Searching journal content for articles similar to Makino and McLysaght 22 (12): 2427.

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  1. Research: Differential retention and divergent resolution of duplicate genes following whole-genome duplication
    • Casey L. McGrath,
    • Jean-Francois Gout,
    • Parul Johri,
    • Thomas G. Doak,
    • and Michael Lynch
    Genome Res. October 2014 24: 1665-1675; Published in Advance August 1, 2014, doi:10.1101/gr.173740.114
    ...losses were not biased due to assembly gaps, we also created a version of paralogous blocks where regions surrounding assembly gaps were removed. Specifically, genomic regions around gaps up to the next duplicated gene were removed from the analysis. With this method, we assured that no genes were...
  2. RESOURCE: Cross-Referencing Eukaryotic Genomes: TIGR Orthologous Gene Alignments (TOGA)
    • Yuandan Lee,
    • Razvan Sultana,
    • Geo Pertea,
    • Jennifer Cho,
    • Svetlana Karamycheva,
    • Jennifer Tsai,
    • Babak Parvizi,
    • Foo Cheung,
    • Valentin Antonescu,
    • Joseph White,
    • Ingeborg Holt,
    • Feng Liang,
    • and John Quackenbush
    Genome Res. March 1, 2002 12: 493-502; doi:10.1101/gr.212002
    ...by existing data and our use of S. cerevisiae and S. pombe and other eukaryotes that predate many gene duplication events in higher animals and plants. Even so, our we believe that TOGA represents the best representation of orthologs given the available data. Our analysis of the TOGs presented here represents...
  3. Research: The contributions from the progenitor genomes of the mesopolyploid Brassiceae are evolutionarily distinct but functionally compatible
    • Yue Hao,
    • Makenzie E. Mabry,
    • Patrick P. Edger,
    • Michael Freeling,
    • Chunfang Zheng,
    • Lingling Jin,
    • Robert VanBuren,
    • Marivi Colle,
    • Hong An,
    • R. Shawn Abrahams,
    • Jacob D. Washburn,
    • Xinshuai Qi,
    • Kerrie Barry,
    • Christopher Daum,
    • Shengqiang Shu,
    • Jeremy Schmutz,
    • David Sankoff,
    • Michael S. Barker,
    • Eric Lyons,
    • J. Chris Pires,
    • and Gavin C. Conant
    Genome Res. May 2021 31: 799-810; Published in Advance April 16, 2021, doi:10.1101/gr.270033.120
    ...interacting genomic neighbors could produce local, and eventually global, biases in fractionation.It is also notable that not all homoeologs are equally likely to revert to single copy after a polyploidy, regardless of the level of biased fractionation. Duplicated genes coding for transcription factors...
    OPEN ACCESS ARTICLE
  4. Review: Advancing genomic technologies and clinical awareness accelerates discovery of disease-associated tandem repeat sequences
    • Terence Gall-Duncan,
    • Nozomu Sato,
    • Ryan K.C. Yuen,
    • and Christopher E. Pearson
    Genome Res. January 2022 32: 1-27; Published in Advance December 29, 2021, doi:10.1101/gr.269530.120
    .... TRs are a common form of genetic variation with biological consequences, observed, so far, in humans, dogs, plants, oysters, and yeast. Repeat diseases show atypical clinical features, genetic anticipation, and multiple and partially penetrant phenotypes among family members. Discovery of disease...
  5. LETTER: On the origin of new genes in Drosophila
    • Qi Zhou,
    • Guojie Zhang,
    • Yue Zhang,
    • Shiyu Xu,
    • Ruoping Zhao,
    • Zubing Zhan,
    • Xin Li,
    • Yun Ding,
    • Shuang Yang,
    • and Wen Wang
    Genome Res. September 2008 18: 1446-1455; Published in Advance June 11, 2008, doi:10.1101/gr.076588.108
    ...dispersed duplicate genes are associated with repetitive elements at the breakpoints ( Yang et al. 2008 ). In this work, we interestingly found that dispersed and tandem duplicated new genes show different degrees of associations with repetitive elements at their breakpoints. It suggests that genomic...
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