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Department of Plant Biotechnology and Bioinformatics (UGent)
http://bioinformatics.psb.ugent.be/
www.genetica.ugent.be/

Info  Publications 
English name: Department of Plant Biotechnology and Bioinformatics
Parent institute: Universiteit Gent; Faculteit Wetenschappen (UGent), more
Address:
Technologiepark Zwijnaarde 927
9052 Zwijnaarde
Belgium
 
Level: Department

Publications (33)  Top 
    ( 30 peer reviewed ) split up filter
  • Peer reviewed article Bogaert, K.; Beeckman, T.; De Clerck, O. (2016). Abiotic regulation of growth and fertility in the sporophyte of Dictyota dichotoma (Hudson) JV Lamouroux (Dictyotales, Phaeophyceae). J. Appl. Phycol. 28(5): 2915-2924. https://hdl.handle.net/10.1007/s10811-016-0801-z, more
  • Peer reviewed article Calegario, G.; Pollier, J.; Arendt, P.; de Oliveira, L.S.; Thompson, C.; Soares, A.R.; Pereira, R.C.; Goossens, A.; Thompson, F.L. (2016). Cloning and functional characterization of cycloartenol synthase from the red seaweed Laurencia dendroidea. PLoS One 11(11): e0165954. https://hdl.handle.net/10.1371/journal.pone.0165954, more
  • Peer reviewed article Fortunato, A.E.; Jaubert, M.; Enomoto, G.; Bouly, J.-P.; Raniello, R.; Thaler, M.; Malviya, S.; Bernardes, J.S.; Rappaport, F.; Gentili, B.; Huysman, M.J.J.; Carbone, A.; Bowler, C.; d'Alcalà, M.R.; Ikeuchi, M.; Falciatore, A. (2016). Diatom phytochromes reveal the existence of far-red-light-based sensing in the ocean. Plant Cell 28(3): 616-628. https://hdl.handle.net/10.1105/tpc.15.00928, more
  • Peer reviewed article García-Gómez, C.; Mata, M.T.; Van Breusegem, F.; Segovia, M. (2016). Low-steady-state metabolism induced by elevated CO2 increases resilience to UV radiation in the unicellular green-algae Dunaliella tertiolecta. Environ. Exp. Bot. 132: 163-174. https://hdl.handle.net/10.1016/j.envexpbot.2016.09.001, more
  • Peer reviewed article Kim, J; Fabris, M.; Baart, G.; Kim, K; Goossens, A.; Vyverman, W.; Falkowski, G; Lun, S (2016). Flux balance analysis of primary metabolism in the diatom Phaeodactylum tricornutum. Plant J. 85(1): 161-176. dx.doi.org/10.1111/tpj.13081, more
  • Peer reviewed article Matthijs, M.; Fabris, M.; Broos, S.; Vyverman, W.; Goossens, A. (2016). Profiling of the early nitrogen stress response in the diatom Phaeodactylum tricornutum reveals a novel family of RING-domain transcription factors. Plant Physiol. 170(1): 489-498. dx.doi.org/10.1104/pp.15.01300, more
  • Peer reviewed article Moeys, S.; Frenkel, J.; Lembke, C.; Gillard, J.; Devos, V.; Van den Berge, K.; Bouillon, B.; Huysman, M.J.J.; De Decker, S.; Scharf, J.; Bones, A.; Brembu, T.; Winge, P.; Sabbe, K.; Vuylsteke, M.; Clement, L.; De Veylder, L.; Pohnert, G.; Vyverman, W. (2016). A sex-inducing pheromone triggers cell cycle arrest and mate attraction in the diatom Seminavis robusta. NPG Scientific Reports 6(19252): 13 pp. dx.doi.org/10.1038/srep19252, more
  • Peer reviewed article Olsen, J.L.; Rouzé, P.; Verhelst, B.; Lin, Y.-C.; Bayer, T.; Collén, J.; Dattolo, E.; De Paoli, E.; Dittami, S.; Maumus, F.; Michel, G.; Kersting, A.; Lauritano, C.; Lohaus, R.; Töpel, M.; Tonon, T.; Vanneste, K.; Amirebrahimi, M.; Brakel, J.; Boström, C.; Chovatia, M.; Grimwood, J.; Jenkins, J.W.; Jueterbock, A.; Mraz, A.; Stam, W.T.; Tice, H.; Bornberg-Bauer, E.; Green, P.J.; Pearson, G.A.; Procaccini, G.; Duarte, C.M.; Schmutz, J.; Reusch, T.B.H.; Van de Peer, Y. (2016). The genome of the seagrass Zostera marina reveals angiosperm adaptation to the sea. Nature (Lond.) 530(7590): 331-335. hdl.handle.net/10.1038/nature16548, more
