Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Dudley Coffee Cacao Yeast RADseq

ABSTRACT: RAD-seq reduced-genome sequencing of 200 S. cerevisiae strains for phylogenetic analysis

PROVIDER: PRJEB12530 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR1229310.fastq.gz	Fastqsanger.gz
	ERR1229320.fastq.gz	Fastqsanger.gz
	ERR1229330.fastq.gz	Fastqsanger.gz
	ERR1229340.fastq.gz	Fastqsanger.gz
	ERR1229350.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 200

Similar Datasets

YPHY1

Project description:RAD-seq reduced-genome sequencing of 262 S. cerevisiae strains for phylogenetic analysis

| PRJEB4236 | ENA

Independent Origins of Yeast Associated with Coffee and Cacao Fermentation.

Project description:Modern transportation networks have facilitated the migration and mingling of previously isolated populations of plants, animals, and insects. Human activities can also influence the global distribution of microorganisms. The best-understood example is yeasts associated with winemaking. Humans began making wine in the Middle East over 9,000 years ago [1, 2]. Selecting favorable fermentation products created specialized strains of Saccharomyces cerevisiae [3, 4] that were transported along with grapevines. Today, S. cerevisiae strains residing in vineyards around the world are genetically similar, and their population structure suggests a common origin that followed the path of human migration [3-7]. Like wine, coffee and cacao depend on microbial fermentation [8, 9] and have been globally dispersed by humans. Theobroma cacao originated in the Amazon and Orinoco basins of Colombia and Venezuela [10], was cultivated in Central America by Mesoamerican peoples, and was introduced to Europeans by Hernán Cortés in 1530 [11]. Coffea, native to Ethiopia, was disseminated by Arab traders throughout the Middle East and North Africa in the 6(th) century and was introduced to European consumers in the 17(th) century [12]. Here, we tested whether the yeasts associated with coffee and cacao are genetically similar, crop-specific populations or genetically diverse, geography-specific populations. Our results uncovered populations that, while defined by niche and geography, also bear signatures of admixture between major populations in events independent of the transport of the plants. Thus, human-associated fermentation and migration may have affected the distribution of yeast involved in the production of coffee and chocolate.

| S-EPMC4821677 | biostudies-literature

Theobroma cacao

Project description:Theobroma cacao reduced representation libraries

| PRJNA486150 | ENA

yeast wt-matA pool

Project description:Contains a collection of wildtype matA Saccharomyces cerevisiae strains for estimating the biological variation.

2012-11-14 | GSE42240 | GEO

Over-expression of CTR1 delta-300 alters element and transcription profiles in yeast

Project description:In an approach to generate Saccharomyces cerevisiae strains with increased intracellular copper amounts for technical applications we over-expressed the copper transporter CTR1 and a variant of CTR1 with a truncation in the C-terminus after the 300 amino acids (CTR1 delta-300). We determined the copper sensitivity of the generated strains and used inductively coupled plasma spectrometry (ICP-OES and ICP-MS) analysis to investigate the effects of over-expression of both constructs under excess copper on the cellular content of different elements in S. cerevisiae. In addition, we ran DNA microarray analysis to obtain the gene expression profile under the changed element contents. Over-expression of CTR1 increased the copper content in the cells up to 160% and 78 genes were differentially regulated. Over-expression of the truncated CTR1 delta-300 resulted in an increased copper, iron and zinc content of more than 200% and 980 genes showed differential expression. We found that transition metal ion homeostasis was disrupted in CTR1 delta-300 over-expressing strains under excess copper and that this was combined with a transcriptional remodelling of cellular processes

2014-01-28 | GSE44043 | GEO

Hybrid wine yeast strains

Project description:This experiment is the analysis of the transcriptomes of several hybrid yeast strains obtained by crossing natural (from wine) isolates of S. cerevisiae and S. uvarum. All isolations have been done from hybrid strains growing in exponential phase in YPD. Keywords: Strain comparison

2008-07-15 | GSE9888 | GEO

Microarray-CGH of wine yeast strains

Project description:Gene copy number comparison between similar wine yeast strains of Saccharomyces cerevisiae from different geographic origins.

2010-02-14 | GSE16941 | GEO

yeast wt-matA pool - plate reader

Project description:Contains a collection of wildtype matA Saccharomyces cerevisiae strains grown using a Tecan platereader for estimating the biological variation.

2012-11-14 | GSE42241 | GEO

Saccharomyces cerevisiae Fleischmanns baking yeast

Project description:The sequencing of Saccharomyces cerevisiae strains.

| PRJNA215479 | ENA

yeast wt pool

Project description:Contains a collection of wildtype Saccharomyces cerevisiae strains for estimating the biological variation. Wildtypes are obtained from the yeast wildtypes - wt pool background set HybSet, by randomly taking 100 wt vs. refpool (pooled wts) and 100 refpool vs. wt hybridizations

2012-11-14 | GSE42215 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data