Gene array identification of Ipf1/Pdx1-/- regulated genes in pancreatic progenitor cells

BMC Developmental Biology

Volumn 7, Issue , 2007, Pages

  Svensson, Per ^a   Williams, Cecilia ^b,c   Lundeberg, Joakim ^b   Rydén, Patrik ^d,e   Bergqvist, Ingela ^a,f   Edlund, Helena ^a  

^a UMEÅ UNIVERSITY   (Sweden)

^b ALBANOVA UNIVERSITY CENTER   (Sweden)

^c KAROLINSKA INSTITUTE   (Sweden)

^d UMEÅ UNIVERSITY   (Sweden)

^e Box 7966 ^*  (Sweden)

^f Betagenon AB   (Sweden)

Author keywords

[No Author keywords available]

Indexed keywords

TRANSCRIPTION FACTOR PDX 1; HOMEODOMAIN PROTEIN; INSULIN PROMOTER FACTOR 1; PRIMER DNA; TRANSACTIVATOR PROTEIN; UNCLASSIFIED DRUG;

ARTICLE; B LYMPHOCYTE; CELL DIFFERENTIATION; CELL PROLIFERATION; DOWN REGULATION; GENE CONTROL; GENE EXPRESSION; GENE IDENTIFICATION; GENETIC CODE; IMMUNOHISTOCHEMISTRY; IN SITU HYBRIDIZATION; MICROARRAY ANALYSIS; NUCLEOTIDE SEQUENCE; PANCREAS CELL; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; STEM CELL; UNINDEXED SEQUENCE; ANIMAL; CYTOLOGY; DNA MICROARRAY; FEMALE; GENE EXPRESSION REGULATION; GENETICS; METABOLISM; MOUSE; PANCREAS; PHYSIOLOGY; PREGNANCY;

ANIMALS; BASE SEQUENCE; CELL DIFFERENTIATION; CELL PROLIFERATION; DNA PRIMERS; FEMALE; GENE EXPRESSION REGULATION; HOMEODOMAIN PROTEINS; IN SITU HYBRIDIZATION; MICE; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; PANCREAS; PREGNANCY; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; STEM CELLS; TRANS-ACTIVATORS;

EID: 38649133142     PISSN: None     EISSN: 1471213X     Source Type: Journal    
DOI: 10.1186/1471-213X-7-129     Document Type: Article

References (54)

