1. Mass spectrometry proteomics reveals a function for mammalian CALCOCO1 in MTOR-regulated selective autophagy
- Author
-
Nicholas A. Clark, Catherine E. Vincent, Alexander M. Davis, Nathaniel D. Lowry, Mario Medvedovic, David J. Pagliarini, Nicholas W. Kwiecien, Carol A. Mercer, Hala Elnakat Thomas, Jonathan A. Stefely, Joshua J. Coon, Yu Zhang, Evgenia Shishkova, and Elyse C. Freiberger
- Subjects
Proteomics ,0301 basic medicine ,Reticulophagy ,ATG5 ,Saccharomyces cerevisiae ,Mass Spectrometry ,Mice ,03 medical and health sciences ,Autophagy ,Animals ,Humans ,Amino Acid Sequence ,Molecular Biology ,Mechanistic target of rapamycin ,Conserved Sequence ,PI3K/AKT/mTOR pathway ,Mammals ,030102 biochemistry & molecular biology ,biology ,TOR Serine-Threonine Kinases ,Binding protein ,Endoplasmic reticulum ,Calcium-Binding Proteins ,Cell Biology ,ULK2 ,Fibroblasts ,Embryo, Mammalian ,Cell biology ,HEK293 Cells ,030104 developmental biology ,MCF-7 Cells ,biology.protein ,Microtubule-Associated Proteins ,Research Paper ,Protein Binding ,Transcription Factors - Abstract
Macroautophagy/autophagy is suppressed by MTOR (mechanistic target of rapamycin kinase) and is an anticancer target under active investigation. Yet, MTOR-regulated autophagy remains incompletely mapped. We used proteomic profiling to identify proteins in the MTOR-autophagy axis. Wild-type (WT) mouse cell lines and cell lines lacking individual autophagy genes (Atg5 or Ulk1/Ulk2) were treated with an MTOR inhibitor to induce autophagy and cultured in media with either glucose or galactose. Mass spectrometry proteome profiling revealed an elevation of known autophagy proteins and candidates for new autophagy components, including CALCOCO1 (calcium binding and coiled-coil domain protein 1). We show that CALCOCO1 physically interacts with MAP1LC3C, a key protein in the machinery of autophagy. Genetic deletion of CALCOCO1 disrupted autophagy of the endoplasmic reticulum (reticulophagy). Together, these results reveal a role for CALCOCO1 in MTOR-regulated selective autophagy. More generally, the resource generated by this work provides a foundation for establishing links between the MTOR-autophagy axis and proteins not previously linked to this pathway. Abbreviations: ATG: autophagy-related; CALCOCO1: calcium binding and coiled-coil domain protein 1; CALCOCO2/NDP52: calcium binding and coiled-coil domain protein 2; CLIR: MAP1LC3C-interacting region; CQ: chloroquine; KO: knockout; LIR: MAP1LC3-interacting region; MAP1LC3/LC3: microtubule associated protein 1 light chain 3; MEF: mouse embryonic fibroblast; MLN: MLN0128 ATP-competitive MTOR kinase inhibitor; MTOR: mechanistic target of rapamycin kinase; reticulophagy: selective autophagy of the endoplasmic reticulum; TAX1BP1/CALCOCO3: TAX1 binding protein 1; ULK: unc 51-like autophagy activating kinase; WT: wild-type.
- Published
- 2020
- Full Text
- View/download PDF