BioID Identification of Lamin-Associated Proteins

Methods in Enzymology

Volumn 569, Issue , 2016, Pages 3-22

  Mehus, Aaron A ^a   Anderson, Ruthellen H ^a   Roux, Kyle J ^a,b  

^a SANFORD RESEARCH   (United States)

^b UNIVERSITY OF SOUTH DAKOTA   (United States)

Author keywords

BioID; Biotinylation; Labeling; Lamins; Protein protein interactions; Proximity

Indexed keywords

BIOTIN; HYBRID PROTEIN; LAMIN; LIGASE; PROTEIN BINDING;

ARTICLE; BACTERIUM; BIOLOGY; CELL FUNCTION; CELL NUCLEUS MEMBRANE; CYTOLYSIS; HUMAN; MASS SPECTROMETRY; METHODOLOGY; NONHUMAN; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN FUNCTION; PROTEIN PROTEIN INTERACTION; PROXIMITY DEPENDENT BIOTIN IDENTIFICATION; PURIFICATION; SCREENING; ANIMAL; BIOTINYLATION; CELL LINE; PHYSIOLOGY; STAINING;

ANIMALS; BIOTINYLATION; CELL LINE; HUMANS; LAMINS; PROTEIN BINDING; PROTEIN INTERACTION MAPPING; STAINING AND LABELING;

EID: 84954305095     PISSN: 00766879     EISSN: 15577988     Source Type: Book Series    
DOI: 10.1016/bs.mie.2015.08.008     Document Type: Chapter

References (42)

