Publications with Sars Centre Address
Original Results

    2012

  • Nakanishi N, Renfer E, Technau U, Rentzsch F (2012). Nervous systems of the sea anemone Nematostella vectensis are generated by ectoderm and endoderm and shaped by distinct mechanisms. Development, 139:347-357

  • Santagata S, Resh C, Hejnol A, Martindale MQ, Passamaneck, YJ (2012). Development of the larval anterior neurogenic domains of Terebratalia transversa (Brachiopoda) provides insights into the diversification of larval apical organs and the spiralian nervous system. EvoDevo, 3:3.

    2011

  • Angotzi A, Mungpakdee S, Stefansson S, Male R, Chourrout D (2011). Involvement of Prop1 homeobox gene in the early development of fish pituitary gland. Gen. Comp. Endocrinol. Volum 171.(3) s. 332-340.

  • Campsteijn C, Øvrebø JI, Karlsen BO and EM Thompson (2011). Expansion of cyclin D and CDK1 paralogs in Oikopleura dioica, a chordate employing diverse cell cycle variants. Mol. Biol. Evol., [Epub ahead of print] doi:10.1093/molbev/msr136. PMID:21734012

  • Dong B, Deng W, Jiang D (2011). Distinct cytoskeleton population and extensive crosstalks control the Ciona notochord tubulogenesis. Development 138 (8):1631-1641.

  • Fuchs J, Martindale MQ and Hejnol A. (2011) Gene expression in bryozoan larvae suggest a fundamental importance of pre-patterned blastemic cells in the bryozoan life-cycle EvoDevo, 2:13 - abstract

  • José-Edwards DS, Kerner P, Kugler JE, Deng W, Jiang D, Di Gregorio A (2011). The identification of transcription factors expressed in the notochord of Ciona intestinalis adds new potential players to the brachyury gene regulatory network. Dev Dyn., 240:1793-1805.

  • Kugler JE, Kerner P, Bouquet JM, Jiang D, Di Gregorio A (2011). Evolutionary changes in the notochord genetic toolkit: a comparative analysis of notochord genes in the ascidian Ciona intestinalis ant the larvacean Oikopleura dioiac. BMC Evol. Biol., 11:21-36.

  • Moosmann A, Campsteijn C, Jansen PWTC, Nasrallah C, Raasholm M, Stunnenberg HG and EM Thompson (2011). Histone variant innovation in a rapidly evolving chordate lineage. BMC Evol. Biol., 11:208.

  • Passamaneck YJ, Furchheim N, Hejnol A, Martindale MQ, Lüter C (2011). Ciliary photoreceptors in the cerebral eyes of a protostome larva. EvoDevo, 2:6 - abstract.

  • Royo JL, Hidalgo C, Roncero Y, Angeles Seda M, Akalin A, Lenhard B, Casares F, Gomes-Skarmeta JL (2011). Dissecting the transcriptional regulatory properties of human chromosome 16 highly conserved non-coding regions. PLoS One, 6(9):e24824.

  • Sagane Y, Hosp J, Zech K and EM Thompson (2011). Cytoskeleton-mediated templating of complex cellulose-scaffolded extracellular structure in the urochordate Oikopleura. Cell. Mol. Life Sci., 68:1611-1622.

  • Suster, ML, Gembu A, Schouw A and Kawakami K. (2011). Transposon-mediated BAC transgenesis in zebrafish. Nature Protocols in press.

  • Ullrich-Lüter EM, Dupont S, Arbodela E, Hausen H, Arnone MI (2011). Unique system of photoreceptors in sea urchin tube feet. Proc. Natl. Acad. Sci. U. S. A. 108(20): 8367-8372.

    2010

  • Denoeud F, Henriet S, Mungpakdee S, Aury JM, Da Silva C, Brinkmann H, Mikhaleva J, Olsen LC, Jubin C, Cañestro C, Bouquet JM, Danks G, Poulain J, Campsteijn C, Adamski M, Cross I, Yadetie F, Muffato M, Louis A, Butcher S, Tsagkogeorga G, Konrad A. Singh S, Jensen MF, Cong EH, Eikeseth-Otteraa H, Anthouard V, Kachouri-Lafond R, Nishino A, Ugolini M, Chourrout P, Nishida H, Aasland R, Huzurbazar S, Westhof E, Delsuc F, Lehrach H, Reinhardt R, Weissenbach J, Roy SW, Artiguenave F, Postlethwait JH, Manak JR, Thompson EM, Jaillon O, Du Pasquier L, Boudinot P, Liberles DA, Volff JN, Philippe H, Lenhard B, Crollius HR, Wincker P and D Chourrout (2010). Plasticity of animal genome architecture unmasked by rapid evolution of a pelagic tunicate. Science, 330:1381-1385.

