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The permease homologue Ssy1p controls the expression of amino acid and peptide transporter genes in Saccharomyces cerevisiae
TLDR
Deletion of the SSY1 gene causes loss of leucine‐inducible transcription of the amino acid permease genes BAP2, TAT1 and BAP3 (ORF YDR046c and the peptide transporter, PTR2) and it is proposed that Ssy1p is situated in the plasma membrane and is involved in sensingLeucine in the medium.
Growth-rate regulated genes have profound impact on interpretation of transcriptome profiling in Saccharomyces cerevisiae
TLDR
The data show that the cellular growth rate has great influence on transcriptional regulation, and implies that one should be cautious when comparing mutants with different growth rates.
In silico aided metabolic engineering of Saccharomyces cerevisiae for improved bioethanol production.
TLDR
A genome-scale reconstructed metabolic network of Saccharomyces cerevisiae is used to score a number of strategies for metabolic engineering of the redox metabolism that will lead to decreased glycerol and increased ethanol yields on glucose under anaerobic conditions.
Substrate specificity and gene expression of the amino-acid permeases in Saccharomyces cerevisiae
TLDR
Radiolabelled amino-acid uptake measurements showed that Agp1p is a general permease for most uncharged amino acids, modifying the prevalent view that S. cerevisiae only contains one general amino- acid permease, Gap1p, and a number of permeases that are specific for a single or a few amino acids.
Improvement of Galactose Uptake in Saccharomyces cerevisiae through Overexpression of Phosphoglucomutase: Example of Transcript Analysis as a Tool in Inverse Metabolic Engineering
TLDR
It is concluded that phosphoglucomutase plays a key role in controlling the flux through the Leloir pathway, probably due to increased conversion of glucose-1-phosphate to glucose-6-ph phosphate in the strain construct overexpressing PGM2.
Reproducibility of Oligonucleotide Microarray Transcriptome Analyses
TLDR
A set of experiments to address intra- and interlaboratory reproducibility is highly relevant for application of DNA-microarray analysis in functional genomics and metabolic engineering and yielded over 95% agreement between the laboratories for transcripts that changed by over 2-fold, leaving only a small fraction of genes that exhibited laboratory bias.
Robust multi-scale clustering of large DNA microarray datasets with the consensus algorithm
TLDR
A consensus clustering algorithm that can be used as a framework to test in a quantitative manner the homogeneity of different clustering algorithms, and it is shown that the method is robust and gives low classification error rates for a realistic, simulated dataset.
C-terminal deletion analysis of plant plasma membrane H(+)-ATPase: yeast as a model system for solute transport across the plant plasma membrane.
TLDR
There was a close correlation between molecular activity of the various plant H(+)-ATPase species and their ability to complement mutants of the endogenous yeast plasma membrane H( +)- ATPase (pma1) and this correlation demonstrates that, at least in this heterologous host, activation of H(+.)-ATpase is a prerequisite for proper energization of the plasma membrane.
Circular DNA elements of chromosomal origin are common in healthy human somatic tissue
TLDR
It is shown that normal human cells generate large extrachromosomal circular DNAs (eccDNAs), most likely the products of excised DNA, that can be transcriptionally active and, thus, may have phenotypic consequences.
Dip5p mediates high-affinity and high-capacity transport of L-glutamate and L-aspartate in Saccharomyces cerevisiae
TLDR
It is suggested that DIP5 encodes an amino-acid permease with a high transport capacity and a high affinity for L-glutamate and L-aspartate, with a Kt of about 50 µM for both.
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