Characterization of a Brg1 hypomorphic allele demonstrates that genetic and biochemical activity are tightly correlated

References

• Ho L, Crabtree GR. Chromatin remodelling during development. Nature 2010; 463:474 - 84; http://dx.doi.org/10.1038/nature08911; PMID: 20110991
   PubMed Web of Science ®Google Scholar
• Liu N, Balliano A, Hayes JJ. Mechanism(s) of SWI/SNF-induced nucleosome mobilization. Chembiochem 2011; 12:196 - 204; http://dx.doi.org/10.1002/cbic.201000455; PMID: 21243709
   PubMed Web of Science ®Google Scholar
• Sudarsanam P, Iyer VR, Brown PO, Winston F. Whole-genome expression analysis of snf/swi mutants of Saccharomyces cerevisiae. Proc Natl Acad Sci U S A 2000; 97:3364 - 9; http://dx.doi.org/10.1073/pnas.97.7.3364; PMID: 10725359
   PubMed Web of Science ®Google Scholar
• Holstege FC, Jennings EG, Wyrick JJ, Lee TI, Hengartner CJ, Green MR, Golub TR, Lander ES, Young RA. Dissecting the regulatory circuitry of a eukaryotic genome. Cell 1998; 95:717 - 28; http://dx.doi.org/10.1016/S0092-8674(00)81641-4; PMID: 9845373
   PubMed Web of Science ®Google Scholar
• Hargreaves DC, Crabtree GR. ATP-dependent chromatin remodeling: genetics, genomics and mechanisms. Cell Res 2011; 21:396 - 420; http://dx.doi.org/10.1038/cr.2011.32; PMID: 21358755
   PubMed Web of Science ®Google Scholar
• Euskirchen G, Auerbach RK, Snyder M. SWI/SNF chromatin-remodeling factors: multiscale analyses and diverse functions. J Biol Chem 2012; 287:30897 - 905; http://dx.doi.org/10.1074/jbc.R111.309302; PMID: 22952240
   PubMed Web of Science ®Google Scholar
• Kadoch C, Hargreaves DC, Hodges C, Elias L, Ho L, Ranish J, Crabtree GR. Proteomic and bioinformatic analysis of mammalian SWI/SNF complexes identifies extensive roles in human malignancy. Nat Genet 2013; 45:592 - 601; http://dx.doi.org/10.1038/ng.2628; PMID: 23644491
   PubMed Web of Science ®Google Scholar
• Bultman S, Gebuhr T, Yee D, La Mantia C, Nicholson J, Gilliam A, Randazzo F, Metzger D, Chambon P, Crabtree G, et al. A Brg1 null mutation in the mouse reveals functional differences among mammalian SWI/SNF complexes. Mol Cell 2000; 6:1287 - 95; http://dx.doi.org/10.1016/S1097-2765(00)00127-1; PMID: 11163203
   PubMed Web of Science ®Google Scholar
• Reyes JC, Barra J, Muchardt C, Camus A, Babinet C, Yaniv M. Altered control of cellular proliferation in the absence of mammalian brahma (SNF2alpha). EMBO J 1998; 17:6979 - 91; http://dx.doi.org/10.1093/emboj/17.23.6979; PMID: 9843504
   PubMed Web of Science ®Google Scholar
• Bultman SJ, Gebuhr TC, Magnuson TA. A Brg1 mutation that uncouples ATPase activity from chromatin remodeling reveals an essential role for SWI/SNF-related complexes in beta-globin expression and erythroid development. Genes Dev 2005; 19:2849 - 61; http://dx.doi.org/10.1101/gad.1364105; PMID: 16287714
   PubMed Web of Science ®Google Scholar
• Phelan ML, Sif S, Narlikar GJ, Kingston RE. Reconstitution of a core chromatin remodeling complex from SWI/SNF subunits. Mol Cell 1999; 3:247 - 53; http://dx.doi.org/10.1016/S1097-2765(00)80315-9; PMID: 10078207
   PubMed Web of Science ®Google Scholar
• Narlikar GJ, Phelan ML, Kingston RE. Generation and interconversion of multiple distinct nucleosomal states as a mechanism for catalyzing chromatin fluidity. Mol Cell 2001; 8:1219 - 30; http://dx.doi.org/10.1016/S1097-2765(01)00412-9; PMID: 11779498
