Dataset features

Specifications


Application: RNA-seq analysis
Number of samples: 4
Release date: Jul 16 2014
Last update date: Sep 12 2014
Access: Public
Chemicals: Nitrogen, Urea, Succinic Acid
Computational protocol: BWA, SAMtools, Cufflinks, BLASTP, TBLASTN, Genolevures
Dataset link An alternative, arginase-independent pathway for arginine metabolism in Kluyveromyces lactis involves guanidinobutyrase as a key enzyme

Experimental Protocol


The goal of the present study was to characterize arginine catabolism in K. lactis. To this end, CAR1, CAR2 and PRO3 orthologs in K. lactis were identified and functionally analysed by deletion, expression in S. cerevisiae and enzyme activity assays. Since deletion of the arginase gene in K. lactis was found not to completely abolish growth on arginine as a sole nitrogen source, the alternative pathway for arginine catabolism operating in this yeast was studied by a combination of transcriptome analysis, 13C and 15N isotope-based flux analysis and enzyme activity assays in cell extracts. To investigate arginine metabolism in the arginase-negative K. lactis strain, strains GG1632 (Klku80Δ KlCAR1 reference strain) and IMS0367 (Klcar1Δ Arg+) were grown in aerobic bioreactor batch cultures on glucose chemically defined medium with arginine as sole nitrogen source. RNA sequencing of samples taken during the exponential phase of growth on glucose-arginine media of the reference strain G1631 and the arginase less strain IMS0367 were compared resulting in the characterization of a new function.

Repositories


GEO

GSE56060

ArrayExpress

E-GEOD-56060

ENA

SRP040331

BioProject

PRJNA242314

Download


Contact


Jean-Marc Daran

Dataset Statistics

info

Citations per year

Dataset publication