Searching journal content for articles similar to Devine et al. 7 (5): 551.

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  1. Resource: High-quality assembly of the Chinese white truffle genome and recalibrated divergence time estimate provide insight into the evolutionary dynamics of Tuberaceae
    • Jacopo Martelossi,
    • Jacopo Vujovic,
    • Yue Huang,
    • Alessia Tatti,
    • Kaiwei Xu,
    • Federico Puliga,
    • Yuanxue Chen,
    • Omar Rota Stabelli,
    • Fabrizio Ghiselli,
    • Xiaoping Zhang,
    • and Alessandra Zambonelli
    Genome Res. November 2025 35: 2601-2616; Published in Advance August 21, 2025, doi:10.1101/gr.280368.124
    ...kb mitochondrial , for which we obtained a complete and circularized sequence, whereas contigs 19–29 contain only 45S rDNA arrays. We found an enrichment of TTAGGG telomere repeats, typical of many eukaryotes, including true truffles (Martin et al. 2010), toward both ends of all 17 majors nuclear...
  2. METHODS: An Efficient DNA Sequencing Strategy Based on the Bacteriophage Mu in Vitro DNA Transposition Reaction
    • Saija Haapa,
    • Sini Suomalainen,
    • Simo Eerikäinen,
    • Matti Airaksinen,
    • Lars Paulin,
    • and Harri Savilahti
    Genome Res. March 1, 1999 9: 308-315; doi:10.1101/gr.9.3.308
    ..., sequencing and genetic analysis. Nucleic Acids Res. 22 : 3765 – 3772 . ↵ Devine S.E. , Chissoe S.L. , Eby Y. , Wilson R.K. , Boeke J.D. ( 1997 ) A Transposon-based strategy for sequencing repetitive DNA in eukaryotic s. Genome Res. 7 : 551 – 563 . ↵ Eichinger D.J. , Boeke J.D. ( 1988 ) The DNA intermediate...
  3. Methods: Identification of transposable elements using multiple alignments of related genomes
    • Anat Caspi and
    • Lior Pachter
    Genome Res. February 2006 16: 260-270; Published in Advance December 14, 2005, doi:10.1101/gr.4361206
    ...on the host genome, and improve the quality of assembled genomes. Using the availability of several nearly complete Drosophila genomes and developments in whole genome alignment methods, we introduce a large-scale comparative method for identifying repetitive mobile DNA regions. These regions are highly...
  4. ARTICLE: The Small Chromosomes of Trypanosoma brucei Involved in Antigenic Variation Are Constructed Around Repetitive Palindromes
    • Bill Wickstead,
    • Klaus Ersfeld,
    • and Keith Gull
    Genome Res. June 2004 14: 1014-1024; doi:10.1101/gr.2227704
    ...). The adoption of this strategy, and the lack of data on the small chromosomes more generally, is undoubtedly influenced by the presence on the MCs of a large quantity of a highly homogeneous 177-bp satellite repeat sequence ( Sloof et al. 1983a ). In many organisms, regions of highly repetitive DNA present...
  5. GENOME METHODS: Short-Insert Libraries as a Method of Problem Solving in Genome Sequencing
    • Amanda A. McMurray,
    • John E. Sulston,
    • and Michael A. Quail
    Genome Res. May 1, 1998 8: 562-566; doi:10.1101/gr.8.5.562
    ...– 104 . ↵ Devine S.E. , Chissoe S.L. , Eby Y. , Wilson R.K. , Boeke J.D. ( 1997 ) A transposon-based strategy for sequencing repetitive DNA in eukaryotic s. Genome Res. 7 : 551 – 563 . ↵ Flint, J., M. Sims, R. Staden, and K. Thomas. 1998. An oligo-screening strategy to fill gaps found during shotgun...
  6. 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
    ...to spindle microtubules during cell division. Notably, although centromeres maintain a conserved function in chromosome segregation, the underlying DNA sequences are diverse both within and between species and are predominantly repetitive in nature. The repeat content of centromeres includes high-copy tandem...
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  7. LETTER: L1 integration in a transgenic mouse model
    • Daria V. Babushok,
    • Eric M. Ostertag,
    • Christine E. Courtney,
    • Janice M. Choi,
    • and Haig H. Kazazian, Jr.
    Genome Res. February 2006 16: 240-250; Published in Advance December 19, 2005, doi:10.1101/gr.4571606
    ...truncated L1s, as over 52% (27/51) of total integrants were <1/3 the length of a full-length element. New integrants carry all structural characteristics typical of genomic L1s, including a number with inversions, deletions, and 5′-end microhomologies to the target DNA sequence. Notably, at least 13% (7...
  8. Research: Transposon expression in the Drosophila brain is driven by neighboring genes and diversifies the neural transcriptome
    • Christoph D. Treiber and
    • Scott Waddell
    Genome Res. November 2020 30: 1559-1569; Published in Advance September 24, 2020, doi:10.1101/gr.259200.119
    ...single-cell RNA-seq (scRNA-seq) to map transposon expression to individual cells in the Drosophila midbrain. Combining these data with high-coverage genomic DNA (gDNA) sequencing of the same inbred fly strain permitted neural transposon expression to be correlated with that of genes within which...
    OPEN ACCESS ARTICLE
  9. Resource: The genomic architecture and molecular evolution of ant odorant receptors
    • Sean K. McKenzie and
    • Daniel J.C. Kronauer
    Genome Res. November 2018 28: 1757-1765; Published in Advance September 24, 2018, doi:10.1101/gr.237123.118
    ...are tantalizing but do not conclusively demonstrate vertebrate-like OR regulation in ants. Further functional studies will be required to determine whether OR regulation in the Hymenoptera is, in fact, deterministic or not.MethodsSequencing and assemblyGenomic DNA for PacBio sequencing was extracted from 300 ants...
  10. ARTICLE: Long-distance PCR.
    • O S Foord and
    • E A Rose
    Genome Res. June 1994 3: S149-S161
    ....E. and Berg. C.M. 1990 . Probe mapping to facilitate transposon based DNA sequencing. Proc. Natl. Acad. Sci. 86 : 5908 – 5912 . 41.. Rye, H.S., , Yue, S. , Wemmer, D.E. , Quesada, M.A. , Haugland, R.P. , Mathies, R.A. , Glazer. A.N. Rye, H.S., Yue, S. Wemmer, D.E. Quesada, M.A. Haugland, R.P. Mathies, R...
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