ZFIN ID: ZDB-LAB-991005-53
Zebrafish International Resource Center (ZIRC)
PI/Director: Varga, Zoltan M.
Westerfield, Monte
Co-PI / Senior
Researcher:
Kent, Michael
Contact Person: Quinn, Erin
Email: zirc@zebrafish.org
URL: http://zebrafish.org/
Address: 5274 University of Oregon Eugene, OR 97403-5274 USA
Phone: (541) 346-6028 x10
Fax:
Line Designation: rc


GENOMIC FEATURES ORIGINATING FROM THIS LAB

STATEMENT OF RESEARCH INTERESTS
The Zebrafish International Resource Center provides a central repository for wild-type and mutant strains of zebrafish (Danio rerio) and for materials and information about zebrafish research. Materials and zebrafish strains are collected from and distributed to the research community.

Obtain stocks, cDNAs, ESTs or other materials on-line form
Submit stocks using our on-line form
Pathology services on-line form
Husbandry services on-line form

Standards and procedures for maintaining healthy strains of zebrafish are being developed and a manual for prevention, diagnosis, and treatment of diseases affecting zebrafish is being prepared.



LAB MEMBERS
Murray, Katy MD/Veterinarian Hwang-Shum, Jen-Jen Research Staff Nasiadka, Andrzej Research Staff
Bauer, Justin Fish Facility Staff Clark, Renee Fish Facility Staff Core, Keely Fish Facility Staff
Lains, David Fish Facility Staff Loucks, Evyn Fish Facility Staff Marston, Dagmara Fish Facility Staff
Matthews, Jennifer Fish Facility Staff Murphy, Joy Fish Facility Staff Smith, Calvin Fish Facility Staff
Williams, Evan Fish Facility Staff Hennesy, Gordon Technical Staff Holland, Ron Technical Staff
Schumann, Alex Technical Staff Freeman, April Administrative Staff Quinn, Erin Administrative Staff


ZEBRAFISH PUBLICATIONS OF LAB MEMBERS
Mason, T., Snell, K., Mittge, E., Melancon, E., Montgomery, R., McFadden, M., Camoriano, J., Kent, M.L., Whipps, C.M., Peirce, J. (2016) Strategies to Mitigate a Mycobacterium marinum Outbreak in a Zebrafish Research Facility. Zebrafish. 13 Suppl 1:S77-87
Varga, Z.M., Lawrence, C., Ekker, S.C., Eisen, J.S. (2016) Universal Healthcare for Zebrafish. Zebrafish. 13 Suppl 1:S1-4
Varga, Z.M. (2016) Aquaculture, husbandry, and shipping at the Zebrafish International Resource Center. Methods in cell biology. 135:509-34
Varga, Z.M., Murray, K.N. (2016) Health monitoring and disease prevention at the Zebrafish International Resource Center. Methods in cell biology. 135:535-51
Li, T., Fan, J., Blanco-Sánchez, B., Giagtzoglou, N., Lin, G., Yamamoto, S., Jaiswal, M., Chen, K., Zhang, J., Wei, W., Lewis, M.T., Groves, A.K., Westerfield, M., Jia, J., Bellen, H.J. (2016) Ubr3, a Novel Modulator of Hh Signaling Affects the Degradation of Costal-2 and Kif7 through Poly-ubiquitination. PLoS Genetics. 12:e1006054
Sanders, J.L., Watral, V., Stidworthy, M.F., Kent, M.L. (2016) Expansion of the Known Host Range of the Microsporidium, Pseudoloma neurophilia. Zebrafish. 13 Suppl 1:S102-6
Howe, D.G., Bradford, Y.M., Eagle, A., Fashena, D., Frazer, K., Kalita, P., Mani, P., Martin, R., Moxon, S.T., Paddock, H., Pich, C., Ramachandran, S., Ruzicka, L., Schaper, K., Shao, X., Singer, A., Toro, S., Van Slyke, C., Westerfield, M. (2016) A scientist's guide for submitting data to ZFIN. Methods in cell biology. 135:451-81
Mason, T., Snell, K., Mittge, E., Melancon, E., Montgomery, R., McFadden, M., Camoriano, J., Kent, M.L., Whipps, C.M., Peirce, J. (2016) Strategies to Mitigate a Mycobacterium marinum Outbreak in a Zebrafish Research Facility. Zebrafish. null
Spagnoli, S., Sanders, J., Watral, V., Kent, M.L. (2016) Pseudoloma neurophilia Infection Combined with Gamma Irradiation Causes Increased Mortality in Adult Zebrafish (Danio rerio) Compared to Infection or Irradiation Alone: New Implications for Studies Involving Immunosuppression. Zebrafish. 13 Suppl 1:S107-14
Goodwin, N., Karp, N.A., Blackledge, S., Clark, B., Keeble, R., Kovacs, C., Murray, K.N., Price, M., Thompson, P., Bussell, J. (2016) Standardized Welfare Terms for the Zebrafish Community. Zebrafish. 13 Suppl 1:S164-8
Varga, Z.M., Wilson, C., Alestrøm, P. (2016) European Zebrafish Meeting 2015 Husbandry Session Report. Zebrafish. 13(3)
Kent, M.L., Watral, V.G., Kirchoff, N.S., Spagnoli, S.T., Sharpton, T.J. (2016) Effects of Subclinical Mycobacterium chelonae Infections on Fecundity and Embryo Survival in Zebrafish. Zebrafish. 13 Suppl 1:S88-95
Murray, K.N., Varga, Z.M., Kent, M.L. (2016) Biosecurity and Health Monitoring at the Zebrafish International Resource Center. Zebrafish. 13 Suppl 1:S30-8
Yang, H., Daly, J., Carmichael, C., Matthews, J., Varga, Z.M., Tiersch, T. (2016) A Procedure-Spanning Analysis of Plasma Membrane Integrity for Assessment of Cell Viability in Sperm Cryopreservation of Zebrafish Danio rerio. Zebrafish. 13(2):144-51
Paquette, C.E., Kent, M.L., Peterson, T.S., Wang, R., Dashwood, R.H., Löhr, C.V. (2015) Immunohistochemical characterization of intestinal neoplasia in zebrafish Danio rerio indicates epithelial origin. Diseases of aquatic organisms. 116:191-7
Edmunds, R.C., Su, B., Balhoff, J.P., Eames, B.F., Dahdul, W.M., Lapp, H., Lundberg, J.G., Vision, T.J., Dunham, R.A., Mabee, P.M., Westerfield, M. (2015) Phenoscape: Identifying candidate genes for evolutionary phenotypes. Molecular Biology and Evolution. 33(1):13-24
Lyne, R., Sullivan, J., Butano, D., Contrino, S., Heimbach, J., Hu, F., Kalderimis, A., Lyne, M., Smith, R.N., Štěpán, R., Balakrishnan, R., Binkley, G., Harris, T., Karra, K., Moxon, S.A., Motenko, H., Neuhauser, S., Ruzicka, L., Cherry, M., Richardson, J., Stein, L., Westerfield, M., Worthey, E., Micklem, G. (2015) Cross-Organism Analysis Using InterMine. Genesis (New York, N.Y. : 2000). 53(8):547-60
Ruzicka, L., Bradford, Y.M., Frazer, K., Howe, D.G., Paddock, H., Ramachandran, S., Singer, A., Toro, S., Van Slyke, C.E., Eagle, A.E., Fashena, D., Kalita, P., Knight, J., Mani, P., Martin, R., Moxon, S.A., Pich, C., Schaper, K., Shao, X., Westerfield, M. (2015) ZFIN, the Zebrafish Model Organism Database: Updates and new directions. Genesis (New York, N.Y. : 2000). 53(8):498-509
Spagnoli, S., Xue, L., Kent, M.L. (2015) The common neural parasite Pseudoloma neurophilia is associated with altered startle response habituation in adult zebrafish (Danio rerio): Implications for the zebrafish as a model organism. Behavioural brain research. 291:351-60
Sanders, J.L., Zhou, Y., Moulton, H.M., Moulton, Z.X., McLeod, R., Dubey, J.P., Weiss, L.M., Kent, M.L. (2015) The zebrafish, Danio rerio, as a model for Toxoplasma gondii: an initial description of infection in fish. Journal of fish diseases. 38(7):675-9
Spagnoli, S.T., Xue, L., Murray, K.N., Chow, F., Kent, M.L. (2015) Pseudoloma neurophilia: A Retrospective and Descriptive Study of Nervous System and Muscle Infections, with New Implications for Pathogenesis and Behavioral Phenotypes. Zebrafish. 12:189-201
Elsayed, S.M., Phillips, J.B., Heller, R., Thoenes, M., Elsobky, E., Nürnberg, G., Nürnberg, P., Seland, S., Ebermann, I., Altmüller, J., Thiele, H., Toliat, M., Körber, F., Hu, X., Wu, Y.D., Zaki, M.S., Abdel-Salam, G., Gleeson, J., Boltshauser, E., Westerfield, M., Bolz, H.J. (2015) Non-manifesting AHI1 truncations indicate localized loss-of-function tolerance in a severe Mendelian disease gene. Human Molecular Genetics. 24(9):2594-603
