2-DE based proteomic analysis of Saccharomyces cerevisiae wild and K+ transport-affected mutant (trk1,2) strains at the growth exponential and stationary phases

Curto, Miguel; Valledor, Luís; Navarrete, Clara; Gutiérrez, Dolores; Sychrová, Hana; Ramos, José; Jorrı́n, Jesús

doi:10.1016/j.jprot.2010.07.003

Cited by 15 publications

(12 citation statements)

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“…This kind of modification also caused the mismatch of spots in the two different gels (Zr_Sam1 and Zr_Sam2). Similar reports were also found in S. cerevisiae strains (Curto et al, 2010;Xu et al, 2014). Taken together, the results provide an atlas for protein expression under different sugar conditions and indicate a number of important clues to osmo-adaptation regulation mechanisms at the pre-translational and post-translational level.…”

Section: Accepted Manuscriptsupporting

confidence: 83%

“…Protein samples were prepared as earlier described with little modification (Curto et al, 2010). Cells were sampled at exponential phases, the growth medium being removed by centrifugation.…”

Section: Protein Sample Preparationmentioning

confidence: 99%

“…Spots were first normalized as a proportion of the total spot intensities per gel (spot volume x 10 5 /Σgel spot volumes), and then normalized volumes were Log transformed to reduce the volume-variance dependency (Curto et al, 2010). These steps also reduced the coefficient of variation of each spot, increasing the reliability of the analyses.…”

Section: Accepted Manuscriptmentioning

confidence: 99%

See 2 more Smart Citations

Protein abundance changes of Zygosaccharomyces rouxii in different sugar concentrations

Guo

Niu

Liu

et al. 2016

International Journal of Food Microbiology

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Section: Accepted Manuscriptsupporting

confidence: 83%

Section: Protein Sample Preparationmentioning

confidence: 99%

Section: Accepted Manuscriptmentioning

confidence: 99%

See 1 more Smart Citation

Protein abundance changes of Zygosaccharomyces rouxii in different sugar concentrations

Guo

Niu

Liu

et al. 2016

International Journal of Food Microbiology

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“…Curto et al (2010) used Principal Component Analysis to graphically represent the differences in 2D-E protein patterns of exponential phase and stationary phase cells of wild type strains and mutants of Saccharomyces cerevisiae. A model with four components effectively separated the patterns on the basis of the effect of growth phase (components 1 and 2) and strain (components 3 and 4), and relative differences among replicates and treatments could be easily appreciated.…”

Section: Principal Component Analysismentioning

confidence: 99%

“…Differential expression of proteins is often evaluated by univariate tests on a spotby-spot (ANOVA and Students's t) (Chich et al 2007), but several descriptive and inferential multivariate statistical techniques are useful to graphically represent differences in protein patterns or to establish relationships between design variables (for example growth conditions or adaptation treatments) and protein patterns (Marengo et al 2008). These techniques include principal component analysis (PCA; Chich et al 2007;Collet et al 2008;Curto et al 2010;Rao and Li 2009), hierarchical cluster analysis (HCA; Chich et al 2007;Collet et al 2008;Meunier et al 2007), and Partial Least Square Regression (PLS; Grove et al 2008;Pir et al 2006).…”

Section: Introductionmentioning

confidence: 99%

SDS–PAGE patterns of whole cell proteins of Streptococcus thermophilus: impact of strain, growth phase and adaptation and relationship with stress response

Zotta

Parente

Piraino³

et al. 2011

World J Microbiol Biotechnol

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In previous studies we demonstrated that a relatively large diversity of stress response patterns (acid, osmotic, oxidative, heat) exists among Streptococcus thermophilus strains. Changes in protein expression, evaluated by SDS-PAGE in 4 wild strains (CNBL7035, TH681, Y3, Sfi39) and in three Sfi39 mutants in which hrcA, ctsR and rr01 genes were inactivated showed that significant variations of proteins involved in general stress response (GSR) occur as a function of growth phase, adaptation and inactivation of stress response regulators. In this work we re-evaluate the previous results comparing two unsupervised (Hierarchical Cluster Analysis, HCA, and Principal Component Analysis, PCA) and one supervised (Partial Least Square Regression, PLSR) statistical techniques for the ability to extract information from SDS-PAGE patterns of wild type and mutant strains of S. thermophilus and to uncover relationships between protein patterns and stress tolerance. HCA and PCA are two purely descriptive techniques. The HCA showed that SDS-PAGE is an efficient tool to differentiate strains but did not shed any light on the relationships between band intensity and strain, growth phase or adaptation treatment. PCA helped to identify group of bands which covaried with the stress input factors but also not allow to find a relationship between protein expression and stress tolerance. The PLS regression, even with the limitations due to the data set used in this study, appears as an extremely promising tools for the identification of complex relationships between design and response variables in the analysis of SDS-PAGE patterns of whole cell proteins.

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Adaptation to potassium starvation of wild‐type and K⁺‐transport mutant (trk1,2) of Saccharomyces cerevisiae: 2‐dimensional gel electrophoresis‐based proteomic approach

et al. 2012

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Saccharomyces cerevisiae wild-type (BY4741) and the corresponding mutant lacking the plasma membrane main potassium uptake systems (trk1,trk2) were used to analyze the consequences of K+ starvation following a proteomic approach. In order to trigger high-affinity mode of potassium transport, cells were transferred to potassium-free medium. Protein profile was followed by two-dimensional (2-D) gels in samples taken at 0, 30, 60, 120, 180, and 300 min during starvation. We observed a general decrease of protein content during starvation that was especially drastic in the mutant strain as it was the case of an important number of proteins involved in glycolysis. On the contrary, we identified proteins related to stress response and alternative energetic metabolism that remained clearly present. Neural network-based analysis indicated that wild type was able to adapt much faster than the mutant to the stress process. We conclude that complete potassium starvation is a stressful process for yeast cells, especially for potassium transport mutants, and we propose that less stressing conditions should be used in order to study potassium homeostasis in yeast.

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2-DE based proteomic analysis of Saccharomyces cerevisiae wild and K+ transport-affected mutant (trk1,2) strains at the growth exponential and stationary phases

Cited by 15 publications

References 53 publications

Protein abundance changes of Zygosaccharomyces rouxii in different sugar concentrations

Protein abundance changes of Zygosaccharomyces rouxii in different sugar concentrations

SDS–PAGE patterns of whole cell proteins of Streptococcus thermophilus: impact of strain, growth phase and adaptation and relationship with stress response

Adaptation to potassium starvation of wild‐type and K⁺‐transport mutant (trk1,2) of Saccharomyces cerevisiae: 2‐dimensional gel electrophoresis‐based proteomic approach

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2-DE based proteomic analysis of Saccharomyces cerevisiae wild and K+ transport-affected mutant (trk1,2) strains at the growth exponential and stationary phases

Cited by 15 publications

References 53 publications

Protein abundance changes of Zygosaccharomyces rouxii in different sugar concentrations

Protein abundance changes of Zygosaccharomyces rouxii in different sugar concentrations

SDS–PAGE patterns of whole cell proteins of Streptococcus thermophilus: impact of strain, growth phase and adaptation and relationship with stress response

Adaptation to potassium starvation of wild‐type and K+‐transport mutant (trk1,2) of Saccharomyces cerevisiae: 2‐dimensional gel electrophoresis‐based proteomic approach

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Adaptation to potassium starvation of wild‐type and K⁺‐transport mutant (trk1,2) of Saccharomyces cerevisiae: 2‐dimensional gel electrophoresis‐based proteomic approach