Annotation of the Domestic Pig Genome by Quantitative Proteogenomics

The
pig is one of the earliest domesticated animals in the history
of human civilization and represents one of the most important livestock
animals. The recent sequencing of the Sus scrofa genome
was a major step toward the comprehensive understanding of porcine
biology, evolution, and its utility as a promising large animal model
for biomedical and xenotransplantation research. However, the functional
and structural annotation of the Sus scrofa genome
is far from complete. Here, we present mass spectrometry-based quantitative
proteomics data of nine juvenile organs and six embryonic stages between
18 and 39 days after gestation. We found that the data provide evidence
for and improve the annotation of 8176 protein-coding genes including
588 novel and 321 refined gene models. The analysis of tissue-specific
proteins and the temporal expression profiles of embryonic proteins
provides an initial functional characterization of expressed protein
interaction networks and modules including as yet uncharacterized
proteins. Comparative transcript and protein expression analysis to
human organs reveal a moderate conservation of protein translation
across species. We anticipate that this resource will facilitate basic
and applied research on Sus scrofa as well as its
porcine relatives.