SINE and LINE within human centromeres

Prades, Catherine; Laurent, André; Puechberty, Jacques; Yurov, Yuri B.; Roizès, Gérard

doi:10.1007/bf00163209

Cited by 28 publications

(19 citation statements)

References 31 publications

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“…5a). Given that individuals are known to have different sizes of higher-order repeat arrays (35,46,47) and corresponding array sequence variation (17,33,48), one could hypothesize that sequence abundance and composition might have an effect on CENP-A deposition and centromere sequence use. This analysis begins to outline the concept of centromere-competent sequences, revealed through testing of those sequences that are capable of recruiting and stably propagating CENP-A in the genome and/or when tested in a de novo artificial chromosome assay.…”

Section: Discussionmentioning

confidence: 99%

Sequences Associated with Centromere Competency in the Human Genome

Hayden

Strome

Merrett

et al. 2013

Molecular and Cellular Biology

124

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Centromeres, the sites of spindle attachment during mitosis and meiosis, are located in specific positions in the human genome, normally coincident with diverse subsets of alpha satellite DNA. While there is strong evidence supporting the association of some subfamilies of alpha satellite with centromere function, the basis for establishing whether a given alpha satellite sequence is or is not designated a functional centromere is unknown, and attempts to understand the role of particular sequence features in establishing centromere identity have been limited by the near identity and repetitive nature of satellite sequences. Utilizing a broadly applicable experimental approach to test sequence competency for centromere specification, we have carried out a genomic and epigenetic functional analysis of endogenous human centromere sequences available in the current human genome assembly. The data support a model in which functionally competent sequences confer an opportunity for centromere specification, integrating genomic and epigenetic signals and promoting the concept of context-dependent centromere inheritance.

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Section: Discussionmentioning

confidence: 99%

Sequences Associated with Centromere Competency in the Human Genome

Hayden

Strome

Merrett

et al. 2013

Molecular and Cellular Biology

124

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“…Such a result is similar to that evidenced by Perez et al [43] on Atlantic salmon and rainbow trout karyotypes where the members of this SINE family are located only in the euchromatic regions of the chromosomes. e location of these speci�c Alu-like sequences on the chromosomes of T. torpedo is prevalently at the centromeric level, as in humans [44], and sometimes at the telomeric level, indicating an intraspeci�c polymorphisms (Figure 4(b)). …”

Section: Characterization Of Repeated Sequencesmentioning

confidence: 97%

“…Marçais et al [45] and Prades et al [44] observed that the block of alphoid DNA at the centromeres of human chromosomes is susceptible to variations in length created by jumping ampli�cation, with an unequal exchange of large alphoid domains between homologous chromosomes, and deletions of large DNA segments. Probably, through a similar mechanism, these Alu-like sequences retrotransposed within the T. torpedo genome to speci�c sites such as telomeric regions that are particularly exposed to a new insertion of transposable elements [46].…”

Section: Characterization Of Repeated Sequencesmentioning

confidence: 99%

Molecular and Chromosomal Markers for Evolutionary Considerations in Torpediniformes (Chondrichthyes, Batoidea)

Rocco

2013

ISRN Genetics

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Due to their basal position in the vertebrate phylogenetic tree, the study on elasmobranch genetics and cytogenetics can provide remarkable information on the mechanisms underlying the evolution of all vertebrates. In recent years, different molecular approaches have been used to study the relationships between the different taxonomic groups of cartilaginous �sh, among them are the physical mapping of speci�c nucleotide sequences on chromosomes. However, these are controversial, particularly in Torpediniformes in which the species have different karyological parameters. e purpose of this paper is to gather the molecular markers so far present in literature that were used to reconstruct the phylogenetic position of Torpediniformes with respect to the other Batoidea and to discriminate between the various chromosome pairs in the endemic species in the Mediterranean Sea, Torpedo torpedo, T. marmorata and T. nobiliana. e 5S and 18S ribosomal DNA, the HpaI and Alu SINE, the telomeric (TTAGGG)n and the spermatogenesis-related SPATA 16, SPATA 18, and UTY sequences were particularly useful. ese last genomic segments were also able to differentiate between the male and the female karyotypes. Moreover, the torpedoes showed a particular genomic organization, especially Torpedo torpedo, in which large quantities of highly repeated DNA and a characteristic distribution of heterochromatin, which is never centromeric, were observed.

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“…Also, in contrast to individual monomers, the higher order unit repeats are generally chromo some-specific and may be polymorphic for a given chromo some because of variations in the number of repeats and the restriction enzyme pattern (Jabs et al" 1989;Wevrick and Wil lard, 1989). In addition, polymorphic markers, such as micro satellites, have also been described within human centromeres (Prades et al" 1996). In other mammalian species (notably mice, sheep, and cattle), centromeric DNA also consists of tandemly repeated sequences which appear to be species-specific (Singer, 1982;Burkin et al.…”

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confidence: 99%

Swine centromeric DNA repeats revealed by primed in situ (PRINS) labeling

Rogel–Gaillard

Hayes

Coullin

et al. 1997

Cytogenet Genome Res

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In swine, distinct centromeric satellite DNA families have been described that correspond to either all the meta-centric chromosomes except the Y (Mel) or all the acrocentric chromosomes (Ac2). Using primed in situ (PRINS) labeling, we show here that primers derived from various sequences specifically label the centromeres of different subgroups of chromosomes. Among five primers derived from centromeric sequences of acrocentric chromosomes reported to be very homogeneous, four recognize all the acrocentric chromosomes, whereas one labels prominently chromosome 17. For the metacentric chromosomes, six primers have been derived from several divergent sequences. Among these primers, two recognize all the metacentric chromosomes except 5, 10, and 12. Three other primers label small subsets of metacentric chromosomes, including the X and one or two additional chromosomes. The last primer is specific to chromosome 1. These preliminary results suggest that it should be possible to define specific primers for almost every swine chromosome. Already, some of the primers reported here permit a distinction between swine chromosomes difficult to differentiate without banding, such as the X chromosome and chromosome 9. Therefore, the PRINS technique using centromeric motifs constitutes an additional tool for cytogenetic studies in swine.

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SINE and LINE within human centromeres

Cited by 28 publications

References 31 publications

Sequences Associated with Centromere Competency in the Human Genome

Sequences Associated with Centromere Competency in the Human Genome

Molecular and Chromosomal Markers for Evolutionary Considerations in Torpediniformes (Chondrichthyes, Batoidea)

Swine centromeric DNA repeats revealed by primed in situ (PRINS) labeling

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