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Research: Extreme heterochiasmy and high rates of sex-reversed recombination result in large yet homomorphic sex chromosomes in the Emei moustache toad
- Siyu Xie,
- Jun Li,
- Wanyan Chen,
- Lydia J.M. Fong,
- Chunhua Huang,
- Yan Feng,
- Qingbo Ai,
- Mian Zhao,
- Judith E. Mank,
- and Hua Wu
Genome Res. June 2025 35: 1325-1336; Published in Advance April 24, 2025, doi:10.1101/gr.280161.124
...not evolve by recombination suppression after the acquisition of new sex-determining genes but by the ancestral nature of the low crossover rates in males.Sex reversal, as we observed in L. boringii, is common among anurans (Perrin 2009; Stöck et al. 2011; Rodrigues et al. 2018), poikilothermic vertebrates...
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LETTER: Characterization of the bovine pseudoautosomal boundary: Documenting the evolutionary history of mammalian sex chromosomes
- Anne-Sophie Van Laere,
- Wouter Coppieters,
- and Michel Georges
Genome Res. December 2008 18: 1884-1895; Published in Advance November 3, 2008, doi:10.1101/gr.082487.108
...been characterized only at the sequence level for humans, Great Apes, Old World Monkeys and the domestic mouse. In Catarrhini, the PAB maps within the gene coding for the XG blood group antigen, also called PBDX (pseudoautosomal boundary divided on the X) ( Ellis et al. 1990 , 1994 ). As a result, XG...
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ARTICLE: Genomic Sequence and Transcriptional Profile of the Boundary Between Pericentromeric Satellites and Genes on Human Chromosome Arm 10p
- Jane Guy,
- Tom Hearn,
- Moira Crosier,
- Jonathan Mudge,
- Luigi Viggiano,
- Dirk Koczan,
- Hans-Jurgen Thiesen,
- Jeffrey A. Bailey,
- Julie E. Horvath,
- Evan E. Eichler,
- Mark E. Earthrowl,
- Panos Deloukas,
- Lisa French,
- Jane Rogers,
- David Bentley,
- and Michael S. Jackson
Genome Res. February 1, 2003 13: 159-172; Published in Advance January 14, 2003, doi:10.1101/gr.644503
...the possibility that they may represent the products of the repair of broken chromosome ends. Alternatively, the duplication of DNA from recombinationally inert centromeres to recombinationally highly active telomeres could represent a novel way of removing functional genes from the cumulative effect of ratchet...
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Methods: Mapping segmental and sequence variations among laboratory mice using BAC array CGH
- Antoine M. Snijders,
- Norma J. Nowak,
- Bing Huey,
- Jane Fridlyand,
- Sindy Law,
- Jeffrey Conroy,
- Taku Tokuyasu,
- Kubilay Demir,
- Readman Chiu,
- Jian-Hua Mao,
- Ajay N. Jain,
- Steven J.M. Jones,
- Allan Balmain,
- Daniel Pinkel,
- and Donna G. Albertson
Genome Res. February 2005 15: 302-311; doi:10.1101/gr.2902505
...clones representing regions of sequence variation among strains. Information on the clone set is provided at http://microarrays.roswellpark.org . We prepared DNA spotting solutions from the BACs by ligation-mediated PCR as described previously for assembly of human BAC arrays ( Snijders et al. 2001 ). We...
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LETTER: Gene Content and Function of the Ancestral Chromosome Fusion Site in Human Chromosome 2q13–2q14.1 and Paralogous Regions
- Yuxin Fan,
- Tera Newman,
- Elena Linardopoulou,
- and Barbara J. Trask
Genome Res. November 1, 2002 12: 1663-1672; doi:10.1101/gr.338402
..., respectively. The similarity among the human FOXD4 genes (97.7% to 98.9% identity at the nucleotide level) correlates with the overall homology among the four segmental duplications that generated them ( Fan et al. 2002 ). View larger version: In this window In a new window Figure 3. ( A ) Comparison...
