& Righetti, 2011), as also demonstrated by the Venn diagram surveying
both orange peel and pulp by using the EST_Citrus database.
The amino acid region of Citrus proteins, translated from identified
mRNA sequences, encompassed more than 1500 proteins in the
eluates, with 363 in the controls and 128 being in common
between both eluates and controls. It has to be noticed that the
non-redundant number of identified proteins using EST-database
is lower, considering the overlapping and the presence of different
translated amino acid regions in the same protein. For these reasons
different identified mRNA sequences, belonging to the same
protein accession number, would generate redundancy.
In order to describe and to compare the biological function of the
total 1109 species identified both in orange peel and pulp, a gene
ontology (GO) analysis was performed by using the web available
software QuickGO (www.ebi.ac.uk/QuickGO) and reported in
Fig. 3. On the other hand, based on confidence score calculated by
STRING (confidence score > 0.4), PPI networks for orange peel
(p-value = 1.82e1
) and orange pulp (p-value = 1.21e5
) were
constructed and visualised in Fig. 4. For genes in PPI networks, a
GO enrichment analysis based on cellular component localisation
was performed for both pulp and peel samples and the top 10
significantly enriched cellular components were listed in
Supplementary Table 2.
In order to understand how the proteome is preserved during
the industrial processing and preparation of commercial juices,
we had the possibility to analyse unpasteurised filtered orange
juices and the corresponding commercial pasteurised ones (Supplementary
Table 3). Fig. 5A shows the Venn diagram of identified