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Selecting SNP markers reflecting population origin for cacao(Theobroma cacao L.)germplasm identification

Beverage Plant Research 2021年第1期1卷 133-141页

作者： Osman A.Gutiérrez Kathleen Martinez Dapeng Zhang Donald S.Livingstone Chris J.Turnbull Juan Carlos Motamayor USDA-ARS Subtropical Horticulture Research Station 13601 Old Cutler RoadMiamiFL 33158USA USDA-ARS Beltsville Agricultural Research CenterSPCL10300 Baltimore AvenueBldg.001Rm.223BARC-WBeltsvilleMD 20705USA Mars Wrigley Plant Science Laboratory DavisCA 95616USA School of Agriculture Policy and DevelopmentUniversity of ReadingRG66ARUK universal geneticsolutions LLCOrlandoFLUSA

Cacao is one of the most economically important agricultural commodities in the world,providing the principal ingredient for the global chocolate *** genotype identification is essential for effective conservation and utilization of cacao ***,we report the screening of 956 candidate SNPs,pre-selected from the 6 and 15K Theobroma cacao SNP Arrays using targeted Genotyping-by-Sequencing on 451 cacao germplasm accessions,representing ten known genetic groups from the tropical *** on call rate(No call rate0.15)and Linkage Disequilibrium(LD≤0.5),a total of 219 SNPs were *** efficacy of these SNP markers for population classification was compared with the previous SSR-based analysis in *** population assignment results of the retained 420 cacao accessions was highly comparable with the SSR *** matrix of genetic distance between SSR and SNP markers is highly correlated(r=0.718;P<0.001).These results demonstrated the consistency in using the present SNP markers for cacao germplasm *** is our pilot project for the development of SNP markers reflecting population origin for cacao germplasm *** SNP markers and the selected reference germplasm for different populations are suitable for use in cacao germplasm management and crop improvement,including genotype identification,seed gardens and nursery accreditation,and cocoa *** is being continued with the emphasis on selecting SNP markers for the detection of sub-population structures in the primary gene pool of ***.

关键词： germplasm origin continued

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