Searching journal content for articles similar to Jackson et al. 31 (8): 1337.

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  1. Resource: Single-cell strand sequencing of a macaque genome reveals multiple nested inversions and breakpoint reuse during primate evolution
    • Flavia Angela Maria Maggiolini,
    • Ashley D. Sanders,
    • Colin James Shew,
    • Arvis Sulovari,
    • Yafei Mao,
    • Marta Puig,
    • Claudia Rita Catacchio,
    • Maria Dellino,
    • Donato Palmisano,
    • Ludovica Mercuri,
    • Miriana Bitonto,
    • David Porubský,
    • Mario Cáceres,
    • Evan E. Eichler,
    • Mario Ventura,
    • Megan Y. Dennis,
    • Jan O. Korbel,
    • and Francesca Antonacci
    Genome Res. November 2020 30: 1680-1693; Published in Advance October 22, 2020, doi:10.1101/gr.265322.120
    ...class of SVs, first identified by Sturtevant in 1917 (Sturtevant 1917), that play a key dual role in primate evolution and predisposition to disease. Chromosome inversions are the most common rearrangements differentiating humans and the great ape species at the karyotypic level (Yunis et al. 1980...
  2. Method: Efficient identification of Y chromosome sequences in the human and Drosophila genomes
    • Antonio Bernardo Carvalho and
    • Andrew G. Clark
    Genome Res. November 2013 23: 1894-1907; Published in Advance August 6, 2013, doi:10.1101/gr.156034.113
    ...(called ‘‘sequence family variants’’ or ‘‘singly unique nucleotide’’) contain valuable information (Krsticevic et al. 2010; Dennis et al. 2012; Hughes and Rozen 2012) and should be preserved along with all single-copy sequences. Preserving repeat variants is particularly important because the Y chromosome...
  3. Research: The (r)evolution of SINE versus LINE distributions in primate genomes: Sex chromosomes are important
    • Erika M. Kvikstad and
    • Kateryna D. Makova
    Genome Res. May 2010 20: 600-613; Published in Advance March 10, 2010, doi:10.1101/gr.099044.109
    ...determined by the local DNA sequence composition. Second, natural selection could be a significant factor in shaping -wide L1 densities (Table 1). Interestingly, the density of most conserved elements rather than gene content is a significant predictor for TE densities in all primates analyzed, confirming...
  4. Research: Human postmeiotic sex chromatin and its impact on sex chromosome evolution
    • Ho-Su Sin,
    • Yosuke Ichijima,
    • Eitetsu Koh,
    • Mikio Namiki,
    • and Satoshi H. Namekawa
    Genome Res. May 2012 22: 827-836; Published in Advance February 28, 2012, doi:10.1101/gr.135046.111
    ...chromosomes. A hypothesis predicted that epigenetic memories of MSCI persisted into female early embryos and established selective inactivation of the paternal X chromosome (i.e., imprinted X-inactivation) in mice (Huynh and Lee 2003; Namekawa et al. 2006, 2010) and in marsupials (Namekawa et al. 2007...
  5. ARTICLE: Interchromosomal segmental duplications of the pericentromeric region on the human Y chromosome
    • Stefan Kirsch,
    • Birgit Weiß,
    • Tracie L. Miner,
    • Robert H. Waterston,
    • Royden A. Clark,
    • Evan E. Eichler,
    • Claudia Münch,
    • Werner Schempp,
    • and Gudrun Rappold
    Genome Res. February 2005 15: 195-204; Published in Advance January 14, 2005, doi:10.1101/gr.3302705
    ...appears to have an unusual genetic structure with very large gene-rich palindromes. Near-perfect sequence duplications appear to preserve their structural integrity due to gene conversion events. Within this complex genomic environment, the chromosome generated its present gene repertoire by gene...
  6. LETTER: Inverted Repeat Structure of the Human Genome: The X-Chromosome Contains a Preponderance of Large, Highly Homologous Inverted Repeats That Contain Testes Genes
    • Peter E. Warburton,
    • Joti Giordano,
    • Fanny Cheung,
    • Yefgeniy Gelfand,
    • and Gary Benson
    Genome Res. October 2004 14: 1861-1869; doi:10.1101/gr.2542904
    ....H., Wilson, R.K., and Page, D.C. 2003 . Abundant gene conversion between arms of palindromes in human and ape Y chromosomes. Nature 423 : 873 -876. ↵ Samonte, R.V. and Eichler, E.E. 2002 . Segmental duplications and the evolution of the primate . Nat. Rev. Genet. 3 : 65 -72. ↵ Scanlan, M.J., Simpson, A...
