Spatial Study 2022: Water Column, Sediment, and Total Ecosystem Respiration Rates across the Yakima River Basin, Washington, USA (v2)

This dataset supports a broader study examining the drivers of spatial variability in sediment respiration rates in the Yakima River Basin and is associated with the manuscript “Sediment-associated processes account for most of the spatial variation in ecosystem respiration in the Yakima River basin” submitted to Nature Communications Earth & Environment (Garayburu-Caruso et al., in review). The dataset provides ecosystem metabolism estimates generated from streamMetabolizer (Appling et al.; 2018) using data collected during the same five-week period at 48 sites within multiple rivers throughout the Yakima River Basin in Washington, USA. Additionally, it includes the scripts used for the analysis and producing the figures in the manuscript. The contents include streamMetabolizer inputs and outputs and additional relevant data needed to generate the main manuscript results. The data included are: total ecosystem respiration, water respiration, calculated sediment-associated respiration, gross primary production outputs from the river corridor model for the Yakima River Basin, median grain size (d50), depth, dissolved oxygen, water temperature, pressure, and annual oxygen consumption. The associated GitHub repository can be found at https://github.com/river-corridors-sfa/SSS_metabolism. Samples collected during this study were labeled as “Second Spatial Study” or “SSS.” Raw time series sensor data, total suspended solids, and depth data from SSS were published at https://data.ess-dive.lbl.gov/datasets/doi:10.15485/1969566. A subset of data from the SSS samples were published in the contiguous United States (CONUS)-Scale Model-Sample (CM) study data package available at https://data.ess-dive.lbl.gov/view/doi:10.15485/1923689 that presents data from across the CONUS. They include dissolved organic carbon (DOC, measured as non-purgeable organic carbon, NPOC), total nitrogen (TN), grain size, aerobic sediment respiration, dissolved oxygen (DO), and temperature. Parent IDs and Site IDs are consistent between the SSS and CM data packages, and they can be mapped directly so data across packages can be used together. Field metadata for the samples in this da This dataset is comprised of one main data folder with four subfolders. The main data folder contains of (1) file-level metadata; (2) data dictionary; (3) total/water column/sediment respiration; (4) gross primary production (GPP); (5) median grain size (d50); and (6) annual oxygen consumption. The “Figures” subfolder contains the figures used in the paper and all intermediate files (including geospatial files). The “Published_Data” contains a readme directing the user to download the public data to reproduce analyses and figures. The “Scripts” folder contains all scripts used in the analyses that were not part of running StreamMetabolizer. Lastly, the “Stream_Metabolizer” folder contains all files associated with running StreamMetabolizer including (1) model input files, (2) model output files, (3) processing scripts, (4) histogram plots of the outputs, and (5) an R project. All files are .csv, .pdf, .R, .Rmd, .Rproj, .html, .png, .txt, .qgz, .cpg, .dbf, .prj, .shp, .shp.ea.iso.xml, .shp.iso.xml, .shx, .sbn. ta package can be found at either link. We acknowledge the Yakama Nation as owners and caretakers of the lands where we collected these data. We thank the Confederated Tribes and Bands of the Yakama Nation Tribal Council and Yakama Nation Fisheries for working with us to facilitate sample collection and optimization of data usage according to their values and worldview.本数据集支撑一项针对亚基马河流域沉积物呼吸速率空间变异驱动因子的拓展研究，关联一篇已投稿至《Nature Communications Earth & Environment》的论文"Sediment-associated processes account for most of the spatial variation in ecosystem respiration in the Yakima River basin"（Garayburu-Caruso等，待刊）。 本数据集提供了基于streamMetabolizer（Appling等，2018）生成的河流代谢估算结果，数据采集于美国华盛顿州亚基马河流域多条河流的48个采样点，采样周期为连续五周。此外，数据集还包含论文中用于数据分析与绘图的脚本文件。数据集内容涵盖streamMetabolizer的输入与输出文件，以及生成论文核心结果所需的其他相关数据。所包含的数据具体包括：总生态系统呼吸速率、水体呼吸速率、计算得到的沉积物相关呼吸速率、亚基马河流域河流廊道模型的总初级生产力（gross primary production, GPP）输出结果、中值粒径（median grain size, d50）、水深、溶解氧、水温、气压以及年耗氧量。 本数据集关联的GitHub仓库地址为：https://github.com/river-corridors-sfa/SSS_metabolism。本研究采集的样本标记为"Second Spatial Study"（简称SSS）。SSS的原始时序传感器数据、总悬浮颗粒物数据及水深数据已发表于https://data.ess-dive.lbl.gov/datasets/doi:10.15485/1969566。SSS样本的部分子集数据已发表于美国本土（contiguous United States, CONUS）尺度模型样本（CM）研究数据包，地址为https://data.ess-dive.lbl.gov/view/doi:10.15485/1923689，该数据包涵盖了美国本土全域的采样数据。该数据包包含的数据有：溶解性有机碳（dissolved organic carbon, DOC，以不可吹扫有机碳（non-purgeable organic carbon, NPOC）形式测定）、总氮（total nitrogen, TN）、粒径、好氧沉积物呼吸速率、溶解氧（dissolved oxygen, DO）及水温。SSS与CM数据包中的父样本ID及站点ID保持一致，可直接进行匹配，从而实现跨数据包数据的联合使用。本数据集样本的野外元数据可通过上述任一链接获取。 本数据集包含1个主数据文件夹及4个子文件夹。主数据文件夹包含以下内容：(1) 文件级元数据；(2) 数据字典；(3) 总呼吸/水柱呼吸/沉积物呼吸数据；(4) 总初级生产力（GPP）数据；(5) 中值粒径（d50）；(6) 年耗氧量数据。"Figures"子文件夹包含论文中使用的所有插图及中间文件（含地理空间文件）。"Published_Data"子文件夹包含一份说明文档，指引用户下载公开数据以复现分析流程与绘图结果。"Scripts"子文件夹包含除运行streamMetabolizer之外的所有数据分析脚本。最后，"Stream_Metabolizer"子文件夹包含与运行streamMetabolizer相关的所有文件，具体包括：(1) 模型输入文件；(2) 模型输出文件；(3) 处理脚本；(4) 输出结果的直方图；(5) 一个R项目文件。所有文件的格式包括.csv、.pdf、.R、.Rmd、.Rproj、.html、.png、.txt、.qgz、.cpg、.dbf、.prj、.shp、.shp.ea.iso.xml、.shp.iso.xml、.shx、.sbn。 我们感谢亚基马族作为本次采样所在土地的所有者与守护者。同时感谢亚基马族部落议会及亚基马族渔业部门，感谢他们依照自身价值观与世界观，协助我们完成样本采集并优化数据使用方式。