Proteomics analysis of the non-muscle myosin heavy chain IIa-enriched actin-myosin complex reveals multiple functions within the podocyte

PLoS ONE

Volumn 9, Issue 6, 2014, Pages

  Hays, Thomas ^a   Ma'ayan, Avi ^a   Clark, Neil R ^a   Tan, Christopher M ^a   Teixeira, Avelino ^a   Teixeira, Angela ^a   Choi, Jae W ^b   Burdis, Nora ^b   Jung, Sung Yun ^b   Bajaj, Amol O ^b   O'Malley, Bert W ^b   He, John C ^a   Hyink, Deborah P ^b   Klotman, Paul E ^b  

^a MOUNT SINAI SCHOOL OF MEDICINE   (United States)

^b BAYLOR COLLEGE OF MEDICINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ACTIN; MYOSIN; NON MUSCLE MYOSIN HEAVY CHAIN IIA; UNCLASSIFIED DRUG; CYTOSKELETON PROTEIN; MEMBRANE PROTEIN; MOLECULAR MOTOR; MULTIPROTEIN COMPLEX; MYH9 PROTEIN, HUMAN; MYOSIN HEAVY CHAIN; NEF PROTEIN; NEF PROTEIN, HUMAN IMMUNODEFICIENCY VIRUS 1;

ANIMAL CELL; ANIMAL TISSUE; ARTICLE; CELL DIFFERENTIATION; CELL METABOLISM; CELL STRUCTURE; COMPLEX FORMATION; CONTROLLED STUDY; CYTOSKELETON; GENE; IMMUNOPRECIPITATION; IN VITRO STUDY; MASS SPECTROMETRY; MOUSE; MYH9 GENE; NEF GENE; NONHUMAN; PODOCYTE; PROTEIN EXPRESSION; PROTEIN FUNCTION; PROTEIN LOCALIZATION; PROTEIN PROTEIN INTERACTION; PROTEOMICS; ANIMAL; BIOSYNTHESIS; GENE EXPRESSION REGULATION; HUMAN; METABOLISM;

ACTINS; ANIMALS; CYTOSKELETAL PROTEINS; GENE EXPRESSION REGULATION; HUMANS; MEMBRANE PROTEINS; MICE; MOLECULAR MOTOR PROTEINS; MULTIPROTEIN COMPLEXES; MYOSIN HEAVY CHAINS; NEF GENE PRODUCTS, HUMAN IMMUNODEFICIENCY VIRUS; PODOCYTES; PROTEIN INTERACTION MAPS; PROTEOMICS;

EID: 84903291857     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0100660     Document Type: Article

References (57)

