Evolution of origin sequence and recognition for licensing of Eukaryotic DNA replication
Data files
Feb 10, 2026 version files 33.37 MB
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30min_S4_trm_matAfinal.sorted.bw
1.90 MB
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45min_S5_trm_matAfinal.sorted.bw
1.92 MB
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45min_S6_trm_matAfinal.sorted.bw
2.28 MB
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72-45-eh-5_S3_trm_matAfinal.sorted.bw
2.27 MB
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9-30min-eh5_S3_trm_matAfinal.sorted.bw
2.47 MB
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README.md
3.35 KB
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S03_S3_trm_matAfinal.sorted-new45eh.bw
1.45 MB
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S04_S4_trm_matAfinal.sorted-new60eh.bw
1.94 MB
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S04_S4_trm_matAfinal.sorted.bw
2.19 MB
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S06_S6_trm_matAfinal.sorted.bw
2.27 MB
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S07_S7_trm_matAfinal.sorted-45minold.bw
1.96 MB
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S07_S7_trm_matAfinal.sorted-90eh.bw
2.15 MB
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S08_S8_trm_matAfinal.sorted-new90eh.bw
2.08 MB
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S09_S9_trm_matAfinal.sorted-75min.bw
2.07 MB
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S11_S11_trm_matAfinal.sorted-new180-642peakcount.bw
2.16 MB
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S12_S12_trm_matAfinal.sorted-new210.bw
2.19 MB
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S14_S14_trm_matAfinal.sorted-120min-old.bw
2.05 MB
Abstract
The large size of eukaryotic chromosomes necessitates that the initiation of DNA replication occurs at numerous origins of DNA replication. In S. cerevisiae, origins are highly DNA sequence-specific and are recognized by the Origin Recognition Complex (ORC). In contrast, most eukaryotes have lost features in ORC subunits that contribute to DNA sequence-specific recognition, raising the question of how origins are identified. An analysis of origins in the genome of the distantly related budding yeast Yarrowia lipolytica identified considerable variability in origin sequence and structure. High-resolution structures demonstrate that Y. lipolytica origins are recognized by a combination of ORC and Cdc6 in a manner different from S. cerevisiae. The structure of Yarrowia ORC-Cdc6 bound to different origins shows considerable plasticity in protein-DNA interactions. We compare these yeast structures to the structure of human ORC-CDC6 bound to DNA. These studies reveal information on the evolution of origins and origin recognition.
Dataset DOI: 10.5061/dryad.qnk98sfxb
Description of the data and file structure
Yarrowia lipolytica cells were released from stationary phase and were labeled constantly with EDU for the indicated minutes with or without hydroxyurea, the DNA was isolated and libraries prepared and sequenced.
Files and variables
File: 9-30min-eh5_S3_trm_matAfinal.sorted.bw
Description: Coverage track of EdU labeling with hydroxyurea for 30 minutes aligned to Y. lipolytica strain E122.
File: 30min_S4_trm_matAfinal.sorted.bw
Description: Coverage track of EdU labeling with hydroxyurea for 30 minutes aligned to Y. lipolytica strain E122.
File: S03_S3_trm_matAfinal.sorted-new45eh.bw
Description: Coverage track of EdU labeling with hydroxyurea for 45 minutes aligned to Y. lipolytica strain E122.
File: 72-45-eh-5_S3_trm_matAfinal.sorted.bw
Description: Coverage track of EdU labeling with hydroxyurea for 45 minutes aligned to Y. lipolytica strain E122.
File: S04_S4_trm_matAfinal.sorted-new60eh.bw
Description: Coverage track of EdU labeling with hydroxyurea for 60 minutes aligned to Y. lipolytica strain E122.
File: S07_S7_trm_matAfinal.sorted-45minold.bw
Description: Coverage track of EdU labeling with hydroxyurea for 45 minutes aligned to Y. lipolytica strain E122.
File: S07_S7_trm_matAfinal.sorted-90eh.bw
Description: Coverage track of EdU labeling with hydroxyurea for 90 minutes aligned to Y. lipolytica strain E122.
File: S09_S9_trm_matAfinal.sorted-75min.bw
Description: Coverage track of EdU labeling with hydroxyurea for 75 minutes aligned to Y. lipolytica strain E122.
File: S11_S11_trm_matAfinal.sorted-new180-642peakcount.bw
Description: Coverage track of EdU labeling with hydroxyurea for 180 minutes aligned to Y. lipolytica strain E122.
File: S14_S14_trm_matAfinal.sorted-120min-old.bw
Description: Coverage track of EdU labeling with hydroxyurea for 120 minutes aligned to Y. lipolytica strain E122.
File: 45min_S5_trm_matAfinal.sorted.bw
Description: Coverage track of EdU labeling without hydroxyurea for 45 minutes aligned to Y. lipolytica strain E122.
File: S06_S6_trm_matAfinal.sorted.bw
Description: Coverage track of EdU labeling without hydroxyurea for 60 minutes aligned to Y. lipolytica strain E122.
File: S08_S8_trm_matAfinal.sorted-new90eh.bw
Description: Coverage track of EdU labeling with hydroxyurea for 90 minutes aligned to Y. lipolytica strain E122.
File: 45min_S6_trm_matAfinal.sorted.bw
Description: Coverage track of EdU labeling without hydroxyurea for 45 minutes aligned to Y. lipolytica strain E122.
File: S12_S12_trm_matAfinal.sorted-new210.bw
Description: Coverage track of EdU labeling with hydroxyurea for 210 minutes aligned to Y. lipolytica strain E122.
File: S04_S4_trm_matAfinal.sorted.bw
Description: Coverage track of EdU labeling without hydroxyurea for 60 minutes aligned to Y. lipolytica strain E122.
Code/software
All coverage tracks can be opened with a genome browser using Y. lipolytica strain E122 as reference genome.