A reverse genetic screen in Drosophila using a deletion-inducing mutagen

Genome Biology - Tập 5 - Trang 1-10 - 2004
Knud Nairz1, Peder Zipperlen2, Charles Dearolf3, Konrad Basler2, Ernst Hafen1
1Zoologisches Institut, Universität Zürich, Zurich, Switzerland
2Institut für Molekularbiologie, Universität Zürich, Zurich, Switzerland
3Massachusetts General Hospital, Boston, USA

Tóm tắt

We report the use of the cross-linking drug hexamethylphosphoramide (HMPA), which introduces small deletions, as a mutagen suitable for reverse genetics in the model organism Drosophila melanogaster. A compatible mutation-detection method based on resolution of PCR fragment-length polymorphisms on standard DNA sequencers is implemented. As the spectrum of HMPA-induced mutations is similar in a variety of organisms, it should be possible to transfer this mutagenesis and detection procedure to other model systems.

Từ khóa


Tài liệu tham khảo

Adams MD, Sekelsky JJ: From sequence to phenotype: reverse genetics in Drosophila melanogaster. Nat Rev Genet. 2002, 3: 189-198. 10.1038/nrg752.

Spradling AC, Stern D, Beaton A, Rhem EJ, Laverty T, Mozden N, Misra S, Rubin GM: The Berkeley Drosophila Genome Project gene disruption project: single P-element insertions mutating 25% of vital Drosophila genes. Genetics. 1999, 153: 135-177.

Hacker U, Nystedt S, Barmchi MP, Horn C, Wimmer EA: piggyBac-based insertional mutagenesis in the presence of stably integrated P elements in Drosophila. Proc Natl Acad Sci USA. 2003, 100: 7720-7725. 10.1073/pnas.1230526100.

Koundakjian EJ, Cowan DM, Hardy RW, Becker AH: The Zuker collection: a resource for the analysis of autosomal gene function in Drosophila melanogaster. Genetics. 2004, 167: 203-206. 10.1534/genetics.167.1.203.

Bentley A, MacLennan B, Calvo J, Dearolf CR: Targeted recovery of mutations in Drosophila. Genetics. 2000, 156: 1169-1173.

Piccin A, Salameh A, Benna C, Sandrelli F, Mazzotta G, Zordan M, Rosato E, Kyriacou CP, Costa R: Efficient and heritable functional knock-out of an adult phenotype in Drosophila using a GAL4-driven hairpin RNA incorporating a heterologous spacer. Nucleic Acids Res. 2001, 29: e55-10.1093/nar/29.12.e55.

Clemens JC, Worby CA, Simonson-Leff N, Muda M, Maehama T, Hemmings BA, Dixon JE: Use of double-stranded RNA interference in Drosophila cell lines to dissect signal transduction pathways. Proc Natl Acad Sci USA. 2000, 97: 6499-6503. 10.1073/pnas.110149597.

Rong YS, Titen SW, Xie HB, Golic MM, Bastiani M, Bandyopadhyay P, Olivera BM, Brodsky M, Rubin GM, Golic KG: Targeted mutagenesis by homologous recombination in D. melanogaster. Genes Dev. 2002, 16: 1568-1581. 10.1101/gad.986602.

Gong WJ, Golic KG: Ends-out, or replacement, gene targeting in Drosophila. Proc Natl Acad Sci USA. 2003, 100: 2556-2561. 10.1073/pnas.0535280100.

Thibault ST, Singer MA, Miyazaki WY, Milash B, Dompe NA, Singh CM, Buchholz R, Demsky M, Fawcett R, Francis-Lang HL, et al: A complementary transposon tool kit for Drosophila melanogaster using P and piggyBac. Nat Genet. 2004, 36: 283-287. 10.1038/ng1314.

Bellen HJ, Levis RW, Liao G, He Y, Carlson JW, Tsang G, M Evans-Holm, Hiesinger PR, Schulze KL, Rubin GM, et al: The BDGP Gene Disruption Project: single transposon insertions associated with 40% of Drosophila genes. Genetics. 2004, 167: 761-781. 10.1534/genetics.104.026427.

Paddison PJ, Silva JM, Conklin DS, Schlabach M, Li M, Aruleba S, Balija V, O'Shaughnessy A, Gnoj L, Scobie K, et al: A resource for large-scale RNA-interference-based screens in mammals. Nature. 2004, 428: 427-431. 10.1038/nature02370.

Berns K, Hijmans EM, Mullenders J, Brummelkamp TR, Velds A, Heimerikx M, Kerkhoven RM, Madiredjo M, Nijkamp W, Weigelt B, et al: A large-scale RNAi screen in human cells identifies new components of the p53 pathway. Nature. 2004, 428: 431-437. 10.1038/nature02371.

