Comparative analysis of animal mitochondrial proteomes faces two challenges: the scattering of data on experimentally-characterized animal mitochondrial proteomes across several databases, and the lack of data on mitochondrial proteomes from the majority of metazoan lineages. In this study, we developed two resources to address these challenges: 1] the Metazoan Mitochondrial Proteome Database (MMPdb), which consolidates data on experimentally-characterized mitochondrial proteomes of vertebrate and invertebrate model organisms, and 2] MitoPredictor, a novel machine-learning tool for prediction of mitochondrial proteins in animals. MMPdb allows comparative analysis of animal mitochondrial proteomes by integrating results from orthology analysis, prediction of mitochondrial targeting signals, protein domain analysis, and Gene Ontology analysis. Additionally, for mammalian mitochondrial proteins, MMPdb includes experimental evidence of localization from MitoMiner and the Human Protein Atlas. MMPdb is publicly available at https://mmpdb.eeob.iastate.edu/. MitoPredictor is a Random Forest classifier which uses orthology, mitochondrial targeting signal prediction and protein domain content to predict mitochondrial proteins in animals.

中文翻译：

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MMPdb 和 MitoPredictor：促进动物线粒体蛋白质组比较分析的工具

动物线粒体蛋白质组的比较分析面临两个挑战：实验表征的动物线粒体蛋白质组数据分散在多个数据库中，以及缺乏来自大多数后生动物谱系的线粒体蛋白质组数据。在这项研究中，我们开发了两种资源来应对这些挑战：1] 后生动物线粒体蛋白质组数据库 (MMPdb)，它整合了脊椎动物和无脊椎动物模型生物的实验表征线粒体蛋白质组的数据，以及 2] MitoPredictor，一种新型的机器学习预测动物线粒体蛋白的工具。MMPdb 允许通过整合直系分析、线粒体靶向信号预测、蛋白质域分析和基因本体分析的结果，对动物线粒体蛋白质组进行比较分析。此外，对于哺乳动物线粒体蛋白，MMPdb 包括来自 MitoMiner 和人类蛋白质图谱的定位实验证据。MMPdb 可在 https://mmpdb.eeob.iastate.edu/ 上公开获得。MitoPredictor 是一种随机森林分类器，它使用直向学、线粒体靶向信号预测和蛋白质结构域含量来预测动物中的线粒体蛋白质。