– 2015 –

Merrick Schill E, Lake JI, Tusheva OA, Nagy N, Bery SK, Foster L, Avetisyan M, Johnson SL, Stenson WF, Goldstein AM, Heuckeroth RO. Ibuprofen slows migration and inhibits bowel colonization by enteric nervous system precursors in zebrafish, chick and mouse. Dev Biol. 2015 Nov 14. pii: S0012-1606(15)30087-7. doi: 10.1016/j.ydbio.2015.09.023. PubMed PMID: 26586201.

Enright JM, Toomey MB, Sato SY, Temple SE, Allen JR, Fujiwara R, Kramlinger VM, Nagy LD, Johnson KM, Xiao Y, How MJ, Johnson SL, Roberts NW, Kefalov VJ, Guengerich FP, Corbo JC. Cyp27c1 Red-Shifts the Spectral Sensitivity of Photoreceptors by Converting Vitamin A1 into A2. Curr Biol. 2015 Nov 4. pii: S0960-9822(15)01246-4. doi: 10.1016/j.cub.2015.10.018. PubMed PMID: 26549260.

Zeng Z, Johnson SL, Lister JA, Patton EE. Temperature-sensitive splicing of mitfa by an intron mutation in zebrafish. Pigment Cell Melanoma Res. 2015 Mar;28(2):229-32. doi: 10.1111/pcmr.12336. Epub 2014 Dec 29. PubMed PMID: 25469769; PubMed Central PMCID: PMC4333074.

Lee HJ, Lowdon RF, Maricque B, Zhang B, Stevens M, Li D, Johnson SL, Wang T. Developmental enhancers revealed by extensive DNA methylome maps of zebrafish early embryos. Nat Commun. 2015 Feb 20;6:6315. doi: 10.1038/ncomms7315. PubMed PMID: 25697895; PubMed Central PMCID: PMC4339225.

Tryon RC, Johnson SL. Clonal analysis of kit ligand a functional expression reveals lineage-specific competence to promote melanocyte rescue in the mutant regenerating caudal fin. PLoS One. 2014 Jul 10;9(7):e102317. doi: 10.1371/journal.pone.0102317. eCollection 2014. PubMed PMID: 25009992; PubMed Central PMCID: PMC4092134.

– 2014 –

Cho K, Mahieu NG, Johnson SL, Patti GJ. After the feature presentation: technologies bridging untargeted metabolomics and biology. Current Opinion in Biotechnology, 28, 143-148, 2014

Perathoner S, Daane JM, Henrion U, Seebohm G, Higdon CW, Johnson SL, Nüsslein-Volhard C, Harris MP. Bioelectric signaling regulates size in zebrafish fins. PLoS Genet 10(1): e1004080. doi:10.1371/journal.pgen.1004080

Gray RS, Wilm TP, Smith J, Bagnat M, Dale RM, Topczewski J, Johnson SL, Solnica-Krezel L. Loss of col8a1a function during zebrafish embryogenesis results in congenital vertebral malformations. Dev Biol. 2014 Feb 1;386(1):72-85. doi:10.1016/j.ydbio.2013.11.028. Epub 2013 Dec 11. PubMed PMID: 24333517; PubMed
Central PMCID: PMC3938106.

Cox JA, LaMora A, Johnson SL, Voigt MM. Novel role for carbamoyl phosphate synthetase 2 in cranial sensory circuit formation. Int J Dev Neurosci. 2014 Apr;33:41-8. doi: 10.1016/j.ijdevneu.2013.11.003. Epub 2013 Nov 23. PubMed PMID: 24280100; PubMed Central PMCID: PMC3944931.

– 2013 –

Higdon CW, Mitra RD, Johnson SL: Gene expression analysis of zebrafish melanocytes, iridiphores, and retinal pigmented epithelium reveals indicators of biological function and developmental origin (2013). PloS one, 8(7): e67801

O’Reilly-Pol T, Johnson SL: Kit signaling is involved in melanocyte stem cell fate decisions in zebrafish embryos (2103). Development, 140(5): 996-1002

Tryon RC, Pisat N, Johnson SL, Dougherty JD: Development of translating ribosome affinity purification for zebrafish(2013). Genesis, 51: 187–192. 