Boutros M, Kiger AA, Armknecht S, Kerr K, Hild M, Koch B, Haas SA, Consortium HF, Paro R, Perrimon N: Genome-wide RNAi analysis of growth and viability in Drosophila cells. Science. 2004, 303: 832-835. 10.1126/science.1091266.

Kamath RS, Fraser AG, Dong Y, Poulin G, Durbin R, Gotta M, Kanapin A, Le Bot N, Moreno S, Sohrmann M, et al: Systematic functional analysis of the Caenorhabditis elegans genome using RNAi. Nature. 2003, 421: 231-237. 10.1038/nature01278.

Rong YS, Golic KG: A targeted gene knockout in Drosophila. Genetics. 2001, 157: 1307-1312.

McCallum CM, Comai L, Greene EA, Henikoff S: Targeted screening for induced mutations. Nat Biotechnol. 2000, 18: 455-457. 10.1038/74542.

Wienholds E, van Eeden F, Kosters M, Mudde J, Plasterk RH, Cuppen E: Efficient target-selected mutagenesis in zebrafish. Genome Res. 2003, 13: 2700-2707. 10.1101/gr.1725103.

Wienholds E, Schulte-Merker S, Walderich B, Plasterk RH: Target-selected inactivation of the zebrafish rag1 gene. Science. 2002, 297: 99-102. 10.1126/science.1071762.

Oleykowski CA, Bronson Mullins CR, Godwin AK, Yeung AT: Mutation detection using a novel plant endonuclease. Nucleic Acids Res. 1998, 26: 4597-4602. 10.1093/nar/26.20.4597.

Till BJ, Burtner C, Comai L, Henikoff S: Mismatch cleavage by single-strand specific nucleases. Nucleic Acids Res. 2004, 32: 2632-2641. 10.1093/nar/gkh599.

Till BJ, Reynolds SH, Greene EA, Codomo CA, Enns LC, Johnson JE, Burtner C, Odden AR, Young K, Taylor NE, et al: Large-scale discovery of induced point mutations with high-throughput TILLING. Genome Res. 2003, 13: 524-530. 10.1101/gr.977903.

Li X, Song Y, Century K, Straight S, Ronald P, Dong X, Lassner M, Zhang Y: A fast neutron deletion mutagenesis-based reverse genetics system for plants. Plant J. 2001, 27: 235-242. 10.1046/j.1365-313x.2001.01084.x.

Aguirrezabalaga I, Nivard MJ, Comendador MA, Vogel EW: The cross-linking agent hexamethylphosphoramide predominantly induces intra-locus and multi-locus deletions in postmeiotic germ cells of Drosophila. Genetics. 1995, 139: 649-658.

Liu LX, Spoerke JM, Mulligan EL, Chen J, Reardon B, Westlund B, Sun L, Abel K, Armstrong B, Hardiman G, et al: High-throughput isolation of Caenorhabditis elegans deletion mutants. Genome Res. 1999, 9: 859-867. 10.1101/gr.9.9.859.

Greene EA, Codomo CA, Taylor NE, Henikoff JG, Till BJ, Reynolds SH, Enns LC, Burtner C, Johnson JE, Odden AR, et al: Spectrum of chemically induced mutations from a large-scale reverse-genetic screen in Arabidopsis. Genetics. 2003, 164: 731-740.

Ashburner M: Drosophila - A Laboratory Handbook. 1989, New York: Cold Spring Harbor Laboratory Press

Edgley M, D'Souza A, Moulder G, McKay S, Shen B, Gilchrist E, Moerman D, Barstead R: Improved detection of small deletions in complex pools of DNA. Nucleic Acids Res. 2002, 30: e52-10.1093/nar/gnf051.

Clements M, Duncan D, Milbrandt J: Drosophila NAB (dNAB) is an orphan transcriptional co-repressor required for correct CNS and eye development. Dev Dyn. 2003, 226: 67-81. 10.1002/dvdy.10209.

Guo HH, Choe J, Loeb LA: Protein tolerance to random amino acid change. Proc Natl Acad Sci USA. 2004, 101: 9205-9210. 10.1073/pnas.0403255101.

Lee KP, Trochimowicz HJ: Morphogenesis of nasal tumors in rats exposed to hexamethylphosphoramide by inhalation. Environ Res. 1984, 33: 106-118.

Sarrif AM, Krahn DF, Donovan SM, O'Neil RM: Evaluation of hexamethylphosphoramide for gene mutations in Salmonella typhimurium using plate incorporation, preincubation, and suspension assays. Mutat Res. 1997, 380: 167-177. 10.1016/S0027-5107(97)00134-6.