1. Vicente-Manzanares M, Ma X, Adelstein RS, Horwitz AR (2009) Non-muscle myosin II takes centre stage in cell adhesion and migration. Nat Rev Mol Cell Biol 10: 778-790.
2. Sellers JR (2000) Myosins: a diverse superfamily. Biochim Biophys Acta 1496: 3-22.
3. Seri M, Pecci A, Di Bari F, Cusano R, Savino M, et al. (2003) MYH9-related disease: May-Hegglin anomaly, Sebastian syndrome, Fechtner syndrome, and Epstein syndrome are not distinct entities but represent a variable expression of a single illness. Medicine (Baltimore) 82: 203-215. (Pubitemid 36578709)
4. Singh N, Nainani N, Arora P, Venuto RC (2009) CKD in MYH9-related disorders. Am J Kidney Dis 54: 732-740.
5. Sekine T, Konno M, Sasaki S, Moritani S, Miura T, et al. (2010) Patients with Epstein-Fechtner syndromes owing to MYH9 R702 mutations develop progressive proteinuric renal disease. Kidney Int 78: 207-214.
6. Kao WH, Klag MJ, Meoni LA, Reich D, Berthier-Schaad Y, et al. (2008) MYH9 is associated with nondiabetic end-stage renal disease in African Americans. Nat Genet 40: 1185-1192.
7. Kopp JB, Smith MW, Nelson GW, Johnson RC, Freedman BI, et al. (2008) MYH9 is a major-effect risk gene for focal segmental glomerulosclerosis. Nat Genet 40: 1175-1184.
8. Genovese G, Friedman DJ, Ross MD, Lecordier L, Uzureau P, et al. (2010) Association of trypanolytic ApoL1 variants with kidney disease in African Americans. Science 329: 841-845.
9. Cooke JN, Bostrom MA, Hicks PJ, Ng MC, Hellwege JN, et al. (2011) Polymorphisms in MYH9 are associated with diabetic nephropathy in European Americans. Nephrol Dial Transplant 27: 1505-1511.
10. Ashley-Koch AE, Okocha EC, Garrett ME, Soldano K, De Castro LM, et al. (2011) MYH9 and APOL1 are both associated with sickle cell disease nephropathy. Br J Haematol 155: 386-394.
11. Hays T, D'Agati VD, Garellek JA, Warren T, Trubin ME, et al. (2012) Glomerular MYH9 expression is reduced by HIV-1. AIDS 26: 797-803.
12. Johnstone DB, Zhang J, George B, Leon C, Gachet C, et al. (2011) Podocyte-specific deletion of Myh9 encoding non-muscle myosin heavy chain 2A predisposes mice to glomerulopathy. Mol Cell Biol 31: 2162-2170.
13. Barisoni L, Kopp JB (2003) Update in podocyte biology: putting one's best foot forward. Curr Opin Nephrol Hypertens 12: 251-258. (Pubitemid 36578059)
14. Garg P, Verma R, Holzman LB (2007) Slit diaphragm junctional complex and regulation of the cytoskeleton. Nephron Exp Nephrol 106: e67-72. (Pubitemid 47202765)
15. Saleem MA, O'Hare MJ, Reiser J, Coward RJ, Inward CD, et al. (2002) A conditionally immortalized human podocyte cell line demonstrating nephrin and podocin expression. J Am Soc Nephrol 13: 630-638. (Pubitemid 34183927)
16. Shankland SJ, Pippin JW, Reiser J, Mundel P (2007) Podocytes in culture: past, present, and future. Kidney Int 72: 26-36. (Pubitemid 47014453)
17. Mundel P, Reiser J, Kriz W (1997) Induction of differentiation in cultured rat and human podocytes. J Am Soc Nephrol 8: 697-705. (Pubitemid 27493583)
18. Stark C, Breitkreutz BJ, Reguly T, Boucher L, Breitkreutz A, et al. (2006) BioGRID: a general repository for interaction datasets. Nucleic Acids Res 34: D535-539.
19. Peri S, Navarro JD, Kristiansen TZ, Amanchy R, Surendranath V, et al. (2004) Human protein reference database as a discovery resource for proteomics. Nucleic Acids Res 32: D497-501. (Pubitemid 38094227)
20. Lynn DJ, Winsor GL, Chan C, Richard N, Laird MR, et al. (2008) InnateDB: facilitating systems-level analyses of the mammalian innate immune response. Mol Syst Biol 4: 218.
21. Hermjakob H, Montecchi-Palazzi L, Lewington C, Mudali S, Kerrien S, et al. (2004) IntAct: an open source molecular interaction database. Nucleic Acids Res 32: D452-455. (Pubitemid 38081697)
22. Kanehisa M, Goto S (2000) KEGG: kyoto encyclopedia of genes and genomes. Nucleic Acids Res 28: 27-30. (Pubitemid 30047706)
23. Lachmann A, Ma'ayan A (2009) KEA: kinase enrichment analysis. Bioinformatics 25: 684-686.
24. Chatr-aryamontri A, Ceol A, Palazzi LM, Nardelli G, Schneider MV, et al. (2007) MINT: the Molecular INTeraction database. Nucleic Acids Res 35: D572-574. (Pubitemid 46056272)
25. Mewes HW, Amid C, Arnold R, Frishman D, Guldener U, et al. (2004) MIPS: analysis and annotation of proteins from whole genomes. Nucleic Acids Res 32: D41-44. (Pubitemid 38081600)
26. Xenarios I, Rice DW, Salwinski L, Baron MK, Marcotte EM, et al. (2000) DIP: the database of interacting proteins. Nucleic Acids Res 28: 289-291. (Pubitemid 30047782)
27. Bader GD, Betel D, Hogue CW (2003) BIND: the Biomolecular Interaction Network Database. Nucleic Acids Res 31: 248-250. (Pubitemid 36150376)
28. Beuming T, Skrabanek L, Niv MY, Mukherjee P, Weinstein H (2005) PDZBase: a protein-protein interaction database for PDZ-domains. Bioinformatics 21: 827-828. (Pubitemid 40439423)
29. Yu H, Tardivo L, Tam S, Weiner E, Gebreab F, et al. (2011) Next-generation sequencing to generate interactome datasets. Nat Methods 8: 478-480.
