ArticleThe Plant cell2013
Reticulate evolution of the rye genome.
Article in The Plant cell, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 96 papers.
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Who cites it
96 citing papers in PubMed.
- Unveiling centromeric retrotransposon dynamics through a high-quality rye genome assembly.Nature communications · 2026Article
- Plastome diversity and phylogenetic insights among modern Egyptian wheat cultivars: Genome-Wide and Gene-Level perspectives.BMC plant biology · 2025Article
- High-resolution genome assembly reveals retrotransposon-mediated centromere dynamics in rye.Genome biology · 2025Article
- Evaluating Genome Assemblies for Optimized Completeness and Accuracy of Reference Gene Sequences in Wheat, Rye, and Triticale.Plants (Basel, Switzerland) · 2025Article
- Past innovations and future possibilities in plant chromosome engineering.Plant biotechnology journal · 2025Review
- Genome-wide identification and expression analysis of the glutathione transferase gene family and its response to abiotic stress in rye (Secale cereale).BMC genomics · 2024Article
- Sexy ways: approaches to studying plant sex chromosomes.Journal of experimental botany · 2024Review
- Unveiling the distinctive traits of functional rye centromeres: minisatellites, retrotransposons, and R-loop formation.Science China. Life sciences · 2024Article
- Genome-wide identification and phylogenetic and expression pattern analyses of EPF/EPFL family genes in the Rye (Secale cereale L.).BMC genomics · 2024Article
- Genome-wide identification of the plant homeodomain-finger family in rye and ScPHD5 functions in cold tolerance and flowering time.Plant cell reports · 2024Article
- Are cereal grasses a single genetic system?Nature plants · 2024Article
- Frequent variations and phylogenetic relationships within the genusFrontiers in plant science · 2024Article
- Two functional CC-NBS-LRR proteins from rye chromosome 6RS confer differential age-related powdery mildew resistance to wheat.Plant biotechnology journal · 2024Article
- Chromosome genomics facilitates the marker development and selection of wheat-Aegilops biuncialis addition, substitution and translocation lines.Scientific reports · 2023Article
- TheCells · 2023Review
- Genome-wide identification, phylogenetic and expression pattern analysis of HSF family genes in the Rye (Secale cereale L.).BMC plant biology · 2023Article
- The Progression in Developing Genomic Resources for Crop Improvement.Life (Basel, Switzerland) · 2023Review
- Single-gene FISH maps and major chromosomal rearrangements in Elymus sibiricus and E. nutans.BMC plant biology · 2023Article
- Genetic Redundancy in Rye Shows in a Variety of Ways.Plants (Basel, Switzerland) · 2023Review
- Novel Tetraploid Triticale (Einkorn Wheat × Rye)-A Source of Stem Rust Resistance.Plants (Basel, Switzerland) · 2023Article
36 more citing papers are in PubMed but not listed here.
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Authors and funding
16 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Rye (Secale cereale) is closely related to wheat (Triticum aestivum) and barley (Hordeum vulgare). Due to its large genome (~8 Gb) and its regional importance, genome analysis of rye has lagged behind other cereals. Here, we established a virtual linear gene order model (genome zipper) comprising 22,426 or 72% of the detected set of 31,008 rye genes. This was achieved by high-throughput transcript mapping, chromosome survey sequencing, and integration of conserved synteny information of three sequenced model grass genomes (Brachypodium distachyon, rice [Oryza sativa], and sorghum [Sorghum bicolor]). This enabled a genome-wide high-density comparative analysis of rye/barley/model grass genome synteny. Seventeen conserved syntenic linkage blocks making up the rye and barley genomes were defined in comparison to model grass genomes. Six major translocations shaped the modern rye genome in comparison to a putative Triticeae ancestral genome. Strikingly dissimilar conserved syntenic gene content, gene sequence diversity signatures, and phylogenetic networks were found for individual rye syntenic blocks. This indicates that introgressive hybridizations (diploid or polyploidy hybrid speciation) and/or a series of whole-genome or chromosome duplications played a role in rye speciation and genome evolution.
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