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<p>Coffee is one of the most widely consumed beverages globally, and <i>Coffea canephora</i> has become increasingly relevant for breeding programs due to its resilience to heat and other stresses. This species includes two commercially cultivated botanical varieties, Conilon and Robusta, which exhibit complementary traits and represent a valuable genetic resource. The germplasm collection maintained at the Brazilian institutions serve as an important source of <i>C. canephora</i> genetic diversity. In this study, we genotyped 387 <i>C. canephora</i> genotypes using over 42,000 SNP markers and combined this molecular information with field data to support breeding strategies focused on mate allocation and hybrid development. Population structure analyses revealed three major genetic clusters, largely aligned with the Conilon and Robusta botanical varieties. Predicted outcomes of selected crosses revealed high levels of heterozygosity and allelic complementarity in the offspring. Genetic parameter estimates showed that non-additive effects accounted for more than 40% of the total variance in yield-related traits. By integrating genomic information, we reduced the number of hybridizations to be performed by 99,63%, prioritizing combinations with higher genetic complementarity and better field traits. These findings demonstrate the efficiency gains obtained through the integration of genomic data into traditional selection strategies, offering a targeted and promising path for developing climate-resilient <i>C. canephora</i> cultivars tailored to growers’ and market demands.</p>

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Genomic-assisted selection to guide mate allocation and leverage hybrid vigor in Coffea canephora

  • 期刊论文

  • 发表日期：

    2025年6月30日

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  • Rodrigo Barros Rocha,
  • Matheus Massariol Suela,
  • Marcone Comério,
  • Elaine M. Riva Souza,
  • João Felipe Brites Senra,
  • Maria Amélia G. Ferrão,
  • Romário G. Ferrão,
  • Aymbiré F. Almeida da Fonseca,
  • Abraão Carlos Verdin Filho,
  • Paulo Sérgio Volpi,
  • Luis Felipe V. Ferrão

摘要

Coffee is one of the most widely consumed beverages globally, and Coffea canephora has become increasingly relevant for breeding programs due to its resilience to heat and other stresses. This species includes two commercially cultivated botanical varieties, Conilon and Robusta, which exhibit complementary traits and represent a valuable genetic resource. The germplasm collection maintained at the Brazilian institutions serve as an important source of C. canephora genetic diversity. In this study, we genotyped 387 C. canephora genotypes using over 42,000 SNP markers and combined this molecular information with field data to support breeding strategies focused on mate allocation and hybrid development. Population structure analyses revealed three major genetic clusters, largely aligned with the Conilon and Robusta botanical varieties. Predicted outcomes of selected crosses revealed high levels of heterozygosity and allelic complementarity in the offspring. Genetic parameter estimates showed that non-additive effects accounted for more than 40% of the total variance in yield-related traits. By integrating genomic information, we reduced the number of hybridizations to be performed by 99,63%, prioritizing combinations with higher genetic complementarity and better field traits. These findings demonstrate the efficiency gains obtained through the integration of genomic data into traditional selection strategies, offering a targeted and promising path for developing climate-resilient C. canephora cultivars tailored to growers’ and market demands.