ArticleDNA research : an international journal for rapid publication of reports on genes and genomes2023
Telomere-to-telomere genome assembly of an allotetraploid pernicious weed, Echinochloa phyllopogon.
Article in DNA research : an international journal for rapid publication of reports on genes and genomes, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
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Who cites it
9 citing papers in PubMed.
- Catalytic Promiscuity Underpins Metabolic Resistance to Auxinic Herbicides inJournal of agricultural and food chemistry · 2026Article
- Genome analysis of Channel millet reveals a wild dodecaploid shaped by environmental variability.Nature communications · 2026Article
- The impact of telomere-to-telomere genome assembly in the plant pan-genomics era.Breeding science · 2025Article
- Near-complete telomere-to-telomere de novo genome assembly in Egyptian clover (Trifolium alexandrinum).DNA research : an international journal for rapid publication of reports on genes and genomes · 2024Article
- Near-complete genome assembly of tomato (Plant biotechnology (Tokyo, Japan) · 2024Article
- Survey ofPhysiology and molecular biology of plants : an international journal of functional plant biology · 2024Article
- Exploring the complexity of genome size reduction in angiosperms.Plant molecular biology · 2024Review
- Optimizing Peanut (Plants (Basel, Switzerland) · 2024Review
- Current status of community resources and priorities for weed genomics research.Genome biology · 2024Review
Corrections and comments
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Authors and funding
7 authors.
Funding
Abstract
Echinochloa phyllopogon is an allotetraploid pernicious weed species found in rice fields worldwide that often exhibit resistance to multiple herbicides. An accurate genome sequence is essential to comprehensively understand the genetic basis underlying the traits of this species. Here, the telomere-to-telomere genome sequence of E. phyllopogon was presented. Eighteen chromosome sequences spanning 1.0 Gb were constructed using the PacBio highly fidelity long technology. Of the 18 chromosomes, 12 sequences were entirely assembled into telomere-to-telomere and gap-free contigs, whereas the remaining six sequences were constructed at the chromosomal level with only eight gaps. The sequences were assigned to the A and B genome with total lengths of 453 and 520 Mb, respectively. Repetitive sequences occupied 42.93% of the A genome and 48.47% of the B genome, although 32,337, and 30,889 high-confidence genes were predicted in the A and B genomes, respectively. This suggested that genome extensions and gene disruptions caused by repeated sequence accumulation often occur in the B genome before polyploidization to establish a tetraploid genome. The highly accurate and comprehensive genome sequence could be a milestone in understanding the molecular mechanisms of the pernicious traits and in developing effective weed control strategies to avoid yield loss in rice production.
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