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Vakgroep Plantenbiotechnologie en Bio-informatica (UGent)
https://www.genetica.ugent.be/
Dit instituut is de voortzetting van onderstaande
Bioinformatics and Systems Biology (UGent), meer
Engelse naam: Department of Plant Biotechnology and Bioinformatics
Overkoepelend instituut: Universiteit Gent; Faculteit Wetenschappen (UGent), meer

Adres:
Technologiepark Zwijnaarde 927
9052 Zwijnaarde
België
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Niveau: Departement
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Publicaties (94)  Top | Personen 
    ( 87 peer reviewed ) opsplitsen filter
  • Peer reviewed article Kamakura, S.; Bilcke, G.; Sato, S. (2024). Transcriptional responses to salinity-induced changes in cell wall morphology of the euryhaline diatom Pleurosira laevis. J. Phycol. Early View: 19. https://dx.doi.org/10.1111/jpy.13437, meer
  • Peer reviewed article Ma, X.; Vanneste, S.; Chang, J.; Ambrosino, L.; Barry, K.; Bayer, T.; Bobrov, A.A.; Boston, L.; Campbell, J.E.; Chen, H.; Chiusano, M.L.; Dattolo, E.; Grimwood, J.; He, G.F.; Jenkins, J.; Khachaturyan, M.; Marin-Guirao, L.; Mesterhazy, A.; Muhd, D.D.; Pazzaglia, J.; Plott, C.; Rajasekar, S.; Rombauts, S.; Ruocco, M.; Scott, A.; Tan, M.P.; Van de Velde, J.; Vanholme, B.; Webber, J.; Wong, L.L.; Yan, M.; Sung, Y.Y.; Novikova, P.; Schmutz, J.; Reusch, T.B.H.; Procaccini, G.; Olsen, J.L.; Van de Peer, Y. (2024). Seagrass genomes reveal ancient polyploidy and adaptations to the marine environment. Nature Plants 10(2): 240-255. https://dx.doi.org/10.1038/s41477-023-01608-5, meer
  • Peer reviewed article Blomme, J.; Wichard, T.; Jacobs, T.B.; De Clerck, O. (2023). Ulva: An emerging green seaweed model for systems biology. J. Phycol. 59(3): 433-440. https://dx.doi.org/10.1111/jpy.13341, meer
  • Peer reviewed article Garvetto, A.; Murua, P.; Kirchmair, M.; Salvenmoser, W.; Hittorf, M.; Ciaghi, S.; Harikrishnan, S.L.; Gachon, C.M.M.; Burns, J.A.; Neuhauser, S. (2023). Phagocytosis underpins the biotrophic lifestyle of intracellular parasites in the class Phytomyxea (Rhizaria). New Phytol. 238(5): 2130-2143. https://dx.doi.org/10.1111/nph.18828, meer
  • Peer reviewed article Yu, L.; Khachaturyan, M.; Matschiner, M.; Healey, A.; Bauer, D.; Cameron, B.; Cusson, M.; Emmett Duffy, J.; Joel Fodrie, F.; Gill, D.; Grimwood, J.; Hori, M.; Hovel, K.; Hughes, A.R.; Jahnke, M.; Jenkins, J.; Keymanesh, K.; Kruschel, C.; Mamidi, S.; Menning, D.M.; Moksnes, P.-O.; Nakaoka, M.; Pennacchio, C.; Reiss, K.; Rossi, F.; Ruesink, J.L.; Schultz, S.T.; Talbot, S.; Unsworth, R.; Ward, D.H.; Dagan, T.; Schmutz, J.; Eisen, J.A.; Stachowicz, J.J.; Van de Peer, Y.; Olsen, J.L.; Reusch, T.B.H. (2023). Author correction: Ocean current patterns drive the worldwide colonization of eelgrass (Zostera marina). Nature Plants 9(8): 1370. https://dx.doi.org/10.1038/s41477-023-01504-y, meer
  • Peer reviewed article Yu, L.; Khachaturyan, M.; Matschiner, M.; Healey, A.; Bauer, D.; Cameron, B.; Cusson, M.; Emmett Duffy, J.; Joel Fodrie, F.; Gill, D.; Grimwood, J.; Hori, M.; Hovel, K.; Hughes, A.R.; Jahnke, M.; Jenkins, J.; Keymanesh, K.; Kruschel, C.; Mamidi, S.; Menning, D.M.; Moksnes, P.-O.; Nakaoka, M.; Pennacchio, C.; Reiss, K.; Rossi, F.; Ruesink, J.L.; Schultz, S.T.; Talbot, S.; Unsworth, R.; Ward, D.H.; Dagan, T.; Schmutz, J.; Eisen, J.A.; Stachowicz, J.J.; Van de Peer, Y.; Olsen, J.L.; Reusch, T.B.H. (2023). Ocean current patterns drive the worldwide colonization of eelgrass (Zostera marina). Nature Plants 9(8): 1207-1220. https://dx.doi.org/10.1038/s41477-023-01464-3, meer