Chow, F.W., Xue, L., Kent, M.L. (2015) Retrospective study of the prevalence of Pseudoloma neurophilia shows male sex bias in zebrafish Danio rerio (Hamilton-Buchanan). Journal of fish diseases. 39(3):367-70
Whipps, C.M., Kent, M.L., Murray, K.N. (2014) Occurrence of a Myxozoan Parasite Myxidium Streisingeri N. Sp. in Laboratory Zebrafish Danio Rerio. The Journal of parasitology. 101(1):86-90
Collymore, C., Watral, V., White, J.R., Colvin, M.E., Rasmussen, S., Tolwani, R.J., Kent, M.L. (2014) Tolerance and Efficacy of Emamectin Benzoate and Ivermectin for the Treatment of Pseudocapillaria tomentosa in Laboratory Zebrafish (Danio rerio). Zebrafish. 11:490-7
Beck, B.B., Phillips, J.B., Bartram, M.P., Wegner, J., Thoenes, M., Pannes, A., Sampson, J., Heller, R., Göbel, H., Koerber, F., Neugebauer, A., Hedergott, A., Nürnberg, G., Nürnberg, P., Thiele, H., Altmüller, J., Toliat, M.R., Staubach, S., Boycott, K.M., Valente, E.M., Janecke, A.R., Eisenberger, T., Bergmann, C., Tebbe, L., Wang, Y., Wu, Y., Fry, A.M., Westerfield, M., Wolfrum, U., Bolz, H.J. (2014) Mutation of POC1B in a Severe Syndromic Retinal Ciliopathy. Human Mutation. 35(10):1153-62
Phillips, J.B., Westerfield, M. (2014) Zebrafish models in translational research: tipping the scales toward advancements in human health. Disease models & mechanisms. 7:739-743
Cooper, T.K., Murray, K.N., Spagnoli, S., Spitsbergen, J.M. (2014) Primary Intestinal and Vertebral Chordomas in Laboratory Zebrafish (Danio rerio). Veterinary Pathology. 52(2):388-92
West, K., Miles, R., Kent, M.L., Frazer, J.K. (2014) Unusual Fluorescent Granulomas and Myonecrosis in Danio Rerio Infected by the Microsporidian Pathogen Pseudoloma Neurophilia. Zebrafish. 11(3):283-90
Blanco, B., Clément, A., Fierro, J., Washbourne, P., Westerfield, M. (2014) Complexes of Usher proteins preassemble at the endoplasmic reticulum and are required for trafficking and ER homeostasis. Disease models & mechanisms. 7:547-59
Van Slyke, C.E., Bradford, Y.M., Westerfield, M., Haendel, M.A. (2014) The zebrafish anatomy and stage ontologies: representing the anatomy and development of Danio rerio. Journal of biomedical semantics. 5:12
Whipps, C.M., Moss, L.G., Sisk, D.M., Murray, K.N., Tobin, D.M., and Moss, J.B. (2014) Detection of autofluorescent Mycobacterium chelonae in living zebrafish. Zebrafish. 11(1):76-82
Kent, M.L., Buchner, C., Barton, C., and Tanguay, R.L. (2014) Toxicity of chlorine to zebrafish embryos. Diseases of aquatic organisms. 107(3):235-240
Sanders, J.L., Peterson, T.S., and Kent, M.L. (2014) Early Development and Tissue Distribution of Pseudoloma neurophilia in the Zebrafish, Danio rerio. The Journal of eukaryotic microbiology. 61(3):238-46
Köhler, S., Doelken, S.C., Mungall, C.J., Bauer, S., Firth, H.V., Bailleul-Forestier, I., Black, G.C., Brown, D.L., Brudno, M., Campbell, J., Fitzpatrick, D.R., Eppig, J.T., Jackson, A.P., Freson, K., Girdea, M., Helbig, I., Hurst, J.A., Jähn, J., Jackson, L.G., Kelly, A.M., Ledbetter, D.H., Mansour, S., Martin, C.L., Moss, C., Mumford, A., Ouwehand, W.H., Park, S.M., Riggs, E.R., Scott, R.H., Sisodiya, S., Vooren, S.V., Wapner, R.J., Wilkie, A.O., Wright, C.F., Vulto-van Silfhout, A.T., Leeuw, N.D., de Vries, B.B., Washingthon, N.L., Smith, C.L., Westerfield, M., Schofield, P., Ruef, B.J., Gkoutos, G.V., Haendel, M., Smedley, D., Lewis, S.E., and Robinson, P.N. (2013) The Human Phenotype Ontology project: linking molecular biology and disease through phenotype data. Nucleic acids research. 42(1):D966-74
Peterson, T.S., Ferguson, J.A., Watral, V.G., Mutoji, K.N., Ennis, D.G., Kent, M.L. (2013) Paramecium caudatum enhances transmission and infectivity of Mycobacterium marinum and M. chelonae in zebrafish Danio rerio. Diseases of aquatic organisms. 106(3):229-39
Sanders, J.L., Watral, V., Clarkson, K., and Kent, M.L. (2013) Verification of Intraovum Transmission of a Microsporidium of Vertebrates: Pseudoloma neurophilia Infecting the Zebrafish, Danio rerio. PLoS One. 8(9):e76064
Phillips, J.B., Västinsalo, H., Wegner, J., Clément, A., Sankila, E.M., and Westerfield, M. (2013) The cone-dominant retina and the inner ear of zebrafish express the ortholog of CLRN1, the causative gene of human Usher syndrome type 3A. Gene Expression Patterns. 13(8):473-81
Hawke, J.P., Kent, M., Rogge, M., Baumgartner, W., Wiles, J., Shelley, J., Savolainen, L.C., Wagner, R., Murray, K., and Peterson, T.S. (2013) Edwardsiellosis Caused by Edwardsiella ictaluri in Laboratory Populations of Zebrafish Danio rerio. Journal of aquatic animal health. 25(3):171-183
Peterson, T.S., Kent, M.L., Ferguson, J.A., Watral, V.G., and Whipps, C.M. (2013) Comparison of fixatives and fixation time for PCR detection of Mycobacterium in zebrafish Danio rerio. Diseases of aquatic organisms. 104(2):113-120
Sullivan, J., Karra, K., Moxon, S.A.T., Vallejos, A., Motenko, H., Wong, J.D., Aleksic, J., Balakrishnan, R., Binkley, G., Harris, T., Hitz, B., Jayaraman, P., Lyne, R., Neuhauser, S., Pich, C., Smith, R.N., Trinh, Q., Cherry, J.M., Richardson, J., Stein, L., Twigger, S., Westerfield, M., Worthey, E., and Micklem, G. (2013) InterMOD: integrated data and tools for the unification of model organism research. Scientific Reports. 3:1802
Howe, K., Clark, M.D., Torroja, C.F., Torrance, J., Berthelot, C., Muffato, M., Collins, J.E., Humphray, S., McLaren, K., Matthews, L., McLaren, S., Sealy, I., Caccamo, M., Churcher, C., Scott, C., Barrett, J.C., Koch, R., Rauch, G.J., White, S., Chow, W., Kilian, B., Quintais, L.T., Guerra-Assunção, J.A., Zhou, Y., Gu, Y., Yen, J., Vogel, J.H., Eyre, T., Redmond, S., Banerjee, R., Chi, J., Fu, B., Langley, E., Maguire, S.F., Laird, G.K., Lloyd, D., Kenyon, E., Donaldson, S., Sehra, H., Almeida-King, J., Loveland, J., Trevanion, S., Jones, M., Quail, M., Willey, D., Hunt, A., Burton, J., Sims, S., McLay, K., Plumb, B., Davis, J., Clee, C., Oliver, K., Clark, R., Riddle, C., Eliott, D., Threadgold, G., Harden, G., Ware, D., Mortimer, B., Kerry, G., Heath, P., Phillimore, B., Tracey, A., Corby, N., Dunn, M., Johnson, C., Wood, J., Clark, S., Pelan, S., Griffiths, G., Smith, M., Glithero, R., Howden, P., Barker, N., Stevens, C., Harley, J., Holt, K., Panagiotidis, G., Lovell, J., Beasley, H., Henderson, C., Gordon, D., Auger, K., Wright, D., Collins, J., Raisen, C., Dyer, L., Leung, K., Robertson, L., Ambridge, K., Leongamornlert, D., McGuire, S., Gilderthorp, R., Griffiths, C., Manthravadi, D., Nichol, S., Barker, G., Whitehead, S., Kay, M., Brown, J., Murnane, C., Gray, E., Humphries, M., Sycamore, N., Barker, D., Saunders, D., Wallis, J., Babbage, A., Hammond, S., Mashreghi-Mohammadi, M., Barr, L., Martin, S., Wray, P., Ellington, A., Matthews, N., Ellwood, M., Woodmansey, R., Clark, G., Cooper, J., Tromans, A., Grafham, D., Skuce, C., Pandian, R., Andrews, R., Harrison, E., Kimberley, A., Garnett, J., Fosker, N., Hall, R., Garner, P., Kelly, D., Bird, C., Palmer, S., Gehring, I., Berger, A., Dooley, C.M., Ersan-Ürün, Z., Eser, C., Geiger, H., Geisler, M., Karotki, L., Kirn, A., Konantz, J., Konantz, M., Oberländer, M., Rudolph-Geiger, S., Teucke, M., Osoegawa, K., Zhu, B., Rapp, A., Widaa, S., Langford, C., Yang, F., Carter, N.P., Harrow, J., Ning, Z., Herrero, J., Searle, S.M., Enright, A., Geisler, R., Plasterk, R.H., Lee, C., Westerfield, M., de Jong, P.J., Zon, L.I., Postlethwait, J.H., Nüsslein-Volhard, C., Hubbard, T.J., Crollius, H.R., Rogers, J., and Stemple, D.L. (2013) The zebrafish reference genome sequence and its relationship to the human genome. Nature. 496:498-503
