Created 30/06/2015 Updated 08/06/2018

Publications

2018

Coelho SM, Gueno J, Lipinska AP, Cock JM, Umen JG (2018) UV chromosomes and haploid sexual systems. Trends in Plant Science  (in press)

Avia K, Lipinska AP, Mignerot L, Montecinos A, Jamy M, Valero M, Peters AF, Cock JM, Roze D, Coelho SM. (2018) Genetic diversity in the UV sex chromosomes of the brown alga Ectocarpus. Genes doi.org/10.3390/genes9060286

2017

Godfroy O, Uji  T,  Nagasato2 C, Lipinska AP, Scornet1, Peters AF, Avia K Colin S, Mignerot  L, Motomura T, Cock JM, Coelho SM. DISTAG/TBCCd1 is required for basal cell fate determination in Ectocarpus. Plant Cell 29(12):3102-3122. doi: 10.1105/tpc

Lipinska A, Toda N, Heesch S, Peters A, Cock JM, Coelho SM. (2017). Multiple gene movements into and out of haploid sex chromosomes. Genome Biology doi: 10.1186/s13059-017-1201-7.

Brodie J, XC Cheong, Clerck O, Cock JM, Coelho SM, Gachon C, Grossman AR, Mock T, Raven J, Smith A, Yoon HS, Bhattacharya D. (2017). The Algal Revolution. Trends in Plant Sciences doi: 10.1016/j.tplants.2017.05.005.

Cock JM, Liu F, Duan D, Bourdareau S, Lipinska A, Coelho SM, Tarver JE. (2017). Rapid evolution of microRNA loci in the brown algae. Genome Biology and Evolution 9:740-749. doi: 10.1093/gbe/evx038.

Macaisne N, Liu F, Scornet D, Peters AF, Lipinska A, Perrineau MM, Henry A, Strittmatter M, Coelho SM, Cock JM. (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, 409-418. doi: 10.1242/dev.141523.

Avia K, Coelho SM, Montecinos GJ, Cormier A, Lerck F, Mauger S, Faugeron S, Valero M, Cock JM, Boudry P. (2017). High-density genetic map and identification of QTLs for responses to temperature and salinity stresses in the model brown alga Ectocarpus. Sci Rep. 7, 43241. doi: 10.1038/srep43241.

Cormier A, Avia A, Sterck L, Derrien T, Wucher V, Andres G, Monsoor M, Godfroy O, Lipinska A, Perrineau MM, Van De Peer Y, Hitte C, Corre E,Coelho SM, Cock JM (2017). Re-annotation, improved large-scale assembly and establishment of a catalogue of non-coding loci for the genome of the model brown alga Ectocarpus. New Phytologist 214, 219-232.

Bourdareau S, Mignerot L, Svenja Heesch, Akira F. Peters, Coelho SM, Cock JM. (2017). Alternation of generations in plants and algae. In Evolutionary Developmental Biology - A reference guide. (in press)

2016

Guzinski, J., Mauger, S., Cock, J. M. and Valero, M. (2016). Development and characterization of expressed sequence tag-derived microsatellites markers for Saccharina latissima. Journal of Applied Phycology 28, 3057-3070.

Mignerot L, Coelho SM (2016). The origin and evolution of the sexes: novel insights from a distant eukaryotic linage. Comptes Rendus Academie des Sciences 339, 252-7. doi: 10.1016/j.crvi.2016.04.012.

Fischl R, Bertelsen K,Gaillard F, Coelho SM, Michel G, Klinger M, Boyen C, Czjzek M, Herve C (2016). The cell wall active mannuronan C5-epimerases in the model brown alga Ectocarpus: from gene context to recombinant protein. Glycobiology doi: 10.1093/glycob/cww040

2015

Luthringer R, Lipinska A, Roze D, Cormier A, peters A, Cock JM, Coelho SM (2015). The pseudoautosomal regions of the U/V sex chromosomes of the brown alga Ectocarpus exhibit unusual features. Mol. Biol. Evol. 32, 2973-2985.

Tarver, J., Cormier, A., Pinzon, N., Taylor, R., 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. Nucleic Acids Research 43, 6384-6398.

Lipinska A, Cormier A, Luthringer R, Peters AF, Corre E, Gachon CMM, Cock JM, Coelho SM. (2015). Sexual dimorphism and the evolution of sex-biased gene expression in the brown alga Ectocarpus. Mol. Biol. Evol. 32, 1581-1597.

