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  1. Letter: Repetitive sequence variation and dynamics in the ribosomal DNA array of Saccharomyces cerevisiae as revealed by whole-genome resequencing
    • Stephen A. James,
    • Michael J.T. O'Kelly,
    • David M. Carter,
    • Robert P. Davey,
    • Alexander van Oudenaarden,
    • and Ian N. Roberts
    Genome Res. April 2009 19: 626-635; Published in Advance January 13, 2009, doi:10.1101/gr.084517.108
    ...size and repetitive structure. In an attempt to address this, we have analyzed over 35 Mbp of rDNA sequence obtained from whole-genome shotgun sequencing (WGSS) of 34 strains of S. cerevisiae . Contrary to expectation, we find significant rDNA sequence variation exists within individual genomes. Many...
  2. 12 Drosophila Genomes/Letter: Sequence variation within the rRNA gene loci of 12 Drosophila species
    • Deborah E. Stage and
    • Thomas H. Eickbush
    Genome Res. December 2007 17: 1888-1897; Published in Advance November 7, 2007, doi:10.1101/gr.6376807
    ...the hundreds of tandemly arrayed ribosomal RNA (rRNA) genes and their spacers present in any eukaryote. Few comprehensive attempts have been made to directly measure the identity between the rDNA units. We used the original sequencing reads (trace archives) available through the whole-genome shotgun sequencing...
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  3. Research: Single-cell sequencing provides clues about the host interactions of segmented filamentous bacteria (SFB)
    • Sünje J. Pamp,
    • Eoghan D. Harrington,
    • Stephen R. Quake,
    • David A. Relman,
    • and Paul C. Blainey
    Genome Res. June 2012 22: 1107-1119; Published in Advance March 20, 2012, doi:10.1101/gr.131482.111
    ...with a microfluidic device (Supplemental Material; Supplemental Fig. S2; Supplemental Movies 1–5). Their genomic DNA was amplified and subjected to multiplex pyrosequencing. Between 38 and 67 Mb was obtained for each of the five individual filaments. Assemblies were obtained for each individual SFB filament (SFB-1...
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  4. PERSPECTIVE: Genomics in C. elegans: So many genes, such a little worm
    • LaDeana W. Hillier,
    • Alan Coulson,
    • John I. Murray,
    • Zhirong Bao,
    • John E. Sulston,
    • and Robert H. Waterston
    Genome Res. December 2005 15: 1651-1660; doi:10.1101/gr.3729105
    ...contains all the major types of eukaryotic RNA genes: >1300 ( Stricklin et al. 2005 ) of these genes have been identified, including 630 tRNAs, 78 snRNAs, and 17 snoRNAs. Of the rRNA genes, the 18S, 28S, and 5.8S are transcribed separately by RNA polymerase I in the ∼55 copies of the 7.2-kb rDNA repeat...
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