Canine gut microbial data provided by five different DNA-isolation kit on ONT, PacBio and Illumina sequencing platforms

A critical issue in microbiome research is the selection of reliable laboratory and bioinformatics pipelines. The present scenario is marked by an absence of standard and optimal technical workflow, making it difficult to compare data from various studies that utilize different methodologies. Our study, the most comprehensive so far, encompasses every step of processing from DNA extraction to sequencing. We utilized a single stool sample and implemented five DNA purification methods, seven library construction techniques, and four sequencing approaches. Additionally, we employed a ZymoBIOMICS Microbial Community Standard to verify the effectiveness of the applied methods. Our data serve as a valuable resource for exploring how experimental processes influence outcomes and for identifying the best combinations of various methods. Additionally, this dataset acts as a strong foundation for evaluating microbiome bioinformatics software. Furthermore, our data can be applied to meta-analyses concerning the gut microbiome of dogs.

微生物组（microbiome）研究领域的一项核心难题，在于可靠实验室流程与生物信息学流程（bioinformatics pipelines）的遴选。当前领域尚未形成统一的标准与最优技术工作流，导致难以对采用不同方法学的多项研究所得数据开展横向比较。本研究为迄今为止最为全面的相关工作，覆盖了从DNA提取到测序的全部实验流程环节。我们采用单一份粪便样本，分别使用5种DNA纯化方法、7种文库构建技术以及4种测序方案进行处理。此外，我们引入ZymoBIOMICS微生物群落标准品（ZymoBIOMICS Microbial Community Standard）以验证所采用方法的有效性。本数据集可作为宝贵的研究资源，用于探究实验流程对实验结果的影响，并筛选出各类方法的最优组合方案。同时，该数据集也为评估微生物组生物信息学软件提供了坚实的基础。此外，相关数据还可应用于犬肠道微生物组相关的荟萃分析（meta-analyses）研究。