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Research: Hierarchical architecture of neo-sex chromosomes and accelerated adaptive evolution in tortricid moths
- Fangyuan Yang,
- Li-Jun Cao,
- Petr Nguyen,
- Zhong-Zheng Ma,
- Jin-Cui Chen,
- Wei Song,
- and Shu-Jun Wei
Genome Res. January 2025 35: 66-77; Published in Advance January 6, 2025, doi:10.1101/gr.279569.124
...compared evolutionary dynamics between fused F(20 + 17,Z) and autosomes in two recently diverged species, G. molesta and G. dimorpha. First, we employed an ABBA–BABA approach to testing for relative resistance to interspecific gene flow among chromosomal elements. The introgression rate (defined...
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Research: De novo genome assemblies of two cryptodiran turtles with ZZ/ZW and XX/XY sex chromosomes provide insights into patterns of genome reshuffling and uncover novel 3D genome folding in amniotes
- Basanta Bista,
- Laura González-Rodelas,
- Lucía Álvarez-González,
- Zhi-qiang Wu,
- Eugenia E. Montiel,
- Ling Sze Lee,
- Daleen B. Badenhorst,
- Srihari Radhakrishnan,
- Robert Literman,
- Beatriz Navarro-Dominguez,
- John B. Iverson,
- Simon Orozco-Arias,
- Josefa González,
- Aurora Ruiz-Herrera,
- and Nicole Valenzuela
Genome Res. October 2024 34: 1553-1569; Published in Advance October 16, 2024, doi:10.1101/gr.279443.124
...(red links), and interactions among microchromosome (green links). (B) Hi-C contact maps representing a pair of macrochromosomes for human (HSA, Rao et al. 2014), Tasmanian Devil (SHA, Álvarez-González et al. 2022a), chicken (GGA, Fishman et al. 2019), and Northern Giant Musk Turtle (STR, this study...
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Research: Extreme genome scrambling in marine planktonic Oikopleura dioica cryptic species
- Charles Plessy,
- Michael J. Mansfield,
- Aleksandra Bliznina,
- Aki Masunaga,
- Charlotte West,
- Yongkai Tan,
- Andrew W. Liu,
- Jan Grašič,
- María Sara del Río Pisula,
- Gaspar Sánchez-Serna,
- Marc Fabrega-Torrus,
- Alfonso Ferrández-Roldán,
- Vittoria Roncalli,
- Pavla Navratilova,
- Eric M. Thompson,
- Takeshi Onuma,
- Hiroki Nishida,
- Cristian Cañestro,
- and Nicholas M. Luscombe
Genome Res. March 2024 34: 426-440; Published in Advance April 15, 2024, doi:10.1101/gr.278295.123
...for the speciation and adaptations such as mimicry (Joron et al. 2011; Hill et al. 2019; de Vos et al. 2020), mostly owing to reciprocal translocation and repeated events of fusion and fission among a highly dynamic number of chromosomes between species.To better understand the phenomenon of scrambling, we study...
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Research: Elasmobranch genome sequencing reveals evolutionary trends of vertebrate karyotype organization
- Kazuaki Yamaguchi,
- Yoshinobu Uno,
- Mitsutaka Kadota,
- Osamu Nishimura,
- Ryo Nozu,
- Kiyomi Murakumo,
- Rui Matsumoto,
- Keiichi Sato,
- and Shigehiro Kuraku
Genome Res. September 2023 33: 1527-1540; Published in Advance August 17, 2023, doi:10.1101/gr.276840.122
...rearrangement in these lineages compared with those of species pairs of similar divergence times in other vertebrate lineages (Fig. 3A). Among vertebrates, mammals and birds have relatively long-standing sex chromosomes (X/Y and Z/W, respectively) shared throughout these individual taxa that arose more than 48...
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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
...species. We found ratites exhibited the lowest numbers of intra- and inter-chromosomal changes among birds since their divergence with turtles. The small-sized and gene-rich emu microchromosomes have frequent inter-chromosomal contacts that are associated with housekeeping genes, which appears...

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