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First published online March 22, 2004; 10.1105/tpc.019273

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The Plant Cell 16:967-976 (2004)
© 2004 American Society of Plant Biologists

Composition and Structure of the Centromeric Region of Rice Chromosome 8

Jianzhong Wu, Harumi Yamagata, Mika Hayashi-Tsugane, Saori Hijishita, Masaki Fujisawa, Michie Shibata, Yukiyo Ito, Mari Nakamura, Miyuki Sakaguchi, Rie Yoshihara, Harumi Kobayashi, Kazue Ito, Wataru Karasawa, Mayu Yamamoto, Shoko Saji, Satoshi Katagiri, Hiroyuki Kanamori, Nobukazu Namiki, Yuichi Katayose, Takashi Matsumoto and Takuji Sasaki1

Rice Genome Research Program, National Institute of Agrobiological Sciences/Institute of the Society for Techno-Innovation of Agriculture, Forestry, and Fisheries, Tsukuba, Ibaraki 305-8602, Japan

1 To whom correspondence should be addressed. E-mail tsasaki{at}nias.affrc.go.jp; fax 81-29-838-2302.

Understanding the organization of eukaryotic centromeres has both fundamental and applied importance because of their roles in chromosome segregation, karyotypic stability, and artificial chromosome-based cloning and expression vectors. Using clone-by-clone sequencing methodology, we obtained the complete genomic sequence of the centromeric region of rice (Oryza sativa) chromosome 8. Analysis of 1.97 Mb of contiguous nucleotide sequence revealed three large clusters of CentO satellite repeats (68.5 kb of 155-bp repeats) and >220 transposable element (TE)–related sequences; together, these account for ~60% of this centromeric region. The 155-bp repeats were tandemly arrayed head to tail within the clusters, which had different orientations and were interrupted by TE-related sequences. The individual 155-bp CentO satellite repeats showed frequent transitions and transversions at eight nucleotide positions. The 40 TE elements with highly conserved sequences were mostly gypsy-type retrotransposons. Furthermore, 48 genes, showing high BLAST homology to known proteins or to rice full-length cDNAs, were predicted within the region; some were close to the CentO clusters. We then performed a genome-wide survey of the sequences and organization of CentO and RIRE7 families. Our study provides the complete sequence of a centromeric region from either plants or animals and likely will provide insight into the evolutionary and functional analysis of plant centromeres.


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