Publications

Peer-reviewed publications

Search for Wittbrodt, J. publications on pubmedlogo

(since 2000)

2007

78. DelBene, F., Ettwiller, L., Skowronska-Krawczyk, D., Baier, H., Matter, J.-M., Birney, E., and Wittbrodt, J. (2007). In vivo Validation of a Computationally Predicted Conserved Ath5 Target Gene Set PLOS Genetics, in press.

77. Ettwiller, L., Paten, B., Ramialison, M., Birney, E., and Wittbrodt, J. (2007). TRAWLER: de novo Regulatory Motif Discovery Pipeline for Chromatin Immunoprecipitation. Nature Methods, 563-565.

76. Martinez-Morales, J. R., Henrich, T., Ramialison, M., and Wittbrodt, J. (2007). New Genes in the Evolution of the Neural Crest Differentiation Program. Genome Biol 8, R36.

75. Steinmetz, P. R. H., Zelada-Gonzales, F., Burgtorf, C., Wittbrodt, J., and Arendt, D. (2007). Polychaete trunk neuroectoderm converges and extends by mediolateral cell intercalation. Proc Natl Acad Sci U S A 8, 2727-2732.

74. Yokoi, H., Shimada, A., Carl, M., Takashima, S., Kobayashi, D., Narita, T., Jindo, T., Kimura, T., Kitagawa, T., Kage, T., Sawada, A., Naruse, K., Asakawa, S., Wittbrodt, J., Shimizu, N., Mitani, H., Shima, A., Tsutsumi, M., Hori, H., Saga, Y., Ishikawa, Y., Araki, K., and Takeda, H. (2007). Mutant analyses reveal different functions of fgfr1 in medaka and zebrafish despite conserved ligand-receptor relationships. Developmental Biology 1, 326-337.

73. Grabher, C., Cliffe, A., Miura, K., Hayflick, J., Pepperkok, R., Rørth, P., and Wittbrodt, J. (2007). Birth and life of tissue macrophages and their migration in embryogenesis and inflammation in medaka. Journal of Leukocyte Biology 81, 263-271.

2006

72.    Ason, B., Darnell, D. K., Wittbrodt, B., Berezikov, E., Kloosterman, W. P., Wittbrodt, J., Antin, P. B., and Plasterk, R. H. A. (2006). Differences in Vertebrate MicroRNA Expression. Proc Natl Acad Sci U S A 39, 14385-14389.

71.    Rembold, M., Lahiri, K., Foulkes, N. S., and Wittbrodt, J. (2006). Transgenesis in fish: efficient selection of transgenic fish by co-injection with a fluorescent reporter construct. Nature Protocols 1, 1133 - 1139.

70.    Rembold, M., Loosli, F., Adams, R. J., and Wittbrodt, J. (2006). Individual cell migration serves as the driving force for optic vesicle evagination. Science 313, 1130-1134.

69.    Nakamura, S., Kobayashi, D., Aoki, Y., Yokoi, H., Ebe, Y., Wittbrodt, J., and Tanaka, M. (2006). Identification and lineage tracing of two populations of somatic gonadal precursors in medaka embryos. Dev Biol 295, 678-688

68.    Swindell, E. C., Bailey, T. J., Loosli, F., Liu, C., Amaya-Manzanares, F., Mahon, K. A., Wittbrodt, J., and Jamrich, M. (2006). Rx-Cre, a tool for inactivation of gene expression in the developing retina. Genesis 44, 361-363.

67.    Wichmann, O., Wittbrodt, J., and Schultz, C. (2006). A small-molecule FRET probe to monitor phospholipase A2 activity in cells and organisms. Angew Chem Int Ed Engl 45, 508-512.

2005

66.    Ettwiller, L.*, Paten, B.*, Souren, M.,* Loosli, F., Wittbrodt, J., and Birney, E. (2005). The discovery, positioning and verification of a set of transcription-associated motifs in vertebrates. Genome Biol 6, R104. (*equal contribution)

65.    Fritzsch, B., Piatigorsky, J., Tessmar-Raible, K., Jekely, G., Guy, K., Raible, F., Wittbrodt, J., and Arendt, D. (2005). Ancestry of Photic and Mechanic Sensation? Science 308, 1113-1114.

64.    Henrich, T., Ramialison, M., Wittbrodt, B., Assouline, B., Bourrat, F., Berger, A., Himmelbauer, H., Sasaki, T., Shimizu, N., Westerfield, M., Kondoh, H., and Wittbrodt, J. (2005). MEPD: a resource for medaka gene expression patterns. Bioinformatics 21, 3195-3197.

63.    Schäfer, M., Rembold, M., Wittbrodt, J., Schartl, M., and Winkler, C. (2005). Medial floor plate formation in zebrafish consists of two phases and requires trunk-derived Midkine-a. G&D 19, 897-902.

