Kuil LE, Chauhan RK, de Graaf BM, Cheng WW, Kakiailatu NJM, Lasabuda R, Verhaeghe C, Windster JD, Schriemer D, Azmani Z, Brooks AS, Edie S, Reeves RH, Eggen BJL, Shepherd IT, Burns AJ, Hofstra RMW, Melotte V, Brosens E, Alves MM (2024) ATP5PO levels regulate enteric nervous system development in zebrafish, linking Hirschsprung disease to Down Syndrome. Biochim Biophys Acta Mol Basis Dis. 2024 Mar;1870(3):166991. doi: 10.1016/j.bbadis.2023.166991. Epub 2023 Dec 20. PubMed PMID: 38128843.

Kuil LE, Kakiailatu NJM, Windster JD, Bindels E, Zink JTM, van der Zee G, Hofstra RMW, Shepherd IT, Melotte V, Alves MM (2023) Unbiased characterization of the larval zebrafish enteric nervous system at a single cell transcriptomic level. iScience 26(7):107070. doi: 10.1016/j.isci.2023.107070. eCollection 2023 Jul 21. PubMed PMID: 37426341; PubMed Central PMCID: PMC10329177.

Zada A, Zhao Y, Halim D, Windster J, van der Linde HC, Glodener J*, Overkleeft S, de Graaf BM, Verdijk RM, Brooks AS, Shepherd I, Gao Y, Burns AJ, Hofstra RMW, Alves MM. (2023) The long Filamin-a isoform is required for intestinal development and motility: implications for chronic intestinal pseudo-obstruction Hum Mol Genet. 32(1):151-160. doi: 10.1093/hmg/ddac199. PubMed PMID: 35981053; PubMed Central PMCID: PMC9838097.  

RK Chauhan, BJL Eggen, AJ Burns, IT Shepherd, RMW Hofstra, WW Cheng. (2018) The use of zebrafish in functional genetic study of Hirschsprung disease. EUROPEAN JOURNAL OF HUMAN GENETICS 26, 432-432

Yunia Sribudiani, Rajendra K Chauhan, Maria M Alves, Lucy Petrova, Erwin Brosens, Colin Harrison, Tara Wabbersen, Bianca M de Graaf, Tim Rügenbrink, Grzegorz Burzynski, Rutger WW Brouwer, Wilfred FJ van IJcken, Saskia M Maas, Annelies de Klein, Jan Osinga, Bart JL Eggen, Alan J Burns, Alice S Brooks, Iain T Shepherd, Robert MW Hofstra. (2018) Identification of variants in RET and IHH pathway members in a large family with history of Hirschsprung disease. Gastroenterology 155 (1), 118-129. e6

Sribudiani Y, Chauhan RK, Alves MM, Petrova L, Brosens E, Harrison C, Wabbersen T, de Graaf BM, Rügenbrinck T, Burzynski G, Brouwer RWW, van Ijcken W. FJ, Maas SM, de Klein A, Osinga J, Eggen BJL, Burns AJ, Brooks AS, Shepherd IT, Hofstra RMW (2018) Oligogenic inheritance in Hirschsprung disease: implications of RET and  Hedgehog signalling in ENS development. Gastroenterology 155(1):118-129.e6. doi: 10.1053/j.gastro.2018.03.034

Gui H, Schriemer D, Cheng WW, Chauhan RK, Anti?olo G, Berrios C, Bleda M, Brooks AS, Brouwer RW, Burns AJ, Cherny SS, Dopazo J, Eggen BJ, Griseri P, Jalloh B, Le TL, Lui VC, Luzón-Toro B, Matera I, Ngan ES, Pelet A, Ruiz-Ferrer M, Sham PC, Shepherd IT, So MT, Sribudiani Y, Tang CS, van den Hout MC, van der Linde HC, van Ham TJ, van IJcken WF, Verheij JB, Amiel J, Borrego S, Ceccherini I, Chakravarti A, Lyonnet S, Tam PK, Garcia-Barceló MM, Hofstra RM. (2017) Whole exome sequencing coupled with unbiased functional analysis reveals new Hirschsprung disease genes. Genome Biology 18(1):48. doi: 10.1186/s13059-017-1174-6.