Paquette, C.E., Kent, M.L., Buchner, C., Tanguay, R.L., Guillemin, K., Mason, T.J., and Peterson, T.S. (2013) A Retrospective Study of the Prevalence and Classification of Intestinal Neoplasia in Zebrafish (Danio rerio). Zebrafish. 10(2):228-36
Doelken, S.C., Köhler, S., Mungall, C.J., Gkoutos, G.V., Ruef, B.J., Smith, C., Smedley, D., Bauer, S., Klopocki, E., Schofield, P.N., Westerfield, M., Robinson, P.N., and Lewis, S.E. (2013) Phenotypic overlap in the contribution of individual genes to CNV pathogenicity revealed by cross-species computational analysis of single-gene mutations in humans, mice and zebrafish. Disease models & mechanisms. 6(2):358-372
Neal, J.T., Peterson, T.S., Kent, M.L., and Guillemin, K. (2013) H. pylori Virulence Factor CagA Increases Intestinal Cell Proliferation by Wnt Pathway Activation in a Transgenic Zebrafish Model. Disease models & mechanisms. 6(3):802-10
Köhler, S., Doelken, S.C., Ruef, B.J., Bauer, S., Washington, N., Westerfield, M., Gkoutos, G., Schofield, P., Smedley, D., Lewis, S.E., Robinson, P.N., and Mungall, C.J. (2013) Construction and accessibility of a cross-species phenotype ontology along with gene annotations for biomedical research. F1000 Research. 2:30
Peterson, T.S., Heidel, J.R., Murray, K.N., Sanders, J.L., Anderson, W.I., and Kent, M.L. (2013) Malignant Dysembryoplastic Neuroepithelial Tumour in a Zebrafish (Danio rerio). Journal of Comparative Pathology. 148(2-3):220-224
Howe, D.G., Bradford, Y.M., Conlin, T., Eagle, A.E., Fashena, D., Frazer, K., Knight, J., Mani, P., Martin, R., Moxon, S.A., Paddock, H., Pich, C., Ramachandran, S., Ruef, B.J., Ruzicka, L., Schaper, K., Shao, X., Singer, A., Sprunger, B., Van Slyke, C.E., and Westerfield, M. (2013) ZFIN, the Zebrafish Model Organism Database: increased support for mutants and transgenics. Nucleic acids research. 41(D1):D854-860
Dahdul, W.M., Balhoff, J.P., Blackburn, D.C., Diehl, A.D., Haendel, M.A., Hall, B.K., Lapp, H., Lundberg, J.G., Mungall, C.J., Ringwald, M., Segerdell, E., Van Slyke, C.E., Vickaryous, M.K., Westerfield, M., and Mabee, P.M. (2012) A unified anatomy ontology of the vertebrate skeletal system. PLoS One. 7(12):e51070
Corvi, M.M., Stanley, K.A., Peterson, T.S., Kent, M.L., Feist, S.W., La Du, J.K., Volz, D.C., Hosmer, A.J., and Tanguay, R.L. (2012) Investigating the Impact of Chronic Atrazine Exposure on Sexual Development in Zebrafish. Birth defects research. Part B, Developmental and reproductive toxicology. 95(4):276-288
Mabee, B.P., Balhoff, J.P., Dahdul, W.M., Lapp, H., Midford, P.E., Vision, T.J., and Westerfield, M. (2012) 500,000 fish phenotypes: The new informatics landscape for evolutionary and developmental biology of the vertebrate skeleton. Journal of Applied Ichthyology. 28(3):300-305
Gao, J., Zhang, C., Yang, B., Sun, L., Zhang, C., Westerfield, M., and Peng, G. (2012) Dcc Regulates Asymmetric Outgrowth of Forebrain Neurons in Zebrafish. PLoS One. 7(5):e36516
Loucks, E., and Ahlgren, S. (2012) Assessing teratogenic changes in a zebrafish model of fetal alcohol exposure. Journal of visualized experiments : JoVE. (61)
Kent, M.L., and Varga, Z. (2012) Introduction: use of zebrafish in research and importance of health and husbandry. ILAR journal. 53(2):89-94
Kent, M.L., Harper, C., and Wolf, J.C. (2012) Documented and potential research impacts of subclinical diseases in zebrafish. ILAR journal. 53(2):126-134
Matthews, M., and Varga, Z.M. (2012) Anesthesia and euthanasia in zebrafish. ILAR journal. 53(2):192-204
Nasiadka, A., and Clark, M.D. (2012) Zebrafish breeding in the laboratory environment. ILAR journal. 53(2):161-168
Sanders, J.L., Watral, V., and Kent, M.L. (2012) Microsporidiosis in zebrafish research facilities. ILAR journal. 53(2):106-113
Cali, A., Kent, M., Sanders, J., Pau, C., and Takvorian, P.M. (2011) Development, Ultrastructural Pathology, and Taxonomic Revision of the Microsporidial Genus, Pseudoloma and Its Type Species Pseudoloma neurophilia, in Skeletal Muscle and Nervous Tissue of Experimentally Infected Zebrafish Danio rerio. The Journal of eukaryotic microbiology. 59(1):40-8
Sanders, J.L., and Kent, M.L. (2011) Development of a sensitive assay for the detection of Pseudoloma neurophilia in laboratory populations of the zebrafish Danio rerio. Diseases of aquatic organisms. 96(2):145-156
Phillips, J.B., Blanco-Sanchez, B., Lentz, J.J., Tallafuss, A., Khanobdee, K., Sampath, S., Jacobs, Z.G., Han, P.F., Mishra, M., Williams, D.S., Keats, B.J., Washbourne, P., and Westerfield, M. (2011) Harmonin (Ush1c) is required in zebrafish Muller glial cells for photoreceptor synaptic development and function. Disease models & mechanisms. 4(6):786-800
Lawrence, C., Ennis, D.G., Harper, C., Kent, M.L., Murray, K., and Sanders, G.E. (2011) The challenges of implementing pathogen control strategies for fishes used in biomedical research. Comparative biochemistry and physiology. Toxicology & pharmacology : CBP. 155(1):160-6
Varga, Z.M., and Tiersch, T.R. (2011) Workshop and panel discussion: High-throughput cryopreservation of germplasm as an exchange currency for genetic resources. Comparative biochemistry and physiology. Toxicology & pharmacology : CBP. null
Kent, M.L., Buchner, C., Watral, V.G., Sanders, J.L., Ladu, J., Peterson, T.S., and Tanguay, R.L. (2011) Development and maintenance of a specific pathogen-free (SPF) zebrafish research facility for Pseudoloma neurophilia. Diseases of aquatic organisms. 95(1):73-79
Schwend, T., Loucks, E.J., Snyder, D., and Ahlgren, S.C. (2011) Requirement of Npc1 and availability of cholesterol for early embryonic cell movements in Zebrafish. Journal of Lipid Research. 52(7):1328-44
Bradford, Y., Conlin, T., Dunn, N., Fashena, D., Frazer, K., Howe, D.G., Knight, J., Mani, P., Martin, R., Moxon, S.A., Paddock, H., Pich, C., Ramachandran, S., Ruef, B.J., Ruzicka, L., Bauer Schaper, H., Schaper, K., Shao, X., Singer, A., Sprague, J., Sprunger, B., Van Slyke, C., and Westerfield, M. (2011) ZFIN: enhancements and updates to the zebrafish model organism database. Nucleic acids research. 39(suppl 1):D822-D829
Howe, D.G., Frazer, K., Fashena, D., Ruzicka, L., Bradford, Y., Ramachandran, S., Ruef, B.J., Van Slyke, C., Singer, A., and Westerfield, M. (2011) Data extraction, transformation, and dissemination through ZFIN. Meth. Cell. Biol.. 104:311-325
Murray, K.N., Bauer, J., Tallen, A., Matthews, J.L., Westerfield, M., and Varga, Z.M. (2011) Characterization and management of asymptomatic mycobacterium infections at the zebrafish international resource center. Journal of the American Association for Laboratory Animal Science : JAALAS. 50(5):675-679