  • Peer reviewed article Zackova Suchanova, J.; Bilcke, G.; Romanowska, B.; Fatlawi, A.; Pippel, M.; Skeffington, A.; Schroeder, M.; Vyverman, W.; Vandepoele, K.; Kröger, N.; Poulsen, N. (2023). Diatom adhesive trail proteins acquired by horizontal gene transfer from bacteria serve as primers for marine biofilm formation. New Phytol. 240(2): 770-783. https://dx.doi.org/10.1111/nph.19145, meer
  • Peer reviewed article Bogaert, K.A.; Blomme, J.; Beeckman, T.; De Clerck, O. (2022). Auxin's origin: do PILS hold the key? Trends Plant Sci. 27(3): 227-236. https://dx.doi.org/10.1016/j.tplants.2021.09.008, meer
  • Peer reviewed article Gonçalves, M.F.M.; Hilário, S.; Van de Peer, Y.; Esteves, A.C.; Alves, A. (2022). Genomic and metabolomic analyses of the marine fungus Emericellopsis cladophorae: insights into saltwater adaptability mechanisms and its biosynthetic potential. Journal of Fungi 8(1): 31. https://dx.doi.org/10.3390/jof8010031, meer
  • Peer reviewed article Huang, Y.; Li, J.; Bian, C.; Li, R.; You, X.; Shi, Q. (2022). Evolutionary genomics reveals multiple functions of arylalkylamine N-acetyltransferase in fish. Frontiers in Genetics 13: 820442. https://dx.doi.org/10.3389/fgene.2022.820442, meer
  • Peer reviewed article Liu, X.; Blomme, J.; Bogaert, K.A.; D'Hondt, S.; Wichard, T.; Deforce, D.; Van Nieuwerburgh, F.; De Clerck, O. (2022). Transcriptional dynamics of gametogenesis in the green seaweed Ulva mutabilis identifies an RWP-RK transcription factor linked to reproduction. BMC Plant Biol. 22(1): 19. https://dx.doi.org/10.1186/s12870-021-03361-3, meer
  • Peer reviewed article Park, J.; Lee, H.; Dinh, T.B.; Choi, S.; De Saeger, J.; Depuydt, S.; Brown, M.T.; Han, T. (2022). Commercial potential of the cyanobacterium Arthrospira maxima: physiological and biochemical traits and the purification of phycocyanin. Biology-Basel 11(5): 628. https://dx.doi.org/10.3390/biology11050628, meer
  • Peer reviewed article Benites, L.F.; Bucchini, F.; Sanchez-Brosseau, S.; Grimsley, N.; Vandepoele, K.; Piganeau, G. (2021). Evolutionary genomics of sex-related chromosomes at the base of the green lineage. Genome Biology and Evolution 13(10): evab216. https://dx.doi.org/10.1093/gbe/evab216, meer
  • Peer reviewed article Bilcke, G.; Van den Berge, K.; Bonneure, E.; Poulsen, N.; Bulankova, P.; Osuna-Cruz, C.M.; Dickenson, J.; Sabbe, K.; Pohnert, G.; Vandepoele, K.; Mangelinckx, S.; Clement, L.; De Veylder, L.; Vyverman, W. (2021). Mating type specific transcriptomic response to sex inducing pheromone in the pennate diatom Seminavis robusta. ISME J. 15(2): 562-576. https://dx.doi.org/10.1038/s41396-020-00797-7, meer
  • Peer reviewed article Bilcke, G.; Van Craenenbroeck, L.; Castagna, A.; Osuna-Cruz, C.M.; Vandepoele, K.; Sabbe, K.; De Veylder, L.; Vyverman, W. (2021). Light intensity and spectral composition drive reproductive success in the marine benthic diatom Seminavis robusta. NPG Scientific Reports 11(1): 17560. https://dx.doi.org/10.1038/s41598-021-92838-0, meer
