Next Article in Journal
The Cross Talk between cGMP Signal Pathway and PKC in Pulmonary Endothelial Cell Angiogenesis
Next Article in Special Issue
Screening and Functional Analysis of the Peroxiredoxin Specifically Expressed in Bursaphelenchus xylophilus—The Causative Agent of Pine Wilt Disease
Previous Article in Journal
BMP-Functionalised Coatings to Promote Osteogenesis for Orthopaedic Implants
Previous Article in Special Issue
Flowering as the Most Highly Sensitive Period of Grapevine (Vitis vinifera L. cv Mourvèdre) to the Botryosphaeria Dieback Agents Neofusicoccum parvum and Diplodia seriata Infection
Open AccessArticle

Total Protein Extraction for Metaproteomics Analysis of Methane Producing Biofilm: The Effects of Detergents

Department of Environmental Engineering, National Cheng Kung University, No. 1, University Road, Tainan City 701, Taiwan
Author to whom correspondence should be addressed.
Int. J. Mol. Sci. 2014, 15(6), 10169-10184;
Received: 9 April 2014 / Revised: 23 May 2014 / Accepted: 23 May 2014 / Published: 6 June 2014
(This article belongs to the Collection Advances in Proteomic Research)
Protein recovery is crucial for shotgun metaproteomics to study the in situ functionality of microbial populations from complex biofilms but still poorly addressed by far. To fill this knowledge gap, we systematically evaluated the sample preparation with extraction buffers comprising four detergents for the metaproteomics analysis of a terephthalate-degrading methanogenic biofilm using an on-line two-dimensional liquid chromatography tandem mass spectrometry (2D-LC-MS/MS) system. Totally, 1018 non-repeated proteins were identified with the four treatments. On the whole, each treatment could recover the biofilm proteins with specific distributions of molecular weight, hydrophobicity, and isoelectric point. The extraction buffers containing zwitterionic and anionic detergents were found to harvest the proteins with better efficiency and quality, allowing identification up to 76.2% of total identified proteins with the LC-MS/MS analysis. According to the annotation with a relevant metagenomic database, we further observed different taxonomic profiles of bacterial and archaeal members and discriminable patterns of the functional expression among the extraction buffers used. Overall, the finding of the present study provides first insight to the effect of the detergents on the characteristics of extractable proteins from biofilm and the developed protocol combined with nano 2D-LC/MS/MS analysis can improve the metaproteomics studies on microbial functionality of biofilms in the wastewater treatment systems. View Full-Text
Keywords: metaproteomic; biofilm; protein recovery metaproteomic; biofilm; protein recovery
Show Figures

Figure 1

MDPI and ACS Style

Huang, H.-J.; Chen, W.-Y.; Wu, J.-H. Total Protein Extraction for Metaproteomics Analysis of Methane Producing Biofilm: The Effects of Detergents. Int. J. Mol. Sci. 2014, 15, 10169-10184.

Show more citation formats Show less citations formats

Article Access Map by Country/Region

Only visits after 24 November 2015 are recorded.
Search more from Scilit
Back to TopTop