ArticleGenome biology and evolution2017
Analysis of Three Sugarcane Homo/Homeologous Regions Suggests Independent Polyploidization Events of Saccharum officinarum and Saccharum spontaneum.
Article in Genome biology and evolution, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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21 citing papers in PubMed.
- Genetic Variation and Phylogenetic Analysis of Indonesian Sugarcane (Tropical life sciences research · 2026Article
- Insights of cellular and molecular changes in sugarcane response to oxidative signaling.BMC plant biology · 2025Article
- Article
- Bioinformatic insights into sugar signaling pathways in sugarcane growth.Scientific reports · 2024Article
- Article
- The Complete Mitochondrial Genome ofGenes · 2024Article
- Haplotype variations of sucrose phosphate synthase B gene among sugarcane accessions with different sucrose content.BMC genomics · 2023Article
- Allele expression biases in mixed-ploid sugarcane accessions.Scientific reports · 2022Article
- Limited allele-specific gene expression in highly polyploid sugarcane.Genome research · 2022Article
- Plant protein-coding gene families: Their origin and evolution.Frontiers in plant science · 2022Review
- Three founding ancestral genomes involved in the origin of sugarcane.Annals of botany · 2021Article
- Plant Proteomics and Systems Biology.Advances in experimental medicine and biology · 2021Article
- Applying Molecular Phenotyping Tools to Explore Sugarcane Carbon Potential.Frontiers in plant science · 2021Review
- Assembly of the 373k gene space of the polyploid sugarcane genome reveals reservoirs of functional diversity in the world's leading biomass crop.GigaScience · 2019Article
- Sugarcane Omics: An Update on the Current Status of Research and Crop Improvement.Plants (Basel, Switzerland) · 2019Review
- Gene duplication and genetic innovation in cereal genomes.Genome research · 2019Article
- Gene Duplication in the Sugarcane Genome: A Case Study of Allele Interactions and Evolutionary Patterns in Two Genic Regions.Frontiers in plant science · 2019Article
- A mosaic monoploid reference sequence for the highly complex genome of sugarcane.Nature communications · 2018Article
- Comparative Analysis of Homologous Sequences ofFrontiers in plant science · 2018Article
- "Targeted Sequencing by Gene Synteny," a New Strategy for Polyploid Species: Sequencing and Physical Structure of a Complex Sugarcane Region.Frontiers in plant science · 2018Article
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13 authors.
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Abstract
Whole genome duplication has played an important role in plant evolution and diversification. Sugarcane is an important crop with a complex hybrid polyploid genome, for which the process of adaptation to polyploidy is still poorly understood. In order to improve our knowledge about sugarcane genome evolution and the homo/homeologous gene expression balance, we sequenced and analyzed 27 BACs (Bacterial Artificial Chromosome) of sugarcane R570 cultivar, containing the putative single-copy genes LFY (seven haplotypes), PHYC (four haplotypes), and TOR (seven haplotypes). Comparative genomic approaches showed that these sugarcane loci presented a high degree of conservation of gene content and collinearity (synteny) with sorghum and rice orthologous regions, but were invaded by transposable elements (TE). All the homo/homeologous haplotypes of LFY, PHYC, and TOR are likely to be functional, because they are all under purifying selection (dN/dS ≪ 1). However, they were found to participate in a nonequivalently manner to the overall expression of the corresponding gene. SNPs, indels, and amino acid substitutions allowed inferring the S. officinarum or S. spontaneum origin of the TOR haplotypes, which further led to the estimation that these two sugarcane ancestral species diverged between 2.5 and 3.5 Ma. In addition, analysis of shared TE insertions in TOR haplotypes suggested that two autopolyploidization may have occurred in the lineage that gave rise to S. officinarum, after its divergence from S. spontaneum.
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