The Human Protein Translin Specifically Binds Single-stranded Microsatellite Repeats, d(GT)n, and G-strand Telomeric Repeats, d(TTAGGG)n: A Study of the Binding Parameters

Jacob, Eyal; Pucshansky, Lev; Zeruya, Eleanor; Baran, Nava; Manor, Haim

doi:10.1016/j.jmb.2004.09.095

Cited by 30 publications

(43 citation statements)

References 38 publications

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“…These are binding sites for recognition of the translin protein to ssDNA at staggered breaks in the first steps of their repair (Kasai et al 1997;Erdemir et al 2002a,b;Sengupta and Rao 2002). Previously, overrepresentation of translin targets implicated NHEJ in mediating chromosomal rearrangements such as translocations and large deletions (Abeysinghe et al 2003;Gajecka et al 2006a,b) and microsatellite/telomere repeat expansions/contractions (Jacob et al 2004). Our results suggest that translin may mediate small deletion formation as well.…”

Section: Site-specific Recombination and Indel Formationmentioning

confidence: 99%

Ride the wavelet: A multiscale analysis of genomic contexts flanking small insertions and deletions

Kvikstad

Chiaromonte²,

Makova³

2009

Genome Res.

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Recent studies have revealed that insertions and deletions (indels) are more different in their formation than previously assumed. What remains enigmatic is how the local DNA sequence context contributes to these differences. To investigate the relative impact of various molecular mechanisms to indel formation, we analyzed sequence contexts of indels in the non protein-or RNA-coding, nonrepetitive (NCNR) portion of the human genome. We considered small (#30-bp) indels occurring in the human lineage since its divergence from chimpanzee and used wavelet techniques to study, simultaneously for multiple scales, the spatial patterns of short sequence motifs associated with indel mutagenesis. In particular, we focused on motifs associated with DNA polymerase activity, topoisomerase cleavage, double-strand breaks (DSBs), and their repair. We came to the following conclusions. First, many motifs are characterized by unique enrichment profiles in the vicinity of indels vs. indel-free portions of the genome, verifying the importance of sequence context in indel mutagenesis. Second, only limited similarity in motif frequency profiles is evident flanking insertions vs. deletions, confirming differences in their mutagenesis. Third, substantial similarity in frequency profiles exists between pairs of individual motifs flanking insertions (and separately deletions), suggesting ''cooperation'' among motifs, and thus molecular mechanisms, during indel formation. Fourth, the wavelet analyses demonstrate that all these patterns are highly dependent on scale (the size of an interval considered). Finally, our results depict a model of indel mutagenesis comprising both replication and recombination (via repair of paused replication forks and site-specific recombination).[Supplemental material is available online at

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Section: Site-specific Recombination and Indel Formationmentioning

confidence: 99%

Ride the wavelet: A multiscale analysis of genomic contexts flanking small insertions and deletions

Kvikstad

Chiaromonte²,

Makova³

2009

Genome Res.

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“…Recently, a tenfold average increase of translin motifs, as compared with the overall distribution in the genome, was found in the low-copy repeats Xanking the Sotos syndrome region (Visser et al 2005). Furthermore, it was suggested that translin might be involved in the control of recombination at d(GT) n · d(AC) n microsatellites and in telomere maintenance (Jacob et al 2004). However, the molecular mechanism that can describe the precise role of translin during chromosome translocations is unclear.…”

Section: Sequence Motifs May Promote Breakage or Repairmentioning

confidence: 99%

Identification of sequence motifs at the breakpoint junctions in three t(1;9)(p36.3;q34) and delineation of mechanisms involved in generating balanced translocations

et al. 2006

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Although approximately 1 in 500 individuals carries a reciprocal translocation, little is known about the mechanisms that result in their formation. We analyzed the sequences surrounding the breakpoints in three unbalanced translocations of 1p and 9q, all of which were designated t(1;9)(p36.3;q34), to investigate the presence of sequence motifs that might mediate nonhomologous end joining (NHEJ). The breakpoint regions were unique in all individuals. Two of three translocations demonstrated insertions and duplications at the junctions, suggesting NHEJ in the formation of the rearrangements. No homology was identified in the breakpoint regions, further supporting NHEJ. We found translin motifs at the breakpoint junctions, suggesting the involvement of translin in the joining of the broken chromosome ends. We propose a model for balanced translocation formation in humans similar to transposition in bacteria, in which staggered nicks are repaired resulting in duplications and insertions at the translocation breakpoints.

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“…A translin-paraloguedesignated TRAX (translin-associated factor X) was subsequently discovered and found to strongly associate with translin [5], both proteins being highly conserved in Eukaryotes and Archea [6,7]. Based on its DNA and RNA binding characteristics, it has been suggested that translin is involved in chromosomal translocations and telomere metabolism, as well as mRNA transport and translation [3,4,8,9]. Complexes of translin-TRAX have been implicated in RNA interference processing [10,11], fibroblast cell growth [12], neuronal development and function [13,14], and tRNA processing [15].…”

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confidence: 99%

A Novel Open-Barrel Structure of Octameric Translin Reveals a Potential RNA Entryway

Eliahoo

Marx

Manor

et al. 2015

Journal of Molecular Biology

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The Human Protein Translin Specifically Binds Single-stranded Microsatellite Repeats, d(GT)n, and G-strand Telomeric Repeats, d(TTAGGG)n: A Study of the Binding Parameters

Cited by 30 publications

References 38 publications

Ride the wavelet: A multiscale analysis of genomic contexts flanking small insertions and deletions

Ride the wavelet: A multiscale analysis of genomic contexts flanking small insertions and deletions

Identification of sequence motifs at the breakpoint junctions in three t(1;9)(p36.3;q34) and delineation of mechanisms involved in generating balanced translocations

A Novel Open-Barrel Structure of Octameric Translin Reveals a Potential RNA Entryway

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