Godfroy, O., Peters, A.F., Coelho, S.M and Cock, J.M. (2015). Genome-wide comparison of ultraviolet and ethyl methanesulphonate mutagenesis methods for the brown alga Ectocarpus. Marine Genomics, 24,109-113.

Lipinska, A., Ahmed, S., Peters, A.F., Faugeron, S., Cock, J.M. and Coelho, S.M. (2015). Development of PCR-based markers to determine the sex of kelps. Public Library of Science One, 10, e0140535.

Cock, J.M., Godfroy, O., Strittmatter, M., Scornet, D., Uji, T., Farnham, G., Peters, A.F. and Coelho, S.M. (2015). Emergence of Ectocarpus as a model system to study the evolution of complex multicellularity in the brown algae. In: Evolutionary transitions to multicellular life. Ruiz-Trillo, I. and Nedelcu, A.M. (eds) Springer, Dordrecht, pp. 153-162.

Cock, J.M. and Collén, J. (2015). Independent emergence of complex multicellularity in the brown and red algae. In: Evolutionary transitions to multicellular life. Ruiz-Trillo, I. and Nedelcu, A.M. (eds) Springer, Dordrecht, pp. 335-361.

Couceiro L, Le Gac M, Hunsperger HM , Mauger S, Destombe C,  Cock JM, Ahmed S, Coelho SM, Valero M, Akira F. Peters,AF (2015). Evolution and maintenance of haploid-diploid life cycles in natural populations: the case of the marine brown alga Ectocarpus. Evolution 69, 1808-22.

2014

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., Coelho SM (2014).  A haploid system of sex determination in the brown alga Ectocarpus sp. Current Biology 24, 1-13.

Cock JM, Godfroy O, Macaisne N, Peters AF and Coelho SM (2014). Evolution and regulation of complex life cycles: a brown algal perspective. Current Opinion in Plant Biology  17, 1-6.

Luthringer R, Cormier A, Ahmed S, Peters, AF, Cock JM, Coelho SM (2014). Sexual dimorphism in the brown algae. Perspectives in Phycology 1, 11-25.

Fu, G., Nagasato, C., Oka, S., Cock J.M. and Motomura, T. (2014). Proteomics analysis of heterogeneous flagella in brown algae (Stramenopiles). Protist 165, 662–675.

2013

Arun, A., Peters, N., Scornet, D., Peters, A.F., Cock, J.M. and Coelho S.M. (2013). Non-cell autonomous regulation of the switch between the gametophyte and sporophyte generations of the brown alga Ectocarpus. New Phytologist 197, 503-510.

Collén J, Porcel B, Carré W, Ball S, Chaparro C, Tonon T, Barbeyron T, Michel G, Noel B, Valentin K, Elias M, Artiguenavec F, Arun A, Aury JM, Barbosa-Neto JF, Bothwell JH, Bouget FY, Brillet L, Cabello-Hurtado F, Capella-Gutíerrezo S, Charrier B, Cladière L, Cock JM, Coelho SM, Colleoni C, Czjzek M, Da Silva C, Delage L, Denoeud F, Deschamp P, Dittami S, Gabaldón T, Gachon C, Groisillier A, Hervé C, Jabbaric K, Katinka M, Kloareg B, Kowalczyk N, Labadiec N, Leblanc C, Lopez P, McLachlan D, Meslet-Cladiere L, Moustafa A, Nehra Z, Nyvall-Collén P, Panaud O, Partensky F, Poulain J, Rensing S, Rousvoal S Samson G, Symeonidi A, Weissenbach J, Zambounis A, Wincker P & Boyen C. Genome structure and metabolic features in the red seaweed Chondrus crispus shed light on evolution of the Archaeplastida (2013) Proc. Natl. Acad. Sci. USA 110, 5247-5252.