  • Peer reviewed article Bilcke, G.; Osuna-Cruz, C.M.; Silva, M.S.; Poulsen, N.; D'hondt, S.; Bulankova, P.; Vyverman, W.; De Veylder, L.; Vandepoele, K. (2021). Diurnal transcript profiling of the diatom Seminavis robusta reveals adaptations to a benthic lifestyle. Plant J. 107(1): 315-336. https://dx.doi.org/10.1111/tpj.15291, meer
  • Peer reviewed article Blomme, J.; Liu, X.; Jacobs, T.B.; De Clerck, O. (2021). A molecular toolkit for the green seaweed Ulva mutabilis. Plant Physiol. 186(3): 1442-1454. https://dx.doi.org/10.1093/plphys/kiab185, meer
  • Peer reviewed article Blomme, J.; Liu, X.; Jacobs, T.; De Clerck, O. (2021). A molecular toolkit for the green seaweed Ulva mutabilis. Phycologia 60(sup1): 85-85, meer
  • Peer reviewed article Bogaert, K.; Blomme, J.; Blommaert, L.; Ljung, K.; Beeckman, T.; De Clerck, O. (2021). Auxin function in the brown alga Dictyota dichotoma: a case for a deep origin of auxin transport? Phycologia 60(sup1): 6-6, meer
  • Peer reviewed article Bulankova, P.; Sekulić, M.; Jallet, D.; Nef, C.; Van Oosterhout, C.; Delmont, T.O.; Vercauteren, I.; Osuna-Cruz, C.M.; Vancaester, E.; Mock, T.; Sabbe, K.; Daboussi, F.; Bowler, C.; Vyverman, W.; Vandepoele, K.; De Veylder, L. (2021). Mitotic recombination between homologous chromosomes drives genomic diversity in diatoms. Curr. Biol. 31(15): 3221-3232. https://dx.doi.org/10.1016/j.cub.2021.05.013, meer
  • Peer reviewed article De Vos, S.; Rombauts, S.; Coussement, L.; Dermauw, W.; Vuylsteke, M.; Sorgeloos, P.; Clegg, J.S.; Nambu, Z.; Van Nieuwerburgh, F.; Norouzitallab, P.; Van Leeuwen, T.; De Meyer, T.; Van Stappen, G.; Van de Peer, Y.; Bossier, P. (2021). The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments. BMC Genom. 22(1): 635. https://dx.doi.org/10.1186/s12864-021-07937-z, meer
  • Peer reviewed article Farhat, S.; Le, P.; Kayal, E.; Noel, B.; Bigeard, E.; Corre, E.; Maumus, F.; Florent, I.; Alberti, A.; Aury, J.-M.; Barbeyron, T.; Cai, R.; Da Silva, C.; Istace, B.; Labadie, K.; Marie, D.; Mercier, J.; Rukwavu, T.; Szymczak, J.; Tonon, T.; Alves-de-Souza, C.; Rouzé, P.; Van de Peer, Y.; Wincker, P.; Rombauts, S.; Porcel, B.M.; Guillou, L. (2021). Author correction to: Rapid protein evolution, organellar reductions, and invasive intronic elements in the marine aerobic parasite dinoflagellate Amoebophrya spp. BMC Biology 19(1): 209. https://dx.doi.org/10.1186/s12915-021-01144-8, meer
  • Peer reviewed article Farhat, S.; Le, P.; Kayal, E.; Noel, B.; Bigeard, E.; Corre, E.; Maumus, F.; Florent, I.; Alberti, A.; Aury, J.-M.; Barbeyron, T.; Cai, R.; Da Silva, C.; Istace, B.; Labadie, K.; Marie, D.; Mercier, J.; Rukwavu, T.; Szymczak, J.; Tonon, T.; Alves-de-Souza, C.; Rouzé, P.; Van de Peer, Y.; Wincker, P.; Rombauts, S.; Porcel, B.M.; Guillou, L. (2021). Rapid protein evolution, organellar reductions, and invasive intronic elements in the marine aerobic parasite dinoflagellate Amoebophrya spp. BMC Biology 19(1): 1. https://hdl.handle.net/10.1186/s12915-020-00927-9, meer
  • Peer reviewed article Gonçalves, M.F.M.; Hilário, S.; Tacão, M.; Van de Peer, Y.; Alves, A.; Esteves, A.C. (2021). Genome and metabolome MS-based mining of a marine strain of Aspergillus affinis. Journal of Fungi 7(12): 1091. https://dx.doi.org/10.3390/jof7121091, meer
