Meta-analysis of the expression profiles of the Arabidopsis ESCRT machinery

Plant Signaling and Behavior

Volumn 6, Issue 12, 2011, Pages 1897-1903

  Richardson, Lynn G L ^a   Mullen, Robert T ^a  

^a UNIVERSITY OF GUELPH   (Canada)

Author keywords

(co )expression; Arabidopsis; E northern; Endosome; Escrt; Microarray; Multivesicular body

Indexed keywords

ESCRT PROTEIN; PROTEOME; TRANSCRIPTOME;

ARABIDOPSIS; ARTICLE; DNA MICROARRAY; GENE EXPRESSION REGULATION; GENETICS; META ANALYSIS; METABOLISM;

ARABIDOPSIS; ENDOSOMAL SORTING COMPLEXES REQUIRED FOR TRANSPORT; GENE EXPRESSION REGULATION, PLANT; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; PROTEOME; TRANSCRIPTOME;

ARABIDOPSIS; ARABIDOPSIS THALIANA; EUKARYOTA; MAMMALIA;

EID: 84856652663     PISSN: 15592316     EISSN: 15592324     Source Type: Journal    
DOI: 10.4161/psb.6.12.18023     Document Type: Article

References (43)

1. Roxrud I, Stenmark H, Malerød L. ESCRT & Co. Biol Cell 2010; 102:293-318; PMID:20222872; DOI:10.1042/BC20090161.
2. Hurley JH, Hanson PI. Membrane budding and scission by the ESCRT machinery: it's all in the neck. Nat Rev Mol Cell Biol 2010; 11:556-66; PMID:20588296; DOI:10.1038/nrm2937.
3. Henne WM, Buchkovich NJ, Emr SD. The ESCRT pathway. Dev Cell 2011; 21:77-91; PMID:21763610; DOI:10.1016/j.devcel.2011.05.015.
4. Winter V, Hauser MT. Exploring the ESCRTing machinery in eukaryotes. Trends Plant Sci 2006; 11:115-23; PMID:16488176; DOI:10.1016/j.tplants.2006.01.008.
5. Leung KF, Dacks JB, Field MC. Evolution of the multivesicular body ESCRT machinery: retention across the eukaryotic lineage. Traffic 2008; 9:1698-716; PMID:18637903; DOI:10.1111/j.1600-0854.2008.00797.x.
6. Herman EK, Walker G, van der Giezen M, Dacks JB. Multivesicular bodies in the enigmatic amoeboflagellate Breviata anathema and the evolution of ESCRT 0. J Cell Sci 2011; 124:613-21; PMID:21266469; DOI:10.1242/jcs.078436.
7. Samson RY, Bell SD. Ancient ESCRTs and the evolution of binary fission. Trends Microbiol 2009; 17:507-13; PMID:19783442; DOI:10.1016/j.tim.2009.08.003.
8. Michelet X, Djeddi A, Legouis R. Developmental and cellular functions of the ESCRT machinery in pluricellular organisms. Biol Cell 2010; 102:191-202; PMID:20059450; DOI:10.1042/BC20090145.
9. Fader CM, Colombo MI. Autophagy and multivesicular bodies: two closely related partners. Cell Death Differ 2009; 16:70-8; PMID:19008921; DOI:10.1038/cdd.2008.168.
10. Caballe A, Martin-Serrano J. ESCRT machinery and cytokinesis: the road to daughter cell separation. Traffic 2011; 12:1318-26; PMID:21722282; DOI:10.1111/j.1600-0854.2011.01244.x.
11. Carlton JG, Martin-Serrano J. The ESCRT machinery: new functions in viral and cellular biology. Biochem Soc Trans 2009; 37:195-9; PMID:19143630; DOI:10.1042/BST0370195.
12. Barajas D, Jiang Y, Nagy PD. A unique role for the host ESCRT proteins in replication of Tomato bushy stunt virus. PLoS Pathog 2009; 5:1000705; PMID:20041173; DOI:10.1371/journal.ppat.1000705.
13. Shahriari M, Keshavaiah C, Scheuring D, Sabovljevic A, Pimpl P, Häusler RE, et al. The AAA-type ATPase AtSKD1 contributes to vacuolar maintenance of Arabidopsis thaliana. Plant J 2010; 64:71-85; PMID:20663085.
