A sequence-tagged genetic map for the brown alga Ectocarpus siliculosus provides large-scale assembly of the genome sequence

Svenja Heesch, Ga Youn Cho, Akira F. Peters, Gildas Le Corguillé, Cyril Falentin, Gilles Boutet, Solène Coëdel, Claire Jubin, Gaelle Samson, Erwan Corre, Susana M. Coelho, J. Mark Cock
2010 New Phytologist  
Cyril Falentin, et al.. A sequence-tagged genetic map for the brown alga Ectocarpus siliculosus provides large-scale assembly of the genome sequence. Summary  Ectocarpus siliculosus has been proposed as a genetic and genomic model for the brown algae and the 214 Mbp genome of this organism has been sequenced. The aim of this project was to obtain a chromosome-scale view of the genome by constructing a genetic map using microsatellite markers that were designed based on the sequence
more » ... .  To map genetic markers, a segregating F 2 population was generated from a cross between the sequenced strain (Ec 32) and a compatible strain from northern Chile. AFLP analysis indicated a significant level of polymorphism (41%) between the genomes of these two parental strains. Of 1,152 microsatellite markers that were selected for analysis based on their location on long supercontigs, their potential as markers and their predicted ability to amplify a single genomic locus, 407 were found to be polymorphic.  A genetic map was constructed using 406 markers, resulting in 34 linkage groups. The 406 markers anchor 325 of the longest supercontigs onto the map, representing 70.1% of the genome sequence.  The Ectocarpus genetic map described here not only provides a large-scale assembly of the genome sequence, but also represents an important tool for future genetic analysis using this organism. Hanelt D, Jacobsen S, Karez R, et al. 2008. The genus Laminaria sensu lato: recent insights and developments. European Journal of Phycology 43: 1-86. Carter DA, Buck KW, Archer SA, van der Lee T, Shattock RC, et al. 1999. The detection of nonhybrid, trisomic, and triploid offspring in sexual progeny of a mating of Phytophthora infestans. Fungal Genetics and Biology 26: 198-208. Charrier B, Coelho SM, Le Bail A, Tonon T, Michel G, Potin P, Kloareg B, Boyen C, Peters AF, Cock JM. 2008. Development and physiology of the brown alga Ectocarpus siliculosus: two centuries of research. New Phytologist 177: 319-332. Cock JM, et al. 2009. The Ectocarpus genome and the independent evolution of multicellularity in the brown algae. Submitted Coelho S, Peters AF, Charrier B, Roze D, Destombe C, Valero M, Cock JM. 2007. Complex life cycles of multicellular eukaryotes: new approaches based on the use of model organisms. Gene 406: 152-170. Delaroque N, Müller DG, Bothe G, Pohl T, Knippers R, Boland W. 2001. The complete DNA sequence of the Ectocarpus-siliculosus-Virus Genome. Virology 287: 112-132. Dittami SM, Scornet D, Petit JL, Ségurens B, Da Silva C., Corre E, Dondrup M, Glatting KH, König R, Sterck L, 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 Biology 10: R66. Dobrowolski MP, Tommerup IC, Blakeman HD, O'Brien PA. 2002. Non-Mendelian inheritance revealed in a genetic analysis of sexual progeny of Phytophthora cinnamomi with microsatellite markers.
doi:10.1111/j.1469-8137.2010.03273.x pmid:20456050 fatcat:swugzpexljabrnasutl4ez523a