title: Spatial Cross-Talk between Oxidative Stress and DNA Replication in Human Fibroblasts.
abstract: MS-based proteomics has been applied to a differential network analysis of the nuclear-cytoplasmic subcellular distribution of proteins between cell-cycle arrest: (a) at the origin activation checkpoint for DNA replication, or (b) in response to oxidative stress. Significant changes were identified for 401 proteins. Cellular response combines changes in trafficking and in total abundance to vary the local compartmental abundances that are the basis of cellular response. Appreciable changes for both perturbations were observed for 245 proteins, but cross-talk between oxidative stress and DNA replication is dominated by 49 proteins that show strong changes for both. Many nuclear processes are influenced by a spatial switch involving the proteins {KPNA2, KPNB1, PCNA, PTMA, SET} and heme/iron proteins HMOX1 and FTH1. Dynamic spatial distribution data are presented for proteins involved in caveolae, extracellular matrix remodelling, TGFβ signaling, IGF pathways, emerin complexes, mitochondrial protein import complexes, spliceosomes, proteasomes, and so on. The data indicate that for spatially heterogeneous cells cross-compartmental communication is integral to their system biology, that coordinated spatial redistribution for crucial protein networks underlies many functional changes, and that information on dynamic spatial redistribution of proteins is essential to obtain comprehensive pictures of cellular function. We describe how spatial data of the type presented here can provide priorities for further investigation of crucial features of high-level spatial coordination across cells. We suggest that the present data are related to increasing indications that much of subcellular protein transport is constitutive and that perturbation of these constitutive transport processes may be related to cancer and other diseases. A quantitative, spatially resolved nucleus-cytoplasm interaction network is provided for further investigations.
authors.affiliation: Division of Medicine, University College London, Center for Nephrology , Royal Free Campus, Rowland Hill Street, London NW3 2PF, United Kingdom.|Insitute of Oncology and Radiology , Pasterova 14, 11000 Belgrade, Serbia.
authors.forename: Marko
authors.initials: M
authors.lastname: Radulovic
authors.affiliation: Division of Medicine, University College London, Center for Nephrology , Royal Free Campus, Rowland Hill Street, London NW3 2PF, United Kingdom.
authors.forename: Noor O
authors.initials: NO
authors.lastname: Baqader
authors.affiliation: Research Department of Pathology and UCL Cancer Institute, Rockefeller Building, University College London , University Street, London WC1E 6JJ, United Kingdom.
authors.forename: Kai
authors.initials: K
authors.lastname: Stoeber
authors.affiliation: Division of Medicine, University College London, Center for Nephrology , Royal Free Campus, Rowland Hill Street, London NW3 2PF, United Kingdom.
authors.forename: Jasminka
authors.initials: J
authors.lastname: Godovac-Zimmermann
mesh_terms: D002451:Cell Compartmentation; D059447:Cell Cycle Checkpoints; D002460:Cell Line; D002467:Cell Nucleus / Q000737:chemistry / Q000378:metabolism; D003593:Cytoplasm / Q000737:chemistry / Q000378:metabolism; D004261:DNA Replication; D005347:Fibroblasts / Q000737:chemistry* / Q000166:cytology / Q000648:ultrastructure; D006801:Humans; D018384:Oxidative Stress; D021381:Protein Transport; D020543:Proteome / Q000032:analysis*; D040901:Proteomics / Q000379:methods; D013347:Subcellular Fractions / Q000737:chemistry* / Q000378:metabolism
chemical_list: D020543:Proteome
keywords: DNA replication; MS-based proteomics; nucleus−cytoplasm interaction; oxidative stress; protein interaction networks; spatial coordination; subcellular proteomics; transport process