1. Transcribing pancreas. H Edlund, Diabetes 1998 47 1817 23 10.2337/diabetes.47.12.1817 9836511
2. IPF1, a homeodomain protein with a dual function in pancreas development. J Jonsson U Ahlgren T Edlund H Edlund, Int J Dev Biol 1995 39 789 98 8645563
3. IPF1, a homeodomain-containing transactivator of the insulin gene. H Ohlsson K Karlsson T Edlund, Embo J 1993 12 4251 9 7901001
4. beta-cell-specific inactivation of the mouse Ipf1/Pdx1 gene results in loss of the beta-cell phenotype and maturity onset diabetes. U Ahlgren J Jonsson L Jonsson K Simu H Edlund, Genes Dev 1998 12 1763 8 9637677
5. Attenuation of FGF signalling in mouse beta-cells leads to diabetes. AW Hart N Baeza A Apelqvist H Edlund, Nature 2000 408 864 8 10.1038/35048589 11130726
6. Insulin-promoter-factor 1 is required for pancreas development in mice. J Jonsson L Carlsson T Edlund H Edlund, Nature 1994 371 606 9 10.1038/371606a0 7935793
7. PDX-1 is required for pancreatic outgrowth and differentiation of the rostral duodenum. MF Offield TL Jetton PA Labosky M Ray RW Stein MA Magnuson BL Hogan CV Wright, Development 1996 122 983 95 8631275
8. Pancreatic agenesis attributable to a single nucleotide deletion in the human IPF1 gene coding sequence. DA Stoffers NT Zinkin V Stanojevic WL Clarke JF Habener, Nat Genet 1997 15 106 10 10.1038/ng0197-106 8988180
9. The morphogenesis of the pancreatic mesenchyme is uncoupled from that of the pancreatic epithelium in IPF1/PDX1-deficient mice. U Ahlgren J Jonsson H Edlund, Development 1996 122 1409 16 8625829
10. Catalog of gene expression in adult neural stem cells and their in vivo microenvironment. C Williams V Wirta K Meletis L Wikstrom L Carlsson J Frisen J Lundeberg, Exp Cell Res 2006 312 1798 812 10.1016/j.yexcr.2006.02.012 16546165
11. Endodermal expression of Nkx6 genes depends differentially on Pdx1. JK Pedersen SB Nelson MC Jorgensen KD Henseleit Y Fujitani CV Wright M Sander P Serup, Dev Biol 2005 288 487 501 10.1016/j.ydbio.2005.10.001 16297379
12. mRNA profiling of rat islet tumors reveals nkx 6.1 as a beta-cell-specific homeodomain transcription factor. J Jensen P Serup C Karlsen TF Nielsen OD Madsen, J Biol Chem 1996 271 18749 58 10.1074/jbc.271.31.18749 8702531
13. Homeobox gene product Nkx 6.1 immunoreactivity in nuclei of endocrine cells of rat and mouse stomach. A Oster J Jensen H Edlund LI Larsson, J Histochem Cytochem 1998 46 717 21 9603782
14. Rat endocrine pancreatic development in relation to two homeobox gene products (Pdx-1 and Nkx 6.1). A Oster J Jensen P Serup P Galante OD Madsen LI Larsson, J Histochem Cytochem 1998 46 707 15 9603781
15. Pancreatic beta cells express a diverse set of homeobox genes. A Rudnick TY Ling H Odagiri WJ Rutter MS German, Proc Natl Acad Sci USA 1994 91 12203 7 7991607 10.1073/pnas.91.25.12203
16. Genetic analysis reveals that PAX6 is required for normal transcription of pancreatic hormone genes and islet development. M Sander A Neubuser J Kalamaras HC Ee GR Martin MS German, Genes Dev 1997 11 1662 73 10.1101/gad.11.13.1662 9224716
17. Pax6 is required for differentiation of glucagon-producing alpha-cells in mouse pancreas. L St-Onge B Sosa-Pineda K Chowdhury A Mansouri P Gruss, Nature 1997 387 406 9 10.1038/387406a0 9163426
18. ErbB3 is required for normal cerebellar and cardiac development: a comparison with ErbB2-and heregulin-deficient mice. SL Erickson KS O'Shea N Ghaboosi L Loverro G Frantz M Bauer LH Lu MW Moore, Development 1997 124 4999 5011 9362461
19. Expression of ErbB receptors during pancreatic islet development and regrowth. MR Kritzik T Krahl A Good D Gu C Lai H Fox N Sarvetnick, J Endocrinol 2000 165 67 77 10.1677/joe.0.1650067 10750037