  • Peer reviewed article Labarre, A.; López-Escardó, D.; Latorre, F.; Leonard, G.; Bucchini, F.; Obiol, A.; Cruaud, C.; Sieracki, M.E.; Jaillon, O.; Wincker, P.; Vandepoele, K.; Logares, R.; Massana, R. (2021). Comparative genomics reveals new functional insights in uncultured MAST species. ISME J. 15: 1767-1781. https://hdl.handle.net/10.1038/s41396-020-00885-8, meer
  • Peer reviewed article Liu, X.; Blomme, J.; Bogaert, K.; De Clerck, O. (2021). Gametogenesis in the green seaweed Ulva mutabilis coincides with massive transcriptional restructuring. Phycologia 60(sup1): 7-7, meer
  • Peer reviewed article Massana, R.; Labarre, A.; López-Escardó, D.; Obiol, A.; Bucchini, F.; Hackl, T.; Fischer, M.G.; Vandepoele, K.; Tikhonenkov, D.V.; Husnik, F.; Keeling, P.J. (2021). Gene expression during bacterivorous growth of a widespread marine heterotrophic flagellate. ISME J. 15(1): 154-167. https://hdl.handle.net/10.1038/s41396-020-00770-4, meer
  • Peer reviewed article Baudry, L.; Guiglielmoni, N.; Marie-Nelly, H.; Cormier, A.; Marbouty, M.; Avia, K.; Mie, Y.L.; Godfroy, O.; Sterck, L.; Cock, J.M.; Zimmer, C.; Coelho, S.M.; Koszul, R. (2020). instaGRAAL: chromosome-level quality scaffolding of genomes using a proximity ligation-based scaffolder. Genome Biol. 21(1): 148. https://hdl.handle.net/10.1186/s13059-020-02041-z, meer
  • Peer reviewed article Blommaert, L.; Vancaester, E.; Huysman, M.J.J.; Osuna-Cruz, C.M.; D'hondt, S.; Lavaud, J.; Lepetit, B.; Winge, P.; Bones, A.M.; Vandepoele, K.; Vyverman, W.; Sabbe, K. (2020). Light regulation of LHCX genes in the benthic diatom Seminavis robusta. Front. Mar. Sci. 7: 192. https://hdl.handle.net/10.3389/fmars.2020.00192, meer
  • Peer reviewed article Bousquet, L.; Hemon, C.; Malburet, P.; Bucchini, F.; Vandepoele, K.; Grimsley, N.; Moreau, H.; Echeverria, M. (2020). The medium-size noncoding RNA transcriptome of Ostreococcus tauri, the smallest living eukaryote, reveals a large family of small nucleolar RNAs displaying multiple genomic expression strategies. NAR Genomics and Bioinformatics 2(4): lqaa080. https://dx.doi.org/10.1093/nargab/lqaa080, meer
  • Peer reviewed article De Saeger, J.; Van Praet, S.; Vereecke, D.; Park, J.; Jacques, S.; Han, T.; Depuydt, S. (2020). Toward the molecular understanding of the action mechanism of Ascophyllum nodosum extracts on plants. J. Appl. Phycol. 32(1): 573-597. https://hdl.handle.net/10.1007/s10811-019-01903-9, meer
  • Peer reviewed article Del Cortona, A.; Jackson, C.J.; Bucchini, F.; Van Bel, M.; D'hondt, S.; Skaloud, P.; Delwiche, C.F.; Knoll, A.H.; Raven, J.A.; Verbruggen, H.; Vandepoele, K.; De Clerck, O.; Leliaert, F. (2020). Neoproterozoic origin and multiple transitions to macroscopic growth in green seaweeds. Proc. Natl. Acad. Sci. U.S.A. 117(5): 2551-2559. https://dx.doi.org/10.1073/pnas.1910060117, meer
  • Peer reviewed article Fernandez, G.J.; Ferreira, J.H.; Vechetti, I.J.; de Moraes, L.N.; Cury, S.S.; Freire, P.P.; Gutiérrez, J.; Ferretti, R.; Dal-Pai-Silva, M.; Rogatto, S.R.; Carvalho, R.B. (2020). MicroRNA-mRNA co-sequencing identifies transcriptional and post-transcriptional regulatory networks underlying muscle wasting in cancer Cachexia. Frontiers in Genetics 11: 541. https://dx.doi.org/10.3389/fgene.2020.00541, meer
  • Peer reviewed article Jueterbock, A.; Boström, C.; Coyer, J.A.; Olsen, J.L.; Kopp, M.; Dhanasiri, A.K.S.; Smolina, I.; Arnaud-Haond, S.; Van de Peer, Y.; Hoarau, G. (2020). The seagrass methylome is associated with variation in photosynthetic performance among clonal shoots. Front. Plant Sci. 11: 571646. https://hdl.handle.net/10.3389/fpls.2020.571646, meer