1. A. Chapman-Smith, and J.E. Cronan Jr. Molecular biology of biotin attachment to proteins The Journal of Nutrition 129 1999 477S 484S
2. A.L. Chen, E.W. Kim, J.Y. Toh, A.A. Vashisht, A.Q. Rashoff, C. Van, and et al. Novel components of the Toxoplasma inner membrane complex revealed by BioID mBio 6 2015 e02357
3. H. Chen, X. Zheng, and Y. Zheng Lamin-B in systemic inflammation, tissue homeostasis, and aging Nucleus 6 2015 183 186
4. Y.-H. Chi, Z.-J. Chen, and K.-T. Jeang The nuclear envelopathies and human diseases Journal of Biomedical Science 16 2009 96
5. D. Comartin, G.D. Gupta, E. Fussner, E. Coyaud, M. Hasegan, M. Archinti, and et al. CEP120 and SPICE1 cooperate with CPAP in centriole elongation Current Biology 23 2013 1360 1366
6. A.L. Couzens, J.D. Knight, M.J. Kean, G. Teo, A. Weiss, W.H. Dunham, and et al. Protein interaction network of the mammalian Hippo pathway reveals mechanisms of kinase-phosphatase interactions Science Signaling 6 2013 rs15
7. W.T. Dauer, and H.J. Worman The nuclear envelope as a signaling node in development and disease Developmental Cell 17 2009 626 638
8. T. Dechat, S.A. Adam, P. Taimen, T. Shimi, and R.D. Goldman Nuclear lamins Cold Spring Harbor Perspectives in Biology 2 2010 a000547
9. D. Dingar, M. Kalkat, P.K. Chan, T. Srikumar, S.D. Bailey, W.B. Tu, and et al. BioID identifies novel c-MYC interacting partners in cultured cells and xenograft tumors Journal of Proteomics 118 2014 95 111
10. J.G. Donaldson Immunofluorescence staining Current Protocols in Cell Biology 2001 00:4.3:4.3.1-4.3.6
11. E.A. Elion, P. Marina, and L. Yu Constructing recombinant DNA molecules by PCR Current Protocols in Molecular Biology 2007 78:IV:3.17:3.17.1-3.17.12
12. G.I. Evan, G.K. Lewis, G. Ramsay, and J.M. Bishop Isolation of monoclonal antibodies specific for human c-myc proto-oncogene product Molecular and Cellular Biology 5 1985 3610 3616
13. J. Field, J. Nikawa, D. Broek, B. MacDonald, L. Rodgers, I.A. Wilson, and et al. Purification of a RAS-responsive adenylyl cyclase complex from Saccharomyces cerevisiae by use of an epitope addition method Molecular and Cellular Biology 8 1988 2159 2165
14. E.N. Firat-Karalar, N. Rauniyar, J.R. Yates 3rd., and T. Stearns Proximity interactions among centrosome components identify regulators of centriole duplication Current Biology 24 2014 664 670
15. K. Fredriksson, C.M. Van Itallie, A. Aponte, M. Gucek, A.J. Tietgens, and J.M. Anderson Proteomic analysis of proteins surrounding occludin and claudin-4 reveals their proximity to signaling and trafficking networks PLoS One 10 2015 e0117074
16. J. Gao, Y. Li, X. Fu, and X. Luo A Chinese patient with acquired partial lipodystrophy caused by a novel mutation with LMNB2 gene Journal of Pediatric Endocrinology & Metabolism 25 2012 375 377
17. Z. Guo, L.J. Neilson, H. Zhong, P.S. Murray, S. Zanivan, and R. Zaidel-Bar E-cadherin interactome complexity and robustness resolved by quantitative proteomics Science Signaling 7 2014 rs7
18. R.A. Hegele, H. Cao, D.M. Liu, G.A. Costain, V. Charlton-Menys, N.W. Rodger, and et al. Sequencing of the reannotated LMNB2 gene reveals novel mutations in patients with acquired partial lipodystrophy American Journal of Human Genetics 79 2006 383 389
19. D.I. Kim, K.C. Birendra, and K.J. Roux Making the LINC: SUN and KASH protein interactions Biological Chemistry 396 2015 295 310
20. D.I. Kim, K.C. Birendra, W. Zhu, K. Motamedchaboki, V. Doye, and K.J. Roux Probing nuclear pore complex architecture with proximity-dependent biotinylation Proceedings of the National Academy of Sciences of the United States of America 111 2014 E2453 E2461
21. V. Kochin, T. Shimi, E. Torvaldson, S.A. Adam, A. Goldman, C.G. Pack, and et al. Interphase phosphorylation of lamin A Journal of Cell Science 127 2014 2683 2696
22. N. Kubben, J.W. Voncken, J. Demmers, C. Calis, G. van Almen, Y. Pinto, and et al. Identification of differential protein interactors of lamin A and progerin Nucleus 1 2010 513 525
23. K. Kwon, and D. Beckett Function of a conserved sequence motif in biotin holoenzyme synthetases Protein Science 9 2000 1530 1539
24. J.P. Lambert, M. Tucholska, C. Go, J.D. Knight, and A.C. Gingras Proximity biotinylation and affinity purification are complementary approaches for the interactome mapping of chromatin-associated protein complexes Journal of Proteomics 118 2014 81 94
25. M.D. Lane, K.L. Rominger, D.L. Young, and F. Lynen The enzymatic synthesis of holotranscarboxylase from apotranscarboxylase and (+)-biotin: II. Investigation of the reaction mechanism The Journal of Biological Chemistry 239 1964 2865 2871
26. S.A. Mojica, K.M. Hovis, M.B. Frieman, B. Tran, R.C. Hsia, J. Ravel, and et al. SINC, a type III secreted protein of Chlamydia psittaci, targets the inner nuclear membrane of infected cells and uninfected neighbors Molecular Biology of the Cell 26 2015 1918 1934
27. B. Morriswood, K. Havlicek, L. Demmel, S. Yavuz, M. Sealey-Cardona, K. Vidilaseris, and et al. Novel bilobe components in Trypanosoma brucei identified using proximity-dependent biotinylation Eukaryotic Cell 12 2013 356 367
28. R. Mortensen, J.D. Chesnut, J.P. Hoeffler, and R.E. Kingston Selection of transfected mammalian cells Current Protocols in Molecular Biology 2003 62:I:9.5:9.5.1-9.5.19
29. Y. Ottaviano, and L. Gerace Phosphorylation of the nuclear lamins during interphase and mitosis The Journal of Biological Chemistry 260 1985 624 632
30. Q.S. Padiath, K. Saigoh, R. Schiffmann, H. Asahara, T. Yamada, A. Koeppen, and et al. Lamin B1 duplications cause autosomal dominant leukodystrophy Nature Genetics 38 2006 1114 1123
31. C. Ptak, J.D. Aitchison, and R.W. Wozniak The multifunctional nuclear pore complex: A platform for controlling gene expression Current Opinion in Cell Biology 28 2014 46 53
32. C. Ritchie, I. Cylinder, E.J. Platt, and E. Barklis Analysis of HIV-1 Gag protein interactions via biotin ligase tagging Journal of Virology 89 2015 3988 4001
33. K.J. Roux, D.I. Kim, M. Raida, and B. Burke A promiscuous biotin ligase fusion protein identifies proximal and interacting proteins in mammalian cells The Journal of Cell Biology 196 2012 801 810
34. D.N. Simon, and K.L. Wilson Partners and post-translational modifications of nuclear lamins Chromosoma 122 2013 13 31
35. B.A. Sosa, U. Kutay, and T.U. Schwartz Structural insights into LINC complexes Current Opinion in Structural Biology 23 2013 285 291
36. E. Steed, A. Elbediwy, B. Vacca, S. Dupasquier, S.A. Hemkemeyer, T. Suddason, and et al. MarvelD3 couples tight junctions to the MEKK1-JNK pathway to regulate cell behavior and survival The Journal of Cell Biology 204 2014 821 838
37. M.Y. Tsai, S. Wang, J.M. Heidinger, D.K. Shumaker, S.A. Adam, R.D. Goldman, and et al. A mitotic lamin B matrix induced by RanGTP required for spindle assembly Science 311 2006 1887 1893
38. S. Ueda, A.M. Blee, K.G. Macway, D.J. Renner, and S. Yamada Force dependent biotinylation of myosin IIA by alpha-catenin tagged with a promiscuous biotin ligase PLoS One 10 2015 e0122886
39. C.M. Van Itallie, A. Aponte, A.J. Tietgens, M. Gucek, K. Fredriksson, and J.M. Anderson The N and C termini of ZO-1 are surrounded by distinct proteins and functional protein networks The Journal of Biological Chemistry 288 2013 13775 13788
40. C.M. Van Itallie, A.J. Tietgens, A. Aponte, K. Fredriksson, A.S. Fanning, M. Gucek, and et al. Biotin ligase tagging identifies proteins proximal to E-cadherin, including lipoma preferred partner, a regulator of epithelial cell-cell and cell-substrate adhesion Journal of Cell Science 127 2014 885 895
41. X. Wong, T.R. Luperchio, and K.L. Reddy NET gains and losses: The role of changing nuclear envelope proteomes in genome regulation Current Opinion in Cell Biology 28 2014 105 120
42. H.J. Worman, C. Ostlund, and Y. Wang Diseases of the nuclear envelope Cold Spring Harbor Perspectives in Biology 2 2010 a000760