元组学数据的分析需要利用几种生物信息学工具和熟练的信息学。多个元组学数据的整合更具挑战性,现有生物信息学解决方案的输出并不总是容易解释。这里,我们提出了一个元组学生物信息学管道,用于社区分析的元组学软件(MOSCA),旨在克服这些限制。MOSCA最初是为分析宏基因组学(MG)和超转录组学(MT)数据而开发的。现在,它还进行MG和元蛋白质组学(MP)综合分析,MG/MT分析通过额外的迭代分箱步骤升级,代谢途径图,以及有关功能注释和数据可视化的一些改进。MOSCA处理原始测序数据和质谱,并进行预处理,装配,注释,分箱和差异基因/蛋白质表达分析。MOSCA在大型表格中显示分类学和功能分析,执行代谢途径映射,生成Krona图并在热图中显示基因/蛋白质表达结果,改进组学数据可视化。MOSCA可以从单个命令轻松运行,同时还提供Web界面(MOSGUITO)。相关功能包括一组广泛的自定义选项,允许量身定制的分析以适应特定的研究目标,以及使用替代配置从中间检查点重新启动管道的能力。两个案例研究展示了MOSCA结果,从厌氧消化器中提供厌氧微生物群落的完整视图,并了解特定微生物的作用。MOSCA代表了元组学研究的关键进展,提供一个直观的,全面,和多才多艺的解决方案,为研究人员寻求解开微生物群落的错综复杂的挂毯。
The analysis of meta-omics data requires the utilization of several bioinformatics tools and proficiency in informatics. The integration of multiple meta-omics data is even more challenging, and the outputs of existing bioinformatics solutions are not always easy to interpret. Here, we present a meta-omics bioinformatics pipeline, Meta-Omics Software for Community Analysis (MOSCA), which aims to overcome these limitations. MOSCA was initially developed for analysing metagenomics (MG) and
metatranscriptomics (MT) data. Now, it also performs MG and metaproteomics (MP) integrated analysis, and MG/MT analysis was upgraded with an additional iterative binning step, metabolic pathways mapping, and several improvements regarding functional annotation and data visualization. MOSCA handles raw sequencing data and mass spectra and performs pre-processing, assembly, annotation, binning and differential gene/protein expression analysis. MOSCA shows taxonomic and functional analysis in large tables, performs metabolic pathways mapping, generates Krona plots and shows gene/protein expression results in heatmaps, improving omics data visualization. MOSCA is easily run from a single command while also providing a web interface (MOSGUITO). Relevant features include an extensive set of customization options, allowing tailored analyses to suit specific research objectives, and the ability to restart the pipeline from intermediary checkpoints using alternative configurations. Two case studies showcased MOSCA results, giving a complete view of the anaerobic microbial communities from anaerobic digesters and insights on the role of specific microorganisms. MOSCA represents a pivotal advancement in meta-omics research, offering an intuitive, comprehensive, and versatile solution for researchers seeking to unravel the intricate tapestry of microbial communities.