title: Protein Degradation Rate inArabidopsis thalianaLeaf Growth and Development.
abstract: We applied15N labeling approaches to leaves of theArabidopsis thalianarosette to characterize their protein degradation rate and understand its determinants. The progressive labeling of new peptides with15N and measuring the decrease in the abundance of >60,000 existing peptides over time allowed us to define the degradation rate of 1228 proteins in vivo. We show that Arabidopsis protein half-lives vary from several hours to several months based on the exponential constant of the decay rate for each protein. This rate was calculated from the relative isotope abundance of each peptide and the fold change in protein abundance during growth. Protein complex membership and specific protein domains were found to be strong predictors of degradation rate, while N-end amino acid, hydrophobicity, or aggregation propensity of proteins were not. We discovered rapidly degrading subunits in a variety of protein complexes in plastids and identified the set of plant proteins whose degradation rate changed in different leaves of the rosette and correlated with leaf growth rate. From this information, we have calculated the protein turnover energy costs in different leaves and their key determinants within the proteome.
authors.affiliation: ARC Centre of Excellence in Plant Energy Biology, University of Western Australia, Crawley 6009, Western Australia, Australia.
authors.forename: Lei
authors.identifier: 0000-0003-1508-5484
authors.initials: L
authors.lastname: Li
authors.affiliation: ARC Centre of Excellence in Plant Energy Biology, University of Western Australia, Crawley 6009, Western Australia, Australia.
authors.forename: Clark J
authors.initials: CJ
authors.lastname: Nelson
authors.affiliation: ARC Centre of Excellence in Plant Energy Biology, University of Western Australia, Crawley 6009, Western Australia, Australia.
authors.forename: Josua
authors.identifier: 0000-0002-7770-7333
authors.initials: J
authors.lastname: Trösch
authors.affiliation: ARC Centre of Excellence in Plant Energy Biology, University of Western Australia, Crawley 6009, Western Australia, Australia.
authors.forename: Ian
authors.initials: I
authors.lastname: Castleden
authors.affiliation: ARC Centre of Excellence in Plant Energy Biology, University of Western Australia, Crawley 6009, Western Australia, Australia.
authors.forename: Shaobai
authors.identifier: 0000-0003-3667-611X
authors.initials: S
authors.lastname: Huang
authors.affiliation: ARC Centre of Excellence in Plant Energy Biology, University of Western Australia, Crawley 6009, Western Australia, Australia harvey.millar@uwa.edu.au.
authors.forename: A Harvey
authors.identifier: 0000-0001-9679-1473
authors.initials: AH
authors.lastname: Millar
mesh_terms: D017360:Arabidopsis / Q000254:growth & development / Q000378:metabolism*; D029681:Arabidopsis Proteins / Q000378:metabolism*; D009587:Nitrogen Isotopes; D018515:Plant Leaves / Q000254:growth & development / Q000378:metabolism; D059748:Proteolysis; D020543:Proteome
chemical_list: D029681:Arabidopsis Proteins; D009587:Nitrogen Isotopes; D020543:Proteome