20. Osteopontin is a novel marker of pancreatic ductal tissues and of undifferentiated pancreatic precursors in mice. G Kilic J Wang B Sosa-Pineda, Dev Dyn 2006 235 1659 67 10.1002/dvdy.20729 16518820
21. Vascular endothelial growth factor and osteopontin in tumor biology. N Shijubo T Uede S Kon M Nagata S Abe, Crit Rev Oncog 2000 11 135 46 11005509
22. Expression of osteopontin and vascular endothelial growth factor in benign and malignant bone tumors. I Sulzbacher P Birner K Trieb S Lang A Chott, Virchows Arch 2002 441 345 9 10.1007/s00428-002-0671-4 12404059
23. Accumulation of F-spondin in injured peripheral nerve promotes the outgrowth of sensory axons. T Burstyn-Cohen A Frumkin YT Xu SS Scherer A Klar, J Neurosci 1998 18 8875 85 9786993
24. F-Spondin is required for accurate pathfinding of commissural axons at the floor plate. T Burstyn-Cohen V Tzarfaty A Frumkin Y Feinstein E Stoeckli A Klar, Neuron 1999 23 233 46 10.1016/S0896-6273(00)80776-X 10399931
25. F-spondin and mindin: two structurally and functionally related genes expressed in the hippocampus that promote outgrowth of embryonic hippocampal neurons. Y Feinstein V Borrell C Garcia T Burstyn-Cohen V Tzarfaty A Frumkin A Nose H Okamoto S Higashijima E Soriano, Development 1999 126 3637 48 10409509
26. The neuronal class 2 TSR proteins F-spondin and Mindin: a small family with divergent biological activities. Y Feinstein A Klar, Int J Biochem Cell Biol 2004 36 975 80 10.1016/j.biocel.2004.01.002 15094111
27. F-spondin: a gene expressed at high levels in the floor plate encodes a secreted protein that promotes neural cell adhesion and neurite extension. A Klar M Baldassare TM Jessell, Cell 1992 69 95 110 10.1016/0092-8674(92)90121-R 1555244
28. Isolation and characterization of vascular smooth muscle cell growth promoting factor from bovine ovarian follicular fluid and its cDNA cloning from bovine and human ovary. K Miyamoto Y Morishita M Yamazaki N Minamino K Kangawa H Matsuo T Mizutani K Yamada T Minegishi, Arch Biochem Biophys 2001 390 93 100 10.1006/abbi.2001.2367 11368520
29. F-spondin promotes nerve precursor differentiation. D Schubert A Klar M Park R Dargusch WH Fischer, J Neurochem 2006 96 444 53 10.1111/j.1471-4159.2005. 03563.x 16300627
30. Stress sensor triggers conformational response of the integral membrane protein microsomal glutathione transferase 1. LS Busenlehner SG Codreanu PJ Holm P Bhakat H Hebert R Morgenstern RN Armstrong, Biochemistry 2004 43 11145 52 10.1021/bi048716k 15366924
31. Reticulon 1-C/neuroendocrine-specific protein-C interacts with SNARE proteins. P Steiner K Kulangara JC Sarria L Glauser R Regazzi H Hirling, J Neurochem 2004 89 569 80 10.1111/j.1471-4159.2004.02345.x 15086514
32. JEM-1, a novel nuclear co-factor: localisation and functional interaction with AP-1. JH Tong E Duprez M Lanotte, Leukemia 1999 13 1982 92 10.1038/sj/leu/2401560 10602419
33. Expression patterns of the JEM-1 gene in normal and tumor cells: ubiquity contrasting with a faint, but retinoid-induced, mRNA expression in promyelocytic NB4 cells. JH Tong X Fant E Duprez G Benoit CC Uphoff HG Drexler JC Pla E Lofvenberg M Lanotte, Leukemia 1998 12 1733 40 10.1038/sj.leu.2401173 9823948
34. Cloning and characterization of SCHIP-1, a novel protein interacting specifically with spliced isoforms and naturally occurring mutant NF2 proteins. L Goutebroze E Brault C Muchardt J Camonis G Thomas, Mol Cell Biol 2000 20 1699 712 10669747 10.1128/MCB.20.5.1699-1712.2000
35. Cell cycle-dependent nucleocytoplasmic shuttling of the neurofibromatosis 2 tumour suppressor merlin. T Muranen M Gronholm GH Renkema O Carpen, Oncogene 2005 24 1150 8 10.1038/sj.onc.1208283 15580288
36. Secreted antagonists of the Wnt signalling pathway. Y Kawano R Kypta, J Cell Sci 2003 116 2627 34 10.1242/jcs.00623 12775774