   PubMed Web of Science ®Google Scholar
• Fan HY, He X, Kingston RE, Narlikar GJ. Distinct strategies to make nucleosomal DNA accessible. Mol Cell 2003; 11:1311 - 22; http://dx.doi.org/10.1016/S1097-2765(03)00192-8; PMID: 12769854
   PubMed Web of Science ®Google Scholar
• Sif S, Saurin AJ, Imbalzano AN, Kingston RE. Purification and characterization of mSin3A-containing Brg1 and hBrm chromatin remodeling complexes. Genes Dev 2001; 15:603 - 18; http://dx.doi.org/10.1101/gad.872801; PMID: 11238380
   PubMed Web of Science ®Google Scholar
• Trotter KW, Fan HY, Ivey ML, Kingston RE, Archer TK. The HSA domain of BRG1 mediates critical interactions required for glucocorticoid receptor-dependent transcriptional activation in vivo. Mol Cell Biol 2008; 28:1413 - 26; http://dx.doi.org/10.1128/MCB.01301-07; PMID: 18086889
   PubMed Web of Science ®Google Scholar
• Cohen SM, Chastain PD 2nd, Rosson GB, Groh BS, Weissman BE, Kaufman DG, Bultman SJ. BRG1 co-localizes with DNA replication factors and is required for efficient replication fork progression. Nucleic Acids Res 2010; 38:6906 - 19; http://dx.doi.org/10.1093/nar/gkq559; PMID: 20571081
   PubMed Web of Science ®Google Scholar
• Kim SI, Bresnick EH, Bultman SJ. BRG1 directly regulates nucleosome structure and chromatin looping of the alpha globin locus to activate transcription. Nucleic Acids Res 2009; 37:6019 - 27; http://dx.doi.org/10.1093/nar/gkp677; PMID: 19696073
   PubMed Web of Science ®Google Scholar
• Kim SI, Bultman SJ, Kiefer CM, Dean A, Bresnick EH. BRG1 requirement for long-range interaction of a locus control region with a downstream promoter. Proc Natl Acad Sci U S A 2009; 106:2259 - 64; http://dx.doi.org/10.1073/pnas.0806420106; PMID: 19171905
   PubMed Web of Science ®Google Scholar
• Bultman SJ, Herschkowitz JI, Godfrey V, Gebuhr TC, Yaniv M, Perou CM, Magnuson T. Characterization of mammary tumors from Brg1 heterozygous mice. Oncogene 2008; 27:460 - 8; http://dx.doi.org/10.1038/sj.onc.1210664; PMID: 17637742
   PubMed Web of Science ®Google Scholar
• Zhao K, Wang W, Rando OJ, Xue Y, Swiderek K, Kuo A, Crabtree GR. Rapid and phosphoinositol-dependent binding of the SWI/SNF-like BAF complex to chromatin after T lymphocyte receptor signaling. Cell 1998; 95:625 - 36; http://dx.doi.org/10.1016/S0092-8674(00)81633-5; PMID: 9845365
   PubMed Web of Science ®Google Scholar
• Hauk G, McKnight JN, Nodelman IM, Bowman GD. The chromodomains of the Chd1 chromatin remodeler regulate DNA access to the ATPase motor. Mol Cell 2010; 39:711 - 23; http://dx.doi.org/10.1016/j.molcel.2010.08.012; PMID: 20832723
   PubMed Web of Science ®Google Scholar
• Thomä NH, Czyzewski BK, Alexeev AA, Mazin AV, Kowalczykowski SC, Pavletich NP. Structure of the SWI2/SNF2 chromatin-remodeling domain of eukaryotic Rad54. Nat Struct Mol Biol 2005; 12:350 - 6; http://dx.doi.org/10.1038/nsmb919; PMID: 15806108
   PubMed Web of Science ®Google Scholar
• Singleton MR, Wigley DB. Modularity and specialization in superfamily 1 and 2 helicases. J Bacteriol 2002; 184:1819 - 26; http://dx.doi.org/10.1128/JB.184.7.1819-1826.2002; PMID: 11889086
   PubMed Web of Science ®Google Scholar