  • Adamska M, Larroux C, Adamski M, Green K, Lovas E, Koop D, Richards GS, Zwafink C, Degnan BM (2010). Structure and expression of conserved wnt pathway components in the demosponge Amphimedon queenslandica. Evol. Dev., 12:494-518.

  • Dong X, Navratilova P, Fredman D, Drivenes Ø, Becker TS, Lenhard B (2010). Exonic remnants of whole-genome duplication reveal cis-regulatory function of coding exons. Nucleic Acids Res., 38:1071-1085

  • Navratilova P, Fredman D, Lenhard B, Becker TS (2010). Regulatory divergence of the duplicated chromosomal loci sox11a/b by subpartitioning and sequence evolution of enhancers in zebrafish. Mol. Genet. Genomics, 283:171-184.

  • Portales-Casamar E1, Thongjuea S1, Kwon AT, Arenillas D, Zhao X, Valen E, Yusuf D, Lenhard B, Wasserman WW, Sandelin A (2010). JASPAR 2010: the greatly expanded open-access database of transcription factor binding profiles. Nucleic Acids Res., 38(Database Issue):D105-110.

  • Ragvin A, Moro E, Fredman D, Navratilova P, Drivenes Ø, Engström PG, Alonso ME, de la Calle Mustienes E, Gomez-Skarmeta JL, Tavares MJ, Casares F, Manzanares M, van Heyningen V, Molven A, Njølstad PR, Argenton F, Lenhard B, Becker TS (2010). Long-range Gene Regulation links Genomic Type 2 Diabetes and Obesity risk regions to HHEX, SOX4 and IRX3. Proc. Natl. Acad. Sci. U. S. A., 107:775-780.

  • Soler E, Andrieu-Soler C, de Boer E, Bryne JC, Thongjuea S, Stadhouders R, Palstra RJ, Stevens M, Kockx C, van IJcken W, Hou J, Steinhoff C, Rijkers E, Lenhard B, Grosveld F (2010). The Genome-Wide Dynamics of the Binding of Ldb1 Complexes during Erythroid Differentiation. Genes Dev., 24:277-289.

  • Sagane Y, Hosp J, Zech K and EM Thompson (2010). Cytoskeleton-mediated templating of complex cellulose-scaffolded extracellular structure and its association with oikosins in the urochordate Oikopleura. Cell. Mol. Life Sci., DOI 10.1007/s00018-010-0547-8.

    2009

  • Hejnol A and Martindale MQ (2009). Coordinated spatial and temporal expression of Hox genes during embryogenesis in the acoel Convolutriloba longifissura. BMC Biol., 7:65.

  • Dong B, Horie T, Denker E, Kusakabe T, Tsuda M, Smith WC and Jiang D (2009). Tube formation by complex cellular processes in Ciona intestinalis notochord. Dev. Biol. 330:237-249.

  • Saina M, Genikhovich G, Renfer E and Technau U (2009). BMPs and Chordin regulate patterning of the directive axis in a sea anemone. Proc. Natl. Acad. Sci. U. S. A., 106:18592-18597.

  • Saina M and Technau U (2009). Characterization of myostatin/gdf8/11 in the starlet sea anemone Nematostella vectensis. J. Exp. Zool. Part B, 312:780-788

  • Amsterdam A, Lai K, Komisarczuk AZ, Becker TS, Borinson RT, Hopkins N, and Lees JA (2009). Zebrafish Hagoromo mutants upregulate fgf8 post-embryonically and develop neuroblastoma. Mol. Cancer Res. 7:841-850.

  • Komisarczuk AZ, Kawakami K and Becker TS (2009). Cis-regulation and chromosomal rearrangement of the fgf8 locus after the teleost/tetrapod split. Dev. Biol., 336:301-312.