37. The role of the transcriptional regulator Ptf1a in converting intestinal to pancreatic progenitors. Y Kawaguchi B Cooper M Gannon M Ray RJ MacDonald CV Wright, Nat Genet 2002 32 128 34 10.1038/ng959 12185368
38. The bHLH protein PTF1-p48 is essential for the formation of the exocrine and the correct spatial organization of the endocrine pancreas. A Krapp M Knofler B Ledermann K Burki C Berney N Zoerkler O Hagenbuchle PK Wellauer, Genes Dev 1998 12 3752 63 9851981
39. The IIIb isoform of fibroblast growth factor receptor 2 is required for proper growth and branching of pancreatic ductal epithelium but not for differentiation of exocrine or endocrine cells. MA Pulkkinen B Spencer-Dene C Dickson T Otonkoski, Mech Dev 2003 120 167 75 10.1016/S0925-4773(02)00440-9 12559489
40. Fgf10 maintains notch activation, stimulates proliferation, and blocks differentiation of pancreatic epithelial cells. A Hart S Papadopoulou H Edlund, Dev Dyn 2003 228 185 93 10.1002/dvdy.10368 14517990
41. FGF10 signaling maintains the pancreatic progenitor cell state revealing a novel role of Notch in organ development. GA Norgaard JN Jensen J Jensen, Dev Biol 2003 264 323 38 10.1016/j.ydbio.2003.08.013 14651921
42. Fgf10 is essential for maintaining the proliferative capacity of epithelial progenitor cells during early pancreatic organogenesis. A Bhushan N Itoh S Kato JP Thiery P Czernichow S Bellusci R Scharfmann, Development 2001 128 5109 17 11748146
43. Pancreas: how to get there from the gut? H Edlund, Curr Opin Cell Biol 1999 11 663 8 10.1016/S0955-0674(99)00033-2 10600706
44. Impaired migration and delayed differentiation of pancreatic islet cells in mice lacking EGF-receptors. PJ Miettinen M Huotari T Koivisto J Ustinov J Palgi S Rasilainen E Lehtonen J Keski-Oja T Otonkoski, Development 2000 127 2617 27 10821760
45. Epidermal growth factor increases undifferentiated pancreatic embryonic cells in vitro: a balance between proliferation and differentiation. C Cras-Meneur L Elghazi P Czernichow R Scharfmann, Diabetes 2001 50 1571 9 10.2337/diabetes.50.7.1571 11423478
46. The homeodomain protein PDX1 is required at mid-pancreatic development for the formation of the exocrine pancreas. MA Hale H Kagami L Shi AM Holland HP Elsasser RE Hammer RJ MacDonald, Dev Biol 2005 286 225 37 10.1016/j.ydbio.2005. 07.026 16126192
47. Mitogenic influence of human R-spondin1 on the intestinal epithelium. KA Kim M Kakitani J Zhao T Oshima T Tang M Binnerts Y Liu B Boyle E Park P Emtage, Science 2005 309 1256 9 10.1126/science.1112521 16109882
48. ArrayExpress. http://www.ebi.ac.uk/arrayexpress/#ae-main[0]
49. Evaluation of microarray data normalization procedures using spike-in experiments. P Ryden H Andersson M Landfors L Naslund B Hartmanova L Noppa A Sjostedt, BMC Bioinformatics 2006 7 300 16774679 10.1186/1471-2105-7-300
50. aroma - An R Object-oriented Microarray Analysis environment. H Bengtsson, Mathematical Sciences 2004 18
51. R: A Language for Data Analysis and Graphics. RIaR Gentleman, Journal of Computational and Graphical Statistics 1996 5 299 314 10.2307/1390807
52. Linear models and empirical bayes methods for assessing differential expression in microarray experiments. GK Smyth, Stat Appl Genet Mol Biol 2004 3 Article3 16646809
53. Normalization for cDNA microarray data: a robust composite method addressing single and multiple slide systematic variation. YH Yang S Dudoit P Luu DM Lin V Peng J Ngai TP Speed, Nucleic Acids Res 2002 30 e15 11842121 10.1093/nar/30.4.e15
54. Hierarchical Bayes models for cDNA microarray gene expression. I Lonnstedt T Britton, Biostatistics 2005 6 279 91 10.1093/biostatistics/kxi009 15772106