Murray, K.N., Dreska, M., Nasiadka, A., Rinne, M., Matthews, J.L., Carmichael, C., Bauer, J., Varga, Z.M., and Westerfield, M. (2011) Transmission, Diagnosis, and Recommendations for Control of Pseudoloma neurophilia Infections in Laboratory Zebrafish (Danio rerio) Facilities. Comparative medicine. 61(4):322-329
Varga, Z.M. (2011) Aquaculture and husbandry at the zebrafish international resource center. Meth. Cell. Biol.. 104:453-478
Schwend, T., Loucks, E.J., and Ahlgren, S.C. (2010) Visualization of gli activity in craniofacial tissues of hedgehog-pathway reporter transgenic zebrafish. PLoS One. 5(12):e14396
Detrich, H.W., Westerfield, M., Zon, L.I. (2010) The Zebrafish: Cellular and Developmental Biology, Part A. Meth. Cell. Biol.. 100:1-347
Zhang, C., Song, Y., Thompson, D.A., Madonna, M.A., Millhauser, G.L., Toro, S., Varga, Z., Westerfield, M., Gamse, J., Chen, W., Cone, R.D. (2010) Pineal-specific agouti protein regulates teleost background adaptation. Proceedings of the National Academy of Sciences of the United States of America. 107(47):20164-71
Delaurier, A., Eames, B.F., Blanco-Sánchez, B., Peng, G., He, X., Swartz, M.E., Ullmann, B., Westerfield, M., and Kimmel, C.B. (2010) Zebrafish sp7:EGFP: A transgenic for studying otic vesicle formation, skeletogenesis, and bone regeneration. Genesis (New York, N.Y. : 2000). 48(8):505-511
Sanders, J.L., Lawrence, C., Nichols, D.K., Brubaker, J.F., Peterson, T.S., Murray, K.N., and Kent, M.L. (2010) Pleistophora hyphessobryconis (Microsporidia) infecting zebrafish Danio rerio in research facilities. Diseases of aquatic organisms. 91(1):47-56
Dahdul, W.M., Lundberg, J.G., Midford, P.E., Balhoff, J.P., Lapp, H., Vision, T.J., Haendel, M.A., Westerfield, M., and Mabee, P.M. (2010) The teleost anatomy ontology: anatomical representation for the genomics age. Systematic biology. 59(4):369-383
Ebermann, I., Phillips, J.B., Liebau, M.C., Koenekoop, R.K., Schermer, B., Lopez, I., Schäfer, E., Roux, A.F., Dafinger, C., Bernd, A., Zrenner, E., Claustres, M., Blanco, B., Nürnberg, G., Nürnberg, P., Ruland, R., Westerfield, M., Benzing, T., and Bolz, H.J. (2010) PDZD7 is a modifier of retinal disease and a contributor to digenic Usher syndrome. J. Clin. Invest.. 120(6):1812-1823
Dahdul, W.M., Balhoff, J.P., Engeman, J., Grande, T., Hilton, E.J., Kothari, C., Lapp, H., Lundberg, J.G., Midford, P.E., Vision, T.J., Westerfield, M., and Mabee, P.M. (2010) Evolutionary characters, phenotypes and ontologies: curating data from the systematic biology literature. PLoS One. 5(5):e10708
Cui, Z., Samuel-Shaker, D., Watral, V., and Kent, M.L. (2010) Attenuated Mycobacterium marinum protects zebrafish against mycobacteriosis. Journal of fish diseases. 33(4):371-375
Ramsay, J.M., Watral, V., Schreck, C.B., and Kent, M.L. (2009) Pseudoloma neurophilia infections in zebrafish Danio rerio: effects of stress on survival, growth, and reproduction. Diseases of aquatic organisms. 88(1):69-84
Lawrence, C., Sanders, G.E., Varga, Z.M., Baumann, D.P., Freeman, A., Baur, B., and Francis, M. (2009) Regulatory Compliance and the Zebrafish. Zebrafish. 6(4):453-456
Ramsay, J.M., Feist, G.W., Varga, Z.M., Westerfield, M., Kent, M.L., and Schreck, C.B. (2009) Whole-body cortisol response of zebrafish to acute net handling stress. Aquaculture (Amsterdam, Netherlands). 297(1-4):157-162
Washington, N.L., Haendel, M.A., Mungall, C.J., Ashburner, M., Westerfield, M., and Lewis, S.E. (2009) Linking Human Diseases to Animal Models Using Ontology-Based Phenotype Annotation. PLoS Biology. 7(11):e1000247
Viktorin, G., Chiuchitu, C., Rissler, M., Varga, Z.M., and Westerfield, M. (2009) Emx3 is required for the differentiation of dorsal telencephalic neurons. Developmental dynamics : an official publication of the American Association of Anatomists. 238(8):1984-1998
Loucks, E.J., and Ahlgren, S.C. (2009) Deciphering the role of Shh signaling in axial defects produced by ethanol exposure. Birth Defects Research Part A: Clinical and Molecular Teratology. 85(6):556-567
Toro, S., Wegner, J., Muller, M., Westerfield, M., and Varga, Z.M. (2009) Identification of differentially expressed genes in the zebrafish hypothalamic-pituitary axis. Gene Expression Patterns. 9(4):200-208
Ochi, H., and Westerfield, M. (2009) Lbx2 regulates formation of myofibrils. BMC Developmental Biology. 9:13
Hagedorn, M., Ricker, J., McCarthy, M., Meyers, S.A., Tiersch, T.R., Varga, Z.M., and Kleinhans, F.W. (2009) Biophysics of zebrafish (Danio rerio) sperm. Cryobiology. 58(1):12-19
Carmichael, C., Westerfield, M., and Varga, Z.M. (2009) Cryopreservation and in vitro fertilization at the zebrafish international resource center. Meth. Mol. Biol.. 546:45-65
Whipps, C.M., Matthews, J.L., and Kent, M.L. (2008) Distribution and genetic characterization of Mycobacterium chelonae in laboratory zebrafish Danio rerio. Diseases of aquatic organisms. 82(1):45-54
Kent, M.L., Feist, S.W., Harper, C., Hoogstraten-Miller, S., Law, J.M., Sánchez-Morgado, J.M., Tanguay, R.L., Sanders, G.E., Spitsbergen, J.M., Whipps, C.M. (2008) Recommendations for control of pathogens and infectious diseases in fish research facilities. Comparative biochemistry and physiology. 149(2):240-248
Dutta, S., Dietrich, J.E., Westerfield, M., and Varga, Z.M. (2008) Notch signaling regulates endocrine cell specification in the zebrafish anterior pituitary. Developmental Biology. 319(2):248-257
Rotllant, J., Liu, D., Yan, Y.L., Postlethwait, J.H., Westerfield, M., and Du, S.J. (2008) Sparc (Osteonectin) functions in morphogenesis of the pharyngeal skeleton and inner ear. Matrix biology : journal of the International Society for Matrix Biology. 27(6):561-572
Ostland, V.E., Watral, V., Whipps, C.M., Austin, F.W., St-Hilaire, S., Westerman, M.E., and Kent, M.L. (2008) Biochemical, molecular, and virulence characteristics of select Mycobacterium marinum isolates in hybrid striped bass Morone chrysops x M. saxatilis and zebrafish Danio rerio. Diseases of aquatic organisms. 79(2):107-118
Ochi, H., Hans, S., and Westerfield, M. (2008) Smarcd3 regulates the timing of zebrafish myogenesis onset. The Journal of biological chemistry. 283(6):3529-3536
Sprague, J., Bayraktaroglu, L., Bradford, Y., Conlin, T., Dunn, N., Fashena, D., Frazer, K., Haendel, M., Howe, D.G., Knight, J., Mani, P., Moxon, S.A., Pich, C., Ramachandran, S., Schaper, K., Segerdell, E., Shao, X., Singer, A., Song, P., Sprunger, B., Van Slyke, C.E., and Westerfield, M. (2008) The Zebrafish Information Network: the zebrafish model organism database provides expanded support for genotypes and phenotypes. Nucleic acids research. 36:D768-772
Baden, K.N., Murray, J., Capaldi, R.A., and Guillemin, K. (2007) Early developmental pathology due to cytochrome c oxidase deficiency is revealed by a new zebrafish model. The Journal of biological chemistry. 282(48):34839-34849
Harriff, M.J., Bermudez, L.E., and Kent, M.L. (2007) Experimental exposure of zebrafish, Danio rerio (Hamilton), to Mycobacterium marinum and Mycobacterium peregrinum reveals the gastrointestinal tract as the primary route of infection: a potential model for environmental mycobacterial infection. Journal of fish diseases. 30(10):587-600
