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Molecular diversity and genetic structure of Saccharum complex accessions

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  • Carolina Medeiros
  • Thiago Willian Almeida Balsalobre
  • Monalisa Sampaio Carneiro

Abstract

Sugarcane is an important crop for food and energy security, providing sucrose and bioethanol from sugar content and bioelectricity from lignocellulosic bagasse. In order to evaluate the diversity and genetic structure of the Brazilian Panel of Sugarcane Genotypes (BPSG), a core collection composed by 254 accessions of the Saccharum complex, eight TRAP markers anchored in sucrose and lignin metabolism genes were evaluated. A total of 584 polymorphic fragments were identified and used to investigate the genetic structure of BPSG through analysis of molecular variance (AMOVA), principal components analysis (PCA), a Bayesian method using STRUCTURE software, genetic dissimilarity and phylogenetic tree. AMOVA showed a moderate genetic differentiation between ancestors and improved accessions, 0.14, and the molecular variance was higher within populations than among populations, with values of 86%, 95% and 97% when constrasting improved with ancestors, foreign with ancestors and improved with foreign, respectively. The PCA approach suggests clustering in according with evolutionary and Brazilian breeding sugarcane history, since improved accessions from older generations were positioned closer to ancestors than improved accessions from recent generations. This result was also confirmed by STRUCTURE analysis and phylogenetic tree. The Bayesian method was able to separate ancestors of the improved accessions while the phylogenetic tree showed clusters considering the family relatedness within three major clades; the first being composed mainly by ancestors and the other two mainly by improved accessions. This work can contribute to better management of the crosses considering functional regions of the sugarcane genome.

Suggested Citation

  • Carolina Medeiros & Thiago Willian Almeida Balsalobre & Monalisa Sampaio Carneiro, 2020. "Molecular diversity and genetic structure of Saccharum complex accessions," PLOS ONE, Public Library of Science, vol. 15(5), pages 1-17, May.
    • Handle: RePEc:plo:pone00:0233211
    DOI: 10.1371/journal.pone.0233211
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    References listed on IDEAS

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    1. Lê, Sébastien & Josse, Julie & Husson, François, 2008. "FactoMineR: An R Package for Multivariate Analysis," Journal of Statistical Software, Foundation for Open Access Statistics, vol. 25(i01).
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    1. João de Andrade Dutra Filho & Tercilio Calsa Júnior & Djalma Euzébio Simões Neto & Lauter Silva Souto & Anielson dos Santos Souza & Rômulo Gil de Luna & Frank Gomes-Silva & Guilherme Rocha Moreira & M, 2021. "Genetic divergence for adaptability and stability in sugarcane: Proposal for a more accurate evaluation," PLOS ONE, Public Library of Science, vol. 16(7), pages 1-18, July.
    2. Fernanda Zatti Barreto & Thiago Willian Almeida Balsalobre & Roberto Giacomini Chapola & Antonio Augusto Franco Garcia & Anete Pereira Souza & Hermann Paulo Hoffmann & Rodrigo Gazaffi & Monalisa Sampa, 2021. "Genetic Variability, Correlation among Agronomic Traits, and Genetic Progress in a Sugarcane Diversity Panel," Agriculture, MDPI, vol. 11(6), pages 1-15, June.

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