  • Peer reviewed article Li, L.; Wang, S.; Wang, H.; Sahu, S.K.; Marin, B.; Li, H.; Xu, Y.; Liang, H.; Li, Z.; Cheng, S.; Reder, T.; Çebi, Z.; Wittek, S.; Petersen, M.; Melkonian, B.; Du, H.; Yang, H.; Wang, J.; Wong, G.K.-S.; Xu, X.; Liu, X.; Van de Peer, Y.; Melkonian, M.; Liu, H. (2020). Author correction: The genome of Prasinoderma coloniale unveils the existence of a third phylum within green plants. Nature Ecology & Evolution 4(9): 1280-1280. https://dx.doi.org/10.1038/s41559-020-1268-5, meer
  • Peer reviewed article Li, Linzhou; Wang, Sibo; Wang, Hongli; Sahu, Sunil Kumar; Marin, Birger; Li, Haoyuan; Xu, Yan; Liang, Hongping; Li, Zhen; Cheng, Shifeng; Reder, Tanja; Çebi, Zehra; Wittek, Sebastian; Petersen, Morten; Melkonian, Barbara; Du, Hongli; Yang, Huanming; Wang, Jian; Wong, Gane Ka-Shu; Xu, Xun; Liu, Xin; Van de Peer, Yves; Melkonian, Michael; Liu, Huan (2020). The genome of Prasinoderma coloniale unveils the existence of a third phylum within green plants. Nature Ecology & Evolution 4(9): 1220-1231. https://dx.doi.org/10.1038/s41559-020-1221-7, meer
  • Peer reviewed article Osuna-Cruz, C.M.; Bilcke, G.; Vancaester, E.; De Decker, S.; Bones, A.M.; Winge, P.; Poulsen, N.; Bulankova, P.; Verhelst, B.; Audoor, S.; Belisova, D.; Pargana, A.; Russo, M.; Stock, F.; Cirri, E.; Brembu, T.; Pohnert, G.; Piganeau, G.; Ferrante, M.I.; Mock, T.; Sterck, L.; Sabbe, K.; De Veylder, L.; Vyverman, W.; Vandepoele, K. (2020). Author correction: The Seminavis robusta genome provides insights into the evolutionary adaptations of benthic diatoms. Nature Comm. 11: 5331. https://dx.doi.org/10.1038/s41467-020-19222-w, meer
  • Peer reviewed article Osuna-Cruz, C.M.; Bilcke, G.; Vancaester, E.; De Decker, S.; Bones, A.M.; Winge, P.; Poulsen, N.; Bulankova, P.; Verhelst, B.; Audoor, S.; Belisova, D.; Pargana, A.; Russo, M.; Stock, F.; Cirri, E.; Brembu, T.; Pohnert, G.; Piganeau, G.; Ferrante, M.I.; Mock, T.; Sterck, L.; Sabbe, K.; De Veylder, L.; Vyverman, W.; Vandepoele, K. (2020). The Seminavis robusta genome provides insights into the evolutionary adaptations of benthic diatoms. Nature Comm. 11(1): 3320. https://hdl.handle.net/10.1038/s41467-020-17191-8, meer
  • Peer reviewed article Stock, F.; Bilcke, G.; De Decker, S.; Osuna-Cruz, C.M.; Van den Berge, K.; Vancaester, E.; De Veylder, L.; Vandepoele, K.; Mangelinckx, S.; Vyverman, W. (2020). Distinctive growth and transcriptional changes of the diatom Seminavis robusta in response to quorum sensing related compounds. Front. Microbiol. 11: 1240. https://dx.doi.org/10.3389/fmicb.2020.01240, meer
  • Peer reviewed article Vancaester, E.; Depuydt, T.; Osuna-Cruz, C.M.; Vandepoele, K. (2020). Comprehensive and functional analysis of horizontal gene transfer events in diatoms. Mol. Biol. Evol. 37(11): 3243-3257. https://hdl.handle.net/10.1093/molbev/msaa182, meer
  • Peer reviewed article Yau, S.; Krasovec, M.; Benites, L.F.; Rombauts, S.; Groussin, M.; Vancaester, E.; Aury, J.-M.; Derelle, E.; Desdevises, Y.; Escande, M.-L.; Grimsley, N.; Guy, J.; Moreau, H.; Sanchez-Brosseau, S.; Van de Peer, Y.; Vandepoele, K.; Gourbière, S.; Piganeau, G. (2020). Virus-host coexistence in phytoplankton through the genomic lens. Science Advances 6(14): eaay2587. https://hdl.handle.net/10.1126/sciadv.aay2587, meer