62.    Martinez-Morales, J.-R., Del Bene, F., Nica, G., Hammerschmidt, M., Bovolenta, P., and Wittbrodt, J. (2005). Differentiation of the Vertebrate Retina Is Coordinated by an FGF Signaling Center. Developmental Cell 8, 565-574.

2004

61.    Grabher, C., Joly, J. S., and Wittbrodt, J. (2004). Highly efficient zebrafish transgenesis mediated by the meganuclease I-SceI. Methods Cell Biol 77, 381-401.

60.    Schartl, M., Nanda, I., Kondo, M., Schmid, M., Asakawa, S., Sasaki, T., Shimizu, N., Henrich, T., Wittbrodt, J., Furutani-Seiki, M., Kondoh, H., Himmelbauer, H., Hong, Y., Koga, A., Nonaka, M., Mitani, H., and Shima, A. (2004). Current status of medaka genetics and genomics. The Medaka Genome Initiative (MGI). Methods Cell Biol 77, 173-199.

59.    Arendt, D., Tessmar-Raible, K., Snyman, H., Dorresteijn, A., and Wittbrodt, J. (2004). Ciliary photoreceptors with vertebrate-type opsins in an invertebrate brain. Science 306, 869-871..

58.    Grabher, C., and Wittbrodt, J. (2004). Efficient activation of gene expression using a heat-shock inducible Gal4/Vp16-UAS system in medaka. BMC Biotechnol 4, 26.

57.    Huisken, J., Swoger, J., Del Bene, F., Wittbrodt, J., and Stelzer, E. H. (2004). Optical sectioning deep inside live embryos by selective plane illumination microscopy. Science 305, 1007-1009.

56.    Henrich, T., Ramialison, M., Segerdell, E., Westerfield, M., Furutani-Seiki, M., Wittbrodt, J., and Kondoh, H. (2004). GSD: a genetic screen database. MOD 121, 959-963.

55.    Rembold, M., and Wittbrodt, J. (2004). In vivo time-lapse imaging in medaka--n-heptanol blocks contractile rhythmical movements. MOD 121, 965-970.

54.    Quiring, R., Wittbrodt, B., Henrich, T., Ramialison, M., Burgtorf, C., Lehrach, H., and Wittbrodt, J. (2004). Large-scale expression screening by automated whole-mount in situ hybridization. MOD 121, 971-976.

53.    Loosli, F., Bene, F. D., Quiring, R., Rembold, M., Martinez-Morales, J. R., Carl, M., Grabher, C., Iquel, C., Krone, A., Wittbrodt, B., Winkler, S., Sasado, T., Morinaga, C., Suwa, H., Niwa, K., Henrich, T., Deguchi, T., Hirose, Y., Iwanami, N., Kunimatsu, S., Osakada, M., Watanabe, T., Yasuoka, A., Yoda, H., Winkler, C., Elmasri, H., Kondoh, H., Furutani-Seiki, M., and Wittbrodt, J. (2004). Mutations affecting retina development in Medaka. MOD 121, 703-714.

52.    Watanabe, T., Asaka, S., Kitagawa, D., Saito, K., Kurashige, R., Sasado, T., Morinaga, C., Suwa, H., Niwa, K., Henrich, T., Hirose, Y., Yasuoka, A., Yoda, H., Deguchi, T., Iwanami, N., Kunimatsu, S., Osakada, M., Loosli, F., Quiring, R., Carl, M., Grabher, C., Winkler, S., Del Bene, F., Wittbrodt, J., Abe, K., Takahama, Y., Takahashi, K., Katada, T., Nishina, H., Kondoh, H., and Furutani-Seiki, M. (2004). Mutations affecting liver development and function in Medaka, Oryzias latipes, screened by multiple criteria. MOD 121, 791-802.

51.    Yoda, H., Hirose, Y., Yasuoka, A., Sasado, T., Morinaga, C., Deguchi, T., Henrich, T., Iwanami, N., Watanabe, T., Osakada, M., Kunimatsu, S., Wittbrodt, J., Suwa, H., Niwa, K., Okamoto, Y., Yamanaka, T., Kondoh, H., and Furutani-Seiki, M. (2004). Mutations affecting retinotectal axonal pathfinding in Medaka, Oryzias latipes. MOD 121, 715-728.

50.    Kitagawa, D., Watanabe, T., Saito, K., Asaka, S., Sasado, T., Morinaga, C., Suwa, H., Niwa, K., Yasuoka, A., Deguchi, T., Yoda, H., Hirose, Y., Henrich, T., Iwanami, N., Kunimatsu, S., Osakada, M., Winkler, C., Elmasri, H., Wittbrodt, J., Loosli, F., Quiring, R., Carl, M., Grabher, C., Winkler, S., Del Bene, F., Momoi, A., Katada, T., Nishina, H., Kondoh, H., and Furutani-Seiki, M. (2004). Genetic dissection of the formation of the forebrain in Medaka, Oryzias latipes. MOD 121, 673-685.

