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• W4310942657 abstract "Journal of PhycologyVolume 59, Issue 1 p. 4-8 Perspective The model system Ectocarpus: Integrating functional genomics into brown algal research J. Mark Cock, Corresponding Author J. Mark Cock [email protected] orcid.org/0000-0002-2650-0383 Algal Genetics Group, UMR 8227, CNRS, Sorbonne Université, UPMC University Paris 06, Paris, France Integrative Biology of Marine Models, Station Biologique de Roscoff, CS 90074, F-29688 Roscoff, FranceAuthor for correspondence: e-mail [email protected].Search for more papers by this author J. Mark Cock, Corresponding Author J. Mark Cock [email protected] orcid.org/0000-0002-2650-0383 Algal Genetics Group, UMR 8227, CNRS, Sorbonne Université, UPMC University Paris 06, Paris, France Integrative Biology of Marine Models, Station Biologique de Roscoff, CS 90074, F-29688 Roscoff, FranceAuthor for correspondence: e-mail [email protected].Search for more papers by this author First published: 07 December 2022 https://doi.org/10.1111/jpy.13310 Editorial Responsibility: T. Mock (Associate Editor) Read the full textAboutPDF ToolsRequest permissionExport citationAdd to favoritesTrack citation ShareShare Give accessShare full text accessShare full-text accessPlease review our Terms and Conditions of Use and check box below to share full-text version of article.I have read and accept the Wiley Online Library Terms and Conditions of UseShareable LinkUse the link below to share a full-text version of this article with your friends and colleagues. Learn more.Copy URL References Arun, A., Coelho, S. M., Peters, A. F., Bourdareau, S., Pérès, L., Scornet, D., Strittmatter, M. et al. 2019. Convergent recruitment of TALE homeodomain life cycle regulators to direct sporophyte development in land plants and brown algae. Elife 8:e43101. Avia, K., Coelho, S. M., Montecinos, A. E., Cormier, A., Lerck, F., Mauger, S., Faugeron, S., Valero, M., Cock, J. M. & Boudry, P. 2017. High-density genetic map and identification of QTLs for responses to high temperature and low salinity stresses in the model alga Ectocarpus sp. Sci. Rep. 7: 43241. Badis, Y., Scornet, D., Harada, M., Caillard, C., Godfroy, O., Raphalen, M., Gachon, C. M. M., Coelho, S. M., Motomura, T., Nagasato, C. & Cock, J. M. 2021. Targeted CRISPR-Cas9-based gene knockouts in the model brown alga Ectocarpus. New Phytol. 231: 2077– 91. Bai, F. Y., Han, D. Y., Duan, S. F. & Wang, Q. M. 2022. The ecology and evolution of the baker's yeast Saccharomyces cerevisiae. Genes 13: 230. 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M., Sterck, L., Rouzé, P., Scornet, D., Allen, A. E., Amoutzias, G., Anthouard, V. et al. 2010. The Ectocarpus genome and the independent evolution of multicellularity in brown algae. Nature 465: 617– 21. Cormier, A., Avia, K., Sterck, L., Derrien, T., Wucher, V., Andres, G., Monsoor, M. et al. 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: 219– 32. Couceiro, L., Le Gac, M., Hunsperger, H. M., Mauger, S., Destombe, C., Cock, J. M., Ahmed, S. et al. 2015. Evolution and maintenance of haploid-diploid life cycles in natural populations: the case of the marine brown alga Ectocarpus. Evolution 69: 1808– 22. Cutter, A. D., Dey, A. & Murray, R. L. 2009. Evolution of the Caenorhabditis elegans genome. Mol. Biol. Evol. 26: 1199– 234. Davis, R. H. 2004. The age of model organisms. Nat. Rev. Genet. 5: 69– 76. Dittami, S., Scornet, D., Petit, J., Ségurens, B., Da Silva, C., Corre, E., Dondrup, M. et al. 2009. Global expression analysis of the brown alga Ectocarpus siliculosus (Phaeophyceae) reveals large-scale reprogramming of the transcriptome in response to abiotic stress. Genome Biol. 10: R66. Farnham, G., Strittmatter, M., Coelho, S. M., Cock, J. M. & Brownlee, C. 2013. Gene silencing in Fucus embryos: Developmental consequences of RNAi-mediated cytoskeletal disruption. J. Phycol. 