Centromeric Retroelements and Satellites Interact with Maize Kinetochore Protein CENH3

Zhong, Cathy Xiaoyan; Marshall, Joshua B.; Topp, Christopher N.; Mroczek, Rebecca Jeanne; Kato, Akio; Nagaki, Kiyotaka; Birchler, James A.; Jiang, Jiming; Dawe, R. Kelly

doi:10.1105/tpc.006106

Cited by 355 publications

(390 citation statements)

References 65 publications

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“…Investigation of sequences other than the transposable elements and CentO repeats within the central region indicated that they were either unique or low-copy elements. It has been demonstrated that the CentO repeat is located on the functional domain of rice centromere, and the CentC and CRM sequences interact with maize kinetochore protein centromeric histone H3 (CENH3; Cheng et al, 2002;Nagaki et al, 2003;Zhong et al, 2002). Although further studies are needed ± including sequence analysis of the gap region ± the close association of CentO and RIRE7 sequences observed here emphasizes that these sequences would be the most important essential components for characterizing the centromere structure as functional.…”

Section: Discussionmentioning

confidence: 61%

Physical maps and recombination frequency of six rice chromosomes

Wu¹,

Mizuno²,

et al. 2003

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These authors contributed equally to this work. SummaryWe constructed physical maps of rice chromosomes 1, 2, and 6±9 with P1-derived arti®cial chromosome (PAC) and bacterial arti®cial chromosome (BAC) clones. These maps, with only 20 gaps, cover more than 97% of the predicted length of the six chromosomes. We submitted a total of 193 Mbp of non-overlapping sequences to public databases. We analyzed the DNA sequences of 1316 genetic markers and six centromere-speci®c repeats to facilitate characterization of chromosomal recombination frequency and of the genomic composition and structure of the centromeric regions. We found marked changes in the relative recombination rate along the length of each chromosome. Chromosomal recombination at the centromere core and surrounding regions on the six chromosomes was completely suppressed. These regions have a total physical length of about 23 Mbp, corresponding to 11.4% of the entire size of the six chromosomes. Chromosome 6 has the longest quiescent region, with about 5.6 Mbp, followed by chromosome 8, with quiescent region about half this size. Repetitive sequences accounted for at least 40% of the total genomic sequence on the partly sequenced centromeric region of chromosome 1. Rice CentO satellite DNA is arrayed in clusters and is closely associated with the presence of Centromeric Retrotransposon of Rice (CRR )-and RIce RetroElement 7 (RIRE7 )-like retroelement sequences. We also detected relatively small coldspot regions outside the centromeric region; their repetitive content and gene density were similar to those of regions with normal recombination rates. Sequence analysis of these regions suggests that either the amount or the organization patterns of repetitive sequences may play a role in the inactivation of recombination.

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Section: Discussionmentioning

confidence: 61%

Physical maps and recombination frequency of six rice chromosomes

Wu¹,

Mizuno²,

et al. 2003

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“…Centromeres are regions with lower recombination frequency (Beadle, 1932;Clarke and Carbon, 1980) and often exhibit interspersion of satellite sequences and TEs, as in cereals (Zhong et al, 2002), Arabidopsis (Copenhaver et al, 1999), insects (Sun et al, 2003) and fungi (Cambareri et al, 1998). There are indications of the evolutionary link between the centromere structure and TE's activity: centromeric satellite repeats may arise from DNA transposons (Kapitonov and Jurka, 1999).…”

Section: Processes Acting In Regions Of Reduced Recombinationmentioning

confidence: 99%

The role of repetitive DNA in structure and evolution of sex chromosomes in plants

et al. 2009

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Eukaryotic genomes contain a large proportion of repetitive DNA sequences, mostly transposable elements (TEs) and tandem repeats. These repetitive sequences often colonize specific chromosomal (Y or W chromosomes, B chromosomes) or subchromosomal (telomeres, centromeres) niches. Sex chromosomes, especially non-recombining regions of the Y chromosome, are subject to different evolutionary forces compared with autosomes. In nonrecombining regions of the Y chromosome repetitive DNA sequences are accumulated, representing a dominant and early process forming the Y chromosome, probably before genes start to degenerate. Here we review the occurrence and role of repetitive DNA in Y chromosome evolution in various species with a focus on dioecious plants. We also discuss the potential link between recombination and transposition in shaping genomes.

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“…Maize centromeres contain arrays of two intermingled repetitive DNA elements, including a 156-bp satellite repeat CentC (Ananiev et al 1998) and a centromeric retrotransposon CRM (Zhong et al 2002). The CentC/CRM arrays span several megabases of DNA in some maize centromeres (Jin et al 2004;Ananiev et al 2009).…”

Section: Mapping the Cenh3-binding Domain Of Neom3 (Ncenm3 )mentioning

confidence: 99%

Maize centromeres expand and adopt a uniform size in the genetic background of oat

Wang

Zhang

et al. 2013

Genome Res.

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Most existing centromeres may have originated as neocentromeres that activated de novo from noncentromeric regions. However, the evolutionary path from a neocentromere to a mature centromere has been elusive. Here we analyzed the centromeres of nine chromosomes that were transferred from maize into oat as the result of an inter-species cross. Centromere size and location were assayed by chromatin immunoprecipitation for the histone variant CENH3, which is a defining feature of functional centromeres. Two isolates of maize chromosome 3 proved to contain neocentromeres in the sense that they had moved from the original site, whereas the remaining seven centromeres (1, 2, 5, 6, 8, 9, and 10) were retained in the same area in both species. In all cases, the CENH3-binding domains were dramatically expanded to encompass a larger area in the oat background (∼3.6 Mb) than the average centromere size in maize (∼1.8 Mb). The expansion of maize centromeres appeared to be restricted by the transcription of genes located in regions flanking the original centromeres. These results provide evidence that (1) centromere size is regulated; (2) centromere sizes tend to be uniform within a species regardless of chromosome size or origin of the centromere; and (3) neocentromeres emerge and expand preferentially in gene-poor regions. Our results suggest that centromere size expansion may be a key factor in the survival of neocentric chromosomes in natural populations.

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Centromeric Retroelements and Satellites Interact with Maize Kinetochore Protein CENH3

Cited by 355 publications

References 65 publications

Physical maps and recombination frequency of six rice chromosomes

Physical maps and recombination frequency of six rice chromosomes

The role of repetitive DNA in structure and evolution of sex chromosomes in plants

Maize centromeres expand and adopt a uniform size in the genetic background of oat

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