Generation of medaka gene knockout models by target-selected mutagenesis

Genome Biology

Volumn 7, Issue 12, 2006, Pages

  Taniguchi, Yoshihito ^a   Takeda, Shunichi ^a   Furutani Seiki, Makoto ^b   Kamei, Yasuhiro ^a   Todo, Takeshi ^a   Sasado, Takao ^b   Deguchi, Tomonori ^b   Kondoh, Hisato ^a   Mudde, Josine ^c   Yamazoe, Mitsuyoshi ^a   Hidaka, Masayuki ^d   Mitani, Hiroshi ^d   Toyoda, Atsushi ^e   Sakaki, Yoshiyuki ^e   Plasterk, Ronald H A ^c   Cuppen, Edwin ^c  

^a KYOTO UNIVERSITY   (Japan)

^b JAPAN SCIENCE AND TECHNOLOGY AGENCY   (Japan)

^c HUBRECHT INSTITUTE   (Netherlands)

^d UNIVERSITY OF TOKYO   (Japan)

^e INST OF PHYS AND CHEMICAL RESEARCH   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

ETHYLNITROSOUREA; HELICASE; PARKIN; PROTEIN P53; SIRTUIN; ADENOSINE TRIPHOSPHATASE; BLOOM SYNDROME PROTEIN; PRIMER DNA; UBIQUITIN PROTEIN LIGASE; UNCLASSIFIED DRUG;

ANIMAL CELL; ANIMAL EXPERIMENT; ANIMAL TISSUE; ARTICLE; CRYOPRESERVATION; FEMALE; GENE FUNCTION; GENE LIBRARY; GENE MUTATION; GENE SEQUENCE; GENETIC CODE; GENETIC MODEL; HIGH THROUGHPUT SCREENING; KNOCKOUT GENE; MALE; MUTATIONAL ANALYSIS; NONHUMAN; NONSENSE MUTATION; NUCLEOTIDE SEQUENCE; ORYZIAS; POINT MUTATION; PROTEIN DETERMINATION; PROTEIN FUNCTION; RNA SPLICING; SITE DIRECTED MUTAGENESIS; ANIMAL; BIOLOGICAL MODEL; GENETICS; TRANSGENIC ANIMAL; TUMOR SUPPRESSOR GENE;

ORYZIAS LATIPES; ORYZIINAE;

ADENOSINE TRIPHOSPHATASES; ANIMALS; ANIMALS, GENETICALLY MODIFIED; BASE SEQUENCE; DNA HELICASES; DNA PRIMERS; ETHYLNITROSOUREA; FEMALE; GENES, P53; MALE; MODELS, GENETIC; MUTAGENESIS, SITE-DIRECTED; ORYZIAS; POINT MUTATION; UBIQUITIN-PROTEIN LIGASES;

EID: 34249715911     PISSN: 14747596     EISSN: 1474760X     Source Type: Journal    
DOI: 10.1186/gb-2006-7-12-r116     Document Type: Article

References (42)

