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@ARTICLE{Mandad:140337,
      author       = {Mandad, Sunit and Rahman, Raza-Ur and Pena Centeno,
                      Tonatiuh and Vidal, Ramon O and Wildhagen, Hanna and
                      Rammner, Burkhard and Keihani, Sarva and Opazo, Felipe and
                      Urban, Inga and Ischebeck, Till and Kirli, Koray and Benito,
                      Eva and Fischer, André and Yousefi, Roya Y and Dennerlein,
                      Sven and Rehling, Peter and Feussner, Ivo and Urlaub,
                      Henning and Bonn, Stefan and Rizzoli, Silvio O and
                      Fornasiero, Eugenio F},
      title        = {{T}he codon sequences predict protein lifetimes and other
                      parameters of the protein life cycle in the mouse brain.},
      journal      = {Scientific reports},
      volume       = {8},
      number       = {1},
      issn         = {2045-2322},
      address      = {[London]},
      publisher    = {Macmillan Publishers Limited, part of Springer Nature},
      reportid     = {DZNE-2020-06659},
      pages        = {16913},
      year         = {2018},
      abstract     = {The homeostasis of the proteome depends on the tight
                      regulation of the mRNA and protein abundances, of the
                      translation rates, and of the protein lifetimes. Results
                      from several studies on prokaryotes or eukaryotic cell
                      cultures have suggested that protein homeostasis is
                      connected to, and perhaps regulated by, the protein and the
                      codon sequences. However, this has been little investigated
                      for mammals in vivo. Moreover, the link between the coding
                      sequences and one critical parameter, the protein lifetime,
                      has remained largely unexplored, both in vivo and in vitro.
                      We tested this in the mouse brain, and found that the
                      percentages of amino acids and codons in the sequences could
                      predict all of the homeostasis parameters with a precision
                      approaching experimental measurements. A key predictive
                      element was the wobble nucleotide. G-/C-ending codons
                      correlated with higher protein lifetimes, protein
                      abundances, mRNA abundances and translation rates than
                      A-/U-ending codons. Modifying the proportions of G-/C-ending
                      codons could tune these parameters in cell cultures, in a
                      proof-of-principle experiment. We suggest that the coding
                      sequences are strongly linked to protein homeostasis in
                      vivo, albeit it still remains to be determined whether this
                      relation is causal in nature.},
      keywords     = {Amino Acid Sequence / Amino Acids: genetics / Animals /
                      Base Composition: genetics / Base Sequence / Brain:
                      metabolism / Codon: genetics / Mice / Nerve Tissue Proteins:
                      chemistry / Nerve Tissue Proteins: genetics / Nucleotides:
                      genetics / Proteostasis / RNA, Messenger: genetics / RNA,
                      Messenger: metabolism / Amino Acids (NLM Chemicals) / Codon
                      (NLM Chemicals) / Nerve Tissue Proteins (NLM Chemicals) /
                      Nucleotides (NLM Chemicals) / RNA, Messenger (NLM
                      Chemicals)},
      cin          = {AG Bonn 1 / AG Fischer ; AG Fischer},
      ddc          = {600},
      cid          = {I:(DE-2719)1410003 / I:(DE-2719)1410002},
      pnm          = {342 - Disease Mechanisms and Model Systems (POF3-342)},
      pid          = {G:(DE-HGF)POF3-342},
      typ          = {PUB:(DE-HGF)16},
      pubmed       = {pmid:30443017},
      pmc          = {pmc:PMC6237891},
      doi          = {10.1038/s41598-018-35277-8},
      url          = {https://pub.dzne.de/record/140337},
}