ArticleBMC genomics2018
Diversity and evolution of the repetitive genomic content in Cannabis sativa.
Article in BMC genomics, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed, 41 citations in OpenAlex.
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- Development and validation of a minimal SNP genotyping panel for the differentiation of Cannabis sativa cultivars.BMC genomics · 2025Article
- Contrasting pattern of subtelomeric satellites in the Cannabaceae family.Frontiers in plant science · 2025Article
- Whole-genome sequencing of marine water-derivedFrontiers in microbiology · 2024Article
- An improved assembly of the "Cascade" hop (Horticulture research · 2023Article
- Novel Insights into the Nature of Intraspecific Genome Size Diversity inPlants (Basel, Switzerland) · 2022Article
- Multi-Omics Approaches to Study Molecular Mechanisms inPlants (Basel, Switzerland) · 2022Review
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- Origin and Evolution of the Cannabinoid Oxidocyclase Gene Family.Genome biology and evolution · 2021Article
- Recent advances in Cannabis sativa genomics research.The New phytologist · 2021Review
- A draft phased assembly of the diploid Cascade hop (Humulus lupulus) genome.The plant genome · 2021Article
- Comparative Genetic Structure ofFrontiers in plant science · 2021Article
- Genomic Evidence That Governmentally ProducedFrontiers in plant science · 2021Article
- Can public online databases serve as a source of phenotypic information for Cannabis genetic association studies?PloS one · 2021Article
- Gene clustering and copy number variation in alkaloid metabolic pathways of opium poppy.Nature communications · 2020Article
- Gene copy number is associated with phytochemistry inAoB PLANTS · 2019Article
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- A physical and genetic map ofGenome research · 2019Article
Corrections and comments
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Authors and funding
3 authors at 2 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundThe repetitive content of the genome, once considered to be "junk DNA", is in fact an essential component of genomic architecture and evolution. In this study, we used the genomes of three varieties of Cannabis sativa, three varieties of Humulus lupulus and one genotype of Morus notabilis to explore their repetitive content using a graph-based clustering method, designed to explore and compare repeat content in genomes that have not been fully assembled.
resultsThe repetitive content in the C. sativa genome is mainly composed of the retrotransposons LTR/Copia and LTR/Gypsy (14% and 14.8%, respectively), ribosomal DNA (2%), and low-complexity sequences (29%). We observed a recent copy number expansion in some transposable element families. Simple repeats and low complexity regions of the genome show higher intra and inter species variation.
conclusionsAs with other sequenced genomes, the repetitive content of C. sativa's genome exhibits a wide range of evolutionary patterns. Some repeat types have patterns of diversity consistent with expansions followed by losses in copy number, while others may have expanded more slowly and reached a steady state. Still, other repetitive sequences, particularly ribosomal DNA (rDNA), show signs of concerted evolution playing a major role in homogenizing sequence variation.
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