  • Peer reviewed article Bogaert, K.A.; Beeckman, T.; De Clerck, O. (2015). Photopolarization of Fucus zygotes is determined by time sensitive vectorial addition of environmental cues during axis amplification. Front. Plant Sci. 6: 8 pp. dx.doi.org/10.3389/fpls.2015.00026, more
  • Peer reviewed article Bogaert, K.A.; Beeckman, T.; De Clerck, O. (2015). Two-phased cell polarisation in the brown alga Dictyota. Eur. J. Phycol. 50(Supplement 1): 116-116, more
  • Peer reviewed article Huysman, M.J.J.; Tanaka, A.; Bowler, C.; Vyverman, W.; De Veylder, L. (2015). Functional characterization of the diatom cyclin-dependent kinase A2 as a mitotic regulator reveals plant-like properties in a non-green lineage. BMC Plant Biol. 15. dx.doi.org/10.1186/s12870-015-0469-6, more
  • Peer reviewed article Patil, S.; Moeys, S.; von Dassow, P.; Huysman, M.J.J.; Mapleson, D.; De Veylder, L.; Sanges, R.; Vyverman, W.; Montresor, M.; Ferrante, M.I. (2015). Identification of the meiotic toolkit in diatoms and exploration of meiosis-specific SPO11 and RAD51 homologs in the sexual species Pseudo-nitzschia multistriata and Seminavis robusta. BMC Genom. 16: 21 pp. https://dx.doi.org/10.1186/s12864-015-1983-5, more
  • Peer reviewed article Saltykova, A.; Pulido-Tamayo, S.; Pazoutova, M.; Rensing, S.; Nishiyama, T.; Van de Peer, Y.; Marchal, K.; Rombauts, S. (2015). Identifying prokaryotic consortia that live in close interactions with algae. Eur. J. Phycol. 50(Supplement 1): 145-146, more
  • Peer reviewed article Ahmed, S.; Cock, J.M.; Pessia, E.; Luthringer, R.; Cormier, A.; Robuchon, M.; Sterck, L.; Peters, A.F.; Dittami, S.M.; Corre, E.; Valero, M.; Aury, J.-M.; Roze, D.; Van de Peer, Y.; Bothwell, J.; Marais, G.A.B.; Coelho, S.M. (2014). A haploid system of sex determination in the brown alga Ectocarpus sp. Curr. Biol. 24(17): 1945-1957. hdl.handle.net/10.1016/j.cub.2014.07.042, more
  • Peer reviewed article Blanc-Mathieu, R.; Verhelst, B.; Derelle, E.; Rombauts, S.; Bouget, F.-Y.; Carré, I.; Château, A.; Eyre-Walker, A.; Grimsley, N.; Moreau, H.; Piégu, B.; Rivals, E.; Schackwitz, W.; Van de Peer, Y.; Piganeau, G. (2014). An improved genome of the model marine alga Ostreococcus tauri unfolds by assessing Illumina de novo assemblies. BMC Genom. 15. hdl.handle.net/10.1186/1471-2164-15-1103, more
  • Peer reviewed article Fabris, M.; Matthijs, M.; Carbonelle, S.; Moses, T.; Pollier, J.; Dasseville, R.; Baart, G.J.E.; Vyverman, W.; Goossens, A. (2014). Tracking the sterol biosynthesis pathway of the diatom Phaeodactylum tricornutum. New Phytol. 204(3): 521-535. dx.doi.org/10.1111/nph.12917, more
  • Peer reviewed article Huysman, M.J.J.; Martens, C.; Vyverman, W.; De Veylder, L. (2014). Protein degradation during the diatom cell cycle: annotation and transcriptional analysis of SCF and APC/C ubiquitin ligase genes in Phaeodactylum tricornutum. Marine Genomics 14: 39-46. dx.doi.org/10.1016/j.margen.2013.09.001, more
  • Peer reviewed article Huysman, M.J.J.; Vyverman, W.; De Veylder, L. (2014). Molecular regulation of the diatom cell cycle. J. Exp. Bot. 65(10): 2573-2584. dx.doi.org/10.1093/jxb/ert387, more
  • Peer reviewed article De Vos, S.; Bossier, P.; Van Stappen, G.; Vercauteren, I.; Sorgeloos, P.; Vuylsteke, M. (2013). A first AFLP-Based genetic linkage map for brine shrimp Artemia franciscana and its application in mapping the sex locus. PLoS One 8(3): 1-10. dx.doi.org/10.1371/journal.pone.0057585, more