  • Akalin A, Fredman D, Arner E, Dong X, Bryne JC, Suzuki H, Daub CO, Hayashizaki Y and Lenhard B (2009). Transcriptional features of genomic regulatory blocks. Genome Biol. 10(4):R38.

  • Dong X, Fredman D AND Lenhard B (2009). Synorth: exploring the evolution of synteny and long-range regulatory interactions in vertebrate genomes. Genome Biol. 10:R86.

  • Navratilova P, Fredman D, Hawkins TA, Turner K, Lenhard B, and Becker TS (2009). Systematic human/zebrafish comparative identification of cis-regulatory activity around vertebrate developmental transcription factor genes. Dev. Biol. 15;327:526-540.

  • Bouquet JM, Spriet E, Troedsson C, Ottera H, Chourrout D and Thompson EM (2009). Culture optimization for the emergent zooplanktonic model organism Oikopleura dioica. J. Plankton Res., 31:359–370.

    2008

  • Rentzsch F, Fritzenwanker JH, Scholz CB and Technau U (2008). FGF signalling controls formation of the apical sensory organ in the cnidarian Nematostella vectensis. Development, 135:1761-1769

  • Bessa J, Tavares MJ, Gómez-Skarmeta JL, Kikuta H, Laplante M, Becker TS and Casares F (2008). meis1 regulates cyclin D1 and c-myc expression, and controls the proliferation of the multipotent cells in the early developing zebrafish eye. Development, 135:799-803.

  • Hoppmann V, Wu J, Søviknes AM, Helvik JV and Becker TS (2008). Expression of the eight AMPA receptor subunit genes in the developing central nervous system and sensory organs of zebrafish. Dev. Dyn., 237:788-799.

  • Komisarczuk AZ, Topp S, Stigloher C, Kapsimali M, Bally-Cuif L, and Becker TS (2008). Enhancer detection and developmental expression of zebrafish sprouty1, a member of the fgf8 synexpression group. Dev. Dyn. 237:2594-2603.

  • Pézeron G, Mourrain P, Sébastien C, Ghislain J, Becker TS, Rosa FM and David NB (2008). Live analysis of endodermal layer formation identifies random walk as a novel gastrulation movement. Curr. Biol., 18:276-281.

  • Punnamoottil B, Kikuta H, Pézeron G, Erceg J, Becker TS and Rinkwitz, S (2008). Enhancer Detection in Zebrafish Permits the Identification of Neuronal Subtypes That Express Hox4 Paralogs. Dev. Dyn. 237:2195-2208.

  • Topp S, Stigloher C, Komisarczuk AZ, Adolf B, Becker TS, and Bally-Cuif L. (2008). Fgf signaling in the zebrafish adult brain: association of Fgf activity with ventricular zones but not cell proliferation. J. Comp. Neurol., 510:422-439.

  • Bryne JC, Valen E, Tang MHE, Marstrand T, Winther O, da Piedade I, Krogh A, Lenhard B and Sandelin A (2008). JASPAR, the open access database of transcription factor binding profiles: new content and tools in the 2008 update. Nucleic Acids Res. 32:D102-106.

  • Kemmer D, Podowski RM, Yusuf D, Brumm J, Cheung W, Wahlestedt C, Lenhard B and Wasserman WW (2008). Gene characterization index: assessing the depth of gene annotation. PLoS One 3:e1440.

  • Engström PG, Fredman D and Lenhard B (2008). Ancora: a web resource for exploring highly conserved noncoding elements and their association with developmental regulatory genes. Genome Biol. 9:R34.

  • Andersen M, Engström PG, Lithwick S, Arenillas D, Eriksson P, Lenhard B, Wasserman WW and Odeberg J (2008). In silico detection of sequence variations modifying transcriptional regulation. PLoS Comput. Biol. 4:e5.

  • Fu X, Adamski M and EM Thompson (2008). Altered miRNA Repertoire in the Simplified Chordate, Oikopleura dioica. Mol. Biol. Evol., 25:1067-1080.

  • Mungpakdee S, Seo HC and Chourrout D (2008). Spatio-temporal expression patterns of anterior Hox genes in Atlantic salmon (Salmo salar). Gene Expr. Patterns, 8:508-514.

  • Stach T, Winter J, Bouquet JM, Chourrout D and Schnabel R (2008). Embryology of a planktonic tunicate reveals traces of sessility. Proc. Natl. Acad. Sci. U. S. A., 105:7229-7234.

