Genomic Diversity of Three Brazilian Native Food Crops Based on Double-Digest Restriction Site-Associated DNA Sequencing
| Autor: | Gabriel Dequigiovanni, Elizabeth Ann Veasey, Charles R. Clement, Pedro H. S. Brancalion, Maria Imaculada Zucchi, Alessandro Alves-Pereira, Mariana Novello, José Baldin Pinheiro, Anete Pereira de Souza |
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| Rok vydání: | 2019 |
| Předmět: |
0106 biological sciences
0301 basic medicine education.field_of_study URUCUM business.industry Population food and beverages Genomics Context (language use) Plant Science Biology biology.organism_classification 01 natural sciences DNA sequencing Biotechnology 03 medical and health sciences 030104 developmental biology Genetic marker Threatened species Genetics business Domestication education 010606 plant biology & botany Euterpe edulis |
| Zdroj: | Repositório Institucional da USP (Biblioteca Digital da Produção Intelectual) Universidade de São Paulo (USP) instacron:USP |
| ISSN: | 1935-9764 1935-9756 |
| Popis: | The megabiodiversity of Brazil created opportunities for the domestication of a number of crop species, including some of major global importance. Considering the economic value of many Brazilian native crops, the genetic characterization of their populations is fundamental to support the utilization and conservation of their genetic resources, currently threatened by deforestation and the intensification of monuculture of exotic crops. Recent advances in DNA sequencing technologies have promoted the rapid genomic evaluation of non-model species, including those of only local importance. In this context, we evaluated the genomic diversity of three native Brazilian crops: manioc (Manihot esculenta), annatto (Bixa orellana) and the jucara palm (Euterpe edulis). Double-digest restriction site-associated DNA sequencing (ddRAD) was employed to identify thousands of SNP markers in each crop species (1952 in manioc, 3362 in annatto and 1040 in jucara). Population genomic analyses identified many loci putatively under selection, but the unavailability of genome sequences for annatto and jucara hampers further characterization for these crops. Nonetheless, the SNP markers identified were effective in the characterization of the genomic diversity and population structure. The levels of genomic diversity and inbreeding were compatible with the biology of each species. While wild and cultivated manioc were remarkably genetically divergent, the same was not observed between accessions of wild and cultivated annatto, and genetic differentiation was observed among jucara samples from different environments. The application of population genomic approaches may be valuable for the establishment of better practices of management of these crops, promoting the conservation and valorization of Brazilian native genetic resources. |
| Databáze: | OpenAIRE |
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