A Hybrid, de Novo Based, Genome-Wide Database Search Approach Applied to the Sea Urchin Neuropeptidome

被引：30

作者：

Menschaert, Gerben ^{[1
]}

Vandekerckhove, Tom T. M. ^{[1
]}

Baggerman, Geert ^{[2
]}

Landuyt, Bart ^{[3
]}

Sweedler, Jonathan V. ^{[4
]}

Schoofs, Liliane ^{[3
]}

Luyten, Walter ^{[3
]}

Van Criekinge, Wim ^{[1
]}

机构：

[1] Univ Ghent, Dept Mol Biotechnol, Fac Biosci Engn, Lab Bioinformat & Computat Genom, B-9000 Ghent, Belgium

[2] Catholic Univ Louvain, ProMeta, Interfacultary Ctr Prote & Metabol, B-3000 Louvain, Belgium

[3] Catholic Univ Louvain, Res Grp Funct Genom & Prote, B-3000 Louvain, Belgium

[4] Univ Illinois, Dept Chem, Urbana, IL 61801 USA

来源：

JOURNAL OF PROTEOME RESEARCH | 2010年 / 9卷 / 02期

基金：

美国国家卫生研究院;

关键词：

Neuropeptide; peptidomics; sea urchin; de novo sequencing; genome-wide database search; indexed genome; TANDEM MASS-SPECTROMETRY; PEPTIDE SEQUENCE TAGS; SECRETORY PATHWAY; IDENTIFICATION; THROUGHPUT; TOOL; PROTEOMICS; SOFTWARE; BROWSER; MODEL;

D O I：

10.1021/pr900885k

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

Peptidomics is the identification and study of the in vivo biologically active peptide profile. A combination of high performance liquid chromatography, mass spectrometry, and bioinformatics tools such as database search engines are commonly used to perform the analysis. We report a methodology based on a database system holding the completed translated genome, whereby de novo sequencing and genome-wide database searching are combined. The methodology was applied to the sea urchin neuropeptidome resulting in a 30% increase in identification rate.

引用

页码：990 / 996

页数：7

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