Identification of plant genome segments that change methylation states and its implication for breeding traits

改变甲基化状态的植物基因组片段的鉴定及其对育种性状的影响

• 批准号: 15380001
• 负责人: KISHIMA Yuji
• 金额: $ 10.3万
• 依托单位: HOKKAIDO UNIVERSITY
• 依托单位国家: 日本
• 项目类别: Grant-in-Aid for Scientific Research (B)
• 财政年份: 2003
• 资助国家: 日本
• 起止时间: 2003 至 2005
• 项目状态: 已结题
• 来源: https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-15380001/
• 关键词: Plant breeding; DNA metrhylation; epigenetic marker; transposable elements; Rice; Antirrhinum majus; Tam3; Demethylation; メチレーション; 温度反応; トランスポゾンレィスプレイ

In plants, phenotypic variations have generally been found to be caused by genetic changes. However, it has recently been shown that phenotypic variations can also be potentially caused by epigenetic changes due to aberrant methylation states. Unlike that in mammalian genomes, DNA methylation in the plant genome was found to be heritably maintained during both meiotic and mitotic phases. Therefore, an altered methylation state in a plant genomic segment might be transmitted and maintained in the progeny. This study consists of two parts to identify presence of genetic segments with variable methylation state and to understand its mechanism. Firstly, we surveyed genomic segments that change methylation state among different nine rice strains including Japonica, Indica and wild rices. Second, we analyzed demethylation process in Antirrhinum transposon Tam3, of which activity is tightly controlled by temperature and appears to be correlated with its methylation state.On the first issue, our results showed that the occurrence of epigenetic (epi)-markers in non-polymorphic fragments appeared to be correlated with the genetic distance between any two of the nine rice strains examined. In contrast, the proportion of epi-markers in the total number of fragments, including polymorphic and non-polymorphic fragments, was constant (2-3%) in all the pairs. We assume that the epigenetic differences in methylation among the rice genomes influence certain phenotypic variations.On the second issue, we found that the methylation level of Tam3 in Antirrhinum is regulated by the Tam3 activity. It is the activity of Tam3, which is dependent on the ability of its transposase to bind DNA, which is affected by growing temperature and the methylation/demethylation of Tam3 is the consequence, not the cause, of transposition.

在植物中，通常发现表型变异是由遗传变化引起的。但是，最近已经显示，表型变化也可能是由于异常甲基化态引起的表观遗传变化引起的。与在哺乳动物基因组中不同，在减数分裂和有丝分裂相期间，植物基因组中的DNA甲基化被发现维持。因此，在植物基因组段中的甲基化状态改变可能在后代传播和维持。这项研究包括两个部分，以鉴定具有可变甲基化状态的遗传片段的存在并了解其机制。首先，我们调查了不同的九种水稻菌株（包括Japonica，Indica和Wild Rices）之间改变甲基化状态的基因组段。其次，我们分析了抗逆转盆地TAM3中的脱甲基化过程，其中该活性受温度紧密控制，似乎与其甲基化状态相关。在第一个问题中，我们的结果表明，非构型片段中表观遗传（EPI）的出现在非属性片段中似乎与两者相互作用。相反，在所有对中，片段总数（包括多态性和非晶型片段）的比例在包括多态性和非晶型片段中为恒定（2-3％）。我们假设水稻基因组中甲基化的表观遗传差异会影响某些表型变异。在第二个问题中，我们发现抗抗旋转中TAM3的甲基化水平受TAM3活性的调节。它是TAM3的活性，它取决于其转座酶结合DNA的能力，DNA的能力受温度增长和TAM3的甲基化/去甲基化的影响是转置转位的结果，而不是原因。

项目成果

Temperature shift coordinately changes the activity and the methylation state of transposon Tam3 in Antirrhinum majus

• DOI: 10.1104/pp.102.017533
• 发表时间: 2003-07-01
• 期刊: PLANT PHYSIOLOGY
• 影响因子: 7.4
• 作者: Hashida, S;Kitamura, K;Kishima, Y
• 通讯作者: Kishima, Y

Genomics of rice : markers as a tool for breeding. Biotechnology in Agriculture and Forestry.

水稻基因组学：作为育种工具的标记。

• 发表时间: 2004
• 期刊: Springer-Verlag Berlin Heidelberg Molecular Marker Systems vol.55
• 作者: Kishima;Y.;Onishi;K.;Sano;Y.
• 通讯作者: Y.

植物のゲノムに潜むウイルス-反復配列に秘められたしなやかでしたたかなゲノム、化学と生物 42巻 704-706

隐藏在植物基因组中的病毒 - 隐藏在重复序列中的灵活而强大的基因组，化学与生物学卷 42, 704-706

• 发表时间: 2004
• 作者: F.Cattaneo;M.E.Pasini;J.Intra;M.Matsumoto;F.Briani;M.Hoshi;M.E.Perotti;貴島祐治
• 通讯作者: 貴島祐治

Reconstruction of putative DNA virus from endogenous rice tungro bacilliform virus-like sequences in the rice genome : implications for evolution and integration

从水稻基因组内源性水稻东格罗杆状病毒样序列中重建假定的DNA病毒：对进化和整合的影响

• 发表时间: 2004
• 期刊: BMC Genomics 5
• 作者: 奥野倫子;生田英輔;宮野道雄;宮野道雄;Shin-Nosuke Hashida;生田英輔;Shin-Nosuke Hashida;So Kobayashi;Miwako Takata;Hashida Shinnosuke;Takata Miwako;Kobayashi Sou;Kunii Motoyuki
• 通讯作者: Kunii Motoyuki

トランスポゾンを利用した花色関連形質の解析 「植物色素研究法」 植物色素研究会編 225-234

利用转座子分析花色相关性状《植物色素研究方法》植物色素研究会主编225-234

• 发表时间: 2004
• 作者: 貴島祐治;高田美和子;桑原裕之;佐野芳雄
• 通讯作者: 佐野芳雄