  • Mungpakdee S, Seo HC, Angotzi AR, Dong X, Akalin A and Chourrout D (2008). Differential Evolution of the Thirteen Atlantic Salmon Hox Clusters. Mol. Biol. Evol., 25:1333-1343.

  • Angotzi AR, Ersland KM, Mungpakdee S, Stefansson S and Chourrout D (2008). Independent and dynamic reallocation of pitx gene expression during vertebrate evolution, with emphasis on fish pituitary development. Gene, 417:19-26.

  • Søviknes AM and Glover JC (2008). Continued growth and cell proliferation into adulthood in the notochord of the appendicularian Oikopleura dioica. Biol. Bull., 214:17-28.

    2007

  • Herpin A, Lelong C, Becker TS, Favrel P and Cunningham C (2007). A tolloid homologue from the Pacific oyster Crasseostrea gigas. Gene Expr. Patterns, 7:700-708.

  • Bielen H, Oberleitner S, Marcellini S, Gee L, Lemaire P, Bode HR, Rupp R and Technau U (2007). Divergent functions of two ancient Hydra Brachyury paralogs suggest specific roles for their activation domains in tissue fate inductions. Development, 134:4187-4197.

  • Fritzenwanker J, Genikhovich G, Kraus Y, Technau U (2007). Early development and axis specification in the sea anemone Nematostella vectensis. Dev. Biol., 310:264-279.

  • Kraus Y, Fritzenwanker J, Genikhovich G, Technau U (2007). The blastoporal organiser of a sea anemone. Curr. Biol., 17:R874-R876.

  • Putnam NH, Srivastava M, Hellsten U, Dirks B, Chapman J, Salamov A, Terry A, Shapiro H, Lindquist E, Kapitonov V, Jurka J, Genikhovich G, Grigoriev I, Lucas S, Steele R, Finnerty J, Technau U, Martindale M, Rokhasr D. (2007). Sea Anemone Genome Reveals Ancestral Eumetazoan Gene Repertoire and Genomic Organization. Science, 317:86-94.

  • Meijer AH, van der Sar AM, Cunha C, Lamers GEM, Laplante MA, Kikuta H, Bitter W, Becker TS and Spaink HP. (2007). Identification and real-time imaging of a myc-expressing neutrophil population involved in inflammation and mycobacterial granuloma formation in zebrafish. Dev. Comp. Immunol., 32:36-49.

  • Shankaran S, Sieger D, Schröter C, Czepe C, Pauly MC, Laplante MA, Becker TS, Oates AC, Gajewsky, M (2007). Completing the set of h/E(spl) cyclic genes in zebrafish: her12 and her15 reveal novel modes of expression and contribute to the segmentation clock. Dev. Biol., 304:615-632.

  • Weiner AMJ, Allende ML, Becker TS, Calcaterra NB. (2007). CNBP mediates neural crest cell expansion by controlling cell proliferation and cell survival during rostral head development. J. Cell. Biochem., 102:1553-1570.

  • Engström PG, Ho Sui S, Drivenes O, Becker TS, Lenhard B (2007). Genomic regulatory blocks underlie extensive microsynteny conservation in insects. Genome Res., 17:1898-1908.

  • Kikuta H, Laplante M, Navratilova P, Komisarczuk AZ, Engström PG, Fredman D, Akalin A, Caccamo M, Sealy I, Howe K, Ghislain J, Mourrain P, Adolf B, Pezeron G, Ellingsen E, Foucher I, Oates AC, Thisse C, Thisse B, Lenhard B, Becker TS (2007). Genomic Regulatory Blocks encompass multiple neighboring genes and maintain conserved synteny in vertebrates. Genome Res., 17:545-555.

  • Clarke T, Bouquet JM, Fu X, Kallesøe T, and Thompson EM (2007). Rapidly evolving lamins in a chordate, Oikopleura dioica, with unusual nuclear architecture. Gene, 396:159-169.

  • Ganot P, Bouquet JM, Kallesøe T, Thompson EM (2007). The Oikopleura coenocyst, a unique chordate germ cell permitting rapid, extensive modulation of oocyte production. Dev. Biol., 302, 302:591-600.

