The Regulatory Machinery of Neurodegeneration in In Vitro Models of Amyotrophic Lateral Sclerosis

Cell Reports

Volumn 12, Issue 2, 2015, Pages 335-345

  Ikiz, Burcin ^a,b,c   Alvarez, Mariano J ^a   Ré, Diane B ^a,b   Le Verche, Virginia ^a,b   Politi, Kristin ^a,b   Lotti, Francesco ^a,b   Phani, Sudarshan ^a,b   Pradhan, Radhika ^a,b   Yu, Changhao ^a,b   Croft, Gist F ^a,b   Jacquier, Arnaud ^a,b   Henderson, Christopher E ^a,b,d   Califano, Andrea ^a   Przedborski, Serge ^a,b  

^a Columbia University ^*  (United States)

^b Department of Medicine   (United States)

^c REGENERON PHARMACEUTICALS INC   (United States)

^d BIOGEN   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

IMMUNOGLOBULIN ENHANCER BINDING PROTEIN; CONDITIONED MEDIUM; HB9 PROTEIN, MOUSE; HOMEODOMAIN PROTEIN; SMALL INTERFERING RNA; SUPEROXIDE DISMUTASE; TRANSCRIPTION FACTOR; TRANSCRIPTOME;

AMYOTROPHIC LATERAL SCLEROSIS; ANIMAL CELL; ARTICLE; ASTROCYTE; CELL SPECIFICITY; CELL SURVIVAL; CONTROLLED STUDY; EMBRYO; GENE EXPRESSION; GENOME ANALYSIS; HUMAN; HUMAN CELL; IN VITRO STUDY; MOUSE; NERVE CELL NECROSIS; NERVE DEGENERATION; NEUROPATHOLOGY; NONHUMAN; PRIORITY JOURNAL; REGULATORY MECHANISM; SIGNAL TRANSDUCTION; SPINAL CORD MOTONEURON; ANIMAL; ANTAGONISTS AND INHIBITORS; APOPTOSIS; BIOLOGICAL MODEL; CELL CULTURE; CONDITIONED MEDIUM; CYTOLOGY; DRUG EFFECTS; GENETICS; METABOLISM; MOTONEURON; MUTATION; PATHOLOGY; PHARMACOLOGY; RNA INTERFERENCE; TRANSGENIC MOUSE;

AMYOTROPHIC LATERAL SCLEROSIS; ANIMALS; APOPTOSIS; ASTROCYTES; CELLS, CULTURED; CULTURE MEDIA, CONDITIONED; HOMEODOMAIN PROTEINS; HUMANS; MICE; MICE, TRANSGENIC; MODELS, BIOLOGICAL; MOTOR NEURONS; MUTATION; NF-KAPPA B; RNA INTERFERENCE; RNA, SMALL INTERFERING; SUPEROXIDE DISMUTASE; TRANSCRIPTION FACTORS; TRANSCRIPTOME;

EID: 84937525417     PISSN: None     EISSN: 22111247     Source Type: Journal    
DOI: 10.1016/j.celrep.2015.06.019     Document Type: Article

References (40)

