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Deep metaproteomic analysis of human salivary supernatant
Author(s) -
Jagtap Pratik,
McGowan Thomas,
Bandhakavi Sricharan,
Tu Zheng Jin,
Seymour Sean,
Griffin Timothy J.,
Rudney Joel D.
Publication year - 2012
Publication title -
proteomics
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.26
H-Index - 167
eISSN - 1615-9861
pISSN - 1615-9853
DOI - 10.1002/pmic.201100503
Subject(s) - proteome , biology , saliva , metagenomics , kegg , metaproteomics , biochemistry , computational biology , salivary proteins , microbiology and biotechnology , gene , gene expression , transcriptome
The human salivary proteome is extremely complex, including proteins from salivary glands, serum, and oral microbes. Much has been learned about the host component, but little is known about the microbial component. Here we report a metaproteomic analysis of salivary supernatant pooled from six healthy subjects. For deep interrogation of the salivary proteome, we combined protein dynamic range compression ( DRC ), multidimensional peptide fractionation, and high‐mass accuracy MS / MS with a novel two‐step peptide identification method using a database of human proteins plus those translated from oral microbe genomes. Peptides were identified from 124 microbial species as well as uncultured phylotypes such as TM 7. S treptococcus , R othia , A ctinomyces , P revotella , N eisseria , V eilonella , L actobacillus , S elenomonas , P seudomonas , S taphylococcus , and C ampylobacter were abundant among the 65 genera from 12 phyla represented. Taxonomic diversity in our study was broadly consistent with metagenomic studies of saliva. Proteins mapped to 20 KEGG pathways, with carbohydrate metabolism, amino acid metabolism, energy metabolism, translation, membrane transport, and signal transduction most represented. The communities sampled appear to be actively engaged in glycolysis and protein synthesis. This first deep metaproteomic catalog from human salivary supernatant provides a baseline for future studies of shifts in microbial diversity and protein activities potentially associated with oral disease.