Mabee, P.M., Arratia, G., Coburn, M., Haendel, M., Hilton, E.J., Lundberg, J.G., Mayden, R.L., Rios, N., and Westerfield, M. (2007) Connecting evolutionary morphology to genomics using ontologies: a case study from Cypriniformes including zebrafish. Journal of experimental zoology. Part B, Molecular and developmental evolution. 308(5):655-668
Loucks, E.J., Schwend, T., and Ahlgren, S.C. (2007) Molecular changes associated with teratogen-induced cyclopia. Birth Defects Research Part A: Clinical and Molecular Teratology. 79(9):642-651
Toro, S., and Varga, Z.M. (2007) Equivalent progenitor cells in the zebrafish anterior preplacodal field give rise to adenohypophysis, lens, and olfactory placodes. Seminars in Cell & Developmental Biology. 18(4):534-542
Ferguson, J.A., Watral, V., Schwindt, A.R., and Kent, M.L. (2007) Spores of two fish microsporidia (Pseudoloma neurophilia and Glugea anomala) are highly resistant to chlorine. Diseases of aquatic organisms. 76(3):205-214
Yang, H., Carmichael, C., Varga, Z.M., and Tiersch, T.R. (2007) Development of a simplified and standardized protocol with potential for high-throughput for sperm cryopreservation in zebrafish Danio rerio. Theriogenology. 68(2):128-136
Mabee, P.M., Ashburner, M., Cronk, Q., Gkoutos, G.V., Haendel, M., Segerdell, E., Mungall, C., and Westerfield, M. (2007) Phenotype ontologies: the bridge between genomics and evolution. Trends in Ecology & Evolution. 22(7):345-350
Nixon, S.J., Carter, A., Wegner, J., Ferguson, C., Floetenmeyer, M., Riches, J., Key, B., Westerfield, M., and Parton, R.G. (2007) Caveolin-1 is required for lateral line neuromast and notochord development. Journal of Cell Science. 120(13):2151-2161
Hans, S., and Westerfield, M. (2007) Changes in retinoic acid signaling alter otic patterning. Development (Cambridge, England). 134(13):2449-2458
Schlueter, P.J., Peng, G., Westerfield, M., and Duan, C. (2007) Insulin-like growth factor signaling regulates zebrafish embryonic growth and development by promoting cell survival and cell cycle progression. Cell death and differentiation. 14(6):1095-1105
Whipps, C.M., Dougan, S.T., and Kent, M.L. (2007) Mycobacterium haemophilum infections of zebrafish (Danio rerio) in research facilities. FEMS microbiology letters. 270(1):21-26
Watral, V., and Kent, M.L. (2007) Pathogenesis of Mycobacterium spp. in zebrafish (Danio rerio) from research facilities. Comparative biochemistry and physiology. Toxicology & pharmacology : CBP. 145(1):55-60
Hans, S., Christison, J., Liu, D., and Westerfield, M. (2007) Fgf-dependent otic induction requires competence provided by Foxi1 and Dlx3b. BMC Developmental Biology. 7(1):5
Chen, Y.H., Wang, Y.H., Chang, M.Y., Lin, C.Y., Weng, C.W., Westerfield, M., and Tsai, H.J. (2007) Multiple upstream modules regulate zebrafish myf5 expression. BMC Developmental Biology. 7(1):1
Ochi, H., and Westerfield, M. (2007) Signaling networks that regulate muscle development: lessons from zebrafish. Development, Growth & Differentiation. 49(1):1-11
Westerfield, M. (2007) The Zebrafish Book. A Guide for the Laboratory Use of Zebrafish (Danio rerio), 5th Edition. University of Oregon Press, Eugene. null
Bates, J.M., Mittge, E., Kuhlman, J., Baden, K.N., Cheesman, S.E., and Guillemin, K. (2006) Distinct signals from the microbiota promote different aspects of zebrafish gut differentiation. Developmental Biology. 297(2):374-386
Ochi, H., Pearson, B.J., Chuang, P.T., Hammerschmidt, M., and Westerfield, M. (2006) Hhip regulates zebrafish muscle development by both sequestering Hedgehog and modulating localization of Smoothened. Developmental Biology. 297(1):127-140
Ramsay, J.M., Feist, G.W., Varga, Z.M., Westerfield, M., Kent, M.L., and Schreck, C.B. (2006) Whole-body cortisol is an indicator of crowding stress in adult zebrafish, Danio rerio. Aquaculture (Amsterdam, Netherlands). 258(1-4):565-574
Peng, G., and Westerfield, M. (2006) Lhx5 promotes forebrain development and activates transcription of secreted Wnt antagonists. Development (Cambridge, England). 133(16):3191-3200
Seth, A., Culverwell, J., Walkowicz, M., Toro, S., Rick, J.M., Neuhauss, S.C., Varga, Z.M., and Karlstrom, R.O. (2006) belladonna/(lhx2) is required for neural patterning and midline axon guidance in the zebrafish forebrain. Development (Cambridge, England). 133(4):725-735
Sprague, J., Bayraktaroglu, L., Clements, D., Conlin, T., Fashena, D., Frazer, K., Haendel, M., Howe, D.G., Mani, P., Ramachandran, S., Schaper, K., Segerdell, E., Song, P., Sprunger, B., Taylor, S., Van Slyke, C.E., and Westerfield, M. (2006) The Zebrafish Information Network: the zebrafish model organism database. Nucleic acids research. 34:D581-585
Nixon, S.J., Wegner, J., Ferguson, C., Méry, P.F., Hancock, J.F., Currie, P.D., Key, B., Westerfield, M., and Parton, R.G. (2005) Zebrafish as a model for caveolin-associated muscle disease; caveolin-3 is required for myofibril organization and muscle cell patterning. Hum. Mol. Genet.. 14(13):1727-1743
Dutta, S., Dietrich, J.E., Aspock, G., Burdine, R.D., Schier, A., Westerfield, M., and Varga, Z.M. (2005) pitx3 defines an equivalence domain for lens and anterior pituitary placode. Development (Cambridge, England). 132(7):1579-1590
Yan, Y.L., Willoughby, J., Liu, D., Crump, J.G., Wilson, C., Miller, C.T., Singer, A., Kimmel, C., Westerfield, M., and Postlethwait, J.H. (2005) A pair of Sox: distinct and overlapping functions of zebrafish sox9 co-orthologs in craniofacial and pectoral fin development. Development (Cambridge, England). 132(5):1069-1083
Wang-Buhler, J.L., Lee, S.J., Chung, W.G., Stevens, J.F., Tseng, H.P., Hseu, T.H., Hu, C.H., Westerfield, M., Yang, Y.H., Miranda, C.L., and Buhler, D.R. (2005) CYP2K6 from zebrafish (Danio rerio): Cloning, mapping, developmental/tissue expression, and aflatoxin B1 activation by baculovirus expressed enzyme. Comparative biochemistry and physiology. Toxicology & pharmacology : CBP. 140(2):207-219
Wiellette, E., Grinblat, Y., Austen, M., Hirsinger, E., Amsterdam, A., Walker, C., Westerfield, M., and Sive, H. (2004) Combined haploid and insertional mutation screen in the zebrafish. Genesis (New York, N.Y. : 2000). 40(4):231-240
Hirsinger, E., Stellabotte, F., Devoto, S.H., and Westerfield, M. (2004) Hedgehog signaling is required for commitment but not initial induction of slow muscle precursors. Developmental Biology. 275(1):143-157
Hans, S., Liu, D., and Westerfield, M. (2004) Pax8 and Pax2a function synergistically in otic specification, downstream of the Foxi1 and Dlx3b transcription factors. Development (Cambridge, England). 131(20):5091-5102
Herzog, W., Sonntag, C., Von Der Hardt, S., Roehl, H.H., Varga, Z.M., and Hammerschmidt, M. (2004) Fgf3 signaling from the ventral diencephalon is required for early specification and subsequent survival of the zebrafish adenohypophysis. Development (Cambridge, England). 131(15):3681-3692
Henrich, T., Ramialison, M., Segerdell, E., Westerfield, M., Furutani-Seiki, M., Wittbrodt, J., Kondoh, H. (2004) GSD: a genetic screen database. Mechanisms of Development. 121(7-8):959-963