1. Akizuki M., Yamashita H., Uemura K., Maruyama H., Kawakami H., Ito H., Takahashi R. Optineurin suppression causes neuronal cell death via NF-κB pathway. J. Neurochem. 2013, 126:699-704.
2. Aleyasin H., Cregan S.P., Iyirhiaro G., O'Hare M.J., Callaghan S.M., Slack R.S., Park D.S. Nuclear factor-(kappa)B modulates the p53 response in neurons exposed to DNA damage. J. Neurosci. 2004, 24:2963-2973.
3. Aytes A., Mitrofanova A., Lefebvre C., Alvarez M.J., Castillo-Martin M., Zheng T., Eastham J.A., Gopalan A., Pienta K.J., Shen M.M., et al. Cross-species regulatory network analysis identifies a synergistic interaction between FOXM1 and CENPF that drives prostate cancer malignancy. Cancer Cell 2014, 25:638-651.
4. Basso K., Margolin A.A., Stolovitzky G., Klein U., Dalla-Favera R., Califano A. Reverse engineering of regulatory networks in human B cells. Nat. Genet. 2005, 37:382-390.
5. Beronja S., Janki P., Heller E., Lien W.H., Keyes B.E., Oshimori N., Fuchs E. RNAi screens in mice identify physiological regulators of oncogenic growth. Nature 2013, 501:185-190.
6. Carro M.S., Lim W.K., Alvarez M.J., Bollo R.J., Zhao X., Snyder E.Y., Sulman E.P., Anne S.L., Doetsch F., Colman H., et al. The transcriptional network for mesenchymal transformation of brain tumours. Nature 2010, 463:318-325.
7. Chang J., Gilman S.R., Chiang A.H., Sanders S.J., Vitkup D. Genotype to phenotype relationships in autism spectrum disorders. Nat. Neurosci. 2015, 18:191-198.
8. Chen J.C., Alvarez M.J., Talos F., Dhruv H., Rieckhof G.E., Iyer A., Diefes K.L., Aldape K., Berens M., Shen M.M., Califano A. Identification of causal genetic drivers of human disease through systems-level analysis of regulatory networks. Cell 2014, 159:402-414.
9. Crosio C., Valle C., Casciati A., Iaccarino C., Carrì M.T. Astroglial inhibition of NF-κB does not ameliorate disease onset and progression in a mouse model for amyotrophic lateral sclerosis (ALS). PLoS ONE 2011, 6:e17187.
10. Dillon C.P., Oberst A., Weinlich R., Janke L.J., Kang T.B., Ben-Moshe T., Mak T.W., Wallach D., Green D.R. Survival function of the FADD-CASPASE-8-cFLIP(L) complex. Cell Rep. 2012, 1:401-407.
11. Dudoit S., Gentleman R.C., Quackenbush J. Open source software for the analysis of microarray data. Biotechniques 2003, (Suppl):45-51.
12. Frakes A.E., Ferraiuolo L., Haidet-Phillips A.M., Schmelzer L., Braun L., Miranda C.J., Ladner K.J., Bevan A.K., Foust K.D., Godbout J.P., et al. Microglia induce motor neuron death via the classical NF-κB pathway in amyotrophic lateral sclerosis. Neuron 2014, 81:1009-1023.
13. Garden G.A., La Spada A.R. Intercellular (mis)communication in neurodegenerative disease. Neuron 2012, 73:886-901.
14. Gentleman R.C., Carey V.J., Bates D.M., Bolstad B., Dettling M., Dudoit S., Ellis B., Gautier L., Ge Y., Gentry J., et al. Bioconductor: open software development for computational biology and bioinformatics. Genome Biol. 2004, 5:R80.
15. Ghosh G., Wang V.Y., Huang D.B., Fusco A. NF-κB regulation: lessons from structures. Immunol. Rev. 2012, 246:36-58.
16. Gilman S.R., Chang J., Xu B., Bawa T.S., Gogos J.A., Karayiorgou M., Vitkup D. Diverse types of genetic variation converge on functional gene networks involved in schizophrenia. Nat. Neurosci. 2012, 15:1723-1728.
17. Hitomi J., Christofferson D.E., Ng A., Yao J., Degterev A., Xavier R.J., Yuan J. Identification of a molecular signaling network that regulates a cellular necrotic cell death pathway. Cell 2008, 135:1311-1323.
18. Jiang Y.M., Yamamoto M., Kobayashi Y., Yoshihara T., Liang Y., Terao S., Takeuchi H., Ishigaki S., Katsuno M., Adachi H., et al. Gene expression profile of spinal motor neurons in sporadic amyotrophic lateral sclerosis. Ann. Neurol. 2005, 57:236-251.
19. Klein U., Tu Y., Stolovitzky G.A., Keller J.L., Haddad J., Miljkovic V., Cattoretti G., Califano A., Dalla-Favera R. Transcriptional analysis of the B cell germinal center reaction. Proc. Natl. Acad. Sci. USA 2003, 100:2639-2644.
20. Kobori M., Yang Z., Gong D., Heissmeyer V., Zhu H., Jung Y.K., Gakidis M.A., Rao A., Sekine T., Ikegami F., et al. Wedelolactone suppresses LPS-induced caspase-11 expression by directly inhibiting the IKK complex. Cell Death Differ. 2004, 11:123-130.
