Development and use of microsatellite markers for genetic diversity analysis of canahua (Chenopodium pallidicaule Aellen)

作者：Vargas A; Elzinga D B; Rojas Beltran J A; Bonifacio A; Geary B; Stevens M R; Jellen E N; Maughan P J^*

来源：Genetic Resources and Crop Evolution, 2011, 58(5): 727-739.

DOI：10.1007/s10722-010-9615-z

• Canahuaf
• Genetic diversity
• Microsatellite markers
• Population structure

Caahua (Chenopodium pallidicaule Aellen) is a poorly studied, annual subsistence crop of the high Andes of South America. Its nutritional value (high in protein and mineral content) and ability to thrive in harsh climates make it an important regional food crop throughout the Andean region. The objectives of this study were to develop genetic markers and to quantify genetic diversity within caahua. A set of 43 wild and cultivated caahua genotypes and two related species (Chenopodium quinoa Willd. and Chenopodium petiolare Kunth) were evaluated for polymorphism using 192 microsatellite markers derived from random genomic caahua sequences produced by 454 pyrosequencing of caahua genomic DNA. Another 424 microsatellite markers from C. quinoa were also evaluated for cross-species amplification and polymorphism in caahua. A total of 34 polymorphic microsatellite marker loci were identified which detected a total of 154 alleles with an average of 4.5 alleles per marker locus and an average heterozygosity value of 0.49. A cluster analysis, based on Nei genetic distance, clearly separated from wild caahua genotypes from the cultivated genotypes. Within the cultivated genotypes, subclades were partitioned by AMOVA analysis into six model-based clusters, including a subclade consisting sole of erect morphotypes. The isolation by distance test displayed no significant correlation between geographic collection origin and genotypic data, suggesting that caahua populations have moved extensively, presumably via ancient food exchange strategies among native peoples of the Andean region. The molecular markers reported here are a significant resource for ongoing efforts to characterize the extensive Bolivian and Peruvian caahua germplasm banks, including the development of core germplasm collections needed to support emerging breeding programs.

• 出版日期2011-6