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Identification of Novel Functional Differences in Monocyte Subsets Using Proteomic and Transcriptomic Methods

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Singapore Immunology Network (SIgN), Agency for Science, Technology and Research (ASTAR), 8A Biomedical Grove, Biopolis, Singapore 138648, School of Biological Sciences, Nanyang Technological University, 60 Nanyang Drive, Singapore 637551, Bioinformatic Institutes (BII), ASTAR, 30 Biopolis Street, Biopolis, Singapore 138671, and Blood Services Group, Health Sciences Authority, 11 Outram Road, Singapore, 169078
* Corresponding author: Dr. Siew-Cheng Wong, Singapore Immunology Network (SIgN), Agency for Science, Technology and Research (ASTAR), 8A, Biomedical Grove, #04-04, Immunos, Biopolis, Singapore 138648. Tel: +65 64070030. Fax: +65 64642057. E-mail: [email protected]
†Singapore Immunology Network (SIgN), Agency for Science, Technology and Research (ASTAR).
#These authors contributed equally.
‡Nanyang Technological University.
§Bioinformatic Institutes (BII), ASTAR.
∥Blood Services Group, Health Sciences Authority.
Cite this: J. Proteome Res. 2009, 8, 8, 4028–4038
Publication Date (Web):June 10, 2009
https://doi.org/10.1021/pr900364p
Copyright © 2009 American Chemical Society
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    Abstract

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    Human blood monocytes can be broadly divided into two distinct subsets: CD14+CD16− and CD14+/lowCD16+ subsets. Perturbation in their proportions in the blood has been observed in several disease conditions. Although numerous phenotypic and functional differences between the two subsets have already been described, the roles contributed by each subset during homeostasis or disease conditions are still largely unclear. To uncover novel differences to aid in elucidating their functions, we perform a global analysis of the two subsets utilizing both proteomics and transcriptomics approaches. From the proteomics and transcriptomics data, the expression of 613 genes by the two subsets is detected at both the protein and mRNA levels. These 613 genes are assessed for up-regulation in each subset at the protein and mRNA levels using a cutoff fold change of ≥|1.5| between subsets. Proteins and mRNAs up-regulated in each subset are then mapped in silico into biological functions. This mapping reveals copious functional differences between the subsets, many of which are seen at both protein and mRNA levels. For instance, expression of genes involved in FCY receptor-mediated phagocytosis are up-regulated in the CD14+/lowCD16+ subset, while those involved in antimicrobial function are up-regulated in the CD14+CD16− subset. We uncover novel functional differences between the monocyte subsets from differences in gene expression at the protein and mRNA levels. These functional differences would provide new insights into the different roles of the two monocyte subsets in regulating innate and adaptive immune responses.

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    Table S1: the primer sequences utilized in this study. Table S2: the 235 differentially expressed proteins between the CD16+ and CD16− monocyte subsets. Table S3: the 521 differentially expressed genes between the CD16+ and CD16− monocyte subsets. Table S4: correlation of identified membrane molecules with publications. Table S5: the 613 proteins and genes identified from both proteomics and transcriptomics. This material is available free of charge via the Internet at http://pubs.acs.org.

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