ArticleNucleic acids research2015
Accurate identification of centromere locations in yeast genomes using Hi-C.
Article in Nucleic acids research, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 44 papers.
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Who cites it
44 citing papers in PubMed.
- Enhancing microbial metabolic capacity through high-energy electron beam-induced intense structural variations.Nature communications · 2026Article
- Centromeric Sequences in Ogataea polymorpha Genome Enable Development of Stable Multigene Expression Plasmid Tools.Microbial biotechnology · 2025Article
- RepeatOBserver: Tandem Repeat Visualisation and Putative Centromere Detection.Molecular ecology resources · 2025Article
- Long-read genomics reveal extensive nuclear-specific evolution and allele-specific expression in a dikaryotic fungus.Genome research · 2025Article
- Evolutionary genomics reveals variation in structure and genetic content implicated in virulence and lifestyle in the genus Gaeumannomyces.BMC genomics · 2025Article
- Genome wide nucleosome landscape shapes 3D chromatin organization.Science advances · 2024Article
- Chromosome-scale assembly of the streamlined picoeukaryoteMicrobial genomics · 2024Article
- Article
- Conserved chromatin and repetitive patterns reveal slow genome evolution in frogs.Nature communications · 2024Article
- The soil-borne white root rot pathogen Rosellinia necatrix expresses antimicrobial proteins during host colonization.PLoS pathogens · 2024Article
- Hi-C, a chromatin 3D structure technique advancing the functional genomics of immune cells.Frontiers in genetics · 2024Review
- Meiosis in an asymmetric dikaryotic genome of Tremella fuciformis Tr01 facilitates new chromosome formation.Genome biology · 2023Review
- Telomere-to-Telomere genome assemblies of human-infecting Encephalitozoon species.BMC genomics · 2023Article
- A Genetic Engineering Toolbox for the Lignocellulolytic Anaerobic Gut FungusACS synthetic biology · 2023Article
- The genome of the oomycete Peronosclerospora sorghi, a cosmopolitan pathogen of maize and sorghum, is inflated with dispersed pseudogenes.G3 (Bethesda, Md.) · 2023Article
- Unique gene duplications and conserved microsynteny potentially associated with resistance to wood decay in the Lauraceae.Frontiers in plant science · 2023Article
- Telomere-to-telomere and haplotype-resolved genome assembly of the Chinese cork oak (Frontiers in plant science · 2023Article
- Gapless genome assembly of azalea and multi-omics investigation into divergence between two species with distinct flower color.Horticulture research · 2023Article
- Folding Features and Dynamics of 3D Genome Architecture in Plant Fungal Pathogens.Microbiology spectrum · 2022Article
- Three-Dimensional Genome Map of the Filamentous FungusMicrobiology spectrum · 2022Article
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Authors and funding
8 authors.
Funding
Abstract
Centromeres are essential for proper chromosome segregation. Despite extensive research, centromere locations in yeast genomes remain difficult to infer, and in most species they are still unknown. Recently, the chromatin conformation capture assay, Hi-C, has been re-purposed for diverse applications, including de novo genome assembly, deconvolution of metagenomic samples and inference of centromere locations. We describe a method, Centurion, that jointly infers the locations of all centromeres in a single genome from Hi-C data by exploiting the centromeres' tendency to cluster in three-dimensional space. We first demonstrate the accuracy of Centurion in identifying known centromere locations from high coverage Hi-C data of budding yeast and a human malaria parasite. We then use Centurion to infer centromere locations in 14 yeast species. Across all microbes that we consider, Centurion predicts 89% of centromeres within 5 kb of their known locations. We also demonstrate the robustness of the approach in datasets with low sequencing depth. Finally, we predict centromere coordinates for six yeast species that currently lack centromere annotations. These results show that Centurion can be used for centromere identification for diverse species of yeast and possibly other microorganisms.
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