New SINE families from rice, OsSN, with poly(A) at the 3' ends

スポンサーリンク

概要

• 論文の詳細を見る

• A database search of the sequences flanking a member of rice retrotransposon RIRE7 revealed that a 298-bp sequence in the region downstream of the member is a repetitive sequence interspersed in the genome of Oryza sativa cv. Nipponbare. Most of the repetitive sequences were flanked by a direct repeat of a target-site sequence, about 14 bp in length. The consensus sequence, 293 bp in length, had no regions encoding any proteins but had sequence motifs of an internal promoter of RNA polymerase III. These indicate that the sequence is a retroposon SINE, designated OsSN1 (Oryza sativa SINE1). OsSN1 is a new rice SINE, because it has no homology with any of the three p-SINE families previously identified from rice, and because it has a stretch of A at the 3’ end, unlike p-SINE and any other Gramineae SINEs which have a stretch of T at the 3’ end. The Nipponbare genome was found to have many members related to OsSN1, forming two additional new SINE families (designated OsSN2 and OsSN3). OsSN2 and OsSN3 are highly homologous to the 3’ and 5’ regions of OsSN1, respectively. This suggests that OsSN1 has a mosaic structure, which is generated by sequence exchange (or shuffling) between ancestral OsSN2 and OsSN3. Despite the absence of homology in the 3’ regions between OsSN1 (or OsSN2) and OsSN3, a sequence, 5’-TTCTC-3’, is commonly present in the region preceding the A stretch at the 3’ end. This sequence together with the A stretch and a stem-loop structure found in the region near the A stretch are assumed to be important for retroposition. OsSN members were present in strains of Oryza species, as were p-SINE members. Some of the members showed insertion polymorphism at the respective loci among the rice strains. p-SINE had such polymorphic members, which are useful for classification and phylogenetic analysis of various strains of Oryza species. The polymorphic members of OsSN were more frequently found than those of p-SINE, and therefore, such members are likely to be useful for extensive taxonomic and phylogenetic studies on various rice strains.

• 日本遺伝学会の論文
• 2008-06-25

著者

• TSUCHIMOTO Suguru

  Institute of Molecular and Cellular Biosciences, the University of Tokyo

• OHTSUBO Hisako

  Institute of Molecular and Cellular Biosciences, the University of Tokyo

• OHTSUBO Eiichi

  Institute of Molecular and Cellular Biosciences, the University of Tokyo

• Ohtsubo E

  Institute Of Molecular And Cellular Biosciences The University Of Tokyo

• Ohtsubo Hisako

  Institute Of Molecular And Cellular Biosciences The University Of Tokyo

• Ohtsubo Hisako

  Institute Of Applied Microbiology University Of Tokyo

• Ohtsubo Eiichi

  Institute Of Molecular And Cellular Biosciences The University Of Tokyo

• HIRAO Yoshitoshi

  Institute of Molecular and Cellular Biosciences, the University of Tokyo

• Hirao Yoshitoshi

  Institute Of Molecular And Cellular Biosciences The University Of Tokyo

• Tsuchimoto Suguru

  Institute Of Molecular And Cellular Biosciences The University Of Tokyo

• OHTSUBO Eiichi

  Institute of Applied Microbiology, University of Tokyo

関連論文

• Phylogenetic analysis of Oryza rufipogon strains and their relations to Oryza sativa strains by insertion polymorphism of rice SINEs
• Identification and characterization of Australian wild rice strains of Oryza meridionalis and Oryza rufipogon by SINE insertion polymorphism
• Two new SINE elements, p-SINE2 and p-SINE3, from rice
• New SINE families from rice, OsSN, with poly(A) at the 3' ends
• Rice Retroposon p-SINE1 and Origin of Cultivated Rice
• Isolation and Expression Analysis of Petunia CURLY LEAF-Like Genes
• Evolutionary relationships among rice species with AA genome based on SINE insertion analysis
• Identification and structural analysis of SINE elements in the Arabidopsis thaliana genome
• Identification and characterization of petunia genes homologous to Arabidopsis CURLY LEAF gene
• Tnr8, a foldback transposable element from rice
• Molecular mechanism of the petunia class B gene function
• Identification and phylogenetic analysis of gypsy-type retrotransposons in the plant kingdom
• RIRE2, a novel gypsy-type retrotransposon from rice
• Analysis of Petunia hybrida genes homologous to the Arabidopsis CURLY LEAF gene
• INTERACTIONS BETWEEN PETUNIA FLORAL HOMEOTIC GENES BLIND AND GREEN PETAL
• RIRE1, a retrotransposon from wild rice Oryza australiensis
• Identification and characterization of two tandem repeat sequences(TrsB and TrsC)and a retrotransposon(RIRE1)as genome-general sequences in rice
• イネ染色体における高頻度反復配列の構成〔英文〕
• 可動性遺伝因子のイントロンへの挿入によるイネWaxy遺伝子の多様化〔英文〕
• イネ染色体に存在する転移性因子の同定と,その挿入領域の多型性に基づくイネの系統関係の解析〔英文〕
• New transposable elements identified as insertions in rice transposon Tnr1
• イネ染色体に存在する散在型反復配列p-SINE1ファミリ-の解析〔英文〕
• Tn3とγδのキメラトランスポゼ-スを用いたトランスポゼ-スの逆向き繰り返し配列(IR)に対する結合特異性決定部位の解析〔英文〕

もっと見る 閉じる

スポンサーリンク