49.    Elmasri, H., Winkler, C., Liedtke, D., Sasado, T., Morinaga, C., Suwa, H., Niwa, K., Henrich, T., Hirose, Y., Yasuoka, A., Yoda, H., Watanabe, T., Deguchi, T., Iwanami, N., Kunimatsu, S., Osakada, M., Loosli, F., Quiring, R., Carl, M., Grabher, C., Winkler, S., Del Bene, F., Wittbrodt, J., Abe, K., Takahama, Y., Takahashi, K., Katada, T., Nishina, H., Kondoh, H., and Furutani-Seiki, M. (2004). Mutations affecting somite formation in the Medaka (Oryzias latipes). MOD 121, 659-671.

48.    Khorasani, M. Z., Hennig, S., Imre, G., Asakawa, S., Palczewski, S., Berger, A., Hori, H., Naruse, K., Mitani, H., Shima, A., Lehrach, H., Wittbrodt, J., Kondoh, H., Shimizu, N., and Himmelbauer, H. (2004). A first generation physical map of the medaka genome in BACs essential for positional cloning and clone-by-clone based genomic sequencing. MOD 121, 903-913.

47.    Furutani-Seiki, M., Sasado, T., Morinaga, C., Suwa, H., Niwa, K., Yoda, H., Deguchi, T., Hirose, Y., Yasuoka, A., Henrich, T., Watanabe, T., Iwanami, N., Kitagawa, D., Saito, K., Asaka, S., Osakada, M., Kunimatsu, S., Momoi, A., Elmasri, H., Winkler, C., Ramialison, M., Loosli, F., Quiring, R., Carl, M., Grabher, C., Winkler, S., Del Bene, F., Shinomiya, A., Kota, Y., Yamanaka, T., Okamoto, Y., Takahashi, K., Todo, T., Abe, K., Takahama, Y., Tanaka, M., Mitani, H., Katada, T., Nishina, H., Nakajima, N., Wittbrodt, J., and Kondoh, H. (2004). A systematic genome-wide screen for mutations affecting organogenesis in Medaka, Oryzias latipes. MOD 121, 647-658.

46.    Poggi, L., Vottari, T., Barsacchi, G., Wittbrodt, J., and Vignali, R. (2004). The homeobox gene Xbh1 cooperates with proneural genes to specify ganglion cell fate in the Xenopus neural retina. Development 1331, 2305-2315.

45.    Del Bene, F., Tessmar-Raible, K., and Wittbrodt, J. (2004). Direct interaction of geminin and Six3 in eye development. Nature 427, 745-749.

44.    Martinez-Morales, J.-R., Naruse, K., Mitani, H., Shima, A., and Wittbrodt, J. (2004). Rapid chromosomal assignment of Medaka mutants by bulked segregant analysis. Gene 329, 159-165.

2003

43.    Prud'homme, B., de Rosa, R., Arendt, D., Julien, J. F., Pajaziti, R., Dorresteijn, A. W., Adoutte, A., Wittbrodt, J., and Balavoine, G. (2003). Arthropod-like expression patterns of engrailed and wingless in the annelid Platynereis dumerilii suggest a role in segment formation. Curr Biol 13, 1876-1881

42 a:  Erratum to "Transposon-mediated enhancer trapping in medaka" [Gene 322 (2003) 57–66], Gene, 327, 239
C. Grabher , T. Henrich , T. Sasado , A. Arenz , M. Furutani-Seiki and J. Wittbrodt

42.    Grabher, C., Henrich, T., Sasado, T., Arenz, A., Wittbrodt, J., and Furutani-Seiki, M. (2003). Transposon-mediated enhancer trapping in medaka. Gene 322, 57-66.

41.    Loosli, F., Staub, W., Finger-Baier, K., Ober, E., Verkade, H., Wittbrodt, J., and Baier, H. (2003). Loss of eyes in zebrafish caused by mutation of chokh/rx3. EMBO Reports 4, 894-899.

40.    Lopez-Rios, J., Tessmar, K., Loosli, F., Wittbrodt, J.,* and Bovolenta, P.* (2003). Six3 and Six6 activity is modulated by members of the groucho family. Development 130, 185-195. (co-correspondence)

39.    Hammerschmidt, M., Kramer, C., Nowak, M., Herzog, W., and Wittbrodt, J. (2003). Loss of maternal Smad5 in zebrafish embryos affects patterning and morphogenesis of optic primordia. Dev Dyn 227, 128-133.

