Deep metaproteomic analysis of human salivary supernatant

Pratik D Jagtap, Thomas Mcgowan, Sricharan Bandhakavi, Zheng Jin Tu, Sean Seymour, Timothy J Griffin, Joel D Rudney

Research output: Contribution to journalArticle

50 Citations (Scopus)

Abstract

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 TM7. Streptococcus, Rothia, Actinomyces, Prevotella, Neisseria, Veilonella, Lactobacillus, Selenomonas, Pseudomonas, Staphylococcus, and Campylobacter 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.

Original languageEnglish (US)
Pages (from-to)992-1001
Number of pages10
JournalProteomics
Volume12
Issue number7
DOIs
StatePublished - Apr 1 2012

Fingerprint

Proteome
Peptides
Proteins
Mouth Diseases
Selenomonas
Prevotella
Salivary Proteins and Peptides
Neisseria
Metagenomics
Actinomyces
Protein Databases
Campylobacter
Carbohydrate Metabolism
Lactobacillus
Glycolysis
Pseudomonas
Streptococcus
Signal transduction
Staphylococcus
Saliva

Keywords

  • Bacteria
  • Metaproteomics
  • Microbiology
  • Microbiome
  • Phylogenetic analysis
  • Whole saliva

Cite this

Deep metaproteomic analysis of human salivary supernatant. / Jagtap, Pratik D; Mcgowan, Thomas; Bandhakavi, Sricharan; Tu, Zheng Jin; Seymour, Sean; Griffin, Timothy J; Rudney, Joel D.

In: Proteomics, Vol. 12, No. 7, 01.04.2012, p. 992-1001.

Research output: Contribution to journalArticle

Jagtap, Pratik D ; Mcgowan, Thomas ; Bandhakavi, Sricharan ; Tu, Zheng Jin ; Seymour, Sean ; Griffin, Timothy J ; Rudney, Joel D. / Deep metaproteomic analysis of human salivary supernatant. In: Proteomics. 2012 ; Vol. 12, No. 7. pp. 992-1001.
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