In-depth proteomic analysis of Glycine max seeds during controlled deterioration treatment reveals a shift in seed metabolism

Proteome Map of Pea (Pisum Sativum L.) Embryos Containing Different Amounts of Residual Chlorophylls

“…oxidized, glycated, lipoxidized or miss folded) polypeptides need to be degraded to prevent deleterious effects within the cell [50,51]. In agreement with previous reports [35], proteins involved in protein metabolism were represented with t-RNA ligases, translation initiation, elongation factors, chaperones, and degradation enzymes.…”

“…In this context, due to the better resolution of RP-HPLC, an LC-MS-based approach seemed promising [14]. Indeed, the most representative LC-MSbased study to date of Min et al, performed with soybean seeds, identified 1626 non-redundant proteins [35], which exceeds the best outcomes from gel-based proteomics surveys by at least two-fold [29]. However, it accounts for only a half of the proteins annotated here (Figure 4), although the authors relied on the same pre-fractionation strategy and instrumentation.…”

“…Deeper analysis of metabolic pathways, potentially involved in seed longevity [35,61] (Supplementary information 7) revealed S-adenosylmethionine (SAM) synthase 2 and glycolytic enzyme hexokinase 1 and E1 alpha subunit of the pyruvate dehydrogenase complex. As was earlier shown in priming and ageing experiments [52], SAM synthase is critical for seed vigor.…”

Mining seed proteome: from protein dynamics to modification profiles

“…In a more sophisticated method, MALDI-TOF/ TOF instrumentation and tandem mass spectrometry (MS/MS) can be applied to obtain more reliable results (Binita et al, 2014;Min et al, 2017). ESI-MS, coupled online to reversed phase high-performance liquid chromatography (RP-HPLC), has a much higher potential in identification of individual proteins composing electrophoretic zones, and it might thereby provide a higher sequence coverage of proteins immobilized in gel (Arun, 2015).…”

High Abundance Proteins: Proteomer’s Thorns in the Flesh?

“…Most of these methods, if not all, depend on the specific depletion of high-abundance proteins, thus enriching the low-abundance proteins in the remaining fraction [10,11]. These depletion based methods utilize different chemicals [12,13], solvents [14] or antibodies against the target proteins [15] to efficiently remove the high-abundance proteins from the total protein samples.…”