– 2012 –

Tsetskhladze ZR, Canfield VA, Ang KC, Wentzel SM, Reid KP, Berg AS, Johnson SL, Kawakami K, Cheng KC: Functional assessment of human coding mutations affecting skin pigmentation using zebrafish (2012). PLoS One. 7(10):e47398.

Tryon RC, Johnson SL: Clonal and lineage analysis of melanocyte stem cells and their progeny in the zebrafish (2012). Methods Mol Biol. 916:181-95. 

Zhou L, Ishizaki H, Spitzer M, Taylor KL, Temperley ND, Johnson SL, Brear P, Gautier P, Zeng Z, Mitchell A, Narayan V, McNeil EM, Melton DW, Smith TK, Tyers M, Westwood NJ, Patton EE: ALDH2 mediates 5-nitrofuran activity in multiple species (2012). Chem Biol. 19(7):883-92.


– 2011 –

Chen, FS, Barth ME, Johnson SL, Ian H. Gotlib IH and Johnson SC (2011) Oxytocin receptor (OXTR) polymorphisms and attachment in human infants. Frontiers in Psychology, 2:200. Doi: 10.3389

Cox, JA, LaMora, A,  Johnson, SL, and Voigt, MM (2011)  Development of branchiomeric nerves in zebraafish reveals the diversity of mechanisms involved in peripheral nerve formation.  Dev. Biol. 357:305-17.

Tu, S and Johnson, SL: Fate restriction in the growing and regenerating zebrafish fin (2011)  Dev. Cell20:725-732.

Tryon, RC, Higdon, S, and Johnson, SL (2011) Relationship of direct-developing melanocytes and melanocyte stem cell lineages in the zebrafish Plos One, 6(6):e21010. PMC3116864

Prasad MK, Reed X, Gorkin DU, Cronin JC,  McAdow AR, Chain K, Hodonsky CJ, Jones AE, Svaren JP, Antonellis A, Johnson SL, Loftus SK, Pavan WJ and McCallion AS (2011) SOX10 directly modulates ERBB3 transcription via an intronic neural crest enhancer. BMC Dev Biol. 11:40.

Cox, JA, McAdow AR, Dinitz AE, McCallion AS; Johnson SL, Voigt MM (2011) A zebrafish SKIV2L2-enhancer trap line provides a useful tool for the study of peripheral sensory circuit development. Gene Exp. Patterns, 11(7):409-14.

Johnson, SL, Nguyen, AN, and Lister (2011) JA  Mitfa is required at multiple stages of melanocyte differentiation but not to establish the melanocyte stem cell.  Dev. Biol. 350:405-13.


– 2010 –

Tu, S. and Johnson, SL (2010) Clonal analyses reveal roles of organ founding stem cells, melanocyte stem cells and. melanoblasts in establishment, growth and regeneration of the adult zebrafish fin. Development, 137:3931-9.

Talbot JC, Johnson, SL and Kimmel CB(2010)hand2 and dlx genes specify dorsal, intermediate, and ventral domains within zebrafish pharyngeal arches. Development, 137:2507-17.

Hultman KA and Johnson, SL (2010) Differential contribution of direct-developing and stem cell-derived melanocytes to the zebrafish larval pigment pattern. Dev Biol. 337(2):425-3. PMC2812685.


– 2009 –

LangMR,  PattersonLB,  Gordon TN,  JohnsonSL and Parichy DM(2009)  Basonuclin-2 requirements for zebrafish adult pigment pattern development and female fertility. PLoS Genet. 5(11):e1000744. PMC2776513.

Green J,  Taylor J, Hindes, A,  Johnson SL and  Goldsmith MI (2009)  A gain of function mutation causing skeletal overgrowth in the rapunzel mutant, Dev. Biol. 334:224-234. PMC2756807.

Hultman K , Budi E, Teasley D,  Gottlieb  A,  Parichy, D and SL Johnson. (2009) Defects in ErbB-dependent establishment of adult melanocyte stem cells reveals independent origins for embryonic and regeneration melanocytes PLoSGenetics. 5(7):e1000544, PMC2699538.

