Molecular profiling of the "plexinome" in melanoma and pancreatic cancer

Human Mutation

Volumn 30, Issue 8, 2009, Pages 1167-1174

  Balakrishnan, Asha ^a,b   Penachioni, Junia Y ^a   Lamba, Simona ^a,b   Bleeker, Fonnet E ^a,b,c   Zanon, Carlo ^a,b   Rodolfo, Monica ^d   Vallacchi, Viviana ^d   Scarpa, Aldo ^e   Felicioni, Lara ^g   Buck, Matthias ^f   Marchetti, Antonio ^g   Comoglio, Paolo M ^a   Bardelli, Alberto ^a,b   Tamagnone, Luca ^a  

^a UNIVERSITY OF TURIN   (Italy)

^b FIRC INSTITUTE OF MOLECULAR ONCOLOGY   (Italy)

^c ACADEMIC MEDICAL CENTER   (Netherlands)

^d NATIONAL CANCER INSTITUTE   (Italy)

^e UNIVERSITY OF VERONA   (Italy)

^f CASE WESTERN RESERVE UNIVERSITY SCHOOL OF MEDICINE   (United States)

^g UNIVERSITY OF CHIETI   (Italy)

Author keywords

Cancer; Melanoma; Pancreas; PLXNA4; Semaphorin

Indexed keywords

ALKALINE PHOSPHATASE; PLEXIN; PROTEIN PLXNA4; PROTEIN PLXNB3; PROTEIN PLXNC1; SEMAPHORIN; SEMAPHORIN 5A; UNCLASSIFIED DRUG;

ANIMAL CELL; ARTICLE; CANCER GROWTH; CELL MIGRATION; CELL STRAIN COS1; CLINICAL ARTICLE; CONTROLLED STUDY; GENE AMPLIFICATION; HUMAN; HUMAN CELL; LOSS OF FUNCTION MUTATION; MELANOMA; MELANOMA CELL; METASTASIS; MISSENSE MUTATION; MUTATIONAL ANALYSIS; NONHUMAN; NUCLEOTIDE SEQUENCE; PANCREAS ADENOCARCINOMA; PHYLOGENY; PRIORITY JOURNAL; PROGNOSIS; PROTEIN EXPRESSION; SOMATIC MUTATION;

ADENOCARCINOMA; GENE EXPRESSION PROFILING; HUMANS; MELANOMA; MUTATION; PANCREATIC NEOPLASMS; PHYLOGENY; POLYMERASE CHAIN REACTION; RECEPTORS, CELL SURFACE;

EID: 67749101343     PISSN: 10597794     EISSN: None     Source Type: Journal    
DOI: 10.1002/humu.21017     Document Type: Article

References (43)