14. Richardson LGL, Howard ASM, Khuu N, Gidda SK, McCartney A, Morphy BJ, et al. Protein-protein interaction network and subcellular localization of the Arabidopsis thaliana ESCRT machinery. Front Plant Sci 2011; In press; DOI:10.3389/fpls.2011.00020.
15. Shahriari M, Richter K, Keshavaiah C, Sabovljevic A, Huelskamp M, Schellmann S. The Arabidopsis ESCRT protein-protein interaction network. Plant Mol Biol 2011; 76:85-96; PMID:21442383; DOI:10.1007/s11103-011-9770-4.
16. Mullen RT, McCartney AW, Flynn CR, Smith GST. Peroxisome biogenesis and the formation of multivesicular peroxisomes during tombusvirus infection: a role for ESCRT? Can J Bot 2006; 84:551-64; DOI: 10.1139/b06-005.
17. Redman JC, Haas BJ, Tanimoto G, Town CD. Development and evaluation of an Arabidopsis whole genome Affymetrix probe array. Plant J 2004; 38:545-61; PMID:15086809; DOI:10.1111/j.1365-313X.2004.02061.x.
18. Otegui MS, Spitzer C. Endosomal functions in plants. Traffic 2008; 9:1589-98; PMID:18627577; DOI:10.1111/j.1600-0854.2008.00787.x.
19. Schellmann S, Pimpl P. Coats of endosomal protein sorting: retromer and ESCRT. Curr Opin Plant Biol 2009; 12:670-6; PMID:19836992; DOI:10.1016/j.pbi.2009.09.005.
20. Tian Q, Olsen L, Sun B, Lid SE, Brown RC, Lemmon BE, et al. Subcellular localization and functional domain studies of DEFECTIVE KERNEL1 in Maize and Arabidopsis suggest a model for aleurone cell fate specification involving Crinkly4 and Supernumerary Aleurone Layer1. Plant Cell 2007; 19:3127-45; PMID:17933905; DOI:10.1105/tpc.106.048868.
21. Spitzer C, Reyes FC, Buono R, Sliwinski MK, Haas TJ, Otegui M. The ESCRT-related CHMP1A and B proteins mediate multivesicular body sorting of auxin carriers in Arabidopsis and are required for plant development. Plant Cell 2009; 21:749-66; PMID:19304934; DOI:10.1105/tpc.108.064865.
22. Borges F, Gomes G, Gardner R, Moreno N, McCormick S, Feijó JA, et al. Comparative transcriptomics of Arabidopsis sperm cells. Plant Physiol 2008; 148:1168-81; PMID:18667720; DOI:10.1104/pp.108.125229.
23. Haas TJ, Sliwinski MK, Martínez DE, Preuss M, Ebine K, Ueda T, et al. The Arabidopsis AAA ATPase SKD1 is involved in multivesicular endosome function and interacts with its positive regulator LYSTINTERACTING PROTEIN 5. Plant Cell 2007; 19:1295-312; PMID:17468262; DOI:10.1105/tpc.106.049346.
24. Spitzer C, Schellmann S, Sabovljevic A, Shahriari M, Keshavaiah C, Bechtold N, et al. The Arabidopsis elch mutant reveals functions of an ESCRT component in cytokinesis. Development 2006; 133:4679-89; PMID:17090720; DOI:10.1242/dev.02654.
25. Zimmermann P, Hirsch-Hoffmann M, Hennig L, Gruissem W. GENEVESTIGATOR. Arabidopsis microarray database and analysis toolbox. Plant Physiol 2004; 136:2621-32; PMID:15375207; DOI:10.1104/pp.104.046367.
26. Wildermuth MC, Dewdney J, Wu G, Ausubel FM. Isochorismate synthase is required to synthesize salicylic acid for plant defence. Nature 2001; 414:562-5; PMID:11734859; DOI:10.1038/35107108.
27. Kirik V, Bouyer D, Schöbinger U, Bechtold N, Herzog M, Bonneville JM, et al. CPR5 is involved in cell proliferation and cell death control and encodes a novel transmembrane protein. Curr Biol 2001; 11:1891-5; PMID:11728314; DOI:10.1016/S0960-9822(01)00590-5.
