Literature DB >> 2122000

Genomic analysis of sequence variation in tandemly repeated DNA. Evidence for localized homogeneous sequence domains within arrays of alpha-satellite DNA.

P E Warburton1, H F Willard.   

Abstract

As a model to examine the local distribution of sequence variation within large arrays of tandemly repeated DNA in complex genomes, the long-range organization of alpha-satellite DNA from human chromosome 17 was investigated. Three individual chromosomes, representing different alpha-satellite haplotypes, were segregated into mouse and human somatic cell hybrids and their arrays sized by pulse-field gel electrophoresis. An inventory of the higher-order repeat units found in multiple separate regions of these megabase arrays was obtained using cosmid mapping and two-dimensional gel electrophoresis, a technique that combines the large-scale resolution of pulsed-field gel electrophoresis with the small-scale resolution of conventional gel electrophoresis. These analyses show that alpha-satellite arrays are characterized by the presence of localized homogeneous domains containing only one distinct type of repeat unit. These domains, which consist of sequence variants and/or higher-order repeat length variants, can be up to at least several hundred thousands of bases in length. Both abundant and rare variant repeat units can be localized in these distinct domains, which may correspond to transition states in the evolution of tandem multicopy DNA families. This description of the organization of large arrays of tandem repeats provides insight into mechanisms involved in their homogenization.

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Year:  1990        PMID: 2122000     DOI: 10.1016/s0022-2836(05)80056-7

Source DB:  PubMed          Journal:  J Mol Biol        ISSN: 0022-2836            Impact factor:   5.469


  45 in total

1.  Evidence for a fast, intrachromosomal conversion mechanism from mapping of nucleotide variants within a homogeneous alpha-satellite DNA array.

Authors:  Dirk Schindelhauer; Tobias Schwarz
Journal:  Genome Res       Date:  2002-12       Impact factor: 9.043

2.  PCR amplification of tandemly repeated DNA: analysis of intra- and interchromosomal sequence variation and homologous unequal crossing-over in human alpha satellite DNA.

Authors:  P E Warburton; H F Willard
Journal:  Nucleic Acids Res       Date:  1992-11-25       Impact factor: 16.971

3.  Large tandem, higher order repeats and regularly dispersed repeat units contribute substantially to divergence between human and chimpanzee Y chromosomes.

Authors:  Vladimir Paar; Matko Glunčić; Ivan Basar; Marija Rosandić; Petar Paar; Mislav Cvitković
Journal:  J Mol Evol       Date:  2010-11-20       Impact factor: 2.395

Review 4.  Completing the human genome: the progress and challenge of satellite DNA assembly.

Authors:  Karen H Miga
Journal:  Chromosome Res       Date:  2015-09       Impact factor: 5.239

5.  The organisation of repetitive DNA sequences on human chromosomes with respect to the kinetochore analysed using a combination of oligonucleotide primers and CREST anticentromere serum.

Authors:  A Mitchell; P Jeppesen; D Hanratty; J Gosden
Journal:  Chromosoma       Date:  1992-03       Impact factor: 4.316

6.  The evolutionary dynamics of alpha-satellite.

Authors:  M Katharine Rudd; Gregory A Wray; Huntington F Willard
Journal:  Genome Res       Date:  2005-12-12       Impact factor: 9.043

7.  New insights into centromere organization and evolution from the white-cheeked gibbon and marmoset.

Authors:  A Cellamare; C R Catacchio; C Alkan; G Giannuzzi; F Antonacci; M F Cardone; G Della Valle; M Malig; M Rocchi; E E Eichler; M Ventura
Journal:  Mol Biol Evol       Date:  2009-05-08       Impact factor: 16.240

8.  Occupancy of the majority of DNA in the chicken W chromosome by bent-repetitive sequences.

Authors:  Y Saitoh; H Saitoh; K Ohtomo; S Mizuno
Journal:  Chromosoma       Date:  1991-10       Impact factor: 4.316

9.  5-azacytidine produces differential undercondensation of alpha, beta and classical human satellite DNAs.

Authors:  J L Fernández; V Goyanes; S Pereira; C López-Fernández; J Gosálvez
Journal:  Chromosome Res       Date:  1994-01       Impact factor: 5.239

10.  Functional epialleles at an endogenous human centromere.

Authors:  Kristin A Maloney; Lori L Sullivan; Justyne E Matheny; Erin D Strome; Stephanie L Merrett; Alyssa Ferris; Beth A Sullivan
Journal:  Proc Natl Acad Sci U S A       Date:  2012-07-30       Impact factor: 11.205

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