  • Ganot P, Kallesøe T, Thompson EM (2007). The cytoskeleton organizes germ nuclei with divergent fates and asynchronous cycles in a common cytoplasm during oogenesis in the chordate Oikopleura. Dev. Biol., 302:577-590.

  • Schulmeister A, Schmid M, Thompson EM (2007). Phosphorylation of the histone H3.3 variant in mitosis and meiosis of the urochordate Oikopleura dioica. Chromosome Res., 15:189-201.

  • Spada F, Koch J, Sadoni N, Mitchell N, Ganot P, De Boni U, Zink D, Thompson EM (2007). Conserved patterns of nuclear compartmentalization are not observed in the chordate Oikopleura. Biol. Cell, 99:273-287.

  • Troedsson C, Frischer ME, Nejstgaard JC, Thompson EM (2007). Molecular quantification of differential ingestion and particle trapping rates by the Appendicularian Oikopleura dioica as a function of prey size and shape. Limnol. Oceanogr., 52:416–427.

  • Schuettengruber B, Chourrout D, Vervoort M, Leblanc B, Cavalli G (2007). Genome regulation by polycomb and trithorax proteins. Cell, 128:735-745.

  • Søviknes AM, Chourrout D, Glover JC (2007). Development of the caudal nerve cord, motoneurons, and muscle innervation in the appendicularian urochordate Oikopleura dioica. J. Comp. Neurol. , 503:224-243

  • Søviknes AM and Glover JC (2007). Spatiotemporal patterns of neurogenesis in the appendicularian Oikopleura dioica. Dev. Biol., 311:264-75.

    2006

  • Kraus Y, Technau U (2006). Gastrulation in the sea anemone Nematostella vectensis occurs by invagination and immigration: an ultrastructural study. Dev. Genes Evol., 216:119-132.

  • Rentzsch F, Anton R, Saina M, Hammerschmidt M, Holstein TW, Technau U. (2006). Asymmetric expression of BMP antagonists in the sea anemone Nematostella vectensis: implications for the evolution of axial patterning. Dev. Biol., 296:375-387.

  • Hadrys T, Punnamootil B, Pieper M, Kikuta H, Pezeron G, Becker TS, Prince VE, Baker R, Rinkwitz S (2006). Conserved co-regulation and promoter sharing of hoxb3a and hoxb4a in zebrafish. Dev. Biol., 297:26-43.

  • Laplante M, Konig M, Kikuta H and Becker TS. (2006). Enhancer detection in the zebrafish using pseudotyped murine retroviruses. Methods, 39:189-198.

  • Pezeron, G, Anselme, I, Laplante, M, Ellingsen, S. Becker, TS, Charnay, P. Schneider-Manoury, S., Mourrain, P and Ghislain, J (2006). Duplicate sfrp1 genes in zebrafish: sfrp1a is dynamically expressed in the developing central nervous system, gut and lateral line. Gene Expr. Patterns, 6:835-842.

  • Stigloher C, Nincovic J, Laplante M, Geling A, Tannhauser B, Topp S, Kikuta H, Becker TS, Houart C, Bally-Cuif L (2006). Segregation of telencephalic and eye field identities inside the zebrafish forebrain territory is controlled by Rx3. Development, 133:2925-2935.

  • Aksnes D, Troedsson C and Thompson EM (2006). A model of developmental time applied to planktonic embryos. Mar. Ecol.-Prog. Ser., 318:75-80.

  • Aksnes D, Troedsson C and Thompson EM (2006). Integrating developmental clocking and growth in a life-history model for the planktonic chordate Oikopleura dioica. Mar. Ecol.-Prog. Ser., 318:81-88.

  • Delsuc F, Brinkmann H, Chourrout D and Philippe H (2006). Tunicates and not cephalochordates are the closest living relatives of vertebrates. Nature, 439:965-968.

  • Ganot P, Bouquet JM and Thompson EM (2006). Comparative organisation of follicle, accessory cells and spawning anlagen in dynamic semelparous clutch manipulators, the urochordate Oikopleuridae. Biol Cell., 98:389-401.

  • Chourrout D, Delsuc F, Chourrout P, Edvardsen RB, Rentzsch F, Renfer E, Jensen MF, Zhu B, de Jong P, Steeele RE, Technau U (2006). Minimal ProtoHox cluster inferred from bilaterian and cnidarian Hox complements. Nature, 442:684-687.

