatherer society, leading to social and technological advancements over thousands of years, including mass spec-based proteomics. The Proteomics Research Group (PRG) in the Association of Biomolecular Resource Facilities brought together an international consortium of proteomics laboratories (69 laboratories from 33 countries) to perform beer proteomics. An aliquot of specially brewed beer from the UC Davis Brewing Program was sent to 52 labs, and participants were encouraged to also use a widely available commercial beer (Heineken) and any other beer. Of the 69 laboratories that signed up for the study, 35 returned data. Of these, 32 analyzed the PRG Beer and 17 analyzed Heineken (14 analyzed both). When shipping of the PRG Beer was prohibitive, participants were encouraged to use Heineken due to its global availability and perceived quality control. Participants were also encouraged to analyze other beers of their choosing, and 79 other beers were analyzed. In total there were 357 beer injections on 13 different types of mass spectrometers around the world. In addition to helping connect scientists in trying times, we have also demonstrated the utility of multi-center studies with accessible materials.
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Project description:Four hybrid yeast strains isolated from a variety of industrial substrates were hybridized to an array-CGH platform containing probes to query the whole genomes of seven different Saccharomyces species. For most of the strains we found evidence of multiple interspecific hybridization events and multiple introgressed regions. The strains queried were GSY205 (isolated from a cider fermentation), GSY505 (a contaminant from a lager beer fermentation), GSY2232 (a commercial wine yeast strain), and GSY312 (a commercial lager beer strain). Additionally, 3 different rare viable spores derived from laboratory-created interspecific S. cerevisiae-S. bayanus (aka S. uvarum) hybrids were queried, before and after evolution in chemostats, via S. cerevisiae-S. bayanus microarrays.
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Project description:Saccharomyces pastorianus is the yeast used to make lager beer; it is known to be an interspecific hybrid formed by the fusion between S. cerevisiae and S. bayanus genomes. This data set queries 17 S. pastorianus strains, collected at various times over the last 125 years from various breweries located in different geographical locations, which were obtained from CBS and DBVPG culture collections. The data in this set represent array-CGH experiments performed with these strains, using "2-species" custom Agilent arrays (the "2-species" arrays contain probes spaced every ~2 kb across the whole genomes of both S. cerevisiae and S. bayanus; the probes are unique and specific for each genome). The data set also contains 3 self-self hybridizations (S. cerevisiae + S. bayanus DNA mixed together in equimolar amounts, then labeled green or red in separate reactions, then hybridized to the "2-species" arrays) used for normalization in CGH-Miner analysis. A strain or line experiment design type assays differences between multiple strains, cultivars, serovars, isolates, lines from organisms of a single species. Keywords: strain_or_line_design
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