  • Peer reviewed article Gillard, J.; Frenkel, J.; Devos, V.; Sabbe, K.; Paul, C.; Rempt, M.; Inzé, D.; Pohnert, G.; Vuylsteke, M.; Vyverman, W. (2013). Metabolomics enables the structure elucidation of a diatom sex pheromone. Angew. Chem. 52(3): 854-857. hdl.handle.net/10.1002/anie.201208175, more
  • Peer reviewed article Huysman, M.J.J.; Fortunato, A.; Matthijs, M.; Costa, B.; Vanderhaeghen, R.; Van den Daele, H.; Sachse, M.; Inzé, D.; Bowler, C.; Kroth, P.; Wilhelm, C.; Falciatore, A.; Vyverman, W.; De Veylder, L. (2013). AUREOCHROME1a-mediated induction of the diatom-specific cyclin dsCYC2 controls the onset of cell division in diatoms (Phaeodactylum tricornutum). Plant Cell 25(1): 215-228. dx.doi.org/10.1105/tpc.112.106377, more
  • Peer reviewed article Vanstechelman, I.; Sabbe, K.; Vyverman, W.; Vanormelingen, P.; Vuylsteke, M. (2013). Linkage mapping identifies the sex determining region as a single locus in the pennate diatom Seminavis robusta. PLoS One 8(3): e60132. dx.doi.org/10.1371/journal.pone.0060132, more
  • Peer reviewed article Verhelst, B.; Van de Peer, Y.; Rouzé, P. (2013). The complex intron landscape and massive intron invasion in a picoeukaryote provides insights into intron evolution. Genome Biology and Evolution 5(12): 2393-2401. dx.doi.org/10.1093/gbe/evt189, more
  • Peer reviewed article Cock, J.M.; Sterck, L.; Ahmed, S.; Allen, A.E.; Amoutzias, G.; Anthouard, V.; Artiguenave, F.; Arun, A.; Aury, J.M.; Badger, J.H.; Beszteri, B.; Billiau, K.; Bonnet, E.; Bothwell, J.H.; Bowler, C.; Boyen, C.; Brownlee, C.; Carrano, C.J.; Charrier, B.; Cho, G.Y.; Coelho, S.M.; Collen, J.; Le Corguille, G.; Corre, E.; Dartevelle, L.; Da Silva, C.; Delage, L.; Delaroque, N.; Dittami, S.M.; Doulbeau, S.; Elias, M.; Farnham, G.; Gachon, C.M.M.; Godfroy, O.; Gschloessl, B.; Heesch, S.; Jabbari, K.; Jubin, C.; Kawai, H.; Kimura, K.; Kloareg, B.; Kuepper, F.C.; Lang, D.; Le Bail, A.; Luthringer, R.; Leblanc, C.; Lerouge, P.; Lohr, M.; Lopez, P.J.; Macaisne, N.; Martens, C.; Maumus, F.; Michel, G.; Miranda-Saavedra, D.; Morales, J.; Moreau, H.; Motomura, T.; Nagasato, C.; Napoli, C.A.; Nelson, D.R.; Nyvall-Collen, P.; Peters, A.F.; Pommier, C.; Potin, P.; Poulain, J.; Quesneville, H.; Read, B.; Rensing, S.A.; Ritter, A.; Rousvoal, S.; Samanta, M.; Samson, G.; Schroeder, D.C.; Scornet, D.; Segurens, B.; Strittmatter, M.; Tonon, T.; Tregear, J.W.; Valentin, K.; Von Dassow, P.; Yamagishi, T.; Rouzé, P.; Van de Peer, Y.; Wincker, P.; Ectocarpus Genome Consortium (2012). The Ectocarpus genome and brown algal genomics: the Ectocarpus Genome Consortium, in: Bourgougnon, N. (Ed.) Genomic insights into the biology of Algae. Advances in Botanical Research, 64: pp. 141-184. dx.doi.org/10.1016/B978-0-12-391499-6.00005-0, more
  • Peer reviewed article Fabris, M.; Matthijs, M.; Rombauts, S.; Vyverman, W.; Goossens, A.; Baart, G.J.E. (2012). The metabolic blueprint of Phaeodactylum tricornutum reveals a eukaryotic Entner-Doudoroff glycolytic pathway. Plant J. 70(6): 1004-1014. hdl.handle.net/10.1111/j.1365-313X.2012.04941.x, more
  • Peer reviewed article Moreau, H.; Verhelst, B.; Couloux, A.; Derelle, E.; Rombauts, S.; Grimsley, N.; Van Bel, M.; Poulain, J.; Katinka, M.; Hohmann-Marriott, M.; Piganeau, G.; Rouzé, P.; Da Silva, C.; Wincker, P.; Van de Peer, Y.; Vandepoele, K. (2012). Gene functionalities and genome structure in Bathycoccus prasinos reflect cellular specializations at the base of the green lineage. Genome Biol. 13(8). dx.doi.org/10.1186/gb-2012-13-8-r74, more
