ArticleHorticulture research2023
quarTeT: a telomere-to-telomere toolkit for gap-free genome assembly and centromeric repeat identification.
Article in Horticulture research, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 263 papers.
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263 citing papers in PubMed.
- The heterozygous pineapple genome demonstrates the importance of haplotype-resolved plant genomes.Horticulture research · 2026Article
- Near telomere-to-telomere genome assembly enables the discovery of introgressed purple-leaf geneHorticulture research · 2026Article
- Chromosome-scale genomes and population resequencing resolve subgenome diversity and halophyte adaptation in Salicornia.Nature communications · 2026Article
- A Chromosome-Level Genome Assembly of the Potato Leafhopper Empoasca fabae (Hemiptera: Cicadellidae).Genome biology and evolution · 2026Article
- De Novo Genome Sequence Assembly of the Algal Endosymbiont Micractinium conductrix Derived From Its Host Paramecium bursaria 186b.Genome biology and evolution · 2026Article
- Long-read, high-coverage reference genome of the nymphalid butterfly Catonephele acontius (Nymphalidae: Biblidinae).G3 (Bethesda, Md.) · 2026Article
- A high-quality haplotype-resolved genome of Pyrus calleryana provides insights into adaptive gene families.The plant genome · 2026Article
- Telomere-to-telomere genome ofHorticulture research · 2026Article
- Characterization of a draft chromosome-scale genome assembly for the mutton snapper, Lutjanus analis.Genes & genomics · 2026Article
- Article
- Disruption of mitonuclear coadaptation and compensatory evolution after an extreme dietary shift in carnivorous butterflies.Molecular biology and evolution · 2026Article
- Complete telomere-to-telomere genome assembly of Guazuma ulmifolia uncovers evolutionary mechanisms, drought adaptation, and flavonoid biosynthesis.Plant cell reports · 2026Article
- First chromosome scale genome of Acrocomia aculeata.Scientific data · 2026Article
- A gap-free, telomere-to-telomere chromosome-scale genome assembly of the mangrove red snapper, Lutjanus argentimaculatus.Scientific data · 2026Article
- Near telomere-to-telomere genome assembly of the rainbow trout (Oncorhynchus mykiss).Scientific data · 2026Article
- Comparative genomics and time-course transcriptomics uncover homoeologous exchange events reshaping glucosinolate metabolism in Brassica napus.Molecular horticulture · 2026Article
- The telomere-to-telomere genome and comparative analysis from algae to higher plants reveal origin and evolution of biosynthesis of chlorogenic acid pathway and production in ramie (Horticulture research · 2026Article
- Two telomere-to-telomere Nelumbo genome assemblies reveal domestication history and empower precision breeding.Nature communications · 2026Article
- Assembly and annotation of the 'Golden Delicious' Doubled-Haploid GDDH18 apple genome.G3 (Bethesda, Md.) · 2026Article
- EasyCen: A Lightweight Framework for Centromere Localisation and Repeat-Organisation Profiling in Telomere-to-Telomere Genomes.Molecular ecology resources · 2026Article
203 more citing papers are in PubMed but not listed here.
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15 authors.
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Abstract
A high-quality genome is the basis for studies on functional, evolutionary, and comparative genomics. The majority of attention has been paid to the solution of complex chromosome structures and highly repetitive sequences, along with the emergence of a new 'telomere-to-telomere (T2T) assembly' era. However, the bioinformatic tools for the automatic construction and/or characterization of T2T genome are limited. Here, we developed a user-friendly web toolkit, quarTeT, which currently includes four modules: AssemblyMapper, GapFiller, TeloExplorer, and CentroMiner. First, AssemblyMapper is designed to assemble phased contigs into the chromosome-level genome by referring to a closely related genome. Then, GapFiller would endeavor to fill all unclosed gaps in a given genome with the aid of additional ultra-long sequences. Finally, TeloExplorer and CentroMiner are applied to identify candidate telomere and centromere as well as their localizations on each chromosome. These four modules can be used alone or in combination with each other for T2T genome assembly and characterization. As a case study, by adopting the entire modular functions of quarTeT, we have achieved the
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