Huang CC, Wang TC, Lin, BH, Wang, YW,  Johnson, SL, and Yu, J. (2009)  Collagen IX is required for the integrity of collagen II fibrils and the regulation of vascular plexus formation in zebrafish caudal fins. Dev. Biol. 332:360-370.

Burgess, HA, Johnson, SL and Granato, M. (2009)  Lateralized startle responses and disrupted left right coordination of motor behaviors in robo3 mutant zebrafish. Brain, Behavior and Evolution, 8:500-511,  PMC2752477.

O’Reilly-Pol T, and Johnson SL (2009) Melanocyte regeneration reveals mechanisms of adult stem cell regulation, 2009, Sem. in Cell Dev. Biol. 20:117-24, PMC2677296.


– 2008 –

Johnson, SL. (2009) Memory of fate and position, colorized. Dev. Cell. 17:5-6.

O’Reilly-Pol  T, Johnson SL (2008) Neocuproine Ablates Melanocytes in Adult Zebrafish. Zebrafish, 5:257-264, PMC2765050.

Hultman KA, Scott AW, Johnson SL (2008) Small Molecule Modifier Screen for kit-Dependent Functions in Zebrafish Embryonic Melanocytes Zebrafish, 5: 279-287. PMC2757780.

Lopes SS, Yang X, Müller J, Carney TJ, McAdow AR, Rauch GJ, Jacoby AS, Hurst LD, Delfino-Machín M, Haffter P, Geisler R, Johnson SL, Ward A, Kelsh RN (2008) Leukocyte tyrosine kinase functions in pigment cell development.  PLoS Genet. 4(3):e1000026. PMC2265441.


– 2007 –

Yang CT, Hindes AE, Hultman KA, Johnson SL (2007)  Mutations in gfpt1 and skiv2l2 cause distinct stage- specific defects in larval melanocyte regeneration in zebrafish. PLoS Genet. 3(6):e88. PMC1885281

Sheets L, Ransom DG, Mellgren EM, Johnson SL, Schnapp BJ. (2007) Zebrafish melanophilin facilitates melanosome dispersion by regulating dynein. Curr Biol. ;17(20):1721-34.

Gansner JM, Mendelsohn BA, Hultman KA, Johnson SL, Gitlin JD. (2007) Essential role of lysyl oxidases in notochord development.  Dev Biol. 307(2):202-13. PMC2467443.

Hultman KA, Bahary N, Zon, LI, Johnson, SL (2007)  Gene duplication of the zebrafish kit ligand and portioning of melanocyte development functions to kit ligand a PLoS Genetics 3:e17. PMC1781495.

Leslie JD, Linda Ariza-McNaughton L, Bermange AL, McAdow R, Johnson SL , and Lewis J. (2007) Endothelial Signalling by the Notch ligand Delta-like 4 restricts angiogenesis. Development 134:839-44.


– 2006 –

Iwashita M, Watanabe M, Ishii M, Chen T, Johnson SL, Kurachi Y, Okada N, Kondo S.  (2006)  Pigment Pattern in jaguar/obelix zebrafish is caused by a Kir7.1 mutation: implications for the regulation of melanosome movement. PLoS Genet. 2:e197. PMC1657052

Yang CT, Johnson SL (2006) Small molecule-induced ablation and subsequent regeneration of larval zebrafish melanocytes. Development. 133:3563-73. PMC1885281

Goldsmith MI, Iovine MK, O’Reilly-Pol T, Johnson SL. (2006) A developmental transition in growth control during zebrafish caudal fin development. Dev Biol. 296:450-7.

Mendelsohn BA, Yin C, Johnson SL, Wilm TP, Solnica-Krezel L, Gitlin JD (2006) Atp7a determines a hierarchyof copper metabolism essential for notochord development. Cell Metab. 4:155-62.

Mellgren EM, Johnson SL. (2006) pyewacket, a new zebrafish fin pigment pattern mutant. Pigment Cell Res.19:232-8.

Guryev V, Koudijs MJ, Berezikov E, Johnson SL, Plasterk RH, van Eeden FJ, Cuppen E. (2006) Genetic variation in the zebrafish. Genome Res. 16:491-497, PMC1457036


– 2005 –

Mellgren EM, Johnson SL (2005) Kitb, a second zebrafish orthology of mouse kit. Dev. Gene Evol. 215:470-477.