30. Stelzl U, Worm U, Lalowski M, Haenig C, Brembeck FH, et al. (2005) A human protein-protein interaction network: a resource for annotating the proteome. Cell 122: 957-968. (Pubitemid 41345212)
31. Ewing RM, Chu P, Elisma F, Li H, Taylor P, et al. (2007) Large-scale mapping of human protein-protein interactions by mass spectrometry. Mol Syst Biol 3: 89.
32. Rual JF, Venkatesan K, Hao T, Hirozane-Kishikawa T, Dricot A, et al. (2005) Towards a proteome-scale map of the human protein-protein interaction network. Nature 437: 1173-1178. (Pubitemid 41509356)
33. Ma'ayan A, Jenkins SL, Neves S, Hasseldine A, Grace E, et al. (2005) Formation of regulatory patterns during signal propagation in a Mammalian cellular network. Science 309: 1078-1083. (Pubitemid 41134466)
34. Lachmann A, Ma'ayan A (2010) Lists2Networks: integrated analysis of gene/protein lists. BMC Bioinformatics 11: 87.
35. Kelder T, van Iersel MP, Hanspers K, Kutmon M, Conklin BR, et al. (2012) WikiPathways: building research communities on biological pathways. Nucleic Acids Res 40: D1301-1307.
36. Clauset A (2005) Finding local community structure in networks. Phys Rev E Stat Nonlin Soft Matter Phys 72: 026132.
37. Ruepp A, Waegele B, Lechner M, Brauner B, Dunger-Kaltenbach I, et al. (2010) CORUM: the comprehensive resource of mammalian protein complexes-2009. Nucleic Acids Res 38: D497-501.
38. Dannenfelser R, Clark NR, Ma'ayan A (2012) Genes2FANs: connecting genes through functional association networks. BMC Bioinformatics 13: 156.
39. Vastrik I, D'Eustachio P, Schmidt E, Gopinath G, Croft D, et al. (2007) Reactome: a knowledge base of biologic pathways and processes. Genome Biol 8: R39.
40. Ashburner M, Ball CA, Blake JA, Botstein D, Butler H, et al. (2000) Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat Genet 25: 25-29. (Pubitemid 30257031)
41. Chatr-aryamontri A, Ceol A, Peluso D, Nardozza A, Panni S, et al. (2009) VirusMINT: a viral protein interaction database. Nucleic Acids Res 37: D669-673.
42. Sonnhammer EL, Eddy SR, Birney E, Bateman A, Durbin R (1998) Pfam: multiple sequence alignments and HMM-profiles of protein domains. Nucleic Acids Res 26: 320-322. (Pubitemid 28291550)
43. Apweiler R, Attwood TK, Bairoch A, Bateman A, Birney E, et al. (2001) The InterPro database, an integrated documentation resource for protein families, domains and functional sites. Nucleic Acids Res 29: 37-40. (Pubitemid 32054401)
44. Hamosh A, Scott AF, Amberger J, Bocchini C, Valle D, et al. (2002) Online Mendelian Inheritance in Man (OMIM), a knowledgebase of human genes and genetic disorders. Nucleic Acids Res 30: 52-55. (Pubitemid 34679502)
45. Lu TC, He JC, Wang ZH, Feng X, Fukumi-Tominaga T, et al. (2008) HIV-1 Nef disrupts the podocyte actin cytoskeleton by interacting with diaphanous interacting protein. J Biol Chem 283: 8173-8182.
46. Chuang PY, He JC (2009) Signaling in regulation of podocyte phenotypes. Nephron Physiol 111: 9-15.
47. Wei CC, Lalwani AK, Mhatre AN (2010) In vitro expression and characterization of MYH9 mutant alleles linked to hereditary hearing loss. Otolaryngol Head Neck Surg 142: 699-703.
48. Hall A (1998) Rho GTPases and the actin cytoskeleton. Science 279: 509-514.
49. Asanuma K, Kim K, Oh J, Giardino L, Chabanis S, et al. (2005) Synaptopodin regulates the actin-bundling activity of alpha-actinin in an isoform-specific manner. J Clin Invest 115: 1188-1198. (Pubitemid 40629037)
50. Zhu L, Jiang R, Aoudjit L, Jones N, Takano T (2011) Activation of RhoA in podocytes induces focal segmental glomerulosclerosis. J Am Soc Nephrol 22: 1621-1630.
51. He JC, Husain M, Sunamoto M, D'Agati VD, Klotman ME, et al. (2004) Nef stimulates proliferation of glomerular podocytes through activation of Srcdependent Stat3 and MAPK1,2 pathways. J Clin Invest 114: 643-651. (Pubitemid 39578754)
52. Hanna Z, Kay DG, Rebai N, Guimond A, Jothy S, et al. (1998) Nef harbors a major determinant of pathogenicity for an AIDS-like disease induced by HIV-1 in transgenic mice. Cell 95: 163-175. (Pubitemid 28473778)
53. Hanna Z, Weng X, Kay DG, Poudrier J, Lowell C, et al. (2001) The pathogenicity of human immunodeficiency virus (HIV) type 1 Nef in CD4C/HIV transgenic mice is abolished by mutation of its SH3-binding domain, and disease development is delayed in the absence of Hck. J Virol 75: 9378-9392. (Pubitemid 32851942)
54. Faul C, Asanuma K, Yanagida-Asanuma E, Kim K, Mundel P (2007) Actin up: regulation of podocyte structure and function by components of the actin cytoskeleton. Trends Cell Biol 17: 428-437. (Pubitemid 47499042)
55. Li Y, Friedmann DR, Mhatre AN, Lalwani AK (2008) MYH9-siRNA and MYH9 mutant alleles: expression in cultured cell lines and their effects upon cell structure and function. Cell Motil Cytoskeleton 65: 393-405. (Pubitemid 351657154)
56. Tan CM, Chen EY, Dannenfesler R, Clark NR, Ma'ayan A (2013) Network2canvas: network visulizations on a canvas with enrichment analysis. Bioinformatics 29: 1872-1878.
57. Chen EY, Tan CM, Kou Y, Duan Q, Wang Z, et al. (2013) Enrichr: interactive and collaborative HTML5 gene list enrichment analysis tool. BMC Bioinformatics 14: 128.