Proteogenomic analysis and global discovery of posttranslational modifications in prokaryotes

Ming Kun Yang, Yao Hua Yang, Zhuo Chen, Jia Zhang, Yan Lin, Yan Wang, Qian Xiong, Tao Li, Feng Ge, Donald A. Bryant, Jin Dong Zhao

Research output: Contribution to journalArticle

25 Scopus citations

Abstract

We describe an integrated workflow for proteogenomic analysis and global profiling of posttranslational modifications (PTMs) in prokaryotes and use the model cyanobacterium Synechococcus sp. PCC 7002 (hereafter Synechococcus 7002) as a test case. We found more than 20 different kinds of PTMs, and a holistic view of PTM events in this organism grown under different conditions was obtained without specific enrichment strategies. Among 3,186 predicted protein-coding genes, 2,938 gene products (>92%) were identified. We also identified 118 previously unidentified proteins and corrected 38 predicted gene-coding regions in the Synechococcus 7002 genome. This systematic analysis not only provides comprehensive information on protein profiles and the diversity of PTMs in Synechococcus 7002 but also provides some insights into photosynthetic pathways in cyanobacteria. The entire proteogenomics pipeline is applicable to any sequenced prokaryotic organism, and we suggest that it should become a standard part of genome annotation projects.

Original languageEnglish (US)
Pages (from-to)E5633-E5642
JournalProceedings of the National Academy of Sciences of the United States of America
Volume111
Issue number52
DOIs
StatePublished - Dec 30 2014

All Science Journal Classification (ASJC) codes

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