Iovine KM, Higgins EP, Hindes A, Coblitz B, Johnson SL (2005) Mutations in connexin43 (GJA1) perturb bone growth in zebrafish fins. Dev. Biol. 278:208-219.

The MGC Project Team (Johnson SL, one of 111 authors) (2004) The status, quality, and expansion of the NIH full-length cDNA project: The mammalian gene collection (MGC). Gen. Research 14:2121-2127. PMC528928


– 2004 –

Yang CT, Sengelmann RD, Johnson SL (2004) Larval melanocyte regeneration following laser ablatioin in zebrafish. I. Invest. Dermatology, 123:924-29 (w/cover art).

Mellgren EM and Johnson SL (2004) A requirement for kit in embryonic zebrafish melanocyte differentiation is revealed by melanoblast delay. Dev. Gene Evol. 214:493-502.


– 2003 –

Clark MS, Edwards YJ, Peterson D, Clifton SW, Thompson AJ, Sasaki M, Suzuki Y, Kikuchi K, Watabe S, Kawakami K, Sugano S, Elgar G, Johnson SL (2003) Improved genome annotation in Fugu using EST and transcription analysis. Gen. Research 13:2747-53. PMC403817

Huang C, Lawson ND, Weinstein BM, and Johnson, SL (2003) reg6 is required for branching morphogenesis during blood vessel regeneration in zebrafish caudal fins. Dev. Biol. 264:261-74.

Rawls JF, and Johnson SL ((2003) Temporal and molecular separation of the kit receptor tyrosine kinase’s role in zebrafish melanocyte migration and survival. Dev. Biol. 262:152-61.

Goldsmith MI, Fisher S, Waterman R, and Johnson SL. (2003) Saltatory control of isometric growth in zebrafish caudal fin is disrupted in long fin and rapunzel mutants. Dev. Biol. 259:303-317 (w/cover art).

Nechiporuk A, Poss KD, Johnson SL, and Keating MT (2003) Positional cloning of a temperature-sensitive mutant emmental reveals role for sly1 during cell proliferatio in zebrafish fin regeneration. Dev. Biol. 258:291-306.

Rawls JF, Freida M, McAdow AT, Clayton C, Heyen C, and Johnson SL (2003) Coupled mutagenesis screening and meiotic mapping in zebrafish. Genetics 163:997-1003.


– 2002 –

Poss KD, Nechiporuk A, Hillam AM, Johnson SL, and Keating MT (2002) Mps1 defines a proximal blastemal proliferative compartment essential for zebrafish fin regeneration. Development 129:5141-49.

Mellgren EM and Johnson SL (2002) Gene duplication and the evolution of morphological complexity in the zebrafish pigment pattern. Trends Genet. 18:128-134.

Iovine MK and Johnson SL (2002) A genetic, deletion, physical, and human homology map of the long fin region on zebrafish linkage group 2. Genomics. 79:756-759.


– 2001 –

Oates AC, Pratt SJ, Vail B, Yan Yl, Ho RK, Johnson SL, Postlethwait JH, Zon LI. (2001) The zebrafish klf gene family. Blood. 98:1792-801.

Hukreide N, Fisher D, Epstein J, Joly L, Tellis P, Zhou Y, Barbazuk B, Cox K, Fenton-Noriega L, Hersey C, Miles J, Sheng X, Song A, Waterman R, Johnson SL, Dawid IB, Chevrette M, Zon LI, McPherson J, and Ekker M (2001) The LN54 radiation hybrid map of the zebrafish genome. Genome Research. 11:2127-2132.

Rawls JF, Melgren EM and Johnson SL (2001) How the zebrafish gets its stripes. Developmental Biology. 240:301-314.

Rawls JF and Johnson SL. (2001) Requirements for the kit receptor tyrosine kinase during regeneration of zebrafish fin melanocytes. Development, 128:1943-9.

Parichy DM and Johnson SL. (2001) Zebrafish hybrids suggest genetic mechanisms for pigment pattern diversification in Danio. Dev. Gene Evol., 211:319-328.

