Searching journal content for articles similar to Wilsbacher et al. 10 (12): 1928.

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  1. 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
    ...assembled and phased s to characterize and catalog large-scale (>50 kbp) structural variation at Chromosome 10q11.22. We first assessed which combination of sequencing technology and algorithm better performed in the phased assembly of this locus. We analyzed available sequences of the HG002 and HG00733 s...
  2. Research: Dynamic modulation of genomic enhancer elements in the suprachiasmatic nucleus, the site of the mammalian circadian clock
    • Akanksha Bafna,
    • Gareth Banks,
    • Michael H. Hastings,
    • and Patrick M. Nolan
    Genome Res. May 2023 33: 673-688; Published in Advance May 8, 2023, doi:10.1101/gr.277581.122
    ...enhancer RNAs (eRNAs) in the SCN, which in turn oscillate, along with cyclic histone acetylation, and correlate with rhythmic gene transcription. Taken together, these findings shed light on -wide pretranscriptional regulation operative in the central clock that confers its precise and robust oscillation...
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  3. Research: Ribosomal DNA harbors an evolutionarily conserved clock of biological aging
    • Meng Wang and
    • Bernardo Lemos
    Genome Res. March 2019 29: 325-333; Published in Advance February 14, 2019, doi:10.1101/gr.241745.118
    ...DNA/nucleolus has been directly and mechanistically implicated in aging and longevity in organisms as diverse as yeasts, Drosophila, and humans. The rDNA is also a significant target of DNA methylation that silences supernumerary rDNA units and regulates nucleolar activity. Here, we introduce an age clock built...
  4. Research: Evolutionary conservation of Y Chromosome ampliconic gene families despite extensive structural variation
    • Wesley A. Brashear,
    • Terje Raudsepp,
    • and William J. Murphy
    Genome Res. December 2018 28: 1841-1851; Published in Advance October 31, 2018, doi:10.1101/gr.237586.118
    ...@cvm.tamu.eduAbstractDespite claims that the mammalian Y Chromosome is on a path to extinction, comparative sequence analysis of primate Y Chromosomes has shown the decay of the ancestral single-copy genes has all but ceased in this eutherian lineage. The suite of single-copy Y-linked genes is highly conserved among the majority...
  5. Research: Origin and domestication of papaya Yh chromosome
    • Robert VanBuren,
    • Fanchang Zeng,
    • Cuixia Chen,
    • Jisen Zhang,
    • Ching Man Wai,
    • Jennifer Han,
    • Rishi Aryal,
    • Andrea R. Gschwend,
    • Jianping Wang,
    • Jong-Kuk Na,
    • Lixian Huang,
    • Lingmao Zhang,
    • Wenjing Miao,
    • Jiqing Gou,
    • Jie Arro,
    • Romain Guyot,
    • Richard C. Moore,
    • Ming-Li Wang,
    • Francis Zee,
    • Deborah Charlesworth,
    • Paul H. Moore,
    • Qingyi Yu,
    • and Ray Ming
    Genome Res. April 2015 25: 524-533; Published in Advance March 11, 2015, doi:10.1101/gr.183905.114
    ...and Drummond 2010) Domestication of a papaya Y chromosome Genome Research 531 www..org using a modification (see below) of the molecular clock estimated for Arabidopsis (Ossowski et al. 2010). A total...
  6. Research: Interchromosomal core duplicons drive both evolutionary instability and disease susceptibility of the Chromosome 8p23.1 region
    • Kiana Mohajeri,
    • Stuart Cantsilieris,
    • John Huddleston,
    • Bradley J. Nelson,
    • Bradley P. Coe,
    • Catarina D. Campbell,
    • Carl Baker,
    • Lana Harshman,
    • Katherine M. Munson,
    • Zev N. Kronenberg,
    • Milinn Kremitzki,
    • Archana Raja,
    • Claudia Rita Catacchio,
    • Tina A. Graves,
    • Richard K. Wilson,
    • Mario Ventura,
    • and Evan E. Eichler
    Genome Res. November 2016 26: 1453-1467; Published in Advance October 7, 2016, doi:10.1101/gr.211284.116
    ...immune-related phenotypes, including psoriasis and Crohn’s disease (Cantsilieris and White 2013). Despite the importance of the Chromosome 8p23.1 locus in human health and disease, the existence of large alternative structural haplotypes, combined with a complex organization of SDs, has led...