28. Rodriguez MC, Petersen M, Mundy J. Mitogenactivated protein kinase signaling in plants. Annu Rev Plant Biol 2010; 61:621-49; PMID:20441529; DOI:10.1146/annurev-arplant-042809-112252.
29. Weiss ER, Göttlinger H. The role of cellular factors in promoting HIV budding. J Mol Biol 2011; 410:525-33; PMID:21762798; DOI:10.1016/j.jmb.2011.04.055.
30. Barajas D, Nagy PD. Ubiquitination of tombusvirus p33 replication protein plays a role in virus replication and binding to the host Vps23p ESCRT protein. Virology 2010; 397:358-68; PMID:20004458; DOI:10.1016/j.virol.2009.11.010.
31. Mullen RT, Gidda SK. The role of peroxisomes in viral replication. In: Emergent Functions of the Peroxisome. Terlecky SR, Titorenko VI, Eds. Research Signpost 2009.
32. Meyers BC, Tej SS, Vu TH, Haudenschild CD, Agrawal V, Edberg SB, et al. The use of MPSS for whole-genome transcriptional analysis in Arabidopsis. Genome Res 2004; 14:1641-53; PMID:15289482; DOI:10.1101/gr.2275604.
33. Baerenfaller K, Grossmann J, Grobei MA, Hull R, Hirsch-Hoffmann M, Yalovsky S, et al. Genome-Scale proteomics reveals Arabidopsis thaliana gene models and proteome dynamics. Science 2008; 320:938-41; PMID:18436743; DOI:10.1126/science.1157956.
34. Baginsky S, Hennig L, Zimmermann P, Gruissem W. Gene expression analysis, proteomics and network discovery. Plant Physiol 2010; 152:402-10; PMID:20018595; DOI:10.1104/pp.109.150433.
35. Shields SB, Piper RC. How ubiquitin functions with ESCRTs. Traffic 2011; 12:1306-17; PMID:21722280; DOI:10.1111/j.1600-0854.2011.01242.x.
36. Robinson DG, Jiang L, Schumacher K. The endosomal system of plants: charting new and familiar territories. Plant Physiol 2008; 147:1482-92; PMID:18678740; DOI:10.1104/pp.108.120105.
37. Kilian J, Whitehead D, Horak J, Wanke D, Weinl S, Batistic O, et al. The AtGen-Express global stress expression data set: protocols, evaluation and model data analysis of UV-B light, drought and cold stress responses. Plant J 2007; 50:347-63; PMID:17376166; DOI:10.1111/j.1365-313X.2007.03052.x.
38. Goda H, Sasaki E, Akiyama K, Maruyama-Nakashita A, Nakabayashi K, Li W, et al. The AtGenExpress hormone and chemical treatment data set: experimental design, data evaluation, model data analysis and data access. Plant J 2008; 55:526-42; PMID:18419781; DOI:10.1111/j.1365-313X.2008.03510.x.
39. Toufighi K, Brady SM, Austin R, Ly E, Provart NJ. The botany array resource: e-northerns, expression angling and promoter analyses. Plant J 2005; 43:153-63; PMID:15960624; DOI:10.1111/j.1365-313X.2005.02437.x.
40. Srinivasasainagendra V, Page GP, Mehta T, Coulibaly I, Loraine AE. CressExpress: A tool for large-scale mining of expression data from Arabidopsis. Plant Physiol 2008; 147:1004-16; PMID:18467456; DOI:10.1104/pp.107.115535.
41. Akiyama K, Chikayama E, Yuasa H, Shimada Y, Tohge T, Shinozaki K, et al. PRIMe: a Web site that assembles tools for metabolomics and transcriptomics. In Silico Biol 2008; 8:339-45; PMID:19032166.
42. Jung KH, Dardick C, Bartley LE, Cao P, Phetsom J, Canlas P, et al. Refinement of light-responsive transcript lists using rice oligonucleotide arrays: evaluation of gene-redundancy. PLoS ONE 2008; 3:3337; PMID:18836531; DOI:10.1371/journal.pone.0003337.
43. Poole RL. The TAIR database. Methods Mol Biol 2007; 406:179-212; PMID:18287693; DOI:10.1007/978-1-59745-535-0_8.