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Research: Epigenetic and evolutionary features of ape subterminal heterochromatin
- DongAhn Yoo,
- Katherine M. Munson,
- and Evan E. Eichler
Genome Res. January 2026 36: 38-49; Published in Advance October 22, 2025, doi:10.1101/gr.280987.125
...interactions between subtelomeric sequences among homologous and nonhomologous chromosomes (Hirai et al. 2019). The function of the subterminal caps is not known, although they have been proposed to help stabilize African great ape s by preventing or buffering against interchromosomal exchanges of more...
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Research: The evolution of African great ape subtelomeric heterochromatin and the fusion of human chromosome 2
- Mario Ventura,
- Claudia R. Catacchio,
- Saba Sajjadian,
- Laura Vives,
- Peter H. Sudmant,
- Tomas Marques-Bonet,
- Tina A. Graves,
- Richard K. Wilson,
- and Evan E. Eichler
Genome Res. June 2012 22: 1036-1049; Published in Advance March 14, 2012, doi:10.1101/gr.136556.111
...lineages with the exception of a few seed sequences present in the common ancestor of humans and African apes. We propose a model where an ancestral humanchimpanzee pericentric inversion and the ancestral chromosome 2 fusion both predisposed and protected the chimpanzee and human s, respectively...
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Research: Identification of the male-specific region on the guppy Y Chromosome from a haplotype-resolved assembly
- Kang Du,
- Oliver Deusch,
- Ilja Bezrukov,
- Christa Lanz,
- Yann Guiguen,
- Margarete Hoffmann,
- Anette Habring,
- Detlef Weigel,
- Manfred Schartl,
- and Christine Dreyer
Genome Res. March 2025 35: 489-498; Published in Advance March 5, 2025, doi:10.1101/gr.279582.124
.... doi:10.1086/342898 ↵Lisachov AP, Zadesenets KS, Rubtsov NB, Borodin PM. 2015. Sex chromosome synapsis and recombination in male guppies. Zebrafish 12: 174–180. doi:10.1089/zeb.2014.1000 ↵Long X, Charlesworth D, Qi J, Wu R, Chen M, Wang Z, Xu L, Fu H, Zhang X, Chen X, et al. 2023. Independent evolution...
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Method: Chromosome engineering to correct a complex rearrangement on Chromosome 8 reveals the effects of 8p syndrome on gene expression and neural differentiation
- Sophia N. Lee,
- Erin C. Banda,
- Lu Qiao,
- Sarah L. Thompson,
- Karan Singh,
- Ryan A. Hagenson,
- Teresa Davoli,
- Stefan F. Pinter,
- and Jason M. Sheltzer
Genome Res. March 2026 36: 547-560; Published in Advance January 12, 2026, doi:10.1101/gr.280425.125
...extracted from MCF10A cells was used as a diploid control. (C) Karyotype of the euploid revertant clone 31.3.We transiently transfected clone 31 with plasmids encoding the dCas9 fusion protein and a gRNA specific to the Chromosome 8 centromere. We then isolated 43 viable clones and screened them via Taq...
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Research: The grasshopper genome reveals long-term gene content conservation of the X Chromosome and temporal variation in X Chromosome evolution
- Xinghua Li,
- Judith E. Mank,
- and Liping Ban
Genome Res. July 2024 34: 997-1007; Published in Advance August 5, 2024, doi:10.1101/gr.278794.123
...10 chromosome fusion events in 6 million years of butterfly evolution. G3 (Bethesda) 6: 695–708. doi:10.1534/g3.115.023655 ↵Emms DM, Kelly S. 2019. OrthoFinder: phylogenetic orthology inference for comparative genomics. Genome Biol 20: 238. doi:10.1186/s13059-019-1832-y ↵Fallon TR, Lower SE, Chang C...
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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
...mechanism for the spread of these satellites across nonhomologous chromosomes involves 3D chromosomal interactions. Indeed, in meiotic prophase I, we occasionally observed the bouquet-like formations of nonhomologous chromosomes associated via (peri)centromeric heterochromatin. Two-color FISH confirmed...
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Research: Cell-type- and chromosome-specific chromatin landscapes and DNA replication programs of Drosophila testis tumor stem cell–like cells
- Jennifer A. Urban,
- Daniel Ringwalt,
- John M. Urban,
- Wingel Xue,
- Ryan Gleason,
- Keji Zhao,
- and Xin Chen
Genome Res. January 2026 36: 83-101; Published in Advance December 10, 2025, doi:10.1101/gr.280809.125
...the euchromatic chromosome arms but are depleted in the pericentromeric regions of Chromosomes 2, 3, and X (Fig. 3B; Supplemental Fig. S4A). In contrast, H3K9me3, which associates with constitutive heterochromatin, shows enrichment at pericentromeric regions (Fig. 3B; Supplemental Fig. S4A). Together...
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Research: Fusion, fission, and scrambling of the bilaterian genome in Bryozoa
- Thomas D. Lewin,
- Isabel Jiah-Yih Liao,
- Mu-En Chen,
- John D.D. Bishop,
- Peter W.H. Holland,
- and Yi-Jyun Luo
Genome Res. January 2025 35: 78-92; Published in Advance January 6, 2025, doi:10.1101/gr.279636.124
...as macrosynteny, is seen between bilaterian phyla as divergent as Chordata, Echinodermata, Mollusca, and Nemertea. Here, we report a unique pattern of evolution in Bryozoa, an understudied phylum of colonial invertebrates. Using comparative genomics, we reconstruct the chromosomal evolutionary history of five...
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Research: Degrees of convergent evolution in rodent adaptations to arid environments
- Domitille Chalopin,
- Carine Rey,
- Jeremy Ganofsky,
- Juliana Blin,
- Pascale Chevret,
- Marion Mouginot,
- Laurent Guéguen,
- Bastien Boussau,
- Sophie Pantalacci,
- and Marie Sémon
Genome Res. March 2026 36: 472-486; Published in Advance January 21, 2026, doi:10.1101/gr.280089.124
..., Université de Lyon, Lyon 69007, France; 4Laboratoire de Biométrie et Biologie Evolutive, CNRS UMR 5558, Université Claude Bernard Lyon 1, Villeurbanne 69622, France ↵5 These authors contributed equally to this work. Corresponding authors: domitille.chalopin-fillot@u-bordeaux.fr, sophie...
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Research: AGAP duplicons associate with structural diversity at Chromosome 10q11.22
- Stefania Fornezza,
- Vincenza Simona Delvecchio,
- William T. Harvey,
- Philip C. Dishuck,
- Evan E. Eichler,
- and Giuliana Giannuzzi
Genome Res. October 2024 34: 1487-1499; Published in Advance September 25, 2024, doi:10.1101/gr.279454.124
...over the past 25 million years of human evolution. Our results reveal extensive structural diversity and genomic instability at the 10q11.22 locus, and expand the general understanding of the mutational mechanisms behind SD-mediated rearrangements.The human and the s of African apes show an enrichment...

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