Exogenous artificial DNA forms chromatin structure with active transcription in yeast
Open accessAbstract
Yeast artificial chromosomes (YACs) are important tools for sequencing, gene cloning, and transferring large quantities of genetic information. However, the structure and activity of YAC chromatin, as well as the unintended impacts of introducing foreign DNA sequences on DNA-associated biochemical events, have not been widely explored. Here, we showed that abundant genetic elements like TATA box and transcription factor-binding motifs occurred unintentionally in a previously reported data-carrying chromosome (dChr). In addition, we used state-of-the-art sequencing technologies to comprehensively profile the genetic, epigenetic, transcriptional, and proteomic characteristics of the exogenous dChr. We found that the data-carrying DNA formed active chromatin with high chromatin accessibility and H3K4 tri-methylation levels. The dChr also displayed highly pervasive transcriptional ability and transcribed hundreds of noncoding RNAs. The results demonstrated that exogenous artificial chromosomes formed chromatin structures and did not remain as naked or loose plasmids. A better understanding of the YAC chromatin nature will improve our ability to design better data-storage chromosomes.
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The high fidelity of dChr replication could be achieved due to its chromatin-like structure formed in vivo.
“The high fidelity of dChr replication could be achieved due to its chromatin-like structure formed in vivo [70].”
From DNA Data Storage. (2023) · cites this paper as [70]
The Introduction reports stable dChr replication and no mutations in tested samples after 100 generations. The chromatin-results section reports that dChr formed chromatin with histones in vivo. The paper does not attribute replication fidelity to that chromatin structure; its Introduction instead suggests that the dChr’s Rabl configuration may contribute to self-replication. (LLM, conf=0.84)
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“The high fidelity of dChr replication could be achieved due to its chromatin-like structure formed in vivo [70].”
Background
- Authors
- Zhou, J., Zhang, C., Wei, R., Han, M., Wang, S., Yang, K., Zhang, L., Chen, W., Wen, M., Li, C., Tao, W., & Yuan, Y.-J.
- Affiliations
- Tianjin University (CN)
- Peking University (CN)
- Dalian Institute of Chemical Physics (CN)
- Corresponding author
- Tao, Wei
- Yuan, Ying-Jin
- ORCID
- Venue
- Science China Life Sciences
- Published
- 2021-12-27
- Volume
- 65
- Issue
- 5
- Pages
- 851-860
- ISSN
- 1674-7305 (ISSN-L)
- 1869-1889
- OpenAlex
- W4205424159
- Cited by
- 24
- References
- 55
- Citations by year
- 2026: 7 · 2025: 1 · 2024: 5 · 2023: 3 · 2022: 8
- FWCI
- 1.26
- Type
- journal article
- Language
- en
- Open access
- hybrid
- doi.org
- Locations
- Science China Life Sciences (publishedVersion, cc-by)
- PubMed (publishedVersion)
- Funders
- National Key Research and Development Program of China (2121YFA0909300)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Fungal and yeast genetics research
- Life Sciences › Agricultural and Biological Sciences › Plant Science › Chromosomal and Genetic Variations
- Keywords
- yeast artificial chromosomes, artificial DNA, chromatin structure, chromatin accessibility, H3K4 trimethylation, pervasive transcription, non-coding RNA, epigenetic profiling, transcription factor binding motifs, TATA box
- MeSH terms
- Chromatin, DNA, Saccharomyces cerevisiae, Chromosomes, Artificial, Yeast, Proteomics
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