  7. Research: Genome-wide strand asymmetry in massively parallel reporter activity favors genic strands
    • Brian S. Roberts,
    • E. Christopher Partridge,
    • Bryan A. Moyers,
    • Vikram Agarwal,
    • Kimberly M. Newberry,
    • Beth K. Martin,
    • Jay Shendure,
    • Richard M. Myers,
    • and Gregory M. Cooper
    Genome Res. May 2021 31: 866-876; Published in Advance April 20, 2021, doi:10.1101/gr.270751.120
    ...selection favoring efficient transcription. Our results indicate that strand asymmetry is a pervasive and reproducible feature in MPRA data. More importantly, the fact that MPRA asymmetry favors naturally transcribed strands suggests that it stems from preserved biological functions that have a substantial...
  8. Resource: The pig X and Y Chromosomes: structure, sequence, and evolution
    • Benjamin M. Skinner,
    • Carole A. Sargent,
    • Carol Churcher,
    • Toby Hunt,
    • Javier Herrero,
    • Jane E. Loveland,
    • Matt Dunn,
    • Sandra Louzada,
    • Beiyuan Fu,
    • William Chow,
    • James Gilbert,
    • Siobhan Austin-Guest,
    • Kathryn Beal,
    • Denise Carvalho-Silva,
    • William Cheng,
    • Daria Gordon,
    • Darren Grafham,
    • Matt Hardy,
    • Jo Harley,
    • Heidi Hauser,
    • Philip Howden,
    • Kerstin Howe,
    • Kim Lachani,
    • Peter J.I. Ellis,
    • Daniel Kelly,
    • Giselle Kerry,
    • James Kerwin,
    • Bee Ling Ng,
    • Glen Threadgold,
    • Thomas Wileman,
    • Jonathan M.D. Wood,
    • Fengtang Yang,
    • Jen Harrow,
    • Nabeel A. Affara,
    • and Chris Tyler-Smith
    Genome Res. January 2016 26: 130-139; Published in Advance November 11, 2015, doi:10.1101/gr.188839.114
    ...and incorporating information from optical mapping and fiber-FISH. The X Chromosome carries 1033 annotated genes, 690 of which are protein coding. Gene order closely matches that found in primates (including humans) and carnivores (including cats and dogs), which is inferred to be ancestral. Nevertheless, several...
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  9. LETTER: Evolutionary dynamics of segmental duplications from human Y-chromosomal euchromatin/heterochromatin transition regions
    • Stefan Kirsch,
    • Claudia Münch,
    • Zhaoshi Jiang,
    • Ze Cheng,
    • Lin Chen,
    • Christiane Batz,
    • Evan E. Eichler,
    • and Werner Schempp
    Genome Res. July 2008 18: 1030-1042; Published in Advance April 29, 2008, doi:10.1101/gr.076711.108
    ...dynamics of non-palindromic SDs on the primate Y chromosomes ( Fig. 3 ), but also identified species-specific acquisition of Y-chromosomal SDs in the great apes ( Fig. 5 ). Our results do not contradict earlier observations ( Archidiacono et al. 1998 ) as YAC clones used for comparative FISH on primate Y...
  10. ARTICLE: Traffic of genetic information between segmental duplications flanking the typical 22q11.2 deletion in velo-cardio-facial syndrome/DiGeorge syndrome
    • Adam Pavlicek,
    • Reniqua House,
    • Andrew J. Gentles,
    • Jerzy Jurka,
    • and Bernice E. Morrow
    Genome Res. November 2005 15: 1487-1495; doi:10.1101/gr.4281205
    ...recombination: Suppression of chromosomal translocations. Genes & Dev. 12 : 3831 –3842. ↵ Rozen, S., Skaletsky, H., Marszalek, J.D., Minx, P.J., Cordum, H.S., Waterston, R.H., Wilson, R.K., and Page, D.C. 2003 . Abundant gene conversion between arms of palindromes in human and ape Y chromosomes. Nature 423...
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