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(Reference retrieved automatically from Web of Science through information on FAPESP grant and its corresponding number as mentioned in the publication by the authors.)

Genomic Diversity of Three Brazilian Native Food Crops Based on Double-Digest Restriction Site-Associated DNA Sequencing

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Author(s):
Alves-Pereira, Alessandro [1] ; Novello, Mariana [2] ; Dequigiovanni, Gabriel [3] ; Pinheiro, Jose Baldin [3] ; Brancalion, Pedro H. S. [4] ; Veasey, Elizabeth Ann [3] ; Clement, Charles R. [5] ; de Souza, Anete Pereira [1] ; Zucchi, Maria Imaculada [6]
Total Authors: 9
Affiliation:
[1] Univ Estadual Campinas, Inst Biol, Dept Plant Biol, Av Candido Rondon 400, Cidade Univ Zeferino Vaz, BR-13083875 Campinas, SP - Brazil
[2] Univ Estadual Campinas, Inst Biol, Dept Genet Evolut & Bioagents, Av Candido Rondon 400, Cidade Univ Zeferino Vaz, BR-13083875 Campinas, SP - Brazil
[3] Univ Sao Paulo, Luiz de Queiroz Coll Agr, Dept Genet, Av Padua Dias 11, BR-13400970 Piracicaba, SP - Brazil
[4] Univ Sao Paulo, Luiz de Queiroz Coll Agr, Dept Forest Sci, Av Padua Dias 11, BR-13400970 Piracicaba, SP - Brazil
[5] Natl Res Inst Amazonia, Av Andre Araujo 2936, BR-69067375 Manaus, Amazonas - Brazil
[6] Agencia Paulista Tecnol Agronegocios, Polo Reg Desenvolvimento Tecnol Ctr Sul, Rodovia SP 127, Km 30, BR-13400970 Piracicaba, SP - Brazil
Total Affiliations: 6
Document type: Journal article
Source: TROPICAL PLANT BIOLOGY; v. 12, n. 4, p. 268-281, DEC 2019.
Web of Science Citations: 0
Abstract

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. (AU)

FAPESP's process: 12/08307-5 - Genetic structure and mating system of local varieties and wild populations of annatto (Bixa orellana L.) in Brazilian Amazonia and Central Brazil using microsatellite markers
Grantee:Elizabeth Ann Veasey
Support type: Regular Research Grants
FAPESP's process: 18/00036-9 - Genomic resources of manioc (Manihot esculenta) for the evolutionary study of cultivated varieties and in the search of important genes for breeding
Grantee:Alessandro Alves Pereira
Support type: Scholarships in Brazil - Post-Doctorate
FAPESP's process: 13/17354-0 - Genomics and conservation genetics of populations of juçara (Euterpe edulis Martius)aiming management
Grantee:Mariana Novello
Support type: Scholarships in Brazil - Doctorate
FAPESP's process: 13/08884-5 - Genetic structure and mating system of annatto (Bixa orellana L.) populations from the Brazilian Amazon and Central Brazil using microsatellite markers
Grantee:Gabriel Dequigiovanni
Support type: Scholarships in Brazil - Doctorate
FAPESP's process: 13/00003-0 - Genetic diversity, genomics and phylogeography of manioc (Manihot esculenta Crantz): implications for the dispersion and diffusion of the crop along the main fluvial axes in Brazilian Amazon Basin
Grantee:Maria Imaculada Zucchi
Support type: Regular Research Grants