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

Svenja Heesch 1 Ga Youn Cho 2 Akira Peters 2 Gildas Le Corguillé 2 Cyril Falentin 3 Gilles Boutet 3 Solene Coedel 4 Claire Jubin 5 Gaëlle Samson 6 Erwan Corre 2 Susana Coelho 1 J. Mark Cock 1
1 LBI2M - Laboratoire de Biologie Intégrative des Modèles Marins
2 SBR - Station biologique de Roscoff [Roscoff]
3 IGEPP - Institut de Génétique, Environnement et Protection des Plantes
4 APBV - Amélioration des Plantes et Biotechnologies Végétales
5 SEG - Structure et évolution des génomes
6 GENOSCOPE - Genoscope - Centre national de séquençage [Evry]
Abstract : 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 supercontigs. 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. Amplified fragment length polymorphism (AFLP) analysis indicated a significant degree 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 on to 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.
Keywords : microsatellites genetic linkage map siliculosus Ectocarpus Phaeophyceae model organism chromosomes
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Journal articles
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https://hal.archives-ouvertes.fr/hal-01806415
Contributor : J. Mark Cock <>
Submitted on : Wednesday, June 6, 2018 - 7:06:41 PM
Last modification on : Thursday, October 10, 2019 - 11:36:02 AM
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CNRS | UNIV-EVRY | INRA | UPMC | UNAM | UNIV-RENNES1 | CEA | BIOSIT | UR1-UFR-SVE | LBI2M | JACOB | UNIV-RENNES | CEA-DRF | SORBONNE-UNIVERSITE | SU-SCIENCES | FR2424 | GENOSCOPE

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Svenja Heesch, Ga Youn Cho, Akira Peters, Gildas Le Corguillé, Cyril Falentin, et al.. A sequence-tagged genetic map for the brown alga Ectocarpus siliculosus provides large-scale assembly of the genome sequence. New Phytologist, Wiley, 2010, 188 (1), pp.42-51. ⟨10.1111/j.1469-8137.2010.03273.x⟩. ⟨hal-01806415⟩

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