  • Peer reviewed article Annunziata, R.; Ritter, A.; Fortunato, A.E.; Manzotti, A.; Cheminant-Navarro, S.; Agier, N.; Huysman, M.J.J.; Winge, P.; Bones, A.M.; Bouget, F.-Y.; Lagomarsino, M.C.; Bouly, J.-P.; Falciatore, A. (2019). bHLH-PAS protein RITMO1 regulates diel biological rhythms in the marine diatom Phaeodactylum tricornutum. Proc. Natl. Acad. Sci. U.S.A. 116(26): 13137-13142. https://dx.doi.org/10.1073/pnas.1819660116, meer
  • Peer reviewed article Bogaert, K.A.; Blommaert, L.; Ljung, K.; Beeckman, T.; De Clerck, O. (2019). Auxin function in the brown alga Dictyota dichotoma. Plant Physiol. 179(1): 280-299. https://dx.doi.org/10.1104/pp.18.01041, meer
  • Peer reviewed article Cirri, E.; De Decker, S.; Bilcke, G.; Werner, M.; Osuna-Cruz, C.M.; De Veylder, L.; Vandepoele, K.; Werz, O.; Vyverman, W.; Pohnert, G. (2019). Associated bacteria affect sexual reproduction by altering gene expression and metabolic processes in a biofilm inhabiting diatom. Front. Microbiol. 10: 1790. https://dx.doi.org/10.3389/fmicb.2019.01790, meer
  • 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. (2019). Correction to: identification of the meiotic toolkit in diatoms and exploration of meiosis-specific SPO11 and RAD51 homologs in the sexual species Pseudonitzschia multistriata and Seminavis robusta. BMC Genom. 20: 544. https://dx.doi.org/10.1186/s12864-019-5942-4, meer
  • Peer reviewed article Tan, M.P.; Wong, L.L.; Razali, S.A.; Afiqah-Aleng, N.; Nor, S.A.M.; Sung, Y.Y.; Van de Peer, Y.; Sorgeloos, P.; Danish-Daniel, M. (2019). Applications of next-generation sequencing technologies and computational tools in molecular evolution and aquatic animals conservation studies: a short review. Evolutionary Bioinformatics 15: 1-5. https://dx.doi.org/10.1177/1176934319892284, meer
  • Peer reviewed article De Clerck, O.; Kao, S.-M.; Bogaert, K.A.; Blomme, J.; Foflonker, F.; Kwantes, M.; Vancaester, E.; Vanderstraeten, L.; Aydogdu, E.; Boesger, J.; Califano, G.; Charrier, B.; Clewes, R.; Del Cortona, A.; D’Hondt, S.; Fernandez-Pozo, N.; Gachon, C.M.; Hanikenne, M.; Lattermann, L.; Leliaert, F.; Liu, X.; Maggs, C.A.; Popper, Z.A.; Raven, J.A.; Van Bel, M.; Wilhelmsson, P.K.I.; Bhattacharya, D.; Coates, J.C.; Rensing, S.A.; Van Der Straeten, D.; Vardi, A.; Sterck, L.; Vandepoele, K.; Van de Peer, Y.; Wichard, T.; Bothwell, J.H. (2018). Insights into the evolution of multicellularity from the sea lettuce genome. Curr. Biol. 28(18): 2921-2933.e5. https://dx.doi.org/10.1016/j.cub.2018.08.015, meer
  • Peer reviewed article Farhat, S.; Florent, I.; Noel, B.; Kayal, E.; Da Silva, C.; Bigeard, E.; Alberti, A.; Labadie, K.; Corre, E.; Aury, J.-M.; Rombauts, S.; Wincker, P.; Guillou, L.; Porcel, B.M. (2018). Comparative time-scale gene expression analysis highlights the infection processes of two Amoebophrya strains. Front. Microbiol. 9: 19. https://dx.doi.org/10.3389/fmicb.2018.02251, meer
  • Peer reviewed article Phoma, S.; Vikram, S.; Jansson, J.K.; Ansorge, I.J.; Cowan, D.A.; Van de Peer, Y.; Makhalanyane, T.P. (2018). Agulhas Current properties shape microbial community diversity and potential functionality. NPG Scientific Reports 8: 10542. https://dx.doi.org/10.1038/s41598-018-28939-0, meer