    2005

  • Herpin A, Lelong C, Becker TS, Rosa FM, Favrel P and Cunningham C (2005). Structural and functional evidences for a type 1 TGF-ß sensu stricto receptor in the lophotrochozoan Crasseostrea gigas suggest conserved molecular mechanisms controlling mesodermal patterning across bilateria. Mech. Dev. 122:695-705.

  • Herpin A, Lelong C, Becker TS, Rosa F, Favrel P, Cunningham C (2005). Structural and functional evidence for a singular repertoire of BMP receptor signal transducing proteins in the lophotrochozoan Crassostrea gigas suggests a shared ancestral BMP/activin pathway. FEBS J. 272:3424-3440.

  • Stansberg C, Subramaniam S, Collet B, Secombes CJ and Cunningham C (2005). Cloning of the Atlantic Salmon (salmo salar) IL-1 receptor associated protein. Fish Shellfish Immunol., 19:53-65.

  • Technau U, Rudd S, Maxwell P, Gordon PMK, Saina M, Grasso LC, Hayward DC, Sensen CW, Holstein TW, Ball EE, Miller DJ (2005). Maintenance of ancestral genetic complexity and non-metazoan genes in two basal cnidarians. Trends Genet. 21:633-639.

  • Ellingsen S, Laplante M, Konig M, Furmanek T, Kikuta H, Høivik E and Becker TS (2005). Large-scale Enhancer Detection in the Zebrafish Genome. Development, 132:3799-3811.

  • Hardison AL, Lichten L, Banjeree-Basu S, Becker TS, Burgess S (2005). The zebrafish gene claudinj is essential for normal ear function and important for the formation of the otoliths. Mech. Dev. 122:949-958.

  • Spada F, Chioda M and Thompson EM (2005). Histone H4 post-translational modifications in chordate mitotic and endoreduplicative cell cycles. J. Cell. Biochem. 95:885-901.

  • Spada F, Vincent M and Thompson EM (2005). Plasticity of histone modifications across the invertebrate to vertebrate transition: histone H3 lysine 4 trimethylation in heterochromatin. Chromosome Res. 13:57-72.

  • Troedsson C, Grahl-Nielsen O and Thompson EM (2005). Variable fatty acid composition of the pelagic Appendicularian, Oikopleura dioica, in response to dietary quality and quantity. Mar. Ecol.-Prog. Ser. 289:165-176.

  • Edvardsen RB, Seo HC, Jensen MF, Mialon A, Mikhaleva J, Bjordal M, Cartry J, Reinhardt R, Weissenbach J, Wincker P & Chourrout D (2005). Remodelling of the homeobox gene complement in the tunicate Oikopleura dioica. Curr. Biol., 15:R12-13.

  • Weill M, Philips A, Chourrout D and Fort P (2005). The caspase family in urochordates: distinct evolutionary fates in ascidians and larvaceans. Biol. Cell, 97:857-866.

  • Søviknes AM, Chourrout D and Glover JC (2005). Development of putative GABAergic neurons in the appendicularian urochordate Oikoleura dioica. J. Comp. Neurol., 490:12-28.

    2004

  • Chioda M, Spada F, Eskeland R and EM Thompson (2004). Histone mRNAs do not accumulate during S phase of either mitotic or endoreduplicative cycles in the chordate Oikopleura dioica. Mol. Cell. Biol. 24:5391-5403.

  • Edvardsen RB, Lerat E, Maeland AD, Flaat M, Tewari R, Jensen MF, Lehrach H, Reinhardt R, Seo HC, Chourrout D (2004). Hypervariable and Highly Divergent Intron/Exon Organizations in The Chordate Oikopleura dioica. J. Mol. Evol., 59:448-457.

  • Ganot P, Kallesoe T, Reinhardt R, Chourrout D, Thompson EM (2004). Spliced-leader RNA trans splicing in a chordate, Oikopleura dioica, with a compact genome. Mol. Cell. Biol., 24:7795-7805.

  • Krøvel AV and Olsen LC (2004). Sexual dimorphic expression pattern of a splice variant of zebrafish vasa during gonadal development.Dev. Biol., 271:190-197.

