A transcriptomic analysis of the EK1.Br strain of human fibroblastoid keratocytes: The effects of growth, quiescence and senescence

Experimental Eye Research

Volumn 88, Issue 2, 2009, Pages 277-285

  Kipling, David ^b   Jones, Dawn L ^a   Smith, S Kaye ^b   Giles, Peter J ^b   Jennert Burston, Katrin ^a   Ibrahim, Badr ^a   Sheerin, Angela N P ^a   Evans, Amy J C ^b   Rhys Willams, William ^c   Faragher, Richard G A ^a  

^a UNIVERSITY OF BRIGHTON   (United Kingdom)

^b CARDIFF UNIVERSITY   (United Kingdom)

^c Destiny Pharma Ltd   (United Kingdom)

Author keywords

cornea; fibroblast; gene expression; keratocyte; senescence

Indexed keywords

OLIGONUCLEOTIDE;

ARTICLE; CELL DEDIFFERENTIATION; COMPARATIVE STUDY; CONTROLLED STUDY; CORNEA CELL; CORNEA ENDOTHELIUM; DATA MINING; DNA MICROARRAY; FIBROBLAST; FINGER DERMATOGLYPHICS; HUMAN; LUNG FIBROBLAST; PHENOTYPE; PRIORITY JOURNAL; SENESCENCE; TRANSCRIPTOMICS;

CELL AGING; CELL CYCLE; CELL LINE; CELL PROLIFERATION; CORNEA; DATABASES, GENETIC; GENE EXPRESSION PROFILING; HUMANS; KERATINOCYTES; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; PHENOTYPE;

EID: 61849162255     PISSN: 00144835     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.exer.2008.11.030     Document Type: Article

References (24)