  • Peer reviewed article Blommaert, L.; Huysman, M.J.J.; Vyverman, W.; Lavaud, J.; Sabbe, K. (2017). Contrasting NPQ dynamics and xanthophyll cycling in a motile and a non-motile intertidal benthic diatom. Limnol. Oceanogr. 62(4): 1466-1479. https://dx.doi.org/10.1002/lno.10511, meer
  • Peer reviewed article Bogaert, K.A.; Beeckman, T.; De Clerck, O. (2017). Egg activation-triggered shape change in the Dictyota dichotoma (Phaeophyceae) zygote is actin-myosin and secretion dependent. Ann. Bot. 120(4): 529-538. https://dx.doi.org/10.1093/aob/mcx085, meer
  • Peer reviewed article Cormier, A.; Avia, K.; Sterck, L.; Derrien, T.; Wucher, V.; Andres, G.; Monsoor, M.; Godfroy, O.; Lipinska, A.; Perrineau, M.-M.; Van de Peer, Y.; Hitte, C.; Corre, E.; Coelho, S.M.; Cock, J.M. (2017). Re-annotation, improved large-scale assembly and establishment of a catalogue of noncoding loci for the genome of the model brown alga Ectocarpus. New Phytol. 214(1): 219-232. https://dx.doi.org/10.1111/nph.14321, meer
  • Peer reviewed article De Decker, S.; Vanormelingen, P.; Sefbom, J.; Lembke, C.; Van den Berghe, K.; Vandepoele, K.; Sabbe, K.; De Veylder, L.; Pohnert, G.; Clement, L.; Vyverman, W. (2017). Identifying drivers of sympatric speciation in the marine benthic diatom Seminavis robusta using metabolic analysis and whole-genome resequencing. Phycologia 56(4): 41-42, meer
  • Peer reviewed article Del Cortona, A.; Leliaert, F.; Bogaert, K.A.; Turmel, M.; Boedeker, C.; Janouskovec, J.; López-Bautista, J.M.; Verbruggen, H.; Vandepoele, K.; De Clerck, O. (2017). The plastid genome in Cladophorales green algae is encoded by hairpin chromosomes. Curr. Biol. 27(24): 3771-3782. https://dx.doi.org/10.1016/j.cub.2017.11.004, meer
  • Peer reviewed article Matthijs, M.; Fabris, M.; Obata, T.; Foubert, I.; Franco-Zorrilla, M.; Solano, R.; Fernie, R.; Vyverman, W.; Goossens, A. (2017). The transcription factor bZIP14 regulates the TCA cycle in the diatom Phaeodactylum tricornutum. EMBO J. 36(11): 1559-1576. https://dx.doi.org/10.15252/embj.201696392, meer
  • Peer reviewed article Van Malderen, S.J.M.; Laforce, B.; Van Acker, T.; Nys, C.; De Rijcke, M.; de Rycke, R.; De Bruyne, M.; Boone, M.N.; De Schamphelaere, K.; Borovinskaya, O.; De Samber, B.; Vincze, L.; Vanhaecke, F. (2017). Three-dimensional reconstruction of the tissue-specific multielemental distribution within Ceriodaphnia dubiavia multimodal registration using laser ablation ICP-mass spectrometry and X-ray spectroscopic techniques. Anal. Chem. 89(7): 4161-4168. https://dx.doi.org/10.1021/acs.analchem.7b00111, meer
  • 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://dx.doi.org/10.1007/s10811-016-0801-z, meer
  • 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://dx.doi.org/10.1371/journal.pone.0165954, meer
  • 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://dx.doi.org/10.1105/tpc.15.00928, meer
  • 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://dx.doi.org/10.1016/j.envexpbot.2016.09.001, meer
  • 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, meer
  • 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. https://dx.doi.org/10.1104/pp.15.01300, meer
  • 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. https://dx.doi.org/10.1038/srep19252, meer
  • 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. http://dx.doi.org/10.1038/nature16548, meer
  • 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, meer