1. Akbari M, Hansen MD, Halgunset J, Skorpen F, Krokan HE. 2005. Low copy number DNA template can render polymerase chain reaction error prone in a sequencedependent manner. J Mol Diagn 7:36-39.
2. Artigiani S, Conrotto P, Fazzari P, Gilestro GF, Barberis D, Giordano S, Comoglio PM, Tamagnone L. 2004. Plexin-B3 is a functional receptor for semaphorin 5A. EMBO Rep 5:710-714.
3. Balakrishnan A, Bleeker FE, Lamba S, Rodolfo M, Daniotti M, Scarpa A, van Tilborg AA, Leenstra S, Zanon C, Bardelli A. 2007. Novel somatic and germline mutations in cancer candidate genes in glioblastoma, melanoma, and pancreatic carcinoma. Cancer Res 67:3545-3550.
4. Balch CM, Soong SJ, Gershenwald JE, Thompson JF, Reintgen DS, Cascinelli N, Urist M, McMasters KM, Ross MI, Kirkwood JM, Atkins MB, Thompson JA, Coit DG, Byrd D, Desmond R, Zhang Y, Liu PY, Lyman GH, Morabito A. 2001. Prognostic factors analysis of 17,600 melanoma patients: validation of the American Joint Committee on Cancer melanoma staging system. J Clin Oncol 19:3622-3634.
5. Barberis D, Artigiani S, Casazza A, Corso S, Giordano S, Love CA, Jones EY, Comoglio PM, Tamagnone L. 2004. Plexin signaling hampers integrin-based adhesion, leading to Rho-kinase independent cell rounding, and inhibiting lamellipodia extension and cell motility. FASEB J 18:592-594.
6. Bardelli A, Parsons DW, Silliman N, Ptak J, Szabo S, Saha S, Markowitz S, Willson JK, Parmigiani G, Kinzler KW, Vogelstein B, Velculescu VE. 2003. Mutational analysis of the tyrosine kinome in colorectal cancers. Science 300:949.
7. Bardelli A, Velculescu VE. 2005. Mutational analysis of gene families in human cancer. Curr Opin Genet Dev 15:5-12.
8. Basile JR, Castilho RM, Williams VP, Gutkind JS. 2006. Semaphorin 4D provides a link between axon guidance processes and tumor-induced angiogenesis. Proc Natl Acad Sci USA 103:9017-9022.
9. Bielenberg DR, Hida Y, Shimizu A, Kaipainen A, Kreuter M, Kim CC, Klagsbrun M. 2004. Semaphorin 3F, a chemorepulsant for endothelial cells, induces a poorly vascularized, encapsulated, nonmetastatic tumor phenotype. J Clin Invest 114:1260-1271.
10. Casazza A, Fazzari P, Tamagnone L. 2007. Semaphorin signals in cell adhesion and cell migration: functional role and molecular mechanisms. Adv Exp Med Biol 600:90-108.
11. Catalano A, Caprari P, Moretti S, Faronato M, Tamagnone L, Procopio A. 2006. Semaphorin-3A is expressed by tumor cells and alters T-cell signal transduction and function. Blood 107:3321-3329.
12. Christensen C, Ambartsumian N, Gilestro G, Thomsen B, Comoglio P, Tamagnone L, Guldberg P, Lukanidin E. 2005. Proteolytic processing converts the repelling signal Sema3E into an inducer of invasive growth and lung metastasis. Cancer Res 65:6167-6177.
13. Conrotto P, Corso S, Gamberini S, Comoglio PM, Giordano S. 2004. Interplay between scatter factor receptors and B plexins controls invasive growth. Oncogene 23:5131-5137.
14. Franco M, Tamagnone L. 2008. Tyrosine phosphorylation in semaphorin signalling: shifting into overdrive. EMBO Rep 9:865-871.
15. Giordano S, Corso S, Conrotto P, Artigiani S, Gilestro G, Barberis D, Tamagnone L, Comoglio PM. 2002. The semaphorin 4D receptor controls invasive growth by coupling with Met. Nat Cell Biol 4:720-724.
16. Hezel AF, Kimmelman AC, Stanger BZ, Bardeesy N, Depinho RA. 2006. Genetics and biology of pancreatic ductal adenocarcinoma. Genes Dev 20:1218-1249.
17. Hofreiter M, Jaenicke V, Serre D, Haeseler Av A, Pääbo S. 2001. DNA sequences from multiple amplifications reveal artifacts induced by cytosine deamination in ancient DNA. Nucleic Acids Res 29:4793-4799.
18. Jones S, Zhang X, Parsons DW, Lin JC, Leary RJ, Angenendt P, Mankoo P, Carter H, Kamiyama H, Jimeno A, Hong SM, Fu B, Lin MT, Calhoun ES, Kamiyama M, Walter K, Nikolskaya T, Nikolsky Y, Hartigan J, Smith DR, Hidalgo M, Leach SD, Klein AP, Jaffee EM, Goggins M, Maitra A, Iacobuzio-Donahue C, Eshleman JR, Kern SE, Hruban RH, Karchin R, Papadopoulos N, Parmigiani G, Vogelstein B, Velculescu VE, Kinzler KW. 2008. Core signaling pathways in human pancreatic cancers revealed by global genomic analyses. Science 321:1801-1806.
19. Kruger RP, Aurandt J, Guan KL. 2005. Semaphorins command cells to move. Nat Rev Mol Cell Biol 6:789-800.
20. Marchetti A, Felicioni L, Buttitta F. 2006. Assessing EGFR mutations. N Engl J Med 354:526-528.
21. McGuffin LJ, Bryson K, Jones DT. 2000. The PSIPRED protein structure prediction server. Bioinformatics 16:404-405.
22. Miller SA, Dykes DD, Polesky HF. 1988. A simple salting out procedure for extracting DNA from human nucleated cells. Nucleic Acids Res 16:1215.
23. Neufeld G, Kessler O. 2008. The semaphorins: versatile regulators of tumour progression and tumour angiogenesis. Nat Rev Cancer 8:632-645.