49: 819– 29. Godfroy, O., Uji, T., Nagasato, C., Lipinska, A. P., Scornet, D., Peters, A. F., Avia, K. et al. 2017. DISTAG/TBCCd1 is required for basal cell fate determination in Ectocarpus. Plant Cell 29: 3102– 22. Graf, L., Shin, Y., Yang, J. H., Choi, J. W., Hwang, I. K., Nelson, W., Bhattacharya, D., Viard, F. & Yoon, H. S. 2021. A genome-wide investigation of the effect of farming and human-mediated introduction on the ubiquitous seaweed Undaria pinnatifida. Nat. Ecol. Evol. 5: 360– 8. Gruber, A., Rocap, G., Kroth, P. G., Armbrust, E. V. & Mock, T. 2015. Plastid proteome prediction for diatoms and other algae with secondary plastids of the red lineage. Plant J. 81: 519– 28. Gschloessl, B., Guermeur, Y. & Cock, J. M. 2008. HECTAR: a method to predict subcellular targeting in heterokonts. BMC Bioinformatics 9: 393. Haudry, A., Laurent, S. & Kapun, M. 2020. Population genomics on the fly: Recent advances in Drosophila. Methods Mol. Biol. 2090: 357– 96. Heesch, S., Cho, G. Y., Peters, A. F., Le Corguillé, G., Falentin, C., Boutet, G., Coëdel, S. et al. 2010. A sequence-tagged genetic map for the brown alga Ectocarpus siliculosus provides large-scale assembly of the genome sequence. New Phytol. 188: 42– 51. Macaisne, N., Liu, F., Scornet, D., Peters, A. F., Lipinska, A., Perrineau, M. M., Henry, A., Strittmatter, M., Coelho, S. M. & Cock, J. M. 2017. The Ectocarpus immediate upright gene encodes a member of a novel family of cysteine-rich proteins with an unusual distribution across the eukaryotes. Development 144: 409– 18. Maier, I. 1995. Brown algal pheromones. In F. E. Round & D. J. Chapman [Eds.] Progress in Phycological Research. Biopress, Bristol, pp. 51– 102. Montecinos, A. E., Couceiro, L., Peters, A. F., Desrut, A., Valero, M. & Guillemin, M. L. 2017. Species delimitation and phylogeographic analyses in the Ectocarpus subgroup siliculosi (Ectocarpales, Phaeophyceae). J. Phycol. 53: 17– 31. Müller, D. G. 1964. Life-cycle of Ectocarpus siliculosus from Naples, Italy. Nature 26: 1402. Müller, D. G. 1967. Generationswechsel, Kernphasenwechsel und Sexualität der Braunalge Ectocarpus siliculosus im Kulturversuch. Planta 75: 39– 54. Müller, D. G. 1991. Mendelian segregation of a virus genome during host meiosis in the marine brown alga Ectocarpus siliculosus. J. Plant Physiol. 137: 739– 43. Müller, D. G. & Eichenberger, W. 1997. Mendelian genetics in brown algae: inheritance of a lipid defect mutation and sex alleles in Ectocarpus siliculosus (Ectocarpales, Phaeophyceae). Phycologia 36: 79– 81. Müller, D. G., Jaenicke, L., Donike, M. & Akintobi, T. 1971. Sex attractant in a brown alga: chemical structure. Science 171: 815– 7. Peters, A. F., Marie, D., Scornet, D., Kloareg, B. & Cock, J. M. 2004. Proposal of Ectocarpus siliculosus (Ectocarpales, Phaeophyceae) as a model organism for brown algal genetics and genomics. J. Phycol. 40: 1079– 88. Peters, A. F., Mann, A. D., Córdova, C. A., Brodie, J., Correa, J. A., Schroeder, D. C. & Cock, J. M. 2010. Genetic diversity of Ectocarpus (Ectocarpales, Phaeophyceae) in Peru and northern Chile, the area of origin of the genome-sequenced strain. New Phytol. 188: 30– 41. Ritter, A., Dittami, S. M., Goulitquer, S., Correa, J. A., Boyen, C., Potin, P. & Tonon, T. 2014. Transcriptomic and metabolomic analysis of copper stress acclimation in Ectocarpus siliculosus highlights signaling and tolerance mechanisms in brown algae. BMC Plant Biol. 14: 116. Sterck, L., Billiau, K., Abeel, T., Rouzé, P. & Van de Peer, Y. 2012. ORCAE: Online resource for community annotation of eukaryotes. Nat. Methods 9: 1041. Takou, M., Wieters, B., Kopriva, S., Coupland, G., Linstädter, A. & De Meaux, J. 2019. Linking genes with ecological strategies in Arabidopsis thaliana. J. Exp. Bot. 70: 1141– 51. Tarver, J. E., Cormier, A., Pinzón, N., Taylor, R. S., Carré, W., Strittmatter, M., Seitz, H., Coelho, S. M. & Cock, J. M. 2015. microRNAs and the evolution of complex multicellularity: Identification of a large, diverse complement of microRNAs in the brown alga Ectocarpus. Nucl. Acids Res. 43: 6384– 98. Weigel, D. 2012. Natural variation in Arabidopsis: From molecular genetics to ecological genomics. Plant Physiol. 158: 2– 22. 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