Re-sequencing of mitochondrial genes in a standard rice cultivar Nipponbare.
Re-sequencing of mitochondrial genes in a standard rice cultivar Nipponbare.
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DOI：
10.1186/1939-8433-6-2
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发表时间：
2013-01-10
期刊：
影响因子：
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通讯作者：
Toriyama K
中科院分区：
文献类型：
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作者：
Toda T;Toriyama K
自从2005年国际水稻基因组测序计划首次确定全基因组序列以来，日本晴的基因组序列经常被用作参考序列。关于日本芭蕾鱼的线粒体基因组序列，两个组已经将它们的序列分别登录到DDBJ/EMBL/GenBank，登录号分别为BA000029和DQ167400。但BA000029和DQ167400的7个基因的核苷酸序列有19个差异。我们用聚合酶链式反应扩增了这7个基因并进行了直接测序。差异位点的核苷酸序列均与DQ167400.1相同。BA000029.3中的序列被认为包含测序错误。BA000029.3中线粒体基因的核苷酸序列在用作参考基因组时需要使用本研究中的数据进行更新。本文的在线版本(DOI：10.1186/1939-8433-6-2)包含补充材料，可供授权用户使用。
Genomic sequence of a rice cultivar Nipponbare has been often used as a reference sequence since a whole-genomic sequence was first determined in 2005 by the International Rice Genome Sequencing Project. As for mitochondrial genomic sequence of Nipponbare, two groups have deposited their sequences into DDBJ/EMBL/GenBank under the accession numbers BA000029 and DQ167400. However, there are 19 discrepancies in the nucleotide sequences of 7 genes between BA000029 and DQ167400. We performed PCR to amplify these 7 genes and to perform direct sequencing. Nucleotides of the discrepant sites were all identical to those in DQ167400.1. The sequence in BA000029.3 is thought to contain sequencing errors. Nucleotide sequences of the mitochondrial genes in BA000029.3 need to be updated using the data in this study when used as a reference genome. The online version of this article (doi:10.1186/1939-8433-6-2) contains supplementary material, which is available to authorized users.