38.    Henrich, T., Ramialison, M., Quiring, R., Wittbrodt, B., Furutani-Seiki, M., Wittbrodt, J., and Kondoh, H. (2003). MEPD: A medaka gene expression pattern database. Nucleic Acids Res 31, 72-74.

2002

37.    Thermes, V., Grabher, C., Ristoratore, F., Bourrat, F., Choulika, A.*, Wittbrodt, J.*, and Joly, J. S.* (2002). I-SceI meganuclease mediates highly efficient transgenesis in fish. MOD 118, 91-98. (co-correspondence)

36.    Poggi, L., Carl, M., Vignali, R., Barsacchi, G., and Wittbrodt, J. (2002). Expression of a medaka (Oryzias latipes) Bar homologue in the differentiating central nervous system and retina. MOD 114, 193-196.

35.    Arendt, D., Tessmar, K., de Campos-Baptista, M. I., Dorresteijn, A., and Wittbrodt, J. (2002). Development of pigment-cup eyes in the polychaete Platynereis dumerilii and evolutionary conservation of larval eyes in Bilateria. Development 129, 1143-1154.

34.    Loosli, F., Mardon, G., and Wittbrodt, J. (2002). Cloning and expression of medaka Dachshund. MOD 112, 203-206.

33.    Tessmar, K., Loosli, F., and Wittbrodt, J. (2002). A screen for co-factors of Six3. MOD 117, 103-113.

32.    Carl, M., Loosli, F., and Wittbrodt, J. (2002). Six3 inactivation reveals its essential role for the formation and patterning of the vertebrate eye. Development 129, 4057-4063.

2001

31.    Adamska, M., Wolff, A., Kreusler, M., Wittbrodt, J., Braun, T., and Bober, E. (2001). Five Nkx5 genes show differential expression patterns in anlagen of sensory organs in medaka: insight into the evolution of the gene family. Development Genes & Evolution 211, 338-349.

30.    Loosli, F., Winkler, S., Burgtorf, C., Wurmbach, E., Ansorge, W., Henrich, T., Grabher, C., Arendt, D., Carl, M., Krone, A., Grzebisz, E., and Wittbrodt, J. (2001). Medaka eyeless is the key factor linking retinal dertermination and eye growth. Development 128, 4035-4044.

29.    Arendt, D., Technau, U., and Wittbrodt, J. (2001). Evolution of the bilaterian larval foregut. Nature 409, 81-85.

2000

28.    Loosli, F., Koster, R. W., Carl, M., Kuhnlein, R., Henrich, T., Mucke, M., Krone, A., and Wittbrodt, J. (2000). A genetic screen for mutations affecting embryonic development in medaka fish (Oryzias latipes). MOD 97, 133-139.

27.    Henrich, T., and Wittbrodt, J. (2000). An in situ hybridization screen for the rapid isolation of differentially expressed genes. Development Genes & Evolution 210, 28-33.

26.    Köster, R. W., Kühnlein, R. P., and Wittbrodt, J. (2000). Ectopic Sox3 activity elicits sensory placode formation. MOD 95, 175-187.

Reviews

6. Grabher, C., and Wittbrodt, J. (2007). Meganuclease and transposon mediated transgenesis in medaka. Genome Biology in press.

5. Del Bene, F., and Wittbrodt, J. (2005). Cell cycle control by homeobox genes in development and disease. Seminars in Cell and Developmental Biology 16, 449-460.

4. Furutani-Seiki, M., and Wittbrodt, J. (2004). Medaka and zebrafish, an evolutionary twin study. MOD 121, 629-637.

3. Shima, A., Himmelbauer, H., Mitani, H., Furutani-Seiki, M., Wittbrodt, J., and Schartl, M. (2003). Fish genomes flying. EMBO Rep 4, 121-125.

2. Wittbrodt, J., Shima, A., and Schartl, M. (2002). Medaka - A model organism from the Far East. Nature Reviews Genetics 3, 53-64.

1. Arendt, D., and Wittbrodt, J. (2001). Reconstructing the eyes of Urbilateria. Philosophical Transactions of the Royal Society of London Series B: Biological Sciences 356, 1545-1563.

Book chapters

4. Del Bene, F., and Wittbrodt, J. (2005). Eye Development. In Cell Signaling and Growth Factors in Development, K. Unsicker, and K. Kreigelstein, eds. (Weinheinm, Wiley-VCH), pp. 449-486

3. Grabher, C and Wittbrodt, J. Recent advances in meganuclease- and transposon-mediated transgenesis of Medaka and zebrafish. in Molecular Embryology (ed Mason, I, et al) Humana Press

2. Loosli, F and Wittbrodt, J. Medaka as a Model Organism for Functional Genomics. In Encyclopedic Reference of Genomics and Proteomics in Molecular Medicine (Ganten, D & Ruckpaul, K) Springer 2004

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Latest Revision: 2013-02-12
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