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Research: Convergent recombination cessation between mating-type genes and centromeres in selfing anther-smut fungi
- Fantin Carpentier,
- Ricardo C. Rodríguez de la Vega,
- Sara Branco,
- Alodie Snirc,
- Marco A. Coelho,
- Michael E. Hood,
- and Tatiana Giraud
Genome Res. June 2019 29: 944-953; Published in Advance May 1, 2019, doi:10.1101/gr.242578.118
...recombination cessation proximal to each of the PR and HD mating-type loci (Branco et al. 2017). The nonzero dS values between the PR-proximal region and the centromere in M. saponariae and M. lagerheimii supported complete linkage to the centromere. In highly selfing organisms such as anther-smut fungi...
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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
...—(TE) transposable element; red—(DEL) deletion; blue—(INS) insertion; gray—other types of SV (inversions, duplications, translocations). The fill represents zygosity (filled symbol = homozygosity, unfilled symbol = heterozygosity). Centromeres are marked with white notches and the mating type locus with a red notch...
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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
...and duplications near centromere breakpoints. We reveal that the damaged centromeres possess a remarkable capacity for self-regulation, through employing structural modifications such as expansion, contraction, and neocentromere formation to maintain their functional integrity. Centromere breakage triggers...
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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
...change of centromere sequences observed across species, including the potential roles of recombination. We outline putative modes of selection that could act within the centromeres, as well as the role of repeats in driving cycles of centromere evolution. Although our primary focus is on plant s, we draw...
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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
...:10.1007/s10709-008-9280-8 ↵Carpentier F, Rodríguez de la Vega RC, Branco S, Snirc A, Coelho MA, Hood ME, Giraud T. 2019. Convergent recombination cessation between mating-type genes and centromeres in selfing anther-smut fungi. Genome Res 29: 944–953. doi:10.1101/gr.242578.118 ↵Castelo AT, Martins W...
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Research: Lambdoid phages with abundant Chi recombination hotspots reflect diverse viral strategies for recombination-dependent growth
- Clarence Zheng,
- Sherwood R. Casjens,
- Alan R. Davidson,
- Susan K. Amundsen,
- and Gerald R. Smith
Genome Res. August 2025 35: 1767-1780; Published in Advance July 10, 2025, doi:10.1101/gr.280248.124
...of Biochemistry, University of Toronto, Toronto, Ontario M5G 1M1, Canada ↵4 Present address: Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA Corresponding author: gsmith@fredhutch.orgAbstractMany phages encode recombination-mediating enzymes...
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Research: Introgression maintains the genetic integrity of the mating-type determining chromosome of the fungus Neurospora tetrasperma
- Pádraic Corcoran,
- Jennifer L. Anderson,
- David J. Jacobson,
- Yu Sun,
- Peixiang Ni,
- Martin Lascoux,
- and Hanna Johannesson
Genome Res. April 2016 26: 486-498; Published in Advance February 18, 2016, doi:10.1101/gr.197244.115
.... tetrasperma , and its three closest relatives, to investigate the factors shaping the evolutionary history of the genomes . We found that suppressed recombination extends across at least 6 Mbp (∼63%) of the mating-type ( mat ) chromosome in N. tetrasperma and is associated with decreased genetic diversity...
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Research: Evidence for selfing in a vertebrate from whole-genome sequencing
- Astrid Böhne,
- Zeynep Oğuzhan,
- Ioannis Chrysostomakis,
- Simon Vitt,
- Denis Meuthen,
- Sebastian Martin,
- Sandra Kukowka,
- and Timo Thünken
Genome Res. December 2023 33: 2133-2142; Published in Advance December 7, 2023, doi:10.1101/gr.277368.122
...segregation and recombination of the parental genetic information (Engelstädter 2017). Selfing is the fusion of meiotic products resulting from independent meiosis events of the same individual, occurring in oogenesis and spermatogenesis, respectively. As an extreme form of inbreeding, selfing reduces...
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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
...of unicellular eukaryotes (Sanyal et al. 2004; Kanesaki et al. 2015), long reads have helped to assemble the transposon-rich centromeres of fungi (Sonnenberg et al. 2020) and satellite centromeres in maize (Wolfgruber et al. 2016; Liu et al. 2020). The use of long-read sequencing technologies recently allowed...
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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
....pantalacci@ens-lyon.fr, marie.semon@ens-lyon.frAbstractSpecies adapting to a similar lifestyle may undergo convergent changes in organ structure and cellular function, themselves relying or not on these convergent genetic changes. The extent of genomic convergence is thus debated and may further depend on the interplay between...
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