24. Oinuma I, Katoh H, Negishi M. 2004. Molecular dissection of the semaphorin 4D receptor plexin-B1-stimulated R-Ras GTPase-activating protein activity and neurite remodeling in hippocampal neurons. J Neurosci 24: 11473-11480.
25. Rieger J, Wick W, Weller M. 2003. Human malignant glioma cells express semaphorins and their receptors, neuropilins and plexins. Glia 42: 379-389.
26. Riva A, Kohane IS. 2004. A SNP-centric database for the investigation of the human genome. BMC Bioinformatics 5:33.
27. Rizzolio S, Tamagnone L. 2007. Semaphorin signals on the road to cancer invasion and metastasis. Cell Adh Migr (Landes) 1:62-68.
28. Rody A, Holtrich U, Gaetje R, Gehrmann M, Engels K, von Minckwitz G, Loibl S, Diallo-Danebrock R, Ruckhaberle E, Metzler D, Ahr A, Solbach C, Karn T, Kaufmann M. 2007. Poor outcome in estrogen receptor-positive breast cancers predicted by loss of plexin B1. Clin Cancer Res 13:1115-1122.
29. Rohm B, Rahim B, Kleiber B, Hovatta I, Puschel AW. 2000. The semaphorin 3A receptor may directly regulate the activity of small GTPases. FEBS Lett 486:68-72.
30. Roodink I, Raats J, van der Zwaag B, Verrijp K, Kusters B, van Bokhoven H, Linkels M, de Waal RM, Leenders WP. 2005. Plexin D1 expression is induced on tumor vasculature and tumor cells: a novel target for diagnosis and therapy? Cancer Res 65:8317-8323.
31. Shi M, Sundramurthy K, Liu B, Tan SM, Law SK, Lescar J. 2005. The crystal structure of the plexin-semaphorin-integrin domain/hybrid domain/I-EGF1 segment from the human integrin beta2 subunit at 1.8-A resolution. J Biol Chem 280:30586-30593.
32. Sjoblom T, Jones S, Wood LD, Parsons DW, Lin J, Barber TD, Mandelker D, Leary RJ, Ptak J, Silliman N, Szabo S, Buckhaults P, Farrell C, Meeh P, Markowitz SD, Willis J, Dawson D, Willson JK, Gazdar AF, Hartigan J, Wu L, Liu C, Parmigiani G, Park BH, Bachman KE, Papadopoulos N, Vogelstein B, Kinzler KW, Velculescu VE. 2006. The consensus coding sequences of human breast and colorectal cancers. Science 314:268-274.
33. Stark M, Hayward N. 2007. Genome-wide loss of heterozygosity and copy number analysis in melanoma using high-density single-nucleotide polymorphism arrays. Cancer Res 67:2632-2642.
34. Swiercz JM, Worzfeld T, Offermanns S. 2008. ErbB-2 and met reciprocally regulate cellular signaling via plexin-B1. J Biol Chem 283:1893-1901.
35. Takahashi T, Strittmatter SM. 2001. PlexinA1 autoinhibition by the plexin sema domain. Neuron 29:429-439.
36. Tamagnone L, Artigiani S, Chen H, He Z, Ming GI, Song H, Chedotal A, Winberg ML, Goodman CS, Poo M, Tessier-Lavigne M, Comoglio PM. 1999. Plexins are a large family of receptors for transmembrane, secreted, and GPI-anchored semaphorins in vertebrates. Cell 99:71-80.
37. Tamagnone L, Comoglio PM. 2000. Signalling by semaphorin receptors: cell guidance and beyond. Trends Cell Biol 10:377-383.
38. Tomizawa Y, Sekido Y, Kondo M, Gao B, Yokota J, Roche J, Drabkin H, Lerman MI, Gazdar AF, Minna JD. 2001. Inhibition of lung cancer cell growth and induction of apoptosis after reexpression of 3p21.3 candidate tumor suppressor gene SEMA3B. Proc Natl Acad Sci USA 98:13954-13959.
39. Toyofuku T, Zhang H, Kumanogoh A, Takegahara N, Suto F, Kamei J, Aoki K, Yabuki M, Hori M, Fujisawa H, Kikutani H. 2004. Dual roles of Sema6D in cardiac morphogenesis through region-specific association of its receptor, Plexin-A1, with off-track and vascular endothelial growth factor receptor type 2. Genes Dev 18:435-447.
40. Williams C, Pontén F, Moberg C, Söderkvist P, Uhlén M, et al. 1999. A high frequency of sequence alterations is due to formalin fixation of archival specimens. Am J Pathol 155:1467-1471.
41. Wong OG, Nitkunan T, Oinuma I, Zhou C, Blanc V, Brown RS, Bott SR, Nariculam J, Box G, Munson P, Constantinou J, Feneley MR, Klocker H, Eccles SA, Negishi M, Freeman A, Masters JR,Williamson M. 2007. Plexin-B1 mutations in prostate cancer. Proc Natl Acad Sci USA 104:19040-19045.
42. Wood LD, Parsons DW, Jones S, Lin J, Sjoblom T, Leary RJ, Shen D, Boca SM, Barber T, Ptak J, Silliman N, Szabo S, Dezso Z, Ustyanksky V, Nikolskaya T, Nikolsky Y, Karchin R, Wilson PA, Kaminker JS, Zhang Z, Croshaw R, Willis J, Dawson D, Shipitsin M, Willson JK, Sukumar S, Polyak K, Park BH, Pethiyagoda CL, Pant PV, Ballinger DG, Sparks AB, Hartigan J, Smith DR, Suh E, Papadopoulos N, Buckhaults P, Markowitz SD, Parmigiani G, Kinzler KW, Velculescu VE, Vogelstein B. 2007. The genomic landscapes of human breast and colorectal cancers. Science 318:1108-1113.
43. Zhou Y, Gunput RA, Pasterkamp RJ. 2008. Semaphorin signaling: progress made and promises ahead. Trends Biochem Sci 33:161-170.