High-throughput targeted genotyping using next-generation sequencing applied in Coffea canephora breeding.

The use of molecular markers to detect polymorphism at DNA level is one of the most significant developments in molecular biology techniques. With the development of new next-generation sequencing technologies, the discovery of SNP became easier and faster, and the costs of data point were reduced. The development and use of SNP markers for coffee have provided new perspectives for the evaluation of genetic diversity and population structure via different statistical approaches. In this study, 72 Coffea canephora genotypes were analyzed to identify the SNP markers and apply them to genetic studies and selection of parents/hybrids in genetic breeding. As many as 117,450 SNP were identified using the RAPiD Genomics platform. After quality analyses, 33,485 SNP were validated for analyses of genetic diversity and population structure. Genotypes were separated based on their varietal groups, and Hybrids were differentiated using the clustering and Bayesian approach. Coffee accessions mistakenly identified in the germplasm and breeding program were detected. The Conilon varietal group presented the lowest genetic dissimilarity values, suggesting the introduction of new accessions in the germplasm bank. The highest genetic distances values were observed among genotypes of the heterotic groups (Conilon and Robusta). The markers were efficient in evaluating the genetic diversity and population structure of C. canephora. Promising crosses were selected within and between the varietal groups. Hybrids with greater genetic distances were selected, which were important for C. canephora breeding programs.

Bibliographic Details

Main Authors:	ALKIMIM, E. R., CAIXETA, E. T., SOUSA, T. V., SILVA, F. L. da, SAKYAMA, N. S., ZAMBOLIM, L.
Other Authors:	EMILLY RUAS ALKIMIM, UNIVERSIDADE FEDERAL DE VIÇOSA; EVELINE TEIXEIRA CAIXETA MOURA, CNPCa; TIAGO VIEIRA SOUSA, UNIVERSIDADE FEDERAL DE VIÇOSA; FELIPE LOPES DA SILVA, UNIVERSIDADE FEDERAL DE VIÇOSA; NEY SUSSUMU SAKIYAMA, UNIVERSIDADE FEDERAL DE VIÇOSA; LAÉRCIO ZAMBOLIM, UNIVERSIDADE FEDERAL DE VIÇOSA.
Format:	Artigo de periódico biblioteca
Language:	Ingles English
Published:	2020-09-25
Subjects:	Polymorphism, Population structure, Hybrids,
Online Access:	http://www.alice.cnptia.embrapa.br/alice/handle/doc/1125108 https://doi.org/10.1007/s10681-018-2126-2
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