Improved protein identification using a species- specific protein/peptide database derived from expressed sequence tags

CORC > 昆明植物研究所 > 中国科学院昆明植物研究所 > 中国科学院东亚植物多样性与生物地理学重点实验室

	Improved protein identification using a species- specific protein/peptide database derived from expressed sequence tags
	Chen, Jinhui 2,3; Shi, Jisen 3; Tian, Dagang 2; Yang, Liming 2; Luo, Yuming 2; Yin, Denghua 2; Hu, Xiangyang 1
刊名	PLANT OMICS
	2011-09-01
卷号	4 期号:5 页码:257-263
关键词	Cross-species Protein Database Peptide Mass Fingerprinting Protein Identification Proteomics
ISSN号	1836-0661
通讯作者	huxiangyang@mail.kib.ac.cn
文献子类	Article
英文摘要	The use of peptide mass fingerprinting data obtained by matrix-assisted laser desorption/ionisation time-of-flight mass spectrometry in conjunction with protein database searching is a fast, high-throughput method that is widely used to identify proteins in a proteome. The success of a search is limited, however, by the number of proteins represented in the database. When the fully sequenced genome of an organism is not available, cross-species databases are usually used, which can compromise the reliability of the results. Databases containing expressed sequence tag sequences are available and are potentially invaluable resources for proteomic studies. For the study reported herein, we developed a proteomic approach that incorporates a species-specific protein/peptide database constructed from expressed sequence tag sequences, and we validated this approach by accurately retrieving proteins from this database that matched, on the basis of the masses of their in silico-generated tryptic peptides, experimentally isolated proteins derived from a wheat stem proteome. We also compared the results obtained using the wheat database with those obtained using the same peptide mass fingerprints and a cross-species protein database search. Given the reliability of the results and the improved scoring obtained with the wheat database study in comparison with the cross-species database study, species-specific databases derived from expressed sequence tags may replace cross-species databases for proteomic studies involving organisms for which a completely sequenced genome is unavailable.
学科主题	Plant Sciences
WOS关键词	PEPTIDE MASS FINGERPRINTS ; MEDICAGO-TRUNCATULA ; PROTEOMIC ANALYSIS ; SEED PROTEINS ; SPECTRAL DATA ; WHEAT ; SPECTROMETRY ; STRESS ; ESTABLISHMENT ; PERSPECTIVE
WOS研究方向	Plant Sciences
语种	英语
WOS记录号	WOS:000295958300004
资助机构	National Science Foundation of China[30901156, 31170619, 30930077, 30871704, 30971452, 31170256]; Chinese National Forest Bureau[2009-4-24]; Natural Science Foundation of Jiangsu University[09KJA220001]
公开日期	2012-03-16
内容类型	期刊论文
源URL	[http://ir.kib.ac.cn:8080/handle/151853/3960]
专题	昆明植物研究所_中国科学院东亚植物多样性与生物地理学重点实验室
作者单位	1.Chinese Acad Sci, Key Lab Biodivers & Biogeog, Kunming Inst Bot, Inst Tibet Plateau Res Kunming, Kunming 650204, Peoples R China 2.Huaiyin Normal Univ, Sch Life Sci, Jiangsu Key Lab Ecoagr Biotechnol Hongze Lake, Huaian 223300, Jiangsu, Peoples R China 3.Nanjing Forestry Univ, Key Lab Forest Genet & Biotechnol, Minist Educ, Nanjing 210037, Peoples R China
推荐引用方式 GB/T 7714	Chen, Jinhui,Shi, Jisen,Tian, Dagang,et al. Improved protein identification using a species- specific protein/peptide database derived from expressed sequence tags[J]. PLANT OMICS,2011,4(5):257-263.
APA	Chen, Jinhui.,Shi, Jisen.,Tian, Dagang.,Yang, Liming.,Luo, Yuming.,...&Hu, Xiangyang.(2011).Improved protein identification using a species- specific protein/peptide database derived from expressed sequence tags.PLANT OMICS,4(5),257-263.
MLA	Chen, Jinhui,et al."Improved protein identification using a species- specific protein/peptide database derived from expressed sequence tags".PLANT OMICS 4.5(2011):257-263.