OrganellarGenomeDRAW (OGDRAW): a tool for the easy generation of high-quality custom graphical maps of plastid and mitochondrial genomes
OrganellarGenomeDRAW (OGDRAW): a tool for the easy generation of high-quality custom graphical maps of plastid and mitochondrial genomes
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DOI：
10.1007/s00294-007-0161-y
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发表时间：
2007-11-01
期刊：
影响因子：
2.5
通讯作者：
Bock, Ralph
中科院分区：
文献类型：
--
作者：
Lohse, Marc;Drechsel, Oliver;Bock, Ralph
线粒体和质体是含DNA的细胞细胞器，其基因组以每个细胞的高拷贝数出现。细胞器基因组的大小差异很大，范围从某些动物线粒体基因组的约15 kb到某些植物线粒体基因组的2 MB以上。绝大多数细胞器基因组映射为圆形分子，很难用可用的商业或自由软件工具来说明。因此，已发表的基因组图在设计上是极为异质的，通常在半手动上绘制，并且缺乏任何共识。在这里，我们提出了一种新的基于Web的工具，即OrganellgenomedRaw（OGDRAW），该工具在标准GenBank格式条目中存储的DNA序列的高分辨率自定义图形图。 GenBank数据可以作为文件上传或登录号提供。该程序专门针对叶绿体和线粒体基因组的显示，但也可用于描绘其他圆形DNA序列。程序核心作为带有对象的接口的PERL模块的设计可以轻松地集成到自定义脚本中。
Mitochondria and plastids are DNA-containing cell organelles whose genomes occur at high copy numbers per cell. Organellar genomes vary greatly in size ranging from approximately 15 kb for some animal mitochondrial genomes to more than 2 Mb for some plant mitochondrial genomes. The vast majority of organellar genomes map as circular molecules that are difficult to illustrate by available commercial or free software tools. Thus, published genome maps are extremely heterogeneous in design, often tediously drawn semi-manually and lack any consensus in display. Here, we present a new web-based tool, OrganellarGenomeDRAW (OGDRAW), which produces high-resolution custom graphical maps of DNA sequences as stored in standard GenBank format entries. GenBank data can be provided as either file uploads or accession numbers. The program is specially optimized for the display of chloroplast and mitochondrial genomes but can also be used to depict other circular DNA sequences. The design of the program core as a Perl module with an object-oriented interface allows easy integration into custom scripts.