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Perspective: The genetics and epigenetics of satellite centromeres
- Paul B. Talbert and
- Steven Henikoff
Genome Res. April 2022 32: 608-615; Published in Advance March 31, 2022, doi:10.1101/gr.275351.121
....abj5089 ↵Giunta S, Funabiki H. 2017. Integrity of the human centromere DNA repeats is protected by CENP-A, CENP-C, and CENP-T. Proc Natl Acad Sci 114: 1928–1933. doi:10.1073/pnas.1615133114 ↵Giunta S, Hervé S, White RR, Wilhelm T, Dumont M, Scelfo A, Gamba R, Wong CK, Rancati G, Smogorzewska A, et al...
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Research: Dynamic evolution of satellite DNAs drastically differentiates the genomes of Tribolium sibling species
- Damira Veseljak,
- Evelin Despot-Slade,
- Marin Volarić,
- Lucija Horvat,
- Tanja Vojvoda Zeljko,
- Nevenka Meštrović,
- and Brankica Mravinac
Genome Res. November 2025 35: 2445-2460; Published in Advance September 16, 2025, doi:10.1101/gr.280516.125
...Dynamic evolution of satellite DNAs drastically differentiates the s of Tribolium sibling species Damira Veseljak, Evelin Despot-Slade, Marin Volarić, Lucija Horvat, Tanja Vojvoda Zeljko, Nevenka Meštrović and Brankica Mravinac Ruđer Bošković Institute, Division of Molecular Biology, HR-10000...
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Research: Long-read genome assembly of the insect model organism Tribolium castaneum reveals spread of satellite DNA in gene-rich regions by recurrent burst events
- Marin Volarić,
- Evelin Despot-Slade,
- Damira Veseljak,
- Brankica Mravinac,
- and Nevenka Meštrović
Genome Res. November 2024 34: 1878-1894; Published in Advance October 22, 2024, doi:10.1101/gr.279225.124
...Long-read assembly of the insect model organism Tribolium castaneum reveals spread of satellite DNA in gene-rich regions by recurrent burst events Marin Volarić1,2, Evelin Despot-Slade1,2, Damira Veseljak1, Brankica Mravinac1 and Nevenka Meštrović1 1Ruđer Bošković Institute, 10000 Zagreb, Croatia...
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Method: De novo reconstruction of satellite repeat units from sequence data
- Yujie Zhang,
- Justin Chu,
- Haoyu Cheng,
- and Heng Li
Genome Res. November 2023 33: 1994-2001; Published in Advance November 2, 2023, doi:10.1101/gr.278005.123
..., Massachusetts 02115, USA Corresponding author: hli@jimmy.harvard.eduAbstractSatellite DNA are long tandemly repeating sequences in a and may be organized as high-order repeats (HORs). They are enriched in centromeres and are challenging to assemble. Existing algorithms for identifying satellite repeats either...
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Research: Birth, evolution, and transmission of satellite-free mammalian centromeric domains
- Solomon G. Nergadze,
- Francesca M. Piras,
- Riccardo Gamba,
- Marco Corbo,
- Federico Cerutti,
- Joseph G.W. McCarter,
- Eleonora Cappelletti,
- Francesco Gozzo,
- Rebecca M. Harman,
- Douglas F. Antczak,
- Donald Miller,
- Maren Scharfe,
- Giulio Pavesi,
- Elena Raimondi,
- Kevin F. Sullivan,
- and Elena Giulotto
Genome Res. June 2018 28: 789-799; Published in Advance April 30, 2018, doi:10.1101/gr.231159.117
...of the CENPA protein is their main determinant. In previous work, we described the first example of a natural satellite-free centromere on Equus caballus Chromosome 11. Here, we investigated the satellite-free centromeres of Equus asinus by using ChIP-seq with anti-CENPA antibodies. We identified...
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Method: Genome-wide reconstitution of chromatin transactions reveals that RSC preferentially disrupts H2AZ-containing nucleosomes
- Aylin Cakiroglu,
- Cedric R. Clapier,
- Andreas H. Ehrensberger,
- Elodie Darbo,
- Bradley R. Cairns,
- Nicholas M. Luscombe,
- and Jesper Q. Svejstrup
Genome Res. June 2019 29: 988-998; Published in Advance May 16, 2019, doi:10.1101/gr.243139.118
...a poising function that might assist in gene activation (Zhang et al. 2005). Incorporation of H2AZ is catalyzed by the chromatin remodeler SWR1 by replacement of the H2A/H2B dimer on a canonical nucleosome with a H2AZ/H2B dimer (Mizuguchi et al. 2004). Despite the distinctive localization of H2AZ...
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Research: Single-molecule sequencing resolves the detailed structure of complex satellite DNA loci in Drosophila melanogaster
- Daniel E. Khost,
- Danna G. Eickbush,
- and Amanda M. Larracuente
Genome Res. May 2017 27: 709-721; Published in Advance April 3, 2017, doi:10.1101/gr.213512.116
...the Rsp locus and a separate contig containing Rsp and the Jockey element G2, which is directly adjacent to AAGAG satellite repeats. The colors of the chevron outlines indicate the G5 elements with the highest degree of similarity with one another. Solid and dashed lines within the insertions show...
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Research: Genomic variation within alpha satellite DNA influences centromere location on human chromosomes with metastable epialleles
- Megan E. Aldrup-MacDonald,
- Molly E. Kuo,
- Lori L. Sullivan,
- Kimberline Chew,
- and Beth A. Sullivan
Genome Res. October 2016 26: 1301-1311; Published in Advance August 10, 2016, doi:10.1101/gr.206706.116
...to the neighboring D17Z1 array. In the context of HSA17 centromeric epialleles, our data suggest a stochastic model of competition for centromere proteins, in which larger alpha satellite arrays may have an advantage at recruiting a critical mass of CENPA nucleosomes and centromere proteins to establish centromere...
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Research: Nucleosomes and DNA methylation shape meiotic DSB frequency in Arabidopsis thaliana transposons and gene regulatory regions
- Kyuha Choi,
- Xiaohui Zhao,
- Andrew J. Tock,
- Christophe Lambing,
- Charles J. Underwood,
- Thomas J. Hardcastle,
- Heïdi Serra,
- Juhyun Kim,
- Hyun Seob Cho,
- Jaeil Kim,
- Piotr A. Ziolkowski,
- Nataliya E. Yelina,
- Ildoo Hwang,
- Robert A. Martienssen,
- and Ian R. Henderson
Genome Res. April 2018 28: 532-546; Published in Advance March 12, 2018, doi:10.1101/gr.225599.117
...families are evident locally; for example, a nucleosome-dense retroelement coldspot ATCOPIA4 shows higher SPO11-1-oligo levels compared with an adjacent cluster of nucleosome-depleted Helitron hotspots (Supplemental Fig. S20). Many SPO11-1-oligo hotspot DNA transposons are short, nonautonomous fragments...
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Method: Double insertion of transposable elements provides a substrate for the evolution of satellite DNA
- Michael P. McGurk and
- Daniel A. Barbash
Genome Res. May 2018 28: 714-725; Published in Advance March 27, 2018, doi:10.1101/gr.231472.117
...information content we observed at TSDs within P-elements dimer junctions (Fig. 5B). Indeed, several of the tandems we mapped are adjacent to genes previously identified as among the strongest P-element insertion hotspots: apt, RapGAP1, Hers, Hsromega, Men, and mir-282 (Spradling et al. 2011). Furthermore, we...

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