Depth-resolved sagebrush root metabolomics, rhizosphere microbial communities, and geochemistry at the East River Watershed

This data set consists of results from soil nutrient profile, untargeted metabolomics, mass spec imaging, and amplicon sequencing. Data for soil nutrient profile includes common cations (Ca, Mg, Na, and K etc.) extracted from 3 digesting steps – ammonia acetate (for exchangeable cations), nitric acid (for acid dissolved fraction), and hydrofluoric acid/perchloric acid (HF/HClO4) for whole soil digestion. It also includes concentration of organic carbon, inorganic nitrogen (ammonia and nitrate) and phosphorus (Bray-1 P and nitric acid extract), and total nitrogen and phosphorus. Data for untargeted metabolomics includes metabolomic profile for root exudate/tissues and soil extracts from depths at surface soil to saprolite, that were measured using gas chromatography – mass spectrometry (GC-MS), and liquid chromatography – tandem mass spectrometry (LC-MS/MS). Data for mass spec imaging includes spatial distribution of metabolites that were detected and annotated with Fourier transformation ion cyclotron resonance mass spectrometer (FTICR-MS). Data for amplicon sequencing includes the base paired 16S and ITS ribosomal RNA sequences from Miseq Illumina sequencing. All samples were collected from 2 sampling campaign October 2022 and June 2023. Collectively, these datasets enable a mechanistic evaluation of how nutrient acquisition, especially nitrogen and phosphorus, differs between shallow roots operating in soil and deep roots functioning within the fractured bedrock zone. All files are provided as comma-separated values (CSV) fies (.csv) and (GZIP) file (.gz). The compressed .gz FASTQ files can be read directly in R using the dada2 package as part of the amplicon sequence analysis workflow. This work was supported by the Watershed Function Science Focus Area at Lawrence Berkeley National Laboratory funded by the US Department of Energy, Office of Science, Biological and Environmental Research under Contract No. DE-AC02-05CH11231. This research was performed on a project award 60563 (https://dx.doi.org/10.46936/expl.proj.2022.60563/60008727) from the Environmental Molecular Sciences Laboratory, a DOE Office of Science User Facility sponsored by the Biological and Environmental Research program under Contract No. DE-AC05-76RL01830.本数据集涵盖土壤养分剖面、非靶向代谢组学（untargeted metabolomics）、质谱成像（mass spec imaging）以及扩增子测序（amplicon sequencing）的相关实验结果。 土壤养分剖面数据包含三类消解步骤提取的常见阳离子（钙Ca、镁Mg、钠Na、钾K等）：乙酸铵法（用于提取交换态阳离子）、硝酸法（用于提取酸溶组分）、氢氟酸/高氯酸（HF/HClO4）法（用于全土消解）；同时还包含有机碳、无机氮（氨态氮与硝态氮）、磷（Bray-1磷与硝酸提取态磷）的浓度，以及总氮与总磷含量。 非靶向代谢组学数据涵盖从表层土壤到腐岩（saprolite）的不同深度的根系分泌物/组织及土壤提取物的代谢组特征，相关检测采用气相色谱-质谱联用（gas chromatography – mass spectrometry, GC-MS）与液相色谱-串联质谱（liquid chromatography – tandem mass spectrometry, LC-MS/MS）完成。 质谱成像数据包含经傅里叶变换离子回旋共振质谱（Fourier transformation ion cyclotron resonance mass spectrometer, FTICR-MS）检测并注释的代谢物的空间分布特征。 扩增子测序数据包含基于Illumina MiSeq测序得到的成对末端16S与ITS核糖体RNA序列。 所有样品采集于2022年10月与2023年6月的两次野外采样工作。 综上，本数据集可支撑机制性研究：解析土壤浅层根系与裂隙基岩带内深层根系的养分获取策略差异，特别是氮、磷的获取机制差异。 所有数据文件以逗号分隔值（CSV，.csv）与GZIP压缩文件（.gz）格式提供。压缩后的.gz格式FASTQ文件可通过R语言的dada2包直接读取，该工具是扩增子序列分析标准流程的组成部分。 本研究得到美国能源部科学办公室生物与环境研究局资助的劳伦斯伯克利国家实验室（Lawrence Berkeley National Laboratory）流域功能科学聚焦区项目支持，项目合同号为DE-AC02-05CH11231。本研究依托环境分子科学实验室（Environmental Molecular Sciences Laboratory, EMSL，美国能源部科学办公室用户设施，由生物与环境研究局资助，合同号DE-AC05-76RL01830）的项目编号60563（https://dx.doi.org/10.46936/expl.proj.2022.60563/60008727）完成。