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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: Rapid evolution of piRNA clusters in the Drosophila melanogaster ovary
- Satyam P. Srivastav,
- Cédric Feschotte,
- and Andrew G. Clark
Genome Res. May 2024 34: 711-724; Published in Advance May 15, 2024, doi:10.1101/gr.278062.123
...in Drosophila melanogaster, much less is known about the origin and evolution of piCs in this or any other species. To investigate piC origin and evolution, we use a population genomic approach to compare piC activity and sequence composition across eight geographically distant strains of D. melanogaster...
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Review: The structure, function, and evolution of plant centromeres
- Matthew Naish and
- Ian R. Henderson
Genome Res. February 2024 34: 161-178; Published in Advance March 14, 2024, doi:10.1101/gr.278409.123
...and dynamic evolution of satellite repeats in plant species.High levels of satellite repeat sequence polymorphism have been observed within plant s. For example, in A. thaliana, numerous CEN178 satellite polymorphisms exist, many of which are private to individual chromosomes (Naish et al. 2021; Wlodzimierz...
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Research: Evolution of genome structure in the Drosophila simulans species complex
- Mahul Chakraborty,
- Ching-Ho Chang,
- Danielle E. Khost,
- Jeffrey Vedanayagam,
- Jeffrey R. Adrion,
- Yi Liao,
- Kristi L. Montooth,
- Colin D. Meiklejohn,
- Amanda M. Larracuente,
- and J.J. Emerson
Genome Res. March 2021 31: 380-396; Published in Advance February 9, 2021, doi:10.1101/gr.263442.120
...of the D. melanogaster reference . Our results uncover a dynamic picture of repetitive sequence evolution that leads to extensive variation over short timescales.ResultsContiguous, accurate, and complete assemblies resolve previous misassembliesWe collected deep (100- to 150-fold autosomal coverage) long...
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Research: Adaptation of centromeres to breakage through local genomic and epigenomic remodeling in wheat
- Jingwei Zhou,
- Yuhong Huang,
- Huan Ma,
- Yiqian Chen,
- Chuanye Chen,
- Fangpu Han,
- and Handong Su
Genome Res. November 2025 35: 2461-2471; Published in Advance September 30, 2025, doi:10.1101/gr.280913.125
...to chromosomes, whether spontaneous or induced by external agents, often result in abnormal cell division and aneuploidy, conditions frequently observed in cancer cells (Bakhoum and Cantley 2018). Moreover, chromosome rearrangements post-DNA breakage are well-documented and contribute significantly to evolution...
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Research: Topologically associating domains and their role in the evolution of genome structure and function in Drosophila
- Yi Liao,
- Xinwen Zhang,
- Mahul Chakraborty,
- and J.J. Emerson
Genome Res. March 2021 31: 397-410; Published in Advance February 9, 2021, doi:10.1101/gr.266130.120
...Topologically associating domains and their role in the evolution of structure and function in Drosophila Yi Liao1, Xinwen Zhang1, Mahul Chakraborty1 and J.J. Emerson1,2 1Department of Ecology and Evolutionary Biology, University of California, Irvine, California 92697, USA; 2Center for Complex...
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Resource: A new emu genome illuminates the evolution of genome configuration and nuclear architecture of avian chromosomes
- Jing Liu,
- Zongji Wang,
- Jing Li,
- Luohao Xu,
- Jiaqi Liu,
- Shaohong Feng,
- Chunxue Guo,
- Shengchan Chen,
- Zhanjun Ren,
- Jinpeng Rao,
- Kai Wei,
- Yuezhou Chen,
- Erich D. Jarvis,
- Guojie Zhang,
- and Qi Zhou
Genome Res. March 2021 31: 497-511; Published in Advance January 6, 2021, doi:10.1101/gr.271569.120
...A new emu illuminates the evolution of configuration and nuclear architecture of avian chromosomes Jing Liu1,2,16, Zongji Wang1,2,3,16, Jing Li1, Luohao Xu2, Jiaqi Liu4, Shaohong Feng5, Chunxue Guo5, Shengchan Chen6, Zhanjun Ren7, Jinpeng Rao8, Kai Wei8, Yuezhou Chen9, Erich D. Jarvis10,11, Guojie...
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Research: Candida albicans isolates contain frequent heterozygous structural variants and transposable elements within genes and centromeres
- Ursula Oggenfuss,
- Robert T. Todd,
- Natthapon Soisangwan,
- Bailey Kemp,
- Alison Guyer,
- Annette Beach,
- and Anna Selmecki
Genome Res. April 2025 35: 824-838; Published in Advance October 22, 2024, doi:10.1101/gr.279301.124
...to environments without antifungal drugs. We suggest that frequent heterozygous SVs are important in maintaining high-standing genetic variation in C. albicans. Our findings highlight the dynamics of SVs and TEs across diverse clinical isolates of C. albicans, with a special focus on the diverse pericentromeric...
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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
...-rich euchromatin. SatDNAs in (peri)centromeric heterochromatin have a long history of investigation, including many plant and animal species, and studies have suggested a role of satDNA in chromatin packaging, centromere formation/maintenance, and centromere evolution (Blattes et al. 2006; Melters et al. 2013...
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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
..., evolution by unequal exchange leads to (1) dramatic changes in copy number from relatively few exchange events and (2) the eventual contraction of the array to a single repeat unit (Charlesworth et al. 1986). The long-term persistence of some conserved satellites (Strachan et al. 1982) may therefore reflect...

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