Read, B.A., Kegel, J., Klute, M.J., Kuo, A., Lefebvre S.C., Maumus, F., Mayer, C., Miller, J., Monier, A., Salamov, A., Young, J., Aguilar, M., Claverie, J.-M., Frickenhaus, S., Gonzalez, K., Herman E.K., Lin, Y.-C., Napier, J., Ogata, H., Sarno, A.F., Schmutz, J., Schroeder, D., de Vargas, C., Verret, F., von Dassow, P., Valentin, K., Van de Peer, Y., Wheeler, G., Allen, A.E., Bidle, K., Borodovsky, M., Bowler, C., Brownlee, C., Cock, J.M., Elias, M., Gladyshev, V.N., Groth, M., Guda, C., Hadaegh, A., Iglesias-Rodriguez, D., Jenkins, J., Jones, B.M., Lawson, T., Leese, F., Lindquist, E., Lobanov, A., Lomsadze, A., Lucas, S., Malik, S.-B., Marsh, M.E., Mock, T., Mueller-Roeber, B., Pagarete, A., Parker, M., Probert, I., Quesneville, H., Raines, C., Rensing, S.A., Riano-Pachon, D.M., Richier, S., Rokitta, S., Shiraiwa, Y., Soanes, D.M., van der Giezen, M., Wahlund, T.M., Williams, B., Wilson, W., Wolfe, G. , Wurch, L.L., Dacks, J.B., Delwiche, C.F., Dyhrman, S.T., Glöckner, G., John, U., Richards, T., Worden, A.Z., Xiaoyu Zhang, X. and Grigoriev, I.V. (2013). Emiliania’s pan genome drives the phytoplankton’s global distribution. Nature 499, 209-213.

Coelho S.M., Simon, N., Ahmed, S., Cock, J.M. and Partensky, F. (2013). Ecological and evolutionary genomics of marine photosynthetic organisms. Molecular Ecology  22, 867-907.

Farnham G, Strittmater M, Coelho SM, Cock JM, Brownlee C (2013). Gene silencing in Fucus embryos: developmental consequences of RNAi-mediated cytoskeletal disruption. J. Phycol. 49, 819–829.

Bogaert KA, Arun A, Coelho S.M., De Clerck O. (2013). Brown algae as a model for plant organogenesis. Methods Mol. Biol. 959, 97-125.

2012

Coelho S.M., Scornet, D., Rousvoal, S., Peters, N., Dartevelle, L., Peters, A.F., Cock, J.M. (2012). Ectocarpus: A model organism for the brown algae. Cold Spring Harbor Protoc. 2012, 193-198.

Coelho S.M., Scornet, D., Rousvoal, S., Peters, N., Dartevelle, L., Peters, A.F., Cock, J.M. (2012). How to cultivate Ectocarpus. Cold Spring Harbor Protoc. 2012, 258-26

Coelho S.M., Scornet, D., Rousvoal, S., Peters, N., Dartevelle, L., Peters, A.F., Cock, J.M. (2012). Genetic crosses between Ectocarpus strains. Cold Spring Harbor Protoc. 2012, 262-265.

Coelho S.M., Scornet, D., Rousvoal, S., Peters, N., Dartevelle, L., Peters, A.F., Cock, J.M. (2012). Isolation and regeneration of protoplasts from Ectocarpus. Cold Spring Harbor Protoc. 2012, 361-364.

Coelho S.M., Scornet, D., Rousvoal, S., Peters, N., Dartevelle, L., Peters, A.F., Cock, J.M. (2012). Extraction of high qualty genomic DNA from Ectocarpus. Cold Spring Harbor Protoc. 2012, 365-368.

Coelho S.M., Scornet, D., Rousvoal, S., Peters, N., Dartevelle, L., Peters, A.F., Cock, J.M. (2012). Immunostaining of Ectocarpus cells. Cold Spring Harbor Protoc.  2012, 369-372.

Cock, J.M., Arun, A., Godfroy, O., Macaisne, N., Strittmatter, M., Peters, A.F. and Coelho S.M. (2012). Genomics of brown algae: current advances and future prospects. Genes and Genomics 34, 1-5.

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., Collén, J., Le Corguillé, 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., Küpper, 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-Collén, 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., Ségurens, B., Strittmatter, M., Tonon, T., Tregear, J.W., Valentin, K., von Dassow, P., Yamagishi, T., Rouzé, P., Van de Peer, Y., Wincker, P. (2012). The Ectocarpus genome and brown algal genomics. In: The Ectocarpus Genome and Brown Algal Genomics. Piganeau, G. (ed) Advances in Botanical Research (special issue), 64, 141-184.

2011

Cock JM, Peters AF, Coelho S.M. (2011). Brown Algae. Current Biology  21, R573-R575.