  • 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, meer
  • 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, meer
  • 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, meer
  • 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, meer
  • 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. http://dx.doi.org/10.1016/j.cub.2014.07.042, meer
  • 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. http://dx.doi.org/10.1186/1471-2164-15-1103, meer
  • 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, meer
  • Peer reviewed article Gutiérrez, J.; Maere, S. (2014). Modeling the evolution of molecular systems from a mechanistic perspective. Trends Plant Sci. 19(5): 292-303. https://dx.doi.org/10.1016/j.tplants.2014.03.004, meer
  • 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, meer
  • 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. https://dx.doi.org/10.1093/jxb/ert387, meer
  • 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, meer
  • 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. http://dx.doi.org/10.1002/anie.201208175, meer
  • 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, meer
  • 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, meer
  • 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, meer
  • 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. https://dx.doi.org/10.1016/B978-0-12-391499-6.00005-0, meer
  • 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. http://dx.doi.org/10.1111/j.1365-313X.2012.04941.x, meer
  • 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, meer
  • 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, meer
  • 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. https://dx.doi.org/10.1093/molbev/msr296, meer
  • 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, meer
  • 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. http://dx.doi.org/10.1038/nature09016, meer
  • Cleyman, A.; Bilcke, G.; Rijsdijk, N.; Vyverman, W.; Vandepoele, K.; De Veylder, L. (2024). Fluorescent tagging of sexual cell type identity in a marine diatom, in: Mees, J. et al. Book of abstracts – VLIZ Marine Science Day, 6 March 2024, Oostende. VLIZ Special Publication, 91: pp. 59, meer
  • Coulembier, E.; Blomme, J.; Van Der Loos, L.; De Clerck, O.; Jacobs, T. (2024). How Ulva blooms: unravelling the genetic architecture of green tides, in: Mees, J. et al. Book of abstracts – VLIZ Marine Science Day, 6 March 2024, Oostende. VLIZ Special Publication, 91: pp. 24, meer
  • Dujardin, J.; Perneel, M.; Lagaisse, R.; Larrinoa, N.; Mortelmans, J.; Theetaert, H.; Verbrugge, S.; Gkritzalis, T.; De Rijcke, M.; Maere, S.; Hablützel, P.I. (2024). From bloom to foam: tracing the role of Phaeocystis in marine gel formation, in: Mees, J. et al. Book of abstracts – VLIZ Marine Science Day, 6 March 2024, Oostende. VLIZ Special Publication, 91: pp. 18-19, meer
  • Perneel, M.; Maere, S.; Hablützel, P. (2021). Metatranscriptomics of North Sea microeukaryotic plankton. Flanders Marine Institute/VIB Center for Plant Systems Biology: Oostende, Ghent. 1 poster pp., meer
  • 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, meer
  • 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, meer
  • 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., meer
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