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Beyond microbial diversity for predicting soil functions: A mini review

查看全文 作　　者：Paolo [1]NANNIPIERI;Judith ASCHER-[2]JENULL;Maria Teresa [1]CECCHERINI;Giacomo [1]PIETRAMELLARA;Giancarlo [1]RENELLA;Michael [3]SCHLOTER 高影响力作者 机构地区：[1]Department of Agriculture,Food,Environment and Forestry,University of Firenze,P.le delle Cascine 28,Firenze 50144(Italy);[2]Department of Microbiology,University of Innsbruck,Technikerstrasse 25 d,Innsbruck 6020(Austria);[3]Research Unit for Comparative Microbiome Analysis,Helmholtz Zentrum München,Ingolstadter Landstrasse 1,Neuherberg 85764(Germany)高影响力机构 出　　处：《Pedosphere》索引2020年第30卷第1期,共13页高影响力期刊 摘　　要：Since the advent of sequencing technologies,the determination of microbial diversity to predict microbial functions,which are the major determinants of soil functions,has become a major topic of interest,as evidenced by the 900 publications dealing with soil metagenome published up to 2017.However,the detection of a gene in soil does not mean that the relative function is expressed,and the presence of a particular taxon does not mean that the relative functions determined in pure culture also occur in the studied soil.Another critical step is to link microbial community composition or function to the product analyzed to determine flux rates.Indeed,flux rates might not only be highly dynamic,but several metabolites can depend on different reactions,which makes the link to one process of interest difficult or even impossible.This review also discusses biases caused by sampling,storage of samples,DNA extraction and purification,sequencing(amplicon-vs.metagenome sequencing),and bioinformatic data analysis.Insights and the limits of predicting microbial interactions by network inference methods are critically discussed,and finally,future directions for a better understanding of soil functions by using measurements of microbial diversity are presented. 关 键 词：cultivation-based APPROACH DNA-based APPROACH flux rate network inference method omics technology rare BIOSPHERE soil METAGENOME
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