21. Langmead B., Trapnell C., Pop M., Salzberg S.L. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol. 2009, 10:R25.
22. Lefebvre C., Rajbhandari P., Alvarez M.J., Bandaru P., Lim W.K., Sato M., Wang K., Sumazin P., Kustagi M., Bisikirska B.C., et al. A human B-cell interactome identifies MYB and FOXM1 as master regulators of proliferation in germinal centers. Mol. Syst. Biol. 2010, 6:377.
23. Margolin A.A., Nemenman I., Basso K., Wiggins C., Stolovitzky G., Dalla Favera R., Califano A. ARACNE: an algorithm for the reconstruction of gene regulatory networks in a mammalian cellular context. BMC Bioinformatics 2006, 7(Suppl 1):S7.
24. Maruyama H., Morino H., Ito H., Izumi Y., Kato H., Watanabe Y., Kinoshita Y., Kamada M., Nodera H., Suzuki H., et al. Mutations of optineurin in amyotrophic lateral sclerosis. Nature 2010, 465:223-226.
25. Mattson M.P., Camandola S. NF-kappaB in neuronal plasticity and neurodegenerative disorders. J. Clin. Invest. 2001, 107:247-254.
26. Micheau O., Lens S., Gaide O., Alevizopoulos K., Tschopp J. NF-kappaB signals induce the expression of c-FLIP. Mol. Cell. Biol. 2001, 21:5299-5305.
27. Nagai M., Re D.B., Nagata T., Chalazonitis A., Jessell T.M., Wichterle H., Przedborski S. Astrocytes expressing ALS-linked mutated SOD1 release factors selectively toxic to motor neurons. Nat. Neurosci. 2007, 10:615-622.
28. Papadeas S.T., Kraig S.E., O'Banion C., Lepore A.C., Maragakis N.J. Astrocytes carrying the superoxide dismutase 1 (SOD1G93A) mutation induce wild-type motor neuron degeneration in vivo. Proc. Natl. Acad. Sci. USA 2011, 108:17803-17808.
29. Pasparakis M., Vandenabeele P. Necroptosis and its role in inflammation. Nature 2015, 517:311-320.
30. Raoul C., Estévez A.G., Nishimune H., Cleveland D.W., deLapeyrière O., Henderson C.E., Haase G., Pettmann B. Motoneuron death triggered by a specific pathway downstream of Fas. potentiation by ALS-linked SOD1 mutations. Neuron 2002, 35:1067-1083.
31. Re D.B., Le Verche V., Yu C., Amoroso M.W., Politi K.A., Phani S., Ikiz B., Hoffmann L., Koolen M., Nagata T., et al. Necroptosis drives motor neuron death in models of both sporadic and familial ALS. Neuron 2014, 81:1001-1008.
32. Renton A.E., Chiò A., Traynor B.J. State of play in amyotrophic lateral sclerosis genetics. Nat. Neurosci. 2014, 17:17-23.
33. Rosenbluh J., Nijhawan D., Cox A.G., Li X., Neal J.T., Schafer E.J., Zack T.I., Wang X., Tsherniak A., Schinzel A.C., et al. β-Catenin-driven cancers require a YAP1 transcriptional complex for survival and tumorigenesis. Cell 2012, 151:1457-1473.
34. Subramanian A., Tamayo P., Mootha V.K., Mukherjee S., Ebert B.L., Gillette M.A., Paulovich A., Pomeroy S.L., Golub T.R., Lander E.S., Mesirov J.P. Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Proc. Natl. Acad. Sci. USA 2005, 102:15545-15550.
35. Swarup V., Phaneuf D., Dupré N., Petri S., Strong M., Kriz J., Julien J.P. Deregulation of TDP-43 in amyotrophic lateral sclerosis triggers nuclear factor κB-mediated pathogenic pathways. J. Exp. Med. 2011, 208:2429-2447.
36. Tothill R.W., Tinker A.V., George J., Brown R., Fox S.B., Lade S., Johnson D.S., Trivett M.K., Etemadmoghadam D., Locandro B., et al. Novel molecular subtypes of serous and endometrioid ovarian cancer linked to clinical outcome. Clin. Cancer Res. 2008, 14:5198-5208. Australian Ovarian Cancer Study Group.
37. Wichterle H., Lieberam I., Porter J.A., Jessell T.M. Directed differentiation of embryonic stem cells into motor neurons. Cell 2002, 110:385-397.
38. Xu R., Tao Y., Wu C., Yi J., Yang Y., Yang R., Hong D. Domoic acid induced spinal cord lesions in adult mice: evidence for the possible molecular pathways of excitatory amino acids in spinal cord lesions. Neurotoxicology 2008, 29:700-707.
39. Yamanaka K., Chun S.J., Boillee S., Fujimori-Tonou N., Yamashita H., Gutmann D.H., Takahashi R., Misawa H., Cleveland D.W. Astrocytes as determinants of disease progression in inherited amyotrophic lateral sclerosis. Nat. Neurosci. 2008, 11:251-253.
40. Zhang B., Gaiteri C., Bodea L.G., Wang Z., McElwee J., Podtelezhnikov A.A., Zhang C., Xie T., Tran L., Dobrin R., et al. Integrated systems approach identifies genetic nodes and networks in late-onset Alzheimer's disease. Cell 2013, 153:707-720.