Kent, M.L., Whipps, C.M., Matthews, J.L., Florio, D., Watral, V., Bishop-Stewart, J.K., Poort, M., and Bermudez, L. (2004) Mycobacteriosis in zebrafish (Danio rerio) research facilities. Comparative biochemistry and physiology. Toxicology & pharmacology : CBP. 138(3):383-390
Jensen, A.M., and Westerfield, M. (2004) Zebrafish Mosaic Eyes Is a Novel FERM Protein Required for Retinal Lamination and Retinal Pigmented Epithelial Tight Junction Formation. Current biology : CB. 14(8):711-717
Matthews, J.L. (2004) Common diseases of laboratory zebrafish. The Zebrafish: Genetics, Genomics and Informatics, 2nd ed., Methods Cell Biol.. 77:617-643
Kent, M.L. and Bishop-Stewart, J.K. (2003) Transmission and tissue distribution of Pseudoloma neurophilia (Microsporidia) of zebrafish, Danio rerio (Hamilton). Journal of fish diseases. 26(7):423-426
Liu, D., Chu, H., Maves, L., Yan, Y.-L., Morcos, P.A., Postlethwait, J.H., and Westerfield, M. (2003) Fgf3 and Fgf8 dependent and independent transcription factors are required for otic placode specification. Development (Cambridge, England). 130(10):2213-2224
Spitsbergen, J.M. and Kent, M.L. (2003) The state of the art of the zebrafish model for toxicology and toxicologic pathology research--advantages and current limitations. Toxicologic pathology. 1(31):62-87
Sprague, J., Clements, D., Conlin, T., Edwards, P., Frazer, K., Schaper, K., Segerdell, E., Song, P., Sprunger, B., and Westerfield, M. (2003) The Zebrafish Information Network (ZFIN): the zebrafish model organism database. Nucleic acids research. 31(1):241-243
Yan, Y.-L., Miller, C.T., Nissen, R.M., Singer, A., Liu, D., Kirn, A., Draper, B., Willoughby, J., Morcos, P.A., Amsterdam, A., Chung, B.-C., Westerfield, M., Haffter, P., Hopkins, N., Kimmel, C., and Postlethwait, J.H. (2002) A zebrafish sox9 gene required for cartilage morphogenesis. Development (Cambridge, England). 129(21):5065-5079
Matthews, M., Trevarrow, B., and Matthews, J. (2002) A virtual tour of the guide for zebrafish users. Lab Anim. (NY). 31(3):34-40
Byers, K.B. and Matthews, J.L. (2002) Use of zebrafish and zoonoses. Appl. Biosaf.. 7(3):117-119
Kent, M.L., Bishop-Stewart, J.K., Matthews, J.L., and Spitsbergen, J.M. (2002) Pseudocapillaria tomentosa, a nematode pathogen, and associated neoplasms of zebrafish (Danio rerio) kept in research colonies. Comparative medicine. 52(4):354-358
Jensen, A.M., Walker, C., and Westerfield, M. (2001) mosaic eyes: a zebrafish gene required in pigmented epithelium for apical localization of retinal cell division and lamination. Development (Cambridge, England). 128(1):95-105
Hawkins, W.E., Clark, M.S., Shima, A., Walter, R.B., Winn, R.N., and Westerfield, M. (2001) Four resource centers for fishes: specifies, stocks, and services. Mar. Biotechnol.. 3:S239-S248
Varga, Z.M., Amores, A., Lewis, K.E., Yan, Y.-L., Postlethwait, J.H., Eisen, J.S., and Westerfield, M. (2001) Zebrafish smoothened functions in ventral neural tube specification and axon tract formation. Development (Cambridge, England). 128(18):3497-3509
Hirsinger, E. and Westerfield, M. (2001) Segregation of zebrafish muscle lineages: lineage relationships and cellular commitment. Developmental Biology. 235(1):180 (#40)
Jensen, A.M. and Westerfield, M. (2001) Zebrafish mosaic eyes gene is required for tight junction formation in the retinal pigmented epithelium. Developmental Biology. 235(1):181 (#46)
Matthews, J.L., Brown, A.M.V., Larison, K., Bishop-Stewart, J.K., Rogers, P., and Kent, M.L. (2001) Pseudoloma neurophilia n. g., n. sp., a new microsporidium from the central nervous system of the zebrafish (Danio rerio). The Journal of eukaryotic microbiology. 48(2):227-233
Rohr, K.B., Barth, K.A., Varga, Z.M., and Wilson, S.W. (2001) The nodal pathway acts upstream of hedgehog signaling to specify ventral telencephalic identity. Neuron. 29(2):341-351
Sprague, J., Doerry, E., Douglas, S., Westerfield, M., and ZFIN GRP, (Conlin, T., Clements, D., Edwards, P., Frazer, K., Schaper, K., Segerdell, E.) (2001) The Zebrafish Information Network (ZFIN): a resource for genetic, genomic and developmental research. Nucleic acids research. 29(1):87-90
Whitlock, K.E. and Westerfield, M. (2000) The olfactory placodes of the zebrafish form by convergence of cellular fields at the edge of the neural plate. Development (Cambridge, England). 127(17):3645-3653
De Martino, S., Yan, Y.-L., Jowett, T., Postlethwait, J.H., Varga, Z.M., Ashworth, A., and Austin, C.A. (2000) Expression of sox11 gene duplicates in zebrafish suggests the reciprocal loss of ancestral gene expression patterns in development. Developmental dynamics : an official publication of the American Association of Anatomists. 217(3):279-292
Westerfield, M. (2000) The Zebrafish Book. A Guide for the Laboratory Use of Zebrafish (Danio rerio), 4th Edition. University of Oregon Press, Eugene. null
Varga, Z.M., Wegner, J., and Westerfield, M. (1999) Anterior movement of ventral diencephalic precursors separates the primordial eye field in the neural plate and requires cyclops. Development (Cambridge, England). 126:5533-5546
Westerfield, M., Doerry, E., and Douglas, S. (1999) Zebrafish in the net. Trends in genetics : TIG. 15(6):248-249
Fashena, D. and Westerfield, M. (1999) Secondary motoneuron axons localize DM-GRASP on their fasciculated segments. The Journal of comparative neurology. 406(3):415-424
Appel, B., Fritz, A., Westerfield, M., Grunwald, D.J., Eisen, J.S., and Riley, B.B. (1999) Delta-mediated specification of midline cell fates in zebrafish embryos. Current biology : CB. 9:247-256
Detrich, H.W. III, Westerfield, M., and Zon, L.I. (1999) Overview of the zebrafish system. In The Zebrafish: Biology. H.W. Detrich, L.I. Zon, and M. Westerfield, eds. Meth. Cell. Biol.. 59:3-10
Detrich, H.W. III, Westerfield, M., and Zon, L.I., eds. (1999) The Zebrafish: Genetics and Genomics. San Diego: Academic Press. 60:407
Detrich, H.W. III, Westerfield, M., and Zon, L.I., eds. (1999) The Zebrafish: Biology. San Diego: Academic Press, Methods Cell Biol.. 59:391
Westerfield, M., Doerry, E., Kirkpatrick, A.E., and Douglas, S.A. (1999) Zebrafish informatics and the ZFIN database. In The Zebrafish: Genetics and Genomics, H.W. Detrich, III, M. Westerfield, and L.I. Zon, eds., San Diego, CA: Academic Press, Methods Cell Biol.. 60:339-355
Doerry, E., Douglas, S.A., Kirkpatrick, A.E., and Westerfield, M. (1998) The zebrafish information network project. Interactions. 3:69
Amores, A., Force, A., Yan, Y.-L. Joly, L., Amemiya, C., Fritz, A., Ho, R., Langeland, J., Prince, V., Wang, Y.-L., Westerfield, M., Ekker, M., and Postlethwait, J.H. (1998) Zebrafish hox clusters and vertebrate genome evolution. Science. 282:1711-1714
Whitlock, K.E. and Westerfield, M. (1998) A transient population of neurons pioneers the olfactory pathway in the zebrafish. The Journal of neuroscience : the official journal of the Society for Neuroscience. 18:8919-8927
Postlethwait, J.H, Yan, Y.-L., Gates, M.A., Horne, S., Amores, A., Brownlie, A., Donovan, A., Egan, E.S., Force, A., Gong, Z., Goutel, C., Fritz, A., Kelsh, R., Knapik, E., Liao, E., Paw, B., Ransom, D., Singer, A., Thomson, M., Abduljabbar, T.S., Yelick, P., Beier, D., Joly, J.-S., Larhammar, D., Rosa, F., Westerfield, M., Zon, L.I., Johnson, S.L., and Talbot, W.S. (1998) Vertebrate genome evolution and the zebrafish gene map. Nature Genetics. 18:345-349
