A critical perspective on interpreting amplicon sequencing data in soil ecological research
A critical perspective on interpreting amplicon sequencing data in soil ecological research
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DOI：
10.1016/j.soilbio.2021.108357
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发表时间：
2021-07-20
影响因子：
9.7
通讯作者：
Schmidt, Hannes
中科院分区：
文献类型：
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作者：
Alteio, Lauren, V;Seneca, Joana;Schmidt, Hannes
利用标记基因扩增子测序进行微生物群落分析已成为土壤研究领域的常规方法。从这个角度来看，我们讨论了扩增子测序的技术挑战和局限性，并提出了统计和实验方法，可以帮助解决土壤的时空复杂性和其中生物的高度多样性。我们说明了组合性对相对丰度数据解释的影响，并讨论了样品复制对土壤群落分析统计力的影响。此外，我们认为需要增加研究的可重复性和数据的可用性，以及补充技术，以产生更深入的生态学见解，了解微生物在土壤生态系统中的作用和我们对其的理解。在这个阶段，我们呼吁研究人员和专门的土壤期刊考虑数据分析、解释和可用性的现状，以提高未来研究的严谨性。
Microbial community analysis via marker gene amplicon sequencing has become a routine method in the field of soil research. In this perspective, we discuss technical challenges and limitations of amplicon sequencing and present statistical and experimental approaches that can help addressing the spatio-temporal complexity of soil and the high diversity of organisms therein. We illustrate the impact of compositionality on the interpretation of relative abundance data and discuss effects of sample replication on the statistical power in soil community analysis. Additionally, we argue for the need of increased study reproducibility and data availability, as well as complementary techniques for generating deeper ecological insights into microbial roles and our understanding thereof in soil ecosystems. At this stage, we call upon researchers and specialized soil journals to consider the current state of data analysis, interpretation, and availability to improve the rigor of future studies.