Coelho S.M., Godfroy, O., Arun, A., Le Corguillé, G., Peters, A.F. and Cock, J.M. (2011). OUROBOROS is a master regulator of the gametophyte to sporophyte life cycle transition in the brown alga Ectocarpus. Proc. Natl. Acad. Sci. USA 108, 11518-11523.

Delage, L., Leblanc, C., Nyvall-Collén, P., Gschloessl, B., Oudot, M.-P., Sterck, L., Poulain, J., Aury, J.-M. and Cock, J.M. (2011). An in silico survey of Ectocarpus siliculosus mitochondrial proteins. Public Library of Science One 6, e19540.

Tenhaken, R., Voglas, E., Cock, J.M., Neu, V. and Huber, C.G. (2011). Characterization of GDP-mannose dehydrogenase from the brown alga Ectocarpus siliculosus providing the precursor for the alginate polymer. Journal of Biological Chemistry 286, 16707–16715.

Cock, J.M. and Coelho S.M. (2011). Algal models in plant biology. Journal of Experimental Botany 62, 2425–2430.

Dittami, S.M., Proux, C., Rousvoal, S., Peters, A.F., Cock, J.M., Coppée, J.-Y., Boyen, C. and Tonon, T. (2011). Microarray estimation of genomic inter-strain variability in the genus Ectocarpus (Phaeophyceae). BMC Molecular Biology 12, 2.

Coelho S.M., Godfroy, O., Arun, A., Le Corguillé, G., Peters, A.F. and Cock, J.M. (2011). Genetic regulation of life cycle transitions in the brown alga Ectocarpus siliculosus. Plant Signaling and Behavior 6, 1858-1860.

2008-2010

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.F., 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, P., Poulain, J., Quesneville, H., Read, B., A. Rensing, S.A., Ritter, A., Rousvoal, S., Samanta, M., Samson, G., Schroeder, D.C., Ségurens, B., Strittmatter, M., Tonon, T., Tregear, J., Valentin, K., von Dassow, P., Yamagishi, T., Van de Peer, Y. and Wincker, P. (2010). The Ectocarpus genome and the independent evolution of multicellularity in the brown algae. Nature 465, 617-621.

Cock, J.M., Coelho S.M., Brownlee, C. and Taylor, A.R. (2010). The Ectocarpus genome sequence: insights into brown algal biology and the evolutionary diversity of the eukaryotes. New Phytologist 188, 1–4.

Heesch, S., Cho, G.Y., Peters, A.F., Le Corguillé, G., Falentin, C., Boutet, G., Coëdel, S., Jubin, C., Samson, G., Corre, E., Coelho S.M. and Cock, J.M. (2010). A sequence-tagged genetic map for the brown alga Ectocarpus siliculosus provides large-scale assembly of the genome sequence. New Phytologist 188, 42-51.

Peters, A.F., Mann, A., Córdova, C.A., Brodie, J., Correa, J.A., Schroeder, D.C. and Cock, J.M (2010). Genetic diversity of Ectocarpus in the area of origin of the genome-sequenced strain. New Phytologist 188, 30-41.

Bothwell, J.H.F., Marie, D., Peters, A.F., Cock, J.M., Coelho S.M. (2010). Role of endoreduplication and apomeiosis during parthenogenetic reproduction in the model brown alga Ectocarpus. New Phytologist 188, 111-12.

Michel, G., Tonon, T., Scornet, D., Cock, J.M. and Kloareg, B. (2010). Central and storage carbon metabolism of the brown alga Ectocarpus siliculosus: insights into the origin and evolution of storage carbohydrates in Eukaryotes. New Phytologist 188, 67-81.

Michel, G., Tonon, T., Scornet, D., Cock, J.M. and Kloareg, B. (2010). The cell wall polysaccharide metabolism of the brown alga Ectocarpus siliculosus. Insights into the evolution of extracellular matrix polysaccharides in Eukaryotes. New Phytologist 188, 82-97.

Bothwell, J.H.F., Marie, D., Peters, A.F., Cock, J.M. and Coelho S.M.. (2010). Cell cycles and endocycles in the model brown seaweed Ectocarpus siliculosus. Plant Signaling and Behavior 5, 142-144.

