ArticlePlant biotechnology journal2023
A near-complete genome assembly of Brassica rapa provides new insights into the evolution of centromeres.
Article in Plant biotechnology journal, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 65 papers.
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65 citing papers in PubMed.
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- Expanding the triangle of U: comparative analysis of the Hirschfeldia incana genome provides insights into chromosomal evolution, phylogenomics and high photosynthesis-related traits.Annals of botany · 2026Article
- T2T reference genome assembly provides insights into anthocyanin accumulation in broccoli.Horticulture research · 2026Article
- Genomic analysis of 3,330 accessions provides insights into the evolutionary history and self-incompatibility locus of the Brassica A genome.Nature genetics · 2026Article
- From gapless pan-genomes to field impact: a functional roadmap for acceleratingHorticulture research · 2026Article
- Dynamic Transcriptomic Networks Underlying Early Bolting in Non-Heading Chinese Cabbage.Plants (Basel, Switzerland) · 2026Article
- Unveiling the genetic diversity and ancestry ofAoB PLANTS · 2026Article
- Centromeric retrotransposons shape chromosomal evolution beyond pericentromeric regions.Mobile DNA · 2026Article
- Genome-Wide Identification of theInternational journal of molecular sciences · 2026Article
- Genome-wide identification and analysis of the cysteine-rich transmembrane module genes in Chinese cabbage (Brassica rapa L. ssp. Pekinensis) and BrCYSTM1 is involved in leaf size development.BMC plant biology · 2026Article
- Phylogenomic profile of exon-intron organization across angiosperms, their relationships with protein domains, and functional implications.Nature communications · 2026Article
- Genome Wide Identification and Characterization ofInternational journal of genomics · 2026Article
- Temporal and genotype-dependent transcriptomic responses to cold treatment and recovery in winter rapeseed (Frontiers in plant science · 2026Article
- Genome-wide characterization of the PPR gene family and its potential roles in stress responses and chloroplast RNA editing inFrontiers in plant science · 2026Article
- Allopolyploidization-driven short-term evolution of miRNAs in Brassica A genome.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Article
- Review
- Pan-centromere landscape and dynamic evolution in Brassica plants.Nature plants · 2025Article
- HHorticulture research · 2025Article
5 more citing papers are in PubMed but not listed here.
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6 authors.
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Abstract
Brassica rapa comprises many important cultivated vegetables and oil crops. However, Chiifu v3.0, the current B. rapa reference genome, still contains hundreds of gaps. Here, we presented a near-complete genome assembly of B. rapa Chiifu v4.0, which was 424.59 Mb with only two gaps, using Oxford Nanopore Technology (ONT) ultralong-read sequencing and Hi-C technologies. The new assembly contains 12 contigs, with a contig N50 of 38.26 Mb. Eight of the ten chromosomes were entirely reconstructed in a single contig from telomere to telomere. We found that the centromeres were mainly invaded by ALE and CRM long terminal repeats (LTRs). Moreover, there is a high divergence of centromere length and sequence among B. rapa genomes. We further found that centromeres are enriched for Copia invaded at 0.14 MYA on average, while pericentromeres are enriched for Gypsy LTRs invaded at 0.51 MYA on average. These results indicated the different invasion mechanisms of LTRs between the two structures. In addition, a novel repetitive sequence PCR630 was identified in the pericentromeres of B. rapa. Overall, the near-complete genome assembly, B. rapa Chiifu v4.0, offers valuable tools for genomic and genetic studies of Brassica species and provides new insights into the evolution of centromeres.
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