Subproteomic tools to increase genome annotation complexity

Comprehensive and precise annotations of short protein-coding genes are always a challenging task. Here we propose a new design to facilitate the characterization of previously overlooked short protein-coding genes by integrating a shotgun proteomics method and oligonucleotide array analysis. Using...

Full description

Saved in:
Bibliographic Details
Published in:Proteomics (Weinheim) 2008-10, Vol.8 (20), p.4209-4213
Main Authors: Wei, Candong, Peng, Junping, Xiong, Zhaohui, Yang, Jian, Wang, Jing, Jin, Qi
Format: Article
Language:English
Subjects:
2‐D LC‐MS/MS
Analytical, structural and metabolic biochemistry
Bacterial Proteins - analysis
Bacterial Proteins - isolation & purification
Biological and medical sciences
Chromatography, Liquid
Computational Biology - methods
Fundamental and applied biological sciences. Psychology
Genome, Bacterial
Miscellaneous
Oligonucleotide array
Oligonucleotide Array Sequence Analysis - methods
Open Reading Frames
Proteins
Proteomics - methods
Shigella flexneri - chemistry
Software
Subproteomic
Tandem Mass Spectrometry
Citations: Items that this one cites
Items that cite this one
Online Access:Get full text
Tags: Add Tag
No Tags, Be the first to tag this record!
Description
Summary:Comprehensive and precise annotations of short protein-coding genes are always a challenging task. Here we propose a new design to facilitate the characterization of previously overlooked short protein-coding genes by integrating a shotgun proteomics method and oligonucleotide array analysis. Using Shigella flexneri as a model, we validate 163 annotated ORFs and 51 hypothetical or putative transcripts at the protein level, and discover four novel short ORFs. This strategy will contribute significantly to comprehensive and accurate genome-wide annotation, and to our understanding of prokaryotic genome structure.
ISSN:1615-9853
1615-9861
DOI:10.1002/pmic.200800226