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Research: Dynamic evolution of satellite DNAs drastically differentiates the genomes of Tribolium sibling species
- Damira Veseljak,
- Evelin Despot-Slade,
- Marin Volarić,
- Lucija Horvat,
- Tanja Vojvoda Zeljko,
- Nevenka Meštrović,
- and Brankica Mravinac
Genome Res. November 2025 35: 2445-2460; Published in Advance September 16, 2025, doi:10.1101/gr.280516.125
...that these arrays are embedded in conserved genomic regions, with >90% similarity in the 10-kb flanking regions (Supplemental Fig. S15). However, the PCA showed species-specific clustering of repeats (Fig. 6A), suggesting that the ∼40-kb array was present in the common ancestor but diverged through gene conversion...
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Research: Genomic variation within alpha satellite DNA influences centromere location on human chromosomes with metastable epialleles
- Megan E. Aldrup-MacDonald,
- Molly E. Kuo,
- Lori L. Sullivan,
- Kimberline Chew,
- and Beth A. Sullivan
Genome Res. October 2016 26: 1301-1311; Published in Advance August 10, 2016, doi:10.1101/gr.206706.116
...is distributed exclusively by Cold Spring Harbor Laboratory Press for the first six months after the full-issue publication date (see http://genome.cshlp.org/site/misc/terms.xhtml ). After six months, it is available under a Creative Commons License (Attribution-NonCommercial 4.0 International), as described...
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LETTER: CeRep25B Forms Chromosome-Specific Minisatellite Arrays in Caenorhabditis elegans
- Dave Pilgrim
Genome Res. November 1, 1998 8: 1192-1201; doi:10.1101/gr.8.11.1192
...to retain the ability to amplify autonomously, as several of the arrays consist of only one variant. However, three or four adjacent repeats have been treated as a single unit in several of the arrays, as described. Single-base-pair deviations from the consensus are common, but more drastic alterations...
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LETTER: The evolutionary dynamics of α-satellite
- M. Katharine Rudd,
- Gregory A. Wray,
- and Huntington F. Willard
Genome Res. January 2006 16: 88-96; Published in Advance December 12, 2005, doi:10.1101/gr.3810906
...of monomers arranged in a pentameric fashion with corresponding monomers in the same order, suggesting that they diverged from a common ancestor upon a duplication or deletion event. Unlike other higher-order arrays on the same chromosome ( Choo et al. 1990 ; Alexandrov et al. 1991 ; Wevrick and Willard 1991...
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ARTICLE: Alpha Satellite DNA Variant-Specific Oligoprobes Differing by a Single Base Can Distinguish Chromosome 15 Homologs
- Christine L. O'Keefe and
- A. Gregory Matera
Genome Res. September 1, 2000 10: 1342-1350; doi:10.1101/gr.10.9.1342
...and single-molecule counting using isothermal rolling-circle amplification. Nat. Genet. 19 : 225 – 232 . ↵ Lo A.W. , Liao G.C. , Rocchi M. , Choo K.H. ( 1999 ) Extreme reduction of chromosome-specific alpha-satellite array is unusually common in human chromosome 21. Genome Res. 9 : 895 – 908 . ↵ Lorber B...
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ARTICLE: Genomic Sequence and Transcriptional Profile of the Boundary Between Pericentromeric Satellites and Genes on Human Chromosome Arm 10p
- Jane Guy,
- Tom Hearn,
- Moira Crosier,
- Jonathan Mudge,
- Luigi Viggiano,
- Dirk Koczan,
- Hans-Jurgen Thiesen,
- Jeffrey A. Bailey,
- Julie E. Horvath,
- Evan E. Eichler,
- Mark E. Earthrowl,
- Panos Deloukas,
- Lisa French,
- Jane Rogers,
- David Bentley,
- and Michael S. Jackson
Genome Res. February 1, 2003 13: 159-172; Published in Advance January 14, 2003, doi:10.1101/gr.644503
...in the most centromeric 1.5 Mb of sequence ( Bailey et al. 2002 ). Many of the intrachromosomal duplications in pericentromeric regions are members of chromosome-specific low copy repeat families (LCRs), some of which are responsible for common microdeletion/duplication syndromes (for review, see Stankiewicz...
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LETTER: Centromere RNA is a key component for the assembly of nucleoproteins at the nucleolus and centromere
- Lee H. Wong,
- Kate H. Brettingham-Moore,
- Lyn Chan,
- Julie M. Quach,
- Melissa A. Anderson,
- Emma L. Northrop,
- Ross Hannan,
- Richard Saffery,
- Margaret L. Shaw,
- Evan Williams,
- and K.H. Andy Choo
Genome Res. August 2007 17: 1146-1160; Published in Advance July 10, 2007, doi:10.1101/gr.6022807
...). There was no detectable difference with the transcriptional level of the various chromosome-specific α-satellite repeat species analyzed, further indicating that RNA polymerase I was unlikely to be directly involved in the regulation of α-satellite RNA transcription. These data therefore show that the transcription of α-satellite...
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Perspective: Short arms of human acrocentric chromosomes and the completion of the human genome sequence
- Stylianos E. Antonarakis
Genome Res. April 2022 32: 599-607; Published in Advance March 31, 2022, doi:10.1101/gr.275350.121
...in 1916 in insect speciation (Robertson 1916). Robertsonian translocations could occur among nonhomologous chromosomes (e.g., Chromosomes 14 and 21) or among homologous chromosomes (between, e.g., Chromosomes 21). Robertsonian translocations are among the most common chromosomal rearrangements in humans...
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Research: Telomerase-independent survival leads to a mosaic of complex subtelomere rearrangements in Chlamydomonas reinhardtii
- Frédéric Chaux,
- Nicolas Agier,
- Clotilde Garrido,
- Gilles Fischer,
- Stephan Eberhard,
- and Zhou Xu
Genome Res. September 2023 33: 1582-1598; Published in Advance August 14, 2023, doi:10.1101/gr.278043.123
...of repeated elements, the most common being the Sultan element, present in 31 out of the 34 chromosome extremities in a haploid strain, arranged in tandem repeats of up to 46 elements (Supplemental Fig. S1A). The basic Sultan element has a length of ∼850 bp and forms class A subtelomeres. The Sultan element...
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Method: Rapid molecular assays to study human centromere genomics
- Rafael Contreras-Galindo,
- Sabrina Fischer,
- Anjan K. Saha,
- John D. Lundy,
- Patrick W. Cervantes,
- Mohamad Mourad,
- Claire Wang,
- Brian Qian,
- Manhong Dai,
- Fan Meng,
- Arul Chinnaiyan,
- Gilbert S. Omenn,
- Mark H. Kaplan,
- and David M. Markovitz
Genome Res. December 2017 27: 2040-2049; Published in Advance November 15, 2017, doi:10.1101/gr.219709.116
..., Rocchi M, Choo KH. 1999. Extreme reduction of chromosome-specific α-satellite array is unusually common in human chromosome 21. Genome Res 9: 895–908. Looijenga LH, Oosterhuis JW, Smit VT, Wessels JW, Mollevanger P, Devilee P. 1992. α Satellite DNAs on chromosome 10 and 12 are both members of the dimeric...

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