Le Bail, A., Billoud, B., Kowalczyk, N., Kowalczyk, M., Gicquel, M., Le Panse, S., Stewart, S., Scornet, D., Cock, J.M., Ljung, K. and Charrier, B. (2010). Conservation of auxin metabolism and function in the multicellular brown alga Ectocarpus siliculosus. Plant Physiology 153, 128-144.

Coelho S.M., Heesch, S., Grimsley, N., Moreau, H. and Cock, J.M. (2010). Genomics of Marine Algae. In: Introduction to Marine Genomics. Cock, J.M., Tessmar-Raible, K., Boyen, C. and Viard, F. (eds) Springer, Dordrecht, pp. 173-205.

Ritter, A., Ubertini, M., Romac, S., Gaillard, F., Delage, L., Mann, A., Cock, J.M., Tonon, T., Correa, J.A. and Potin, P. (2010). Copper stress proteomics highlights local adaptation of two strains of the model brown alga Ectocarpus siliculosus. Proteomics 10, 1-15.

Peters, A.F., van Wijk, S.J., Cho, G.Y., Scornet, D., Hanyuda, T., Kawai, H., Schroeder, D.C., Cock, J.M. and Boo, S.M. (2010). Reinstatement of E. crouaniorum Thuret in Le Jolis as a third common species of Ectocarpus (Ectocarpales, Phaeophyceae) in western Europe, and its phenology at Roscoff, Brittany. Phycological Research 58, 157-170.

Le Corguillé, G., Pearson, G., Valente, M., Viegas, C., Gschloessl, B., Corre, E., Bailly, X., Peters, A., Jubin, C., Vacherie, B., Cock, J.M. and Leblanc C. (2009). Chloroplast genomes of two brown algae, Ectocarpus siliculosus and Fucus vesiculosus: further insights on the evolution of red-algal derived plastids. BMC Evolutionary Biology 9, 253.

Dittami, S.M., Scornet, D., Petit, J.L., Ségurens, B., Da Silva, C., Corre, E., Dondrup, M., Glatting, K.H., König, R., Sterck, L., Rouzé, P., Van de Peer, Y., Cock, J.M., Boyen, C. and Tonon, T. (2009). Global expression analysis of the brown alga Ectocarpus siliculosus (Phaeophyceae) reveals large-scale reprogramming of the transcriptome in response to abiotic stress. Genome Biology 10, R66.

Peters, A.F., Scornet, D., Ratin, M., Charrier, B., Monnier, A., Merrien, Y., Corre, E., Coelho S.M. Cock, J.M. (2008) Life-cycle-generation-specific developmental processes are modified in the immediate upright mutant of the brown alga Ectocarpus siliculosus. Development 135, 1503-1512.

Gschloessl, B., Guermeur, Y. and Cock, J.M. (2008). HECTAR: a method to predict subcellular targeting in heterokonts. BMC Bioinformatics 9, 393.

Coelho SM, Brownlee C, Bothwell JH. (2008) A tip-high, Ca(2+) -interdependent, reactive oxygen species gradient is associated with polarized growth in Fucus serratus zygotes. Planta 227, 1037-46.

Charrier, B., Coelho S.M., Le Bail, A., Tonon, T., Michel, G., Potin, P., Kloareg, B., Boyen, C., Peters, A.F. and Cock. J.M. (2008) Development and physiology of the brown alga Ectocarpus siliculosus: two centuries of research. Tansley Review. New Phytologist 177, 319–332.

Coelho S.M., Brownlee C, Bothwell JH. (2008) Feedback control of reactive oxygen and Ca2+ signaling during brown algal embryogenesis. Plant Signaling and Behavior 3, 570-2. (Addendum)

Le Bail, A., Dittami, S., de Franco, P.-O., Rousvoal, S., Cock, J.M., Tonon, T. and Charrier, B. (2008). Normalisation genes for expression analyses in the brown alga model Ectocarpus siliculosus. BMC Molecular Biology 9, 75.

Le Bail, A., Billoud, B., Maisonneuve, C., Peters, A.F., Cock, J.M. and Charrier, B (2008). Early development pattern of the brown alga Ectocarpus siliculosus (Ectocarpales, Phaeophyceae) sporophyte. Journal of Phycology 44, 1269-1281.

Robbens, S., Rouzé, P., Cock, J.M., Spring, J., Worden, A.Z. and Van de Peer, Y. (2008). The FTO gene, implicated in human obesity, is found only in vertebrates and marine algae. Journal of Molecular Evolution 66, 80-84.