Clark MD, Hennig S, Herwig R, Clifton SW, Marra MA, Lehrach H and Johnson SL (2001) An oligonuceleotide fingerprint normalized and EST characterized zebrafish cDNA library. Genome Research. 11:1594-1602.


– 2000 –

Parichy, D., Ransom, D., Paw, B., Zon, L., and Johnson, S.L. (2000) An orthologue of the kit-related gene fms is required for development of neural crest-derived xanthophores and a subpopulation of adult melanocytes in the zebrafish, Danio rerio. Development, 127:3031-3044.

Iovine, M.K. and S.L. Johnson (2000) Genetic analysis of proportionate growth control mechanisms in the zebrafish caudal fin. Genetics, 155:1321-9.

Rawls, J.F. and S.L. Johnson (2000) Zebrafish kit mutation reveals primary and secondary regulation of melanocyte development during fin stripe regeneration. Development, 127:3715-24.

Jagadeeswaran P, Gregory M, Johnson SL, and Thankavel B. (2000) Haemostatic screening and identification of zebrafish mutants with coagulation pathway defects: an approach to identifying novel haemostatic genes in man. Br. J. Haematology ,110:946‑56.

Parichy DM, Melgren EM, Rawls JF, Lopes SS, Kelsh RN and Johnson SL. (2000) Mutational analysis of endothelin receptor b1 (rose) during neural crest and pigment pattern development in the zebrafish danio rerio. Develop. Biology, 227:294‑306.

Kelly PD, Chu F, Woods IG, Ngo‑Hazelett P, Cardozo T, Huang H, Kimm F, Liao L, Yan YL, Zhou Y, Johnson SL, Abagyan R, Schier AF, Postlethwait JH, and Talbot WS. (2000) Genetic Linkage mapping of zebrafish genes and ESTs. Genome Res., 10:558‑67.

Barbazuk, W.B., Korf, I., Kadavi, C., Heyen, J., Tate, S., Wun, E., Bedell, J., McPherson, J., and Johnson S.L. (2000) The syntenic relationship of the zebrafish and human genomes. Genome Res., 10:1351-8.


– 1999 –

Nechiporuk, A., J.E. Finney, M.T. Keating, S.L. Johnson (1999) Assessment of polymorphism in zebrafish mapping strains. Genome Res. 9: 1231-1238.

Oates AC, Wollberg P, Pratt SJ, Paw BH, Johnson SL, Ho RK, Postlethwait JH, Zon LI, Wilks AF (1999) Zebrafish stat3 is expressed in restricted tissues during embryogenesis and stat1 rescues cytokine signaling in a STAT1-deficient human cell line. Dev. Dyn., 21:5352-70.

Oates AC, Brownlie A, Pratt SJ, Irvine DV, Liao EC, Paw BH, Dorian KJ, Johnson SL, Postlethwait JH, Zon LI, Wilks AF (1999) Gene duplication of zebrafish JAK2 homologs is accompanied by divergent embryonic expression patternsonly jak2a Is expressed during erythropoiesis. Blood, 94:2622-36.

Hukriede, N.A., L. Joly, M. Tsang, J. Miles, P. Tellis, J.A. Epstein, W.B. Barbazuk, F.N. Li, B. Paw, J.H. Postlethwait, T.J. Hudson, L.I. Zon, J.D. McPherson, M. Chevrette, I.B. Dawid, S.L. Johnson, and M. Ekker (1999) Radiation hybrid mapping of the zebrafish genome. PNAS, 96:9745-9750.

Parichy, D.M., J.F. Rawls, S.J. Pratt, T.T. Whitfield, and S.L. Johnson (1999) Zebrafish sparse corresponds to an orthologue of c-kit and is required for the morphogenesis of a subpopulation of melanocytes, but is not essential for hematopoiesis or primordial germ development. Development, 126:3425-36.

Lister, J.A., C.P. Robertson, T. Lepage, S.L. Johnson and D.W. Raible (1999) nacre encodes a zebrafish microphthalmia-related protein that regulates neural crest-derived pigment cell fate. Development, 126:3757-3767.

Mathias, N., S. Johnson, B. Byers and M. Goebl (1999) The abundance of the F-box containing protein Cdc4 is regulated by interactions between Skp1p and the F-box. Mol. Cell. Biol. 19: 1759-67.