  7. Research: Epigenetic drift score captures directional methylation variability and links aging to transcriptional, metabolic, and genetic alterations
    • Xiu Fan,
    • Qili Qian,
    • Wenran Li,
    • Tianzi Liu,
    • Changqing Zeng,
    • Peilin Jia,
    • Huandong Lin,
    • Xin Gao,
    • Li Jin,
    • Mingfeng Xia,
    • Sijia Wang,
    • and Fan Liu
    Genome Res. October 2025 35: 2173-2188; Published in Advance August 1, 2025, doi:10.1101/gr.280155.124
    ..., distinguishing it from the linear age-associated methylation changes at epigenetic clock sites (Fraga et al. 2005; Horvath and Raj 2018; Seale et al. 2022). Importantly, epigenetic drift likely unfolds more gradually across wider temporal windows, capturing interindividual and cellular heterogeneity in a way...
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  8. Research: Reconstruction of ancestral chromosome architecture and gene repertoire reveals principles of genome evolution in a model yeast genus
    • Nikolaos Vakirlis,
    • Véronique Sarilar,
    • Guénola Drillon,
    • Aubin Fleiss,
    • Nicolas Agier,
    • Jean-Philippe Meyniel,
    • Lou Blanpain,
    • Alessandra Carbone,
    • Hugo Devillers,
    • Kenny Dubois,
    • Alexandre Gillet-Markowska,
    • Stéphane Graziani,
    • Nguyen Huu-Vang,
    • Marion Poirel,
    • Cyrielle Reisser,
    • Jonathan Schott,
    • Joseph Schacherer,
    • Ingrid Lafontaine,
    • Bertrand Llorente,
    • Cécile Neuvéglise,
    • and Gilles Fischer
    Genome Res. July 2016 26: 918-932; Published in Advance May 31, 2016, doi:10.1101/gr.204420.116
    ...with the existence of a genomic clock in plastid s. Based on comparison between three previously sequenced Lachancea species, we predicted that the number of rearrangements that reached fixation in this genus was sufficiently high, but not too high, to provide key information on the dynamics of chromosome evolution...
  9. Research: Great ape Y Chromosome and mitochondrial DNA phylogenies reflect subspecies structure and patterns of mating and dispersal
    • Pille Hallast,
    • Pierpaolo Maisano Delser,
    • Chiara Batini,
    • Daniel Zadik,
    • Mariano Rocchi,
    • Werner Schempp,
    • Chris Tyler-Smith,
    • and Mark A. Jobling
    Genome Res. April 2016 26: 427-439; Published in Advance February 16, 2016, doi:10.1101/gr.198754.115
    ...Great ape Y Chromosome and mitochondrial DNA phylogenies reflect subspecies structure and patterns of mating and dispersal Pille Hallast 1 , 2 , Pierpaolo Maisano Delser 1 , 6 , Chiara Batini 1 , Daniel Zadik 1 , Mariano Rocchi 3...
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  10. Method: Unified modeling of gene duplication, loss, and coalescence using a locus tree
    • Matthew D. Rasmussen and
    • Manolis Kellis
    Genome Res. April 2012 22: 755-765; Published in Advance January 23, 2012, doi:10.1101/gr.123901.111
    ...a duplication occurs, it creates a new locus in the , which we call ‘‘locus 2’’ (let ‘‘locus 1’’ denote the original locus), and its ancestry can be represented with a separate tree. Conceptually, every chromosome in the population has locus 2, but all of them except one have a allele. We can then think...
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