Houart, C., M. Westerfield, and S.W. Wilson (1998) A small population of anterior cells patterns the forebrain during gastrulation. Nature. 391:788-792
Sepich, D.S., Wegner, J., O'Shea, S., and Westerfield, M. (1998) An altered intron inhibits synthesis of the acetylcholine receptor alpha-subunit in the paralyzed zebrafish mutant nic1. Genetics. 184:361-372
Doerry, E., Kirkpatrick, A.E., Douglas, S.A., and Westerfield, M. (1997) Task-centered Navigation in a Web-accessible Data Space. AACE/WebNet97 conference on WWW, Internet, and Intranet, Toronto, Canada, Nov. 1,1997. null
Melançon, E., Liu, D.W.C., Westerfield, M., and Eisen, J.S. (1997) Pathfinding by identified zebrafish motoneurons in the absence of muscle pioneers. The Journal of neuroscience : the official journal of the Society for Neuroscience. 17(20):7796-7804
Doerry, E., Douglas, S., Kirkpatrick, T., and Westerfield, M. (1997) Moving beyond html to create a multimedia database with user-centered design: a case study of a biological database. Tech. Report CIS-TR-97-02, Computer and Information Science Department, University of Oregon. null
Doerry, E., Douglas, S.A., Kirkpatrick, A.E., and Westerfield, M. (1997) Participatory design for widely-distributed scientific communities. Proc. 3rd Conf. Human Factors and the Web. null
Du, S.J., S.H. Devoto, M. Westerfield, and R.T. Moon (1997) Positive and Negative Regulation of Muscle Cell Identity by Members of the hedgehog and TGF-β Gene Families. The Journal of cell biology. 139(1):145-156
Ekker, M., Akimenko, M.-A., Allende, M.L., Smith, R., Drouin, G., Langille, R.M., Weinberg, E.S., and Westerfield, M. (1997) Relationships among msx gene structure and function in zebrafish and other vertebrates. Mol. Biol. Evol.. 14:1008-1022
Fishman, M., D.Y. Stainier, R. Breitbart, and M. Westerfield (1997) Zebrafish: Genetic and embryological methods in a transparent vertebrate embryo. Meth. Cell. Biol.. 52:67-82
Westerfield, M., E. Doerry, A.E. Kirkpatrick, W. Driever, and S.A. Douglas (1997) An on-line database for zebrafish development and genetics research. Sem. Cell Dev. Biol.. 8:477-488
Fritz, A., Rozowski, M., Walker, C., and Westerfield, M. (1996) Identification of selected gamma-ray induced deficiencies in zebrafish using multiplex polymerase chain reaction. Genetics. 144(4):1735-1745
Devoto, S.H., Melancon, E., Eisen, J.S., and Westerfield, M. (1996) Identification of separate slow and fast muscle precursor cells in vivo, prior to somite formation. Development (Cambridge, England). 122(11):3371-3380
Devoto, S.H., Melancon, E., Amacher, S.L., Eisen, J.S., and Westerfield, M. (1996) Influence of axial mesoderm on the development of slow muscle precursors. Developmental Biology. 175(2):386
Akimenko, M.A., Johnson, S.L., Westerfield, M., and Ekker, M. (1995) Differential induction of four msx homeobox genes during fin development and regeneration in zebrafish. Development (Cambridge, England). 121:347-357
Westerfield, M. (1995) The Zebrafish Book. A Guide for the Laboratory Use of Zebrafish (Danio rerio), 3rd Edition. Eugene, OR, University of Oregon Press,. null:385
Akimenko, M.A., Ekker, M., Wegner, J., Lin, W., and Westerfield, M. (1994) Combinatorial expression of three zebrafish genes related to distal-less: part of a homeobox gene code for the head. The Journal of neuroscience : the official journal of the Society for Neuroscience. 14:3475-3486
Reinhard, E., Nedivi, E., Wegner, J., Skene, J.H.P., and Westerfield, M. (1994) Neural selective activation and temporal regulation of a mammalian GAP-43 promoter in zebrafish. Development (Cambridge, England). 120:1767-1775
Sepich, D.S., Ho, R.K., and Westerfield, M. (1994) Autonomous expression of the nic1 acetylcholine receptor mutation in zebrafish muscle cells. Developmental Biology. 161:84-90
Westerfield, M. (1993) The Zebrafish Book; A Guide for the Laboratory Use of Zebrafish (Brachydanio rerio). University of Oregon Press, Eugene,2nd edition. null:300P
Westerfield, M. and Liu, D.W. (1993) Cellular interactions regulating the formation of terminal arbors by primary motoneurons in the zebrafish. In Cell-Cell Signaling in Vertebrate Development, E. Robertson, F.R. Maxfield, and H.J. Vogel, eds., Academic Press. null:113-122
Westerfield, M., Akimenko, M.A., Ekker, M., and Püschel, A. (1993) Eyes, ears and homeobox genes in zebrafish embryos. In Molecular Basis of Morphogenesis, M. Bernfield, ed., New York, NY: John Wiley & Sons, Wiley-Liss Division. null:67-75
Westerfield, M., Stuart, G., and Wegner, J. (1993) Expression of foreign genes in zebrafish embryos. In Devel. Ind. Microbiol., Vol II, William C. Brown, ed., New York. null:658-665
Ekker, M., Akimenko, M.A., BreMiller, R., and Westerfield, M. (1992) Regional expression of three homeobox transcripts in the inner ear of zebrafish embryos. Neuron. 9:27-35
Ekker, M., Fritz, A., and Westerfield, M. (1992) Identification of two families of satellite-like repetitive DNA sequences from the zebrafish (Brachydanio rerio). Genomics. 13:1169-1173
Ekker, M., Wegner, J., Akimenko, M.A., and Westerfield, M. (1992) Coordinate embryonic expression of three zebrafish engrailed genes. Development (Cambridge, England). 116:1001-1010
Goff, D.J., Galvin, K., Katz, H., Westerfield, M., Lander, E.S., and Tabin, C.J. (1992) Identification of polymorphic simple sequence repeats in the genome of the zebrafish. Genomics. 14:200-202
Liu, D.W. and Westerfield, M. (1992) Clustering of muscle acetylcholine receptors requires motoneurons in live embryos but not in cell culture. The Journal of neuroscience : the official journal of the Society for Neuroscience. 12:1859-1866
Püschel, A.W., Gruss, P., and Westerfield, M. (1992) Sequence and expression pattern of pax-6 are highly conserved between zebrafish and mice. Development (Cambridge, England). 114:643-651
Püschel, A.W., Westerfield, M., and Dressler, G.R. (1992) Comparative analysis of Pax-2 protein distributions during neurulation in mice and zebrafish. Mechanisms of Development. 38:197-208
Westerfield, M. (1992) Motor axon pathfinding. Current opinion in neurobiology. 2:28-30
Westerfield, M. (1992) Zebrafish Hox and Pax genes. Neurosci. Facts. 3:3
Westerfield, M., Wegner, J., Jegalian, B.G., De Robertis, E.M., and Püschel, A.W. (1992) Specific activation of mammalian Hox promoters in mosaic transgenic zebrafish. Genes and Development. 6:591-598
Ekker, M., Akimenko, M.A., BreMiller, R., and Westerfield, M. (1991) Characterization of four homeobox genes expressed in zebrafish neural crest. Soc. Neurosci. Abstr.. 17:924
Hatta, K., BreMiller, R.A., Westerfield, M., and Kimmel, C.B. (1991) Diversity of expression of engrailed-like antigens in zebrafish. Development (Cambridge, England). 112:821-832
Westerfield, M., Wegner, J., Akimenko, M., Ekker, M., Eisen, J., and Halpern, M. (1991) A role for engrailed gene in zebrafish muscle patterning. Soc. Neurosci. Abstr.. 17:761