1. Wittbrodt J Shima A Schartl M Medaka - a model organism from the far East. Nat Rev Genet 2002 3 53-64 10.1038/nrg704 11823791
2. Hawkins WE Walker WW Fournie JW Manning CS Krol RM Use of the Japanese medaka (Oryzias latipes) and guppy (Poecilia reticulata) in carcinogenesis testing under national toxicology program protocols. Toxicol Pathol 2003 31 Suppl 88-91 12597435
3. Driever W Solnica-Krezel L Schier AF Neuhauss SC Malicki J Stemple DL Stainier DY Zwartkruis F Abdelilah S Rangini Z A genetic screen for mutations affecting embryogenesis in zebrafish. Development 1996 123 37-46 9007227
4. Furutani-Seiki M Sasado T Morinaga C Suwa H Niwa K Yoda H Deguchi T Hirose Y Yasuoka A Henrich T A systematic genome-wide screen for mutations affecting organogenesis in Medaka, Oryzias latipes. Mech Dev 2004 121 647-658 10.1016/j.mod.2004.04.016 15210174
5. Haffter P Granato M Brand M Mullins MC Hammerschmidt M Kane DA Odenthal J van Eeden FJ Jiang YJ Heisenberg CP The identification of genes with unique and essential functions in the development of the zebrafish, Danio rerio. Development 1996 123 1 36 9007226
6. Tautz D Redundancies, development and the flow of information. Bioessays 1992 14 263-266 10.1002/bies.950140410 1596275
7. Jaillon O Aury JM Brunet F Petit JL Stange-Thomann N Mauceli E Bouneau L Fischer C Ozouf-Costaz C Bernot A Genome duplication in the teleost fish Tetraodon nigroviridis reveals the early vertebrate proto-karyotype. Nature 2004 431 946-957 10.1038/nature03025 15496914
8. Medaka Genome Project http://dolphin.lab.nig.ac.jp/medaka
9. Nasevicius A Ekker SC Effective targeted gene 'knockdown' in zebrafish. Nat Genet 2000 26 216-220 10.1038/79951 11017081
10. Fan L Moon J Crodian J Collodi P Homologous recombination in zebrafish ES cells. Transgenic Res 2006 15 21-30 10.1007/s11248-005-3225-0 16475007
11. 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 12098699
12. 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 403812 14613981 10.1101/gr.1725103
13. Li Q Liu Z Monroe H Culiat CT Integrated platform for detection of DNA sequence variants using capillary array electrophoresis. Electrophoresis 2002 23 1499-1511 10.1002/ 1522-2683(200205)23:10<1499::AID-ELPS1499>3.0.CO;2-X 12116161
14. McCallum CM Comai L Greene EA Henikoff S Targeted screening for induced mutations. Nat Biotechnol 2000 18 455-457 10.1038/74542 10748531
15. Smits BM Mudde JB van de Belt J Verheul M Olivier J Homberg J Guryev V Cools AR Ellenbroek BA Plasterk RH Cuppen E Generation of gene knockouts and mutant models in the laboratory rat by ENU-driven target-selected mutagenesis. Pharmacogenet Genomics 2006 16 159-169 16495775
16. Stephens M Sloan JS Robertson PD Scheet P Nickerson DA Automating sequence-based detection and genotyping of SNPs from diploid samples. Nat Genet 2006 38 375-381 10.1038/ng1746 16493422
17. Chen S Hong Y Scherer SJ Schartl M Lack of ultraviolet-light inducibility of the medakafish (Oryzias latipes) tumor suppressor gene p53. Gene 2001 264 197-203 10.1016/S0378-1119(01)00340-7 11250074
18. Yu J Zhang L Hwang PM Rago C Kinzler KW Vogelstein B Identification and classification of p53-regulated genes. Proc Natl Acad Sci USA 1999 96 14517-14522 24468 10588737 10.1073/pnas.96.25.14517
19. Maquat LE Nonsense-mediated mRNA decay: Splicing, translation and mRNP dynamics. Nat Rev Mol Cell Biol 2004 5 89-99 10.1038/nrm1310 15040442
20. Amatruda JF Zon LI Dissecting hematopoiesis and disease using the zebrafish. Dev Biol 1999 216 1-15 10.1006/dbio.1999.9462 10588859
21. Masahito P Aoki K Egami N Ishikawa T Sugano H Life-span studies on spontaneous tumor development in the medaka (Oryzias latipes). Jpn J Cancer Res 1989 80 1058-1065 2514168
22. Berghmans S Murphey RD Wienholds E Neuberg D Kutok JL Fletcher CD Morris JP Liu TX Schulte-Merker S Kanki JP tp53 mutant zebrafish develop malignant peripheral nerve sheath tumors. Proc Natl Acad Sci USA 2005 102 407-412 544293 15630097 10.1073/pnas.0406252102
