Unipept: Tryptic Peptide-Based Biodiversity Analysis of Metaproteome Samples

被引：108

作者：

Mesuere, Bart ^{[1
]}

Devreese, Bart ^{[2
]}

Debyser, Griet ^{[2
]}

Aerts, Maarten ^{[3
]}

Vandamme, Peter ^{[3
]}

Dawyndt, Peter ^{[1
]}

机构：

[1] Univ Ghent, Dept Appl Math & Comp Sci, B-9000 Ghent, Belgium

[2] Univ Ghent, Lab Prot Biochem & Biomol Engn, B-9000 Ghent, Belgium

[3] Univ Ghent, Fac Sci, Microbiol Lab, B-9000 Ghent, Belgium

来源：

JOURNAL OF PROTEOME RESEARCH | 2012年 / 11卷 / 12期

关键词：

metaproteomics; tryptic peptides; biodiversity analysis; treemap visualization;

D O I：

10.1021/pr300576s

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

The Unipept web application (http://unipept.ugent.be) supports biodiversity analysis of large and complex metaproteome samples using tryptic peptide information obtained from shotgun MS/MS experiments. Its underlying index structure is designed to quickly retrieve all occurrences of a tryptic peptide in UniProtKB records. Taxon-specificity of the tryptic peptide is successively derived from these occurrences using a novel lowest common ancestor approach that is robust against taxonomic misarrangements, misidentifications, and inaccuracies. Not taking into account this identification noise would otherwise result in drastic loss of information. Dynamic treemaps visualize the biodiversity of metaproteome samples, which eases the exploration of samples with highly complex compositions. The potential of Unipept to gain novel insights into the biodiversity of a sample is evaluated by reanalyzing publicly available metaproteome data sets taken from the bacterial phyllosphere and the human gut.

引用

页码：5773 / 5780

页数：8

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