Akimenko, M.A., Ekker, M., and Westerfield, M. (1990) Characterization of three zebrafish genes related to Hox-7. In Developmental Patterning of the Vertebrate Limb, J.R. Hinchliffe, J. Hurle and D. Summerbell, eds., New York: Plenum Press. null:61-63
Felsenfeld, A.L., Walker, C., Westerfield, M., Kimmel, C., and Streisinger, G. (1990) Mutations affecting skeletal muscle myofibril structure in the zebrafish. Development (Cambridge, England). 108:443-459
Kimmel, C.B. and Westerfield, M. (1990) Primary neurons of the zebrafish. In Signal and Sense, G.M. Edelman, W.E. Gall, and M.W. Cowan, eds., New York: Wiley-Liss. null:561-588
Liu, D.W.C. and Westerfield, M. (1990) The formation of terminal fields in the absence of competitive interactions among primary motoneurons in the zebrafish. The Journal of neuroscience : the official journal of the Society for Neuroscience. 10:3947-3959
Metcalfe, W.K. and Westerfield, M. (1990) Primary motoneurons of the zebrafish. In Systems Approaches to Developmental Neurobiology, P.A. Raymond, S.S. Easter and G.M. Innocenti, eds., NATO ASI Series A,New York: Plenum Press. 192:41-47
Stuart, G.W., Vielkind, J.R., McMurray, J.V., and Westerfield, M. (1990) Stable lines of transgenic zebrafish exhibit reproducible patterns of transgene expression. Development (Cambridge, England). 109:577-584
Westerfield, M. (1990) Does the mesoderm induce Hox gene expression in the zebrafish nervous system?. Soc. Neurosci. Abstr.. 16:302
Westerfield, M., Liu, D.W., Kimmel, C.B., and Walker, C. (1990) Pathfinding and synapse formation in a zebrafish mutant lacking functional acetylcholine receptors. Neuron. 4:867-874
Debu B., Frost, D., Westerfield M., Eisen J.S. (1989) Patterning of primary motoneuron axonal outgrowth by extracellular matrix molecules in zebrafish embryos. Soc. Dev. Biol. Mtg. Abstr. null
Hanneman, E. and Westerfield, M. (1989) Early expression of acetylcholinesterase activity in functionally distinct neurons of the zebrafish. The Journal of comparative neurology. 284:350-361
Liu, D.W. and Westerfield, M. (1989) Primary motoneurons instruct muscle acetylcholine receptor placement but receptors don't instruct motoneuronal synapse placement in live zebrafish. Soc. Neurosci. Abstr.. 15:1262
Stuart, G.W., McMurray, J.V., and Westerfield, M. (1989) Germ-line transformation of the zebrafish. In Gene Transfer and Gene Therapy, A.L. Beaudet, R. Mulligan, and I. M. Verma, eds., New York, NY, USA: Alan R. Liss, Inc.. null:19-28
Westerfield, M. (1989) Establishment of cell-specific differences among primary motoneurons in the zebrafish. In The Assembly of the Nervous System. Landmesser, L.T., ed., New York, NY, USA: Alan R. Liss, Inc.. null:189-198
Westerfield, M. (1989) The Zebrafish Book; A Guide for the Laboratory Use of Zebrafish (Brachydanio rerio). University of Oregon Press, Eugene. null
Bass, M.B. and Westerfield, M. (1988) Purification of neuron-specific antigens from zebrafish. Soc. Neurosci. Abstr.. 14:1267
Frost, D., Debu B., Eisen J.S., and Westerfield M. (1988) Axonal outgrowth in embryonic zebrafish is perturbed by ectopic localization of fibronectin in vivo. Soc. Dev. Biol. Mtg. Abstr. null
Grunwald, D.J., Kimmel, C.B., Westerfield, M., Walker, C., and Streisinger, G. (1988) A neural degeneration mutation that spares primary neurons in the zebrafish. Developmental Biology. 126:115-128
Hanneman, E., Trevarrow, B., Metcalfe, W.K., Kimmel, C.B., and Westerfield, M. (1988) Segmental pattern of development of the hindbrain and spinal cord of the zebrafish embryo. Development (Cambridge, England). 103:49-58
Liu, D.W. and Westerfield, M. (1988) Function of identified motoneurones and co-ordination of primary and secondary motor systems during zebra fish swimming. J. Physiol. Lond.. 403:73-89
Stuart, G.W., McMurray, J.V., and Westerfield, M. (1988) Replication, integration and stable germ-line transmission of foreign sequences injected into early zebrafish embryos. Development (Cambridge, England). 103:403-412
Stuart, G.W., McMurray, J.V., and Westerfield, M. (1988) Germ-line transformation of the zebrafish Brachydanio-rerio. Journal of cellular biochemistry. (Suppl.) 12:195
Westerfield, M. and Eisen, J.S. (1988) Neuromuscular specificity: pathfinding by identified motor growth cones in a vertebrate embryo. Trends in neurosciences. 11:18-22
Liu, D.W. and Westerfield, M. (1987) The formation of terminal fields by identified motoneurons in the zebrafish. Animal behaviour. 35:1875-1882
Westerfield, M. (1987) Substrate interactions affecting motor growth cone guidance during development and regeneration. The Journal of experimental biology. 132:161-176
Westerfield, M. and Eisen, J.S. (1987) Common mechanisms of growth cone guidance during axonal pathfinding. In From Message to Mind: New Directions in the Developmental Neurobiology, Sinauer Assoc.. null:110-120
Westerfield, M., Kimmel, C.B., and Walker, C. (1987) Normal pathfinding by pioneer motor growth cones in mutant zebrafish lacking functional acetylcholine receptors. Soc. Neurosci. Abstr.. 13:5
Eisen, J.S., Myers, P.Z., and Westerfield, M. (1986) Pathway selection by growth cones of identified motoneurones in live zebra fish embryos. Nature. 320(6059):269-271
Felsenfeld, A. and Westerfield, M. (1986) Normal pathfinding and synapse formation by motoneurons in a non-motile mutant zebrafish embryo. Soc. Neurosci. Abstr.. 147:12
Frost, D. and Westerfield, M. (1986) Axonal outgrowth of embryonic zebrafish neurons is promoted by laminin and inhibited by fibronectin. Soc. Neurosci. Abstr.. 12:1114
Liu, D. and Westerfield, M. (1986) Coactivation of two motor systems in the zebrafish. Soc. Neurosci. Abstr.. 2:790
Myers, P.Z., Eisen, J.S., and Westerfield, M. (1986) Development and axonal outgrowth of identified motoneurons in the zebrafish. The Journal of neuroscience : the official journal of the Society for Neuroscience. 6:2278-2289
Westerfield, M., Eisen, J.S., Myers, P.Z., McMurray, J.V., and Kimmel, C.B. (1986) Early neurogenesis in the zebrafish. Proc. Int. Union Physiol. Sci.. 16:20
Westerfield, M., McMurray, J.V., and Eisen, J.S. (1986) Identified motoneurons and their innervation of axial muscles in the zebrafish. The Journal of neuroscience : the official journal of the Society for Neuroscience. 6:2267-2277
Eisen, J.S., Myers, P.Z., and Westerfield, M. (1985) Functional interactions between identified growth cones and muscles in embryonic zebrafish. Soc. Neurosci. Abstr.. 11:586
Kimmel, C.B., Grunwald, D.J., Walker, C., Westerfield, M., and Streisinger, G. (1985) Neuronal degeneration mutations that spare primary neurons in the zebrafish. Soc. Neurosci. Abstr.. 11:647
Westerfield, M. and Eisen, J.S. (1985) The growth of motor axons in the spinal cord of Xenopus embryos. Developmental Biology. 109:96-121
Eisen, J.S., Myers, P.Z., and Westerfield, M. (1984) Segmentally specific growth of motor axons in live zebrafish embryos. Soc. Neurosci. Abstr.. 10:371
Hanneman, E. and Westerfield, M. (1984) Identified neurons produce acetylcholinesterase before they sprout axons in the zebrafish. Soc. Neurosci. Abstr.. 10:1043
Westerfield, M., Myers, P.Z., and Eisen, J.S. (1984) Polyneuronal and intersegmental innervation of body muscles in the zebrafish. Soc. Neurosci. Abstr.. 10:371