1. Cole N., Bao S., Stapleton F., Thakur A., Husband A.J., Beagley K.W., and Willcox M.D. Pseudomonas aeruginosa keratitis in IL-6-deficient mice. Int. Arch. Allergy Immunol. 130 (2003) 165-172
2. Dawson D.G., O'Brien T.P., and Edelhauser H.F. Long-term corneal keratocyte deficits after PRK and LASIK: in vivo evidence of stress-induced premature cellular senescence. Am. J. Ophthalmol. 141 (2006) 918-920
3. Doane K.J., and Birk D.E. Fibroblasts retain their tissue phenotype when grown in three-dimensional collagen gels. Exp. Cell Res. 195 (1991) 432-442
4. Dropcova S., Denyer S.P., Lloyd A.W., Gard P.R., Hanlon G.W., Mikhalovsky S.V., Sandeman S., Olliff C.J., and Faragher R.G. A standard strain of human ocular keratocytes. Ophthalmic Res. 31 (1999) 33-41
5. Erie J.C., Patel S.V., McLaren J.W., Hodge D.O., and Bourne W.M. Corneal keratocyte deficits after photorefractive keratectomy and laser in situ keratomileusis. Am. J. Ophthalmol. 141 (2006) 799-809
6. Evans A.L., and Gage P.J. Expression of the homeobox gene Pitx2 in neural crest is required for optic stalk and ocular anterior segment development. Hum. Mol. Genet. 14 (2005) 3347-3359
7. Gentleman R.C., Carey V.J., Bates D.M., Bolstad B., Dettling M., Dudoit S., Ellis B., Gautier L., Ge Y., Gentry J., Hornik K., Hothorn T., Huber W., Iacus S., Irizarry R., Leisch F., Li C., Maechler M., Rossini A.J., Sawitzki G., Smith C., Smyth G., Tierney L., Yang J.Y., and Zhang J. Bioconductor: open software development for computational biology and bioinformatics. Genome Biol. 5 (2004) R80
8. Hjalt T.A., Amendt B.A., and Murray J.C. PITX2 regulates procollagen lysyl hydroxylase (PLOD) gene expression: implications for the pathology of Rieger syndrome. J. Cell Biol. 152 (2001) 545-552
9. Irizarry R.A., Hobbs B., Collin F., Beazer-Barclay Y.D., Antonellis K.J., Scherf U., and Speed T.P. Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics 4 (2003) 249-264
10. Isnard N., Fodil I., Robert L., and Renard G. Modulation of cell-phenotype during in vitro aging. Glycosaminoglycan biosynthesis by skin fibroblasts and corneal keratocytes. Exp. Gerontol. 37 (2002) 1379-1387
11. Ittner L.M., Wurdak H., Schwerdtfeger K., Kunz T., Ille F., Leveen P., Hjalt T.A., Suter U., Karlsson S., Hafezi F., Born W., and Sommer L. Compound developmental eye disorders following inactivation of TGFbeta signaling in neural-crest stem cells. J. Biol. 4 (2005) 11
12. Kipling D., Davis T., Ostler E.L., and Faragher R.G. What can progeroid syndromes tell us about human aging?. Science 305 (2004) 1426-1431
13. Mehta J.S., Futter C.E., Sandeman S.R., Faragher R.G., Hing K.A., Tanner K.E., and Allan B.D. Hydroxyapatite promotes superior keratocyte adhesion and proliferation in comparison with current keratoprosthesis skirt materials. Br. J. Ophthalmol. 89 (2005) 1356-1362
14. Ravelojaona V., Robert A.M., Robert L., and Renard G. Collagen biosynthesis in cell culture: comparison of corneal keratocytes and skin fibroblasts. Effect of rhamnose-rich oligo- and polysaccharides. Pathol. Biol. (Paris) 56 (2008) 66-69
15. Sandeman S.R., Faragher R.G., Allen M.C., Liu C., and Lloyd A.W. Does MMP-2 expression and secretion change with increasing serial passage of keratocytes in culture?. Mech. Ageing Dev. 122 (2001) 157-167
16. Smyth G.K. Linear models and empirical bayes methods for assessing differential expression in microarray experiments. Stat. Appl. Genet. Mol. Biol. 3 (2004) Article3
17. Sowden J.C. Molecular and developmental mechanisms of anterior segment dysgenesis. Eye 21 (2007) 1310-1318
18. Su A.I., Wiltshire T., Batalov S., Lapp H., Ching K.A., Block D., Zhang J., Soden R., Hayakawa M., Kreiman G., Cooke M.P., Walker J.R., and Hogenesch J.B. A gene atlas of the mouse and human protein-encoding transcriptomes. Proc. Natl. Acad. Sci. U.S.A. 101 (2004) 6062-6067
19. Vieira V., David G., Roche O., de la Houssaye G., Boutboul S., Arbogast L., Kobetz A., Orssaud C., Camand O., Schorderet D.F., Munier F., Rossi A., Delezoide A.L., Marsac C., Ricquier D., Dufier J.L., Menasche M., and Abitbol M. Identification of four new PITX2 gene mutations in patients with Axenfeld-Rieger syndrome. Mol. Vis. 12 (2006) 1448-1460
20. Weng J., Luo J., Cheng X., Jin C., Zhou X., Qu J., Tu L., Ai D., Li D., Wang J., Martin J.F., Amendt B.A., and Liu M. Deletion of G protein-coupled receptor 48 leads to ocular anterior segment dysgenesis (ASD) through down-regulation of Pitx2. Proc. Natl. Acad. Sci. U.S.A. 105 (2008) 6081-6086
21. Wilson C.L., and Miller C.J. Simpleaffy: a bioconductor package for affymetrix quality control and data analysis. Bioinformatics 21 (2005) 3683-3685
22. Ye X., Zerlanko B., Kennedy A., Banumathy G., Zhang R., and Adams P.D. Downregulation of Wnt signaling is a trigger for formation of facultative heterochromatin and onset of cell senescence in primary human cells. Mol. Cell 27 (2007) 183-196
23. Zhang Y.Q., Zhang W.J., Liu W., Hu X.J., Zhou G.D., Cui L., and Cao Y. Tissue engineering of corneal stromal layer with dermal fibroblasts: phenotypic and functional switch of differentiated cells in cornea. Tissue Eng. A 14 (2008) 295-303
24. Zhao B., Cooper L.J., Brahma A., MacNeil S., Rimmer S., and Fullwood N.J. Development of a three-dimensional organ culture model for corneal wound healing and corneal transplantation. Investig. Ophthalmol. Vis. Sci. 47 (2006) 2840-2846