Comprehensive Genome-Wide
Proteomic Analysis of Human
Placental Tissue for the Chromosome-Centric Human Proteome Project
- Publication date
- Publisher
Abstract
As a starting point of the Chromosome-Centric Human Proteome
Project
(C-HPP), we established strategies of genome-wide proteomic analysis,
including protein identification, quantitation of disease-specific
proteins, and assessment of post-translational modifications, using
paired human placental tissues from healthy and preeclampsia patients.
This analysis resulted in identification of 4239 unique proteins with
high confidence (two or more unique peptides with a false discovery
rate less than 1%), covering 21% of approximately 20โ059 (Ensembl
v69, Oct 2012) human proteins, among which 28 proteins exhibited differentially
expressed preeclampsia-specific proteins. When these proteins are
assigned to all human chromosomes, the pattern of the newly identified
placental protein population is proportional to that of the gene count
distribution of each chromosome. We also identified 219 unique <i>N</i>-linked glycopeptides, 592 unique phosphopeptides, and
66 chromosome 13-specific proteins. In particular, protein evidence
of 14 genes previously known to be specifically up-regulated in human
placenta was verified by mass spectrometry. With respect to the functional
implication of these proteins, 38 proteins were found to be involved
in regulatory factor biosynthesis or the immune system in the placenta,
but the molecular mechanism of these proteins during pregnancy warrants
further investigation. As far as we know, this work produced the highest
number of proteins identified in the placenta and will be useful for
annotating and mapping all proteins encoded in the human genome