• Dürr H, Körner C, Müller M, Hickmann V, Hopfner KP. X-ray structures of the Sulfolobus solfataricus SWI2/SNF2 ATPase core and its complex with DNA. Cell 2005; 121:363 - 73; http://dx.doi.org/10.1016/j.cell.2005.03.026; PMID: 15882619
   PubMed Web of Science ®Google Scholar
• Pace CN, Scholtz JM. A helix propensity scale based on experimental studies of peptides and proteins. Biophys J 1998; 75:422 - 7; http://dx.doi.org/10.1016/S0006-3495(98)77529-0; PMID: 9649402
   PubMed Web of Science ®Google Scholar
• Bultman SJ, Gebuhr TC, Pan H, Svoboda P, Schultz RM, Magnuson T. Maternal BRG1 regulates zygotic genome activation in the mouse. Genes Dev 2006; 20:1744 - 54; http://dx.doi.org/10.1101/gad.1435106; PMID: 16818606
   PubMed Web of Science ®Google Scholar
• Smith-Roe SL, Bultman SJ. Combined gene dosage requirement for SWI/SNF catalytic subunits during early mammalian development. Mamm Genome 2013; 24:21 - 9; http://dx.doi.org/10.1007/s00335-012-9433-z; PMID: 23076393
   PubMed Web of Science ®Google Scholar
• Richmond E, Peterson CL. Functional analysis of the DNA-stimulated ATPase domain of yeast SWI2/SNF2. Nucleic Acids Res 1996; 24:3685 - 92; http://dx.doi.org/10.1093/nar/24.19.3685; PMID: 8871545
   PubMed Web of Science ®Google Scholar
• O’Neil KT, DeGrado WF. A thermodynamic scale for the helix-forming tendencies of the commonly occurring amino acids. Science 1990; 250:646 - 51; http://dx.doi.org/10.1126/science.2237415; PMID: 2237415
   PubMed Web of Science ®Google Scholar
• Smith CL, Peterson CL. A conserved Swi2/Snf2 ATPase motif couples ATP hydrolysis to chromatin remodeling. Mol Cell Biol 2005; 25:5880 - 92; http://dx.doi.org/10.1128/MCB.25.14.5880-5892.2005; PMID: 15988005
   PubMed Web of Science ®Google Scholar
• Saha A, Wittmeyer J, Cairns BR. Chromatin remodeling through directional DNA translocation from an internal nucleosomal site. Nat Struct Mol Biol 2005; 12:747 - 55; http://dx.doi.org/10.1038/nsmb973; PMID: 16086025
   PubMed Web of Science ®Google Scholar
• Ronan JL, Wu W, Crabtree GR. From neural development to cognition: unexpected roles for chromatin. Nat Rev Genet 2013; 14:347 - 59; http://dx.doi.org/10.1038/nrg3413; PMID: 23568486
   PubMed Web of Science ®Google Scholar
• Stein A, Whitlock JP Jr., Bina M. Acidic polypeptides can assemble both histones and chromatin in vitro at physiological ionic strength. Proc Natl Acad Sci U S A 1979; 76:5000 - 4; http://dx.doi.org/10.1073/pnas.76.10.5000; PMID: 291918
   PubMed Web of Science ®Google Scholar
• Duband-Goulet I, Ouararhni K, Hamiche A. Methods for chromatin assembly and remodeling. Methods 2004; 33:12 - 7; http://dx.doi.org/10.1016/j.ymeth.2003.10.015; PMID: 15039082
   PubMed Web of Science ®Google Scholar
• Kelley LA, Sternberg MJ. Protein structure prediction on the Web: a case study using the Phyre server. Nat Protoc 2009; 4:363 - 71; http://dx.doi.org/10.1038/nprot.2009.2; PMID: 19247286
   PubMed Web of Science ®Google Scholar
• Muñoz V, Serrano L. Elucidating the folding problem of helical peptides using empirical parameters. Nat Struct Biol 1994; 1:399 - 409; http://dx.doi.org/10.1038/nsb0694-399; PMID: 7664054
   PubMedGoogle Scholar
• Papadopoulos JS, Agarwala R. COBALT: constraint-based alignment tool for multiple protein sequences. Bioinformatics 2007; 23:1073 - 9; http://dx.doi.org/10.1093/bioinformatics/btm076; PMID: 17332019
   PubMed Web of Science ®Google Scholar