Chromatin Fibers Are Formed by Heterogeneous Groups of Nucleosomes In Vivo
Open accessAbstract
Nucleosomes help structure chromosomes by compacting DNA into fibers. To gain insight into how nucleosomes are arranged in vivo, we combined quantitative super-resolution nanoscopy with computer simulations to visualize and count nucleosomes along the chromatin fiber in single nuclei. Nucleosomes assembled in heterogeneous groups of varying sizes, here termed "clutches," and these were interspersed with nucleosome-depleted regions. The median number of nucleosomes inside clutches and their compaction defined as nucleosome density were cell-type-specific. Ground-state pluripotent stem cells had, on average, less dense clutches containing fewer nucleosomes and clutch size strongly correlated with the pluripotency potential of induced pluripotent stem cells. RNA polymerase II preferentially associated with the smallest clutches while linker histone H1 and heterochromatin were enriched in the largest ones. Our results reveal how the chromatin fiber is formed at nanoscale level and link chromatin fiber architecture to stem cell state.
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
STORM's ability to provide detailed rendering of chromatin fiber structure makes it ideal to investigate changes in heterochromatin distribution within senescent nuclei, such as loss of lamin-associated domains.
“The ability of STORM to provide a detailed rendering of the structure of chromatin fibers37 makes it ideal to investigate changes in heterochromatin distribution within senescent nuclei, such as the loss of lamin-associated domains38, which has been primarily investigated via electron microscopy techniques39.”
From Spatial mapping of cellular senescence: emerging challenges and opportunities (2023) · cites this paper as [37]
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
The citation lists haven’t been fetched yet
References 52 · Cited by 736
Part of this paper’s reference list could not be split into single entries.
- Authors
- Ricci, M. A., Manzo, C., García-Parajo, M. F., Lakadamyali, M., & Cosma, M. P.
- Affiliations
- Universitat Pompeu Fabra (ES)
- Institute of Photonic Sciences (ES)
- Institució Catalana de Recerca i Estudis Avançats (ES)
- Corresponding author
- Lakadamyali, Melike
- Cosma, Maria Pia
- Venue
- Cell
- Publisher
- Elsevier BV
- Published
- 2015-03
- Volume
- 160
- Issue
- 6
- Pages
- 1145-1158
- ISSN
- 0092-8674 (ISSN-L)
- OpenAlex
- W2080479776
- Cited by
- 736
- References
- 52
- Citations by year
- 2026: 47 · 2025: 75 · 2024: 66 · 2023: 50 · 2022: 56 · 2021: 98 · 2020: 82 · 2019: 70 · 2018: 66 · 2017: 62 · 2016: 38 · 2015: 26
- FWCI
- 27.62
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Licence
- Locations
- Cell (publishedVersion)
- PubMed (publishedVersion)
- Repositori digital de la UPF (Universitat Pompeu Fabra) (submittedVersion, other-oa)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Nuclear Structure and Function
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Chromatin Remodeling and Cancer
- Keywords
- chromatin fiber, nucleosome density, nucleosome compaction, nucleosome-depleted regions, pluripotency, induced pluripotent stem cells, RNA polymerase II, histone H1, heterochromatin
- MeSH terms
- Animals, Cell Differentiation, Chromatin, Computer Simulation, Histones, Humans, Interphase, Mutation, Nucleosomes, RNA Polymerase II, Pluripotent Stem Cells, Mice, Embryonic Stem Cells, Genome-Wide Association Study
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
