+ Site Statistics
+ Search Articles
+ PDF Full Text Service
How our service works
Request PDF Full Text
+ Follow Us
Follow on Facebook
Follow on Twitter
Follow on LinkedIn
+ Subscribe to Site Feeds
Most Shared
PDF Full Text
+ Translate
+ Recently Requested

Exploring the Arabidopsis proteome: influence of protein solubilization buffers on proteome coverage



Exploring the Arabidopsis proteome: influence of protein solubilization buffers on proteome coverage



International Journal of Molecular Sciences 16(1): 857-870



The study of proteomes provides new insights into stimulus-specific responses of protein synthesis and turnover, and the role of post-translational modifications at the systems level. Due to the diverse chemical nature of proteins and shortcomings in the analytical techniques used in their study, only a partial display of the proteome is achieved in any study, and this holds particularly true for plant proteomes. Here we show that different solubilization and separation methods have profound effects on the resulting proteome. In particular, we observed that the type of detergents employed in the solubilization buffer preferentially enriches proteins in different functional categories. These include proteins with a role in signaling, transport, response to temperature stimuli and metabolism. This data may offer a functional bias on comparative analysis studies. In order to obtain a broader coverage, we propose a two-step solubilization protocol with first a detergent-free buffer and then a second step utilizing a combination of two detergents to solubilize proteins.

Please choose payment method:






(PDF emailed within 0-6 h: $19.90)

Accession: 057839093

Download citation: RISBibTeXText

PMID: 25561235

DOI: 10.3390/ijms16010857


Related references

Precision, proteome coverage, and dynamic range of Arabidopsis proteome profiling using (15)N metabolic labeling and label-free approaches. Molecular & Cellular Proteomics 11(9): 619-628, 2013

Improvement of proteome coverage using hydrophobic monolithic columns in shotgun proteome analysis. Journal of Chromatography. A 1216(18): 3887-3894, 2009

In-Depth Proteome Coverage by Improving Efficiency for Membrane Proteome Analysis. Analytical Chemistry 89(10): 5179-5185, 2017

Increasing proteome coverage for gel-based human tear proteome maps: towards a more comprehensive profiling. Biomedical Chromatography 29(7): 1056-1067, 2016

Improved proteome coverage by using high efficiency cysteinyl peptide enrichment: the human mammary epithelial cell proteome. Proteomics 5(5): 1263-1273, 2005

Improvements in protein identification confidence and proteome coverage for human liver proteome study by coupling a parallel mass spectrometry/mass spectrometry analysis with multi-dimensional chromatography separation. Analytica Chimica Acta 566(2): 147-156, 2006

In-depth analysis of the thylakoid membrane proteome of Arabidopsis thaliana chloroplasts: new proteins, new functions, and a plastid proteome database. Plant Cell 16(2): 478-499, 2004

Proteome coverage of the model plant Arabidopsis thaliana: implications for shotgun proteomic studies. Journal of Proteomics 79: 195-199, 2013

How nitrogen sources influence Mortierella alpina aging: From the lipid droplet proteome to the whole-cell proteome and metabolome. Journal of Proteomics: -, 2018

The dynamics of the proteome: strategies for measuring protein turnover on a proteome-wide scale. Briefings in Functional Genomics & Proteomics 3(4): 382-390, 2005

A visualization of 3D proteome universe: mapping of a proteome ensemble into 3D space based on the protein-structure composition. Molecular Phylogenetics and Evolution 61(2): 484-494, 2012

Proteome analysis: II. Protein subcellular redistribution: Linking physiology to genomics via the proteome and separation technologies involved. Journal of Chromatography B 722(1-2): 203-223, Feb 5, 1999

Proteome rebalancing in transgenic Camelina occurs within the enlarged proteome induced by β-carotene accumulation and storage protein suppression. Transgenic Research 26(2): 171-186, 2016

Optimization of protein solubilization for the analysis of the CD14 human monocyte membrane proteome using LC-MS/MS. Journal of Proteomics 73(1): 112-122, 2010

A molecular rotor-based Halo-tag ligand enables a fluorogenic proteome stress sensor to detect protein misfolding in mildly stressed proteome. Bioconjugate Chemistry: -, 2017