MITOS: Improved de novo metazoan mitochondrial genome annotation
MITOS: Improved de novo metazoan mitochondrial genome annotation
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DOI：
10.1016/j.ympev.2012.08.023
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发表时间：
2013-11-01
影响因子：
4.1
通讯作者：
Stadler, Peter F.
中科院分区：
文献类型：
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作者：
Bernt, Matthias;Donath, Alexander;Stadler, Peter F.
大约2000个完整测序的线粒体基因组可从NCBI Re fSeq数据库中获得，以及它们的蛋白质编码基因、rRNA和tRNA的手动管理注释。这种注释信息，这已经积累了二十多年，已经获得了一套不同的计算工具和注释策略。尽管人工管理的所有努力，它仍然受到阅读方向的错误分配、错误的基因名称、以及特别是对于RNA基因的缺失以及假阳性注释的困扰。总而言之，这对旨在全面使用这些数据进行动物胚胎遗传学和有丝分裂基因组分子进化研究的全自动流水线造成了重大问题。MITOS管道旨在计算有丝分裂基因组序列的一致从头注释。我们表明，MITOS的结果在注释覆盖率和质量方面与RefSeq和MitoZoa相匹配。与此同时，我们避免偏见，术语不一致，以及源于手动策展策略的错别字。MITOS管道可在线访问http://mitos.bioinf.uni-leipzig.de。(C)2012 Elsevier Inc. All rights reserved.
About 2000 completely sequenced mitochondrial genomes are available from the NCBI Re fSeq data base together with manually curated annotations of their protein-coding genes, rRNAs, and tRNAs. This annotation information, which has accumulated over two decades, has been obtained with a diverse set of computational tools and annotation strategies. Despite all efforts of manual curation it is still plagued by misassignments of reading directions, erroneous gene names, and missing as well as false positive annotations in particular for the RNA genes. Taken together, this causes substantial problems for fully automatic pipelines that aim to use these data comprehensively for studies of animal phylogenetics and the molecular evolution of mitogenomes. The MITOS pipeline is designed to compute a consistent de novo annotation of the mitogenomic sequences. We show that the results of MITOS match RefSeq and MitoZoa in terms of annotation coverage and quality. At the same time we avoid biases, inconsistencies of nomenclature, and typos originating from manual curation strategies. The MITOS pipeline is accessible online at http://mitos.bioinf.uni-leipzig.de. (C) 2012 Elsevier Inc. All rights reserved.