Study on Essential Derivation in Maize: III. Selection and Evaluation of a Panel of Single Nucleotide Polymorphism Loci for Use in European and North American Germplasm

Crop Science

Chen, Jialiang^1,4  Knaak, Carsten¹⁰  Taillardat, Alain²  Karaman, Zivian⁵  Blanchard, Philippe¹³  Moreau, Philippe¹³  Kahler, Jonathan³  Tabel, Claude^1,7  Ranc, Nicolas^1,6  Flament, Pascal⁵  Rousselle, Yves¹  Robbins, Kelly⁸  Ferris, Ron¹²  Jones, Elizabeth¹²  Lespinasse, Denis^1,6  Warner, Todd^1,9  Bertran, Javier^1,6  Fourneau, Michael²  Kahler, Alex³  Dobrin, Seth^1,15  Romestant, Michel^1,7  Stich, Benjamin^1,11  Smith, Stephen¹⁴  Martinant, Jean-Pierre⁵  Charcosset, Alain¹ 

[1] INRA, Ferme du Moulon, 91190, Gif-sur-Yvette, France$$;Maisadour Semences, Route de Saint Sever BP27, 40001 Mont de Marsan Cedex, France$$;Biogenetics Services,47927 213th St. Aurora, SD, 57002$$;Agreliant Genetics LLC, 1122 East 169th St., Westfield, IN 46074$$;Limagrain Europe, Laboratoire de genotypage, Batiment 1, La Garenne, Route d’Ennezat, 63720 Chappes, France$$;Syngenta Seeds SAS, 12, chemin de l’Hobit, BP 27, 31790, Saint-Sauveur, France$$;RAGT Semences, rue Emile Singla, BP3357, F-12033, Rodez Cedex 9, France$$;Dow AgroSciences, 9330 Zionsville Rd., Indianapolis, IN 46268$$;Syngenta Seeds Inc., 317 330th St., Stanton, MN 55017$$;KWS Saat AG, Grimsehlstr. 31, 37555, Einbeck, Germany$$;Max Planck Institute for Plant Breeding Research, Carl-von-Linne-Weg 10, 50829, Cologne, Germany$$;Syngenta Biotechnology, 629 Davis Dr., Research Triangle Park, NC 27709$$;Euralis Semences, Laboratoire de Genetique Moleculaire, Domaine de Sandreau, 6, chemin de Pandedautes, Mondonville, 31705, France$$;DuPont Pioneer, 7300 NW 62nd Ave, Johnston, IA 50131$$;Monsanto Company, 3302 SE Convenience Blvd., Ankeny, IA 50021$$

关键词: Burgess Shale;    Naraoia;    trilobites;    gills;    exopod;    functional morphology;   

DOI  :  10.2135/cropsci2014.09.0627

学科分类：农业科学（综合）

来源: Crop Science

【 摘 要 】

Pairwise distance data for maize (Zea mays L.) inbred lines generated using sets of single nucleotide polymorphisms (SNPs) selected from a 50k Infinium array were compared with pairwise distances generated using a set of 163 simple sequence repeat (SSR) loci previously identified to help determine essentially derived variety (EDV) status (UPOV, 1991). Final comparisons were made using 26,874 SNPs after discarding SNPs with insufficient data quality or vulnerability to ascertainment bias. Inbred lines developed in the United States or in western Europe that had been previously published to establish SSR-based thresholds provided the means to determine equivalent SNP-based protocols. Use of 3072 SNPs selected to provide even genomic coverage according to genetic and physical maps provided robust, precise, high discrimination among inbred lines with consistent zonal classification with up to 20% missing data. Comparisons of intercepts and slopes for SSR and SNP inbred pairwise distance data translated the 82% SSR green-orange similarity threshold to 91% using SNPs and the 90% SSR orange-red threshold to 95% using SNPs. Information required to conduct analyses using these 3072 SNPS is presented.

【 授权许可】

Unknown