23. Donehower LA Harvey M Slagle BL McArthur MJ Montgomery CA Jr Butel JS Bradley A Mice deficient for p53 are developmentally normal but susceptible to spontaneous tumours. Nature 1992 356 215-221 10.1038/ 356215a0 1552940
24. Li FP Fraumeni JF Jr Mulvihill JJ Blattner WA Dreyfus MG Tucker MA Miller RW A cancer family syndrome in twenty-four kindreds. Cancer Res 1988 48 5358-5362 3409256
25. Giasson BI Lee VM Parkin and the molecular pathways of Parkinson's disease. Neuron 2001 31 885-888 10.1016/S0896-6273(01)00439-1 11580890
26. Hattori N Matsumine H Asakawa S Kitada T Yoshino H Elibol B Brookes AJ Yamamura Y Kobayashi T Wang M Point mutations (Thr240Arg and Gln311Stop) [correction of Thr240Arg and Ala311Stop] in the Parkin gene. Biochem Biophys Res Commun 1998 249 754-758 10.1006/bbrc.1998.9134 9731209
27. Ellis NA Groden J Ye TZ Straughen J Lennon DJ Ciocci S Proytcheva M German J The Bloom's syndrome gene product is homologous to RecQ helicases. Cell 1995 83 655-666 10.1016/0092-8674(95)90105-1 7585968
28. Chester N Kuo F Kozak C O'Hara CD Leder P Stage-specific apoptosis, developmental delay, and embryonic lethality in mice homozygous for a targeted disruption in the murine Bloom's syndrome gene. Genes Dev 1998 12 3382-3393 317228 9808625
29. Furutani-Seiki M Wittbrodt J Medaka and zebrafish, an evolutionary twin study. Mech Dev 2004 121 629-637 10.1016/j.mod.2004.05.010 15210172
30. Hyodo-Taguchi Y Inbred strains of the medaka (Oryzias latipes). Fish Biol J Medaka 1996 8 29-30
31. Cho Y Gorina S Jeffrey PD Pavletich NP Crystal structure of a p53 tumor suppressor-DNA complex: Understanding tumorigenic mutations. Science 1994 265 346-355 10.1126/science.8023157 8023157
32. Joerger AC Allen MD Fersht AR Crystal structure of a superstable mutant of human p53 core domain. Insights into the mechanism of rescuing oncogenic mutations. J Biol Chem 2004 279 1291-1296 10.1074/ jbc.M309732200 14534297
33. Rolley N Butcher S Milner J Specific DNA binding by different classes of human p53 mutants. Oncogene 1995 11 763-770 7651740
34. Dimitrijevic N Winkler C Wellbrock C Gomez A Duschl J Altschmied J Schartl M Activation of the Xmrk proto-oncogene of Xiphophorus by overexpression and mutational alterations. Oncogene 1998 16 1681-1690 10.1038/sj.onc.1201693 9582016
35. Langenau DM Traver D Ferrando AA Kutok JL Aster JC Kanki JP Lin S Prochownik E Trede NS Zon LI Look AT Myc-induced T cell leukemia in transgenic zebrafish. Science 2003 299 887-890 10.1126/science.1080280 12574629
36. Haramis AP Hurlstone A van der Velden Y Begthel H van den Born M Offerhaus GJ Clevers HC Adenomatous polyposis coli-deficient zebrafish are susceptible to digestive tract neoplasia. EMBO Rep 2006 7 444-449 16439994
37. Krause MK Rhodes LD Van Beneden RJ Cloning of the p53 tumor suppressor gene from the Japanese medaka (Oryzias latipes) and evaluation of mutational hotspots in MNNG-exposed fish. Gene 1997 189 101-106 10.1016/ S0378-1119(96)00841-4 9161419
38. Patton EE Widlund HR Kutok JL Kopani KR Amatruda JF Murphey RD Berghmans S Mayhall EA Traver D Fletcher CD BRAF mutations are sufficient to promote nevi formation and cooperate with p53 in the genesis of melanoma. Curr Biol 2005 15 249 254 10.1016/j.cub.2005.01.031 15694309
39. Medaka Book 3.3.1 Cryo-preservation of Medaka sperm http://www.shigen.nig.ac.jp/medaka/medakabook/ index.php?3.3.1%20Cryo-preservation%20of%20Medaka%20sperm
40. LIMSTILL: Laboratory Information System for the Identification of Mutations by sequencing and TILLing http://limstill.niob.knaw.nl
41. Nickerson DA Tobe VO Taylor SL PolyPhred: Automating the detection and genotyping of single nucleotide substitutions using fluorescence-based resequencing. Nucleic Acids Res 1997 25 2745-2751 146817 9207020 10.1093/ nar/25.14.2745
42. Komura J Mitani H Shima A Fish cell culture: Establishment of two fibroblast-like cell lines (OL-17 and OL-32) from fin of the Medaka, Oryzias latipes. In Vitro Cell Dev Biol 1998 24 294-298