Elucidation of the avian nucleolar proteome by quantitative proteomics using SILAC and changes in cells infected with the coronavirus infectious bronchitis virus.
The nucleolus is a dynamic subnuclear compartment involved in ribosome subunit biogenesis, regulation of cell stress and modulation of cellular growth and the cell cycle, among other functions. The nucleolus is composed of complex protein/protein and protein/RNA interactions. It is a target of virus infection with many viral proteins being shown to localize to the nucleolus during infection. Perturbations to the structure of the nucleolus and its proteome have been predicted to play a role in both cellular and infectious disease. Stable isotope labeling with amino acids in cell culture coupled to LC-MS/MS with bioinformatic analysis using Ingenuity Pathway Analysis was used to investigate whether the nucleolar proteome altered in virus-infected cells. In this study, the avian nucleolar proteome was defined in the absence and presence of virus, in this case the positive strand RNA virus, avian coronavirus infectious bronchitis virus. Data sets, potential protein changes and the functional consequences of virus infection were validated using independent assays. These demonstrated that specific rather than generic changes occurred in the nucleolar proteome in infectious bronchitis virus-infected cells.
Emmott
Edward
E
Institute of Molecular and Cellular Biology, Faculty of Biological Sciences, University of Leeds, Leeds, UK.
Smith
Catriona
C
Emmett
Stevan R
SR
Dove
Brian K
BK
Hiscox
Julian A
JA
D000595:Amino Acid Sequence; D000818:Animals; D002460:Cell Line; D002466:Cell Nucleolus / Q000378:metabolism / Q000821:virology*; D002645:Chickens; D018352:Coronavirus Infections / Q000503:physiopathology* / Q000821:virology; D054884:Host-Pathogen Interactions; D001351:Infectious bronchitis virus / Q000502:physiology*; D008969:Molecular Sequence Data; D020543:Proteome / Q000032:analysis / Q000378:metabolism*; D040901:Proteomics / Q000379:methods*
D020543:Proteome
Virology. 2008 Oct 25;380(2):191-202
18775548
Cell Cycle. 2007 Apr 1;6(7):863-7
17426449
Avian Pathol. 2007 Aug;36(4):269-74
17620171
Nat Biotechnol. 2009 Jul;27(7):598-9
19587657
Cell Microbiol. 2006 Jul;8(7):1147-57
16819967
EMBO Rep. 2009 Mar;10(3):231-8
19229283
Nat Biotechnol. 2008 Dec;26(12):1367-72
19029910
Nat Rev Microbiol. 2007 Feb;5(2):119-27
17224921
Biochem J. 2008 Nov 1;415(3):345-51
18729828
Arch Virol. 2002 Jun;147(6):1077-89
12111420
Virology. 2006 Feb 20;345(2):337-45
16298409
Eur J Histochem. 2005 Apr-Jun;49(2):117-23
15967739
J Virol. 2007 Apr;81(8):4298-304
17202223
Mol Biol Cell. 2002 Nov;13(11):4100-9
12429849
Proteomics. 2009 Sep;9(18):4276-83
19662629
Mol Biol Cell. 2005 Jan;16(1):260-9
15496452
Mol Cell Proteomics. 2010 Sep;9(9):1920-36
20467043
Mol Cell Proteomics. 2010 Jan;9(1):117-30
19812395
Virology. 2007 Sep 1;365(2):435-45
17493653
Curr Biol. 2002 Jan 8;12(1):1-11
11790298
Nat Rev Mol Cell Biol. 2007 Jul;8(7):574-85
17519961
J Interferon Cytokine Res. 2001 Dec;21(12):1071-7
11798465
Methods Mol Biol. 2005;296:197-218
15576934
Nucleic Acids Res. 2009 Jan;37(Database issue):D181-4
18984612
EMBO Rep. 2009 Jan;10(1):35-40
19079131
Proteomics. 2010 Nov;10(22):4077-86
20661956
Mol Cell Proteomics. 2010 Nov;9(11):2438-59
20647383
J Virol. 2006 Apr;80(8):4147-56
16571830
Virus Res. 2003 Sep;95(1-2):13-22
12921992
Traffic. 2006 Jul;7(7):833-48
16734668