  • Seo HC, Edvardsen RB, Maeland AD, Bjordal M, Jensen MF, Hansen A, Flaat M, Weissenbach J, Lehrach H, Wincker P, Reinhardt R, Chourrout D(2004). Hox cluster disintegration with persistent anteroposterior order of expression in Oikopleura dioica. Nature, 431:67-71.

  • Volff JN, Lehrach H, Reinhardt R, Chourrout,D (2004). Retroelement dynamics and a novel type of chordate retrovirus-like elements in the miniature genome of the tunicate Oikopleura dioica. Mol. Biol. Evol., 21:2022-2033.

    2003

  • Cupit PM, Hansen JD, McCarty AS, White G, Chioda M, Spada F, Smale ST and Cunningham C (2003). Ikaros family members from the agnathan Myxine glutinosa and the urochordate Oikopleura dioica: emergence of an essential transcription factor for adaptive immunity. J. Immunol., 171:6006-6013.

  • Nilsen IW, Myrnes B, Edvardsen RB, Chourrout D (2003) Urochordates carry multiple genes for goose-type lysozyme and no genes for chicken- or invertebrate-type lysozymes. Cell. Mol. Life Sci., 60:2210-2218.

  • Stansberg C, Subramaniam S, Olsen L, Secombes CJ and Cunningham C (2003). Cloning and characterisation of a putative ST2L homologue from Atlantic salmon (Salmo salar). Fish Shellfish Immunology, 15:211-224.

  • Uzbekova S, Amoros C, Cauty C, Mambrini M, Perrot E, Hew CL, Chourrout D and Prunet P (2003). Analysis of cell-specificity and variegation of transgene expression driven by salmon prolactin promoter in stable lines of transgenic rainbow trout. Transgenic Res., 12:213-227.

    2002

  • Chioda M, R Eskeland, and EM Thompson (2002). Histone gene complement, variant expression and processing in a urochordate, Oikopleura dioica, that undergoes extensive polyploidisation. Mol. Biol. Evol. 19:2247-2260.

  • Ganot P, and Thompson EM (2002). Patterning through differential endoreduplication in epithelial organogenesis of the chordate, Oikopleura dioica. Dev. Biol. 252:59-71.

  • Herpin A, Favrel P and Cunningham C (2002). Gene structure and expression of cg-ALR1, a type I activin-like receptor from the bivalve mollusc Crassostrea gigas. Gene, 301:21-30

  • Krøvel AV and Olsen, LC (2002). Expression of a vas::EGFP transgene in primordial germ cells of the zebrafish. Mech. Dev., 116:141-150.

  • Subramaniam S, Stansberg C, Olsen L, Zou J, Secombes CJ & Cunningham C (2002) Cloning of a Salmo salar interleukin-1 receptor-like cDNA. Dev. Comp. Immunol. 26:415-431.

  • Troedsson C, Bouquet JM, Aksnes DL and Thompson EM (2002). Resource allocation between somatic growth and reproductive output in the pelagic chordate, Oikopleura dioica, allows opportunistic response to nutritional variation. Mar. Ecol.-Prog. Ser., 243:83-91.

  • Wibrand, K and Olsen, LC (2002). Linker histone H1M transcripts mark the developing germline in zebrafish. Mech. Dev., 117:249-252.

    2001

  • Thompson EM, Kallesøe T and Spada F (2001). Diverse genes expressed in distinct regions of the trunk epithelium define a monolayer cellular template for construction of the Oikopleurid house. Dev. Biol., 238:260-273.

  • Spada F, Steen H, Troedsson C, Kallesøe T, Spriet E, Mann M and Thompson EM (2001). Molecular patterning of the oikoplastic epithelium of the larvacean tunicate Oikopleura dioica. J. Biol. Chem. 276:20624-20632.

  • Seo HC, Kube M, Edvardsen RB, Jensen MF, Beck A, Spriet E, Gorsky G, Thompson EM, Lehrach H, Reinhardt R and Chourrout D (2001). Miniature genome in the marine chordate Oikopleura dioica. Science, 294:2506.

  • Cupit PM, Lorenzen N, Strachan G, Kemp GJ, Secombes CJ and Cunningham C (2001). Neutralisation and binding of VHS virus by monovalent antibody fragments. Virus Res., 81:47-56.

