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Methods for protein identification using expressed sequence tags and peptide mass fingerprinting for seed crops without complete genome sequences

Published online by Cambridge University Press:  22 September 2010

Liming Yang ,
Yuming Luo ,
Jifu Wei ,
Chongmiao Ren ,
Xin Zhou  and
Shaoheng He
Liming Yang
Affiliation:
School of Life Sciences, Huaiyin Normal University, Jiangsu Key Laboratory for Eco-Agricultural Biotechnology around Hongze Lake, Huai'an223300, Jiangsu, China
Yuming Luo
Affiliation:
School of Life Sciences, Huaiyin Normal University, Jiangsu Key Laboratory for Eco-Agricultural Biotechnology around Hongze Lake, Huai'an223300, Jiangsu, China
Jifu Wei*
Affiliation:
School of Life Sciences, Huaiyin Normal University, Jiangsu Key Laboratory for Eco-Agricultural Biotechnology around Hongze Lake, Huai'an223300, Jiangsu, China Clinical Research Center, the First Affiliated Hospital of Nanjing Medical University, Nanjing210029, Jiangsu, China
Chongmiao Ren
Affiliation:
School of Life Sciences, Huaiyin Normal University, Jiangsu Key Laboratory for Eco-Agricultural Biotechnology around Hongze Lake, Huai'an223300, Jiangsu, China
Xin Zhou
Affiliation:
School of Life Sciences, Huaiyin Normal University, Jiangsu Key Laboratory for Eco-Agricultural Biotechnology around Hongze Lake, Huai'an223300, Jiangsu, China
Shaoheng He*
Affiliation:
Clinical Research Center, the First Affiliated Hospital of Nanjing Medical University, Nanjing210029, Jiangsu, China
*
*Correspondence Email: weijifu@hotmail.com and shaohenghe@hotmail.com
*Correspondence Email: weijifu@hotmail.com and shaohenghe@hotmail.com
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Abstract

Proteomic approaches based on two-dimensional gel electrophoresis, mass spectrometry and database search are widely used to address questions about the development, physiology and quality of seeds. Identification of proteins is of great importance in proteomic analyses. For seed crops without full genome information, cross-species protein identification by mass spectrometry-driven sequence similarity search can be used. However, this approach is risky due to protein polymorphism between different species. Species-specific expressed sequence tag (EST) databases are an invaluable resource, which complements mass spectrometry data analysis for protein identification. Here, we illustrate a modified method of protein identification and characterization using species-specific EST databases and peptide mass fingerprinting with an example of protein identification. This method is reliable, supplements the existing methods, and improves the efficiency and accuracy of protein identification for seed crops for which complete genome information is not available.

Keywords

expressed sequence tagpeptide mass fingerprintingproteomicsseed protein identification
Type
Short Communication
Information
Seed Science Research , Volume 20 , Issue 4 , December 2010 , pp. 257 - 262
Copyright
Copyright © Cambridge University Press 2010

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