Tiffany Haenue, Iain Shepherd and Alan Burns (2016). Enteric Nervous System Development in Avian and Zebrafish Models. Developmental Biology 417(2) 129-38.

Leen Uyttebroek, Iain T. Shepherd, Pieter Vanden Berghe, Guy Hubens, Jean-Pierre Timmermans, and Luc van Nassauw (2015) The zebrafish mutant lessen an experimental model for congenital enteric neuropathies. Neurogastroenterology and Motility 28, 345-57.

Colin Harrison, Tara Wabbersen and Iain T. Shepherd. (2014) In Vivo Visualization of the Development of the Enteric Nervous System Using Phox2b::Kaede Transgenic Zebrafish. Genesis 52(12) 985-90

Uyttebroek, Leen; Shepherd, Iain; Hubens, Guy; Timmermans, Jean-Pierre; Van Nassauw, Luc (2013) Expression of neuropeptides and anoctamin 1 in the embryonic and adult zebrafish intestine, revealing neuronal subpopulations and ICC-like cells. Cell and Tissue Research Cell and Tissue Research 354(2): 355-70

Colin Harrison and Iain T. Shepherd. (2013) Choices, Choices: Regulation of Precursor Differentiation during Enteric Nervous System Development. Neurogastroenterology and Motility 25: 554-62

Christine S. van der Werf, Tara D. Wabbersen, Nai-Hua Hsiao, Joana Paredes, Heather C. Etchevers, Peter M. Kroisel, Dick Tibboel, Candice Babarit, Richard A. Schreiber, Edward J. Hoffenberg, Michel Vekemans, Sirkka L. Zeder, Isabella Ceccherini, Stanislas Lyonnet, Ana S. Ribeiro, Raquel Seruca, Gerard J. te Meerman, Sven C. D. van IJzendoorn, Iain T. Shepherd, Joke B. G. M. Verheij, Robert M. W. Hofstra. (2012) Mutations in CLMP cause Congenital Short Bowel Syndrome, pointing to its major role in intestinal development. Gastroenterology. 142: 453-462.

Iain T. Shepherd and Judith Eisen (2011) Development of the zebrafish enteric nervous system. Methods Cell Biol. 101:143-608.

Maria M. Alves, Grzegorz Burzynski, Jean-Marie Delalande, Jan Osinga, Annemieke van der Goot, Amalia Dolga, Esther de Graaff, Alice S. Brooks, Marco Metzger, Ulirich Eissel, Iain T. Shepherd, Bart J.L. Eggen and Robert M.W. Hofstra (2010) KBP interacts with SCG10 linking Goldberg-Shprintzen syndrome to microtubule dynamics and neuronal differentiation. Human Molecular Genetics 19: 3642-51.

Leen Uyttebroek, Iain T. Shepherd, Fernand Harrisson, Guy Hubens, Ronny Blust, Jean Pierre Timmermans, and Luc Van Nassauw (2010) Neurochemical Coding of Enteric Neurons in Adult and Embryonic Zebrafish (Danio rerio) Journal of Comparative Neurology 518: 4419-38.

Max A. Schlager, Lukas C. Kapitein, Ilya Grigoriev, Gregorz M. Burzynski, Phebe S. Wulf, Nanda Keijzer, Esther de Graaff, Mitsunori Fukuda, Iain T. Shepherd, Anna Akhmanova and Casper C. Hoogenraad (2010) Pericentrosomal targeting of Rab6 secretory vesicles b yBicaudal-D related protein-1 (BICDR-1) regulates neuritogenesis. EMBO 29:1637-1651.

Fatma O. Kok, Iain T. Shepherd and Howard I. Sirotkin (2010) Churchill and Sip1a repress FGF signaling during zebrafish somitogenesis. Develeopmental Dynamics 239:548-558

Allison D’Costa and Iain T. Shepherd (2009). Zebrafish Development and Gentetics: Introducing undergraduates to developmental biology and genetics in a large introductory laboratory class. Zebrafish 6: 169-177

Grzegorz M Burzynski, Jean-Marie Delalande and Iain T. Shepherd (2009) Characterization of spatial and temporal expression pattern of SCG10 during zebrafish development. Gene Expression Patterns 9:231-237

