Parallel analysis of tetramerization domain mutants of the human p53 protein using PCR colonies

Genomic Medicine

Volumn 1, Issue 3-4, 2007, Pages 113-124

  Merritt, Joshua ^a,b   Roberts, Kim G ^b   Butz, James A ^b,c   Edwards, Jeremy S ^d,e  

^a NATIONAL INSTITUTE OF ALLERGY AND INFECTIOUS DISEASES   (United States)

^b University of Delaware   (United States)

^c MERCK RESEARCH LABORATORIES   (United States)

^d UNIVERSITY OF NEW MEXICO HEALTH SCIENCES CENTER   (United States)

^e MSC01 1070   (United States)

Author keywords

Genomics; High throughput DNA sequencing; p53; Polonies

Indexed keywords

SACCHAROMYCES CEREVISIAE;

EID: 41149106441     PISSN: 18717934     EISSN: 18717942     Source Type: Journal    
DOI: 10.1007/s11568-007-9011-8     Document Type: Article

References (29)

1. Bitter GA, Schaeffer TN, Ellison AR (2002) Reporter gene regulation in Saccharomyces cerevisiae by the human p53 tumor suppressor protein. J Mol Microbiol Biotechnol 4(6):539-550
2. Campomenosi P, Monti P, Aprile A, Abbondandolo A, Frebourg T, Gold B, Crook T, Inga A, Resnick MA, Iggo R et al (2001) p53 mutants can often transactivate promoters containing a p21 but not Bax or PIG3 responsive elements. Oncogene 20(27):3573-3579
3. Chappuis PO, Estreicher A, Dieterich B, Bonnefoi H, Otter M, Sappino AP, Iggo R (1999) Prognostic significance of p53 mutation in breast cancer: frequent detection of non-missense mutations by yeast functional assay. Int J Cancer 84(6):587-593
4. Chene P (2001) The role of tetramerization in p53 function. Oncogene 20(21):2611-2617
5. Chene P, Bechter E (1999) Cellular characterisation of p53 mutants with a single missense mutation in the beta-strand 326-333 and correlation of their cellular activities with in vitro properties. J Mol Biol 288(5):891-897
6. Flaman JM, Frebourg T, Moreau V, Charbonnier F, Martin C, Chappuis P, Sappino AP, Limacher JM, Bron L, Benhattar J et al (1995) A simple P53 functional assay for screening cell-lines, blood, and tumors. Proc Natl Acad Sci USA 92(9):3963-3967
7. Hernandez-Boussard T, Rodriguez-Tome P, Montesano R, Hainaut P (1999) IARC p53 mutation database: a relational database to compile and analyze p53 mutations in human tumors and cell lines. Hum Mutat 14(1):1-8
8. Inga A, Storici F, Darden TA, Resnick MA (2002) Differential transactivation by the p53 transcription factor is highly dependent on p53 level and promoter target sequence. Mol Cell Biol 22(24):8612-8625
9. Jia LQ, Osada M, Ishioka C, Gamo M, Ikawa S, Suzuki T, Shimodaira H, Niitani T, Kudo T, Akiyama M et al (1997) Screening the p53 status of human cell lines using a yeast functional assay. Mol Carcinog 19(4):243-253
10. Kern SE, Kinzler KW, Bruskin A, Jarosz D, Friedman P, Prives C, Vogelstein B (1991) Identification of P53 as a sequence-specific Dna-binding protein. Science 252(5013):1708-1711
11. Ko LJ, Prives C (1996) p53: Puzzle and paradigm. Genes Dev 10(9):1054-1072
12. Lander ES, Linton LM, Birren B, Nusbaum C, Zody MC, Baldwin J, Devon K, Dewar K, Doyle M, FitzHugh W et al (2001) Initial sequencing and analysis of the human genome. Nature 409(6822):860-921
13. Levine AJ, Wu MC, Chang A, Silver A, Atttiyeh EF, Lin J, Epstein CB (1995) The spectrum of mutations at the p53 locus. Evidence for tissue-specific mutagenesis, selection of mutant alleles, and a "gain of function" phenotype. Ann NY Acad Sci 768:111-128
14. Margulies M, Egholm M, Altman WE, Attiya S, Bader JS, Bemben LA, Berka J, Braverman MS, Chen Y-J, Chen Z et al (2005) Genome sequencing in microfabricated high-density picolitre reactors. Nature 437(7057):376-380
15. Masood E (1999) US firm's bid to sequence rice genome causes stir in Japan. as consortium plans free SNP map of human genome. Nature 398(6728):545-546
16. Merritt J, Edwards JS (2004) Assaying gene function by growth competition experiment. Metab Eng 6(3):212-219
17. Merritt J, DiTonno JR, Mitra RD, Church GM, Edwards JS (2003) Parallel competition analysis of Saccharomyces cerevisiae strains differing by a single base using polymerase colonies. Nucleic Acids Res 31(15):e84
18. Merritt J, Butz JA, Ogunnaike BA, Edwards JS (2005) Parallel analysis of mutant human glucose 6-phosphate dehydrogenase in yeast using PCR colonies. Biotechnol Bioeng 92(5):519-531
19. Mikkilineni V, Mitra RD, Merritt J, DiTonno JR, Church GM, Ogunnaike B, Edwards JS (2004) Digital quantitative measurements of gene expression. Biotechnol Bioeng 86(2):117-124
20. Mitra R, Church G (1999) In situ localized amplification and contact replication of many individual DNA molecules. Nucleic Acids Res 27(24):e34
21. Mitra RD, Shendure J, Olejnik J, Edyta Krzymanska O, Church GM (2003) Fluorescent in situ sequencing on polymerase colonies. Anal Biochem 320(1):55-65
22. Resnick MA, Inga A (2003) Functional mutants of the sequence-specific transcription factor p53 and implications for master genes of diversity. Proc Natl Acad Sci USA 100(17):9934-9939
23. Robinson AS, Bockhaus JA, Voegler AC, Wittrup KD (1996) Reduction of BiP levels decreases heterologous protein secretion in Saccharomyces cerevisiae. J Biol Chem 271(17):10017-10022
24. Rollenhagen C, Chene P (1998) Characterization of p53 mutants identified in human tumors with a missense mutation in the tetramerization domain. Int J Cancer 78(3):372-376
25. Scharer E, Iggo R (1992) Mammalian P53 can function as a transcription factor in yeast. Nucleic Acids Res 20(7):1539-1545
26. Shendure J, Porreca GJ, Reppas NB, Lin X, McCutcheon JP, Rosenbaum AM, Wang MD, Zhang K, Mitra RD, Church GM (2005) Accurate multiplex polony sequencing of an evolved bacterial genome. Science 309(5741):1728-1732
27. Sherman F (1991) Getting started with yeast. Method Enzymol 194:3-21
28. Tomso DJ, Inga A, Menendez D, Pittman GS, Campbell MR, Storici F, Bell DA, Resnick MA (2005) Functionally distinct polymorphic sequences in the human genome that are targets for p53 transactivation. Proc Natl Acad Sci USA 102(18):6431-6436
29. Venter JC, Adams MD, Myers EW, Li PW, Mural RJ, Sutton GG, Smith HO, Yandell M, Evans CA, Holt RA et al (2001) The sequence of the human genome. Science 291(5507):1304-1351