Genome-wide Characterization of Long Terminal Repeat -retrotransposons in Apple Reveals the Differences in Heterogeneity and Copy Number between Ty1-copia and Ty3-gypsy Retrotransposons
查看参考文献52篇
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文摘
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The conserved domains of reverse transcriptase (RT) genes of Ty1-copia and Ty3-gypsy groups of long terminal repeat (LTR) retrotransposons were isolated from the Malus domestica genome using degenerate oligonucleotide primers. Sequence analysis showed that 45% of Ty1-copia and 63% of Ty3-gypsy RT sequences contained premature stop codons and/or indels disrupting the reading frame. High heterogeneity among RT sequences of both Ty1-copia and Ty3-gypsy group retrotransposons was observed, but Ty3-gypsy group retrotransposons in the apple genome are less heterogeneous than Ty1-copia elements. Retrotransposon copy number was estimated by dot blot hybridizations for Ty1-copia (～5 000) and Ty3-gypsy (～26 000). All elements of the two types of LTR retrotransposons comprise approximately 38% of the M. domestica genome, with the Ty3-gypsy group contribution being higher (33.5%) than the Ty1-copia one (4.6%). Transcription was not detected by reverse transcription-polymerase chain reaction for either Ty1-copia or Ty3-gypsy retrotransposons in the leaves of plants in vitro or in leaf explants cultured on medium supplemented with high concentration benzylaminopurine. This research reveals the differences in heterogeneity and copy number between Ty1-copia and Ty3-gypsy retrotransposons in the apple genome. Ty1-copia retrotransposon has higher heterogeneity than Ty3-gypsy retrotransposon, but the latter has a higher copy number, which implies that Ty3-gypsy retrotransposons may play a more important role in the apple genome evolution. |
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来源
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Journal of Integrative Plant Biology
,2008,50(9):1130-1139 【核心库】
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DOI
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10.1111/j.1744-7909.2008.00717.x
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关键词
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heterogeneity
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Malus domestica
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retrotransposon
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reverse transcriptase
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transcriptional activity
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地址
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College of Horticulture, Shenyang Agricultural University, Shenyang, 110161
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语种
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英文 |
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文献类型
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研究性论文 |
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ISSN
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1672-9072 |
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学科
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植物学 |
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基金
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国家自然科学基金
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国家教育部高等学校博士学科点专项科研基金
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文献收藏号
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CSCD:3324769
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