Grzegorz M Burzynski, Iain T. Shepherd and Hideki Entomono (2009) Genetic Model System Studies of the Development of the ENS, Gut Motility and Hirschsprung’s Disease. Neurogastroenterology and Motility 21:113-127

Tanya A de Jong-Curtain, Nathan E Hall, Meredith O Crowhurst, Judith E Layton, Andrew J Trotter, Heather Verkade, Adam C Parslow, Iain T Shepherd, Leonard I Zon, Didier Y Stainier, Graham J Lieschke, and Joan K. Heath (2009) A nonsense mutation in elys underlies the intestinal epithelial abnormalities in the zebrafish mutant, flotte lotte. Gastroenterology 136:902-911 Bettina

Reichenbach, Jean-Marie Delalande, Ekaterina Kolmogorova, Abigail Preier, Tu Nguyen, Chesey Smith, Jochen Holzschuh and Iain T. Shepherd (2008) Endoderm derived sonic hedgehog and mesoderm Hand2 expression are required for enteric nervous system development in Zebrafish. Developmental Biology 318: 52-64.

Jean-Marie Delalande, Meaghann Guyotte and Iain T Shepherd (2008) Zebrafsih Sip1a and Sip1b are essential for normal axial and neural patterning. Developmental Dynamics 237:1060-1069.

Tyler J. Hendershot, Hongbin Liu, David E. Clouthier, Iain T. Shepherd, Eva Coppala, Michele Studer, Anthony B. Firulli, Joshua Vincentz, Douglas Pittman and Marthe J. Howard (2008) Conditional deletion of Hand2 reveals critical functions fo development of neural crest derived tissues. Developmental Biology 319: 179-191.

Jacy Pietsch, Jean-Marie Delalande, Brett Jakaitis, Derek Stensby, Sarah Dohle, William Talbot, David W. Raible, and Iain T. Shepherd (2006) lessen encodes a zebrafish Trap100 required for eneteric nervous system development. Development 133: 395-406

Katrin Dürr, Jochen Holzschuh, Alida Filippi, Anne-Kathrin, Ettl, Soojin Ryu, Iain T. Shepherd and Wolfgang Driever (2006) Defects in dopaminergic amacrine cells of crsp34 mutant zebrafish embryos reveal differential developmental roles of transcriptional mediator complex subunits. Genetics 174: 693-705.

Arminda Suli, Nathan Mortimer, Iain T. Shepherd and Chi-Bin Chen(2006) Netrin-DCC signaling controls guidance of contralateral dendrites of octavolateralis efferent neurons. Journal of Neuroscience 26: 13328-37.

Adrian C. Grimes, Harriett A. Stadt, Iain T. Shepherd & Margaret L. Kirby. (2006) Solving an enigma: Arterial Pole development in the zebrafish heart. Developmental Biology 290:265-276.

Iain T. Shepherd, Jacy Pietsch, Stone Elworthy, Robert N. Kelsh and David W. Raible. (2004) Roles for GFRalpha1 receptors in zebrafish enteric nervous system development. Development 131: 241-249

Iain T. Shepherd, Christine Beattie and David W. Raible. (2001) Functional analysis of zebrafish GDNF. Developmental Biology 231: 420-435.

Iain T. Shepherd and Jonathan A Raper (1999) Collapsin-1/semaphorin D is a repellent for chick ganglion of Remak axons. Developmental Biology 212: 42-53.

Iain T. Shepherd, Yuling Luo, Frances Lefcort, Louis F. Reichardt and Jonathan A. Raper. (1997) A sensory axon repellent secreted from ventral spinal cord explants is neutralized by antibodies raised against collapsin-1. Development 124: 1377-1385.

Iain Shepherd, Yuling Luo, Jonathan A. Raper, and Susannah Chang. (1996) The distribution of collapsin-1 mRNA in the developing chick nervous system. Developmental Biology 173: 185-199.

Yuling Luo, Iain Shepherd, Jie Li, Michael J. Renzi, Susannah Chang, and Jonathan A. Raper. (1995) A family of molecules related to collapsin in the embryonic chick nervous system. Neuron 14: 1131-1140.

I.T. Shepherd and J.S.H. Taylor. Early development of efferent projections from the chick tectum. (1995) Journal of Comparative Neurology 354: 501-510.