  • Peer reviewed article Vaulot, D.; Lepere, C.; Toulza, E.; De la Iglesia, R.; Poulain, J.; Gaboyer, F.; Moreau, H.; Vandepoele, K.; Ulloa, O.; Gavory, F.; Piganeau, G. (2012). Metagenomes of the picoalga Bathycoccus from the Chile coastal upwelling. PLoS One 7(6): e39648. dx.doi.org/10.1371/journal.pone.0039648, more
  • Peer reviewed article Zambounis, A.; Elias, M.; Sterck, L.; Maumus, F.; Gachon, C.M.M. (2012). Highly dynamic exon shuffling in candidate pathogen receptors ... What if brown algae were capable of adaptive immunity? Mol. Biol. Evol. 29(4): 1263-1276. dx.doi.org/10.1093/molbev/msr296, more
  • Peer reviewed article Cock, J.M.; Collén, J.; Sterck, L.; Rouzé, P.; Scornet, D.; Anthouard, V.; Artiguenave, F.; Aury, J.-M.; Billiau, K.; Bonnet, E.; Bothwell, J.H.F.; Brillet, L.; Carre, W.; Coelho, S.M.; Corre, E.; Da Silva, C.; Jubin, C.; Martens, C.; Maumus, F.; Miranda-Saavedra, D.; Peters, A.F.; Porcel, B.; Quesneville, H.; Boyen, C.; Van de Peer, Y.; Wincker, P. (2011). Nature, nurture and the structure of macroalgal genomes. Eur. J. Phycol. 46(Supplement 1): 39, more
  • Peer reviewed article Cock, J.M.; Sterck, L.; Rouzé, P.; Scornet, D.; Allen, A.E.; Amoutzias, G.; Anthouard, V.; Artiguenave, F.; Aury, J.-M.; Badger, J.H.; Beszteri, B.; Billiau, K.; Bonnet, E.; Bothwell, J.H.; Bowler, C.; Boyen, C.; Brownlee, C.; Carrano, C.J.; Charrier, B.; Cho, G.Y.; Coelho, S.M.; Collén, J.; Corre, E.; Da Silva, C.; Delage, L.; Delaroque, N.; Dittami, S.M.; Doulbeau, S.; Elias, M.; Farnham, G.; Gachon, C.M.M.; Gschloessl, B.; Heesch, S.; Jabbari, K.; Jubin, C.; Kawai, H.; Kimura, K.; Kloareg, B.; Küpper, F.C.; Lang, D.; Le Bail, A.; Leblanc, C.; Lerouge, P.; Lohr, M.; Lopez, P.J.; Martens, C.; Maumus, F.; Michel, G.; Miranda-Saavedra, D.; Morales, J.; Moreau, H.; Motomura, T.; Nagasato, C.; Napoli, C.A.; Nelson, D.R.; Nyvall-Collén, P.; Peters, A.F.; Pommier, C.; Potin, Ph.; Poulain, J.; Quesneville, H.; Read, B.; Rensing, S.A.; Ritter, A.; Rousvoal, S.; Samanta, M.; Samson, G.; Schroeder, D.C.; Segurens, B.; Strittmatter, M.; Tonon, T.; Tregear, J.W.; Valentin, K.; von Dassow, P.; Yamagishi, T.; Van de Peer, Y.; Wincker, P. (2010). The Ectocarpus genome and the independent evolution of multicellularity in brown algae. Nature (Lond.) 465(7298): 617-621. hdl.handle.net/10.1038/nature09016, more
  • Bulankova, P.; Moeys, S.; Bouillon, B.; Huysman, M.J.J.; Verhelst, B.; Vancaester, E.; Vandepoele, K.; Sabbe, K.; Vyverman, W.; De Veylder, L. (2016). Uncovering the sex determining locus in diatom Seminavis robusta, in: Pienitz, R. et al. (Ed.) IDS 2016: 24th International Diatom Symposium, Quebec, Canada, 21-26 August 2016: Program & Abstracts. pp. 158, more
  • Del Cortona, A.; Leliaert, F.; Vandepoele, K.; De Clerck, O. (2015). Comparative transcriptomics and green seaweeds: a novel approach to unravel the remarkable morphology of Ulvophyceae, in: Mees, J. et al. (Ed.) Book of abstracts – VLIZ Young Scientists’ Day. Brugge, Belgium, 20 February 2015. VLIZ Special Publication, 71: pp. 54, more
  • Matthijs, M. (2014). A first look at the genetic control mechanisms shaping metabolic changes during nitrogen starvation in Phaeodactylum tricornutum. PhD Thesis. Ghent University, Faculty of Sciences, Department of Plant Biotechnology and Bioinformatics/VIB, Department of Plant Systems Biology: Gent. 135 + appx. pp., more

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