Johnson SL, Zon LI (1999) Genetic backgrounds and some standard stocks and strains used in zebrafish developmental biology and genetics. Methods Cell Biol., 60:357-9.

Johnson SL, Bennett P, (1999) Growth control in the ontogenetic and regenerating zebrafish fin. Methods Cell Biol.,  59:301-11.


– 1998 –

Lee, K.H., J.J. Marden, M.S. Thompson, H. MacLennan, Y. Kishimoto, S.J. Pratt, S. Shulte-Merker, M. Hammerschmidt, S.L. Johnson, J.H. Postlethwait, D.C. Beier and L.I. Zon (1998) Cloning and genetic mapping of zebrafish BMP-2. Dev. Genet. 23: 97-103.

Postlethwait, J.J., Y.L. Yan, M.A. Gates, S. Horne, A. Amores, A. Brownlie, A. Donovan, E.S. Egan, A. Force, Z. Gong, C. Goutel, A. Fritz, R. Kelsh, E. Knapik, E. Liao, B. Paw, D. Ransom, A. Singer, M. Thomson, T.S. Abudljabbar, P. Yelick, D. Beier, J.-S. Joly, D. Larhammar, F. Rosa, M. Westerfield, L.I. Zo, S.L. Johnson, and W.S. Talbot (1998): Vertebrate genome evolution and the zebrafish gene map. Nature Genetics 18:345-349.


– 1997 –

Bingulac-Popovic, J., F. Figueroa, A. Sato, W.S. Talbot, S.L. Johnson, M.A. Gates, J.H. Postlethwait,  and J. Klein (1997): Mapping of Mhc class I and class II regions to different linkage groups in the zebrafish, Danio rerio. Immunogenetics, 42:129-134.


– 1996 –

Mathias, N., S. L. Johnson, M. Winey, A. A. E. Adams, L Goetsch, J. R Pringle, B. E. Byers and M. G. Goebl (1996): Cdc53p acts in concert with Cdc4p and Cdc34p to control the Gl‑S phase transition and identifies a conserved family of proteins. Mol Cell. Biol. 16:6634-6370.

Johnson, S. L., M. A. Gates. M. Johnson, W. S. Talbot, S. Horne, K. Baik, S. Rude, J. R. Wong and  J.H. Postlethwait (1996): Centromere‑linkage analysis and the consolidation of the zebrafish genetic map. Genetics, 142:1277‑1288.


– 1995 –

Johnson, S. L. and J. A. Weston (1995): Temperature‑sensitive mutations that cause stage specific defects in zebrafish fin regeneration. Genetics, 141:1588‑1595.

Kauffman, E J, E.E. Gestl, D.J.Kim, C. Walker, J.M. Hite, G. Yan, P K Rogan, band KC Cheng (1995): Microsatellite‑centromere mapping in zebrafish (Danio rerio). Genomics 30: 337‑341.

Johnson, S.L, D. Africa, C. Walker, and J.A. Weston (1995): Genetic control of adult pigment stripe development in Zebrafish. Dev. Biol. 167:27‑33.

Johnson, S.L., D. Africa, S. Horne, and J.H. Postlethwait (1995): Half‑tetrad analysis in Zebrafish: mapping the ros mutation and the centromere of Linkage Group I. Genetics 139:1727‑1735.

Akimenko, M.‑A., S.L. Johnson, M. Westerfield, and M. Ekker (1995): Differential inductiton of fourMSX homeobox genes during fin development and regeneration in Zebrafish. Development 121:347‑357.


1994 –

Johnson, S.L., C.N. Midson, E.W. Ballenger, and J.H. Postlethwait (1994): Identification of RAPD primers that reveal extensive polymorphisrns between laboratory strains of zebrafish. Genomics 19:152‑156.

Postlethwait, J., S.L. Johnson, C.N. Midson, W.S. Talbot, M. Gates, E.W. Ballinger, D. Africa, R.Johnson, Stephen L. Andrews, T. Carl, J.S. Eisen, S. Horne, C.B. Kimmel, M. Hutchinson, M. Johnson, and A. Rodriguez (1994): A genetic map for the Zebrafish. Science 264:219‑234.

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