    2000

  • Adenot PG, Campion E, Legouy E, Allis CD, Dimitrov S, Renard JP and Thompson EM (2000). Somatic linker histone H1 is present throughout mouse embryogenesis and is not replaced by variant H1 degrees. J. Cell Sci. 113:2897-2907.


  • Fu L, Mambrini M, Perrot E, Chourrout D (2000). Stable and full rescue of the pigmentation in a medaka albino mutant by transfer of a 17 kb genomic clone containing the medaka tyrosinase gene. Gene, 241:205-211.

  • Kawakami K, Amsterdam A, Shimoda N, Becker TS, Mugg J, Shima A and Hopkins N (2000). Proviral insertions in the zebrafish hagoromo gene, encoding an F-box/WD40-repeat protein, cause stripe pattern anomalies. Curr. Biol., 10:463-6.

  • Lorenzen N, Cupit PM, Einer-Jensen K, Lorenzen E, Ahrens P, Secombes CJ and Cunningham C (2000). Immunoprophylaxis in fish by injection of mouse antibody genes. Nat. Biotechnol., 18:1177-1180.

  • Lorenzen N, Cupit PM, Secombes CJ and Cunningham C (2000). Three monoclonal antibodies to the VHS virus glycoprotein: comparison of reactivity in relation to differences in immunoglobulin variable domain gene sequences. Fish Shellfish Immunol., 10:129-142.

Reviews and Book Chapters

  • Miller DJ, Ball EE and Technau U (2005). Cnidarians and ancestral genetic complexity in the animal kingdom. Trends Genet. (review) 21(10):536-9.

  • Amsterdam A and Becker TS (2005). Transgenes as Screening Tools to Probe and Manipulate the Zebrafish Genome. Review Dev. Dyn. 234(2):255-268.

  • Thompson EM, Spada F and P Ganot (2005). Patterning and Organisation of the House Secreting Epithelium of Oikopleura dioica. In: Gorsky G, Youngbluth MJ and Deibel D (eds.) Response of Marine Ecosystems to Global Change: Ecological Impact of Appendicularians, Ed. G. Gorsky, Gordon and Breach, pp. 89-112.

  • Gómez-Skarmeta JL, Lenhard B and Becker TS (2006). New technologies, new findings and new concepts in the study of vertebrate cis-regulatory sequences. Review Dev. Dyn. 235:870-885.

  • Kikuta H, Fredman D, Rinkwitz S, Lenhard B, Becker TS (2007). Retroviral enhancer detection insertions in zebrafish combined with comparative genomics reveal genomic regulatory blocks - a fundamental feature of vertebrate genomes. Review. Genome Biol. 8(Suppl 1):S4

  • Becker TS1, Lenhard B1 (2007). The Random vs. Fragile Breakage Models of Chromosome Evolution: A Matter of Resolution. Review. Mol. Genet. Genomics 278:487-91

  • Fredman D, Engström PG, Lenhard B * (2009). Web-based tools and approaches to study long-range gene regulation in Metazoa. Review. Brief. Funct. Genomics Proteomic. 8(4):231-242

  • Sardet C, Swalla BJ, Satoh N, Sasakura Y, Branno M, Thompson EM, Levine M and H Nishida (2008). Euro Chordates: Ascidian Community Swims Ahead. The 4th International Tunicate Meeting in Villefranche sur Mer. Dev Dyn. 237, 1207–1213.

  • Navratilova, P, and Becker, TS (2009). Genomic regulatory blocks in vertebrates and implications in human disease. Review, Brief Funct Genomic Proteomic. Epub 2009 Jun 26.

  • Hejnol A (2011). Mark Q. Martindale: Shedding new light on developmental diversity Int. J. Dev. Biol., 55: 237-242.

  • Hejnol A (2010). A Twist in Time--The Evolution of Spiral Cleavage in the Light of Animal Phylogeny Integrative and Comparative Biology; 50, 695-706, doi: 10.1093/icb/icq103

  • Adamska M, Degnan BM, Green K, Zwafink C. What sponges can tell us about the evolution of developmental processes. Zoology (Jena), 2011 Feb;114(1):1-10

  • Abe, G, Suster ML and Kawakami K. (2011) Tol2-mediated Transgenesis, Gene Trapping, Enhancer Trapping, and the Gal4-UAS System. The Zebrafish: Genetics, Genomics and Informatics. Method Cell Biol., 104:23-49.

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