Great Barrier Reef Genomics Database: Seawater Illumina Reads

This dataset comprises of microbial metagenomics sequencing reads of seawater collected across 48 reef sites across the Great Barrier Reef. Samples were collected across four Long Term Monitoring Program (LTMP) field trips between November 2019-July 2020, combining water chemistry data, LTMP field surveys and microbial metagenomics data. This data collection was a major part of the QRCIF IMOS GBR microbial genomic database project, which aims to generate a comprehensive open access repository of microbial genomic data from across the region. Seawater was collected in quadruplicate either by SCUBA or using Niskin Bottles at each reef site, 5L of seawater was pre-filtered using a 5µm filter and applied to a 0.22µm sterivex filter, snap frozen and stored at -20°C in preparation of DNA extraction. DNA was extracted from sterivex filters using phenol:chloroform:Iso-amyl alcolol extraction, ethanol precipitation and cleanup using the Zymo Clean and Concentrator® kit before submission for sequencing at the Australian Centre for Ecogenomics sequencing facility, Illumina. The data presented as illumina paired-end shotgun metagenomics sequencing runs, in fastq format, generated by Microba Life Sciences, Brisbane, QLD, Australia. Each downloadable archive contains forward and reverse reads for all replicate sampling performed at that particular site. Water quality particulate and dissolved nutrient data was generated as previously described (https://doi.org/10.25845/5c09b551f315b) from water samples collected simultaneously at each reef site.Zip files are available through the spatial layer under each site's 'illumina.seawater.zip' - please note these are large downloads (between 6 - 14 GB).

本数据集包含采集自大堡礁（Great Barrier Reef）48个珊瑚礁点位的海水微生物宏基因组测序读段（microbial metagenomics sequencing reads）。样本采集于2019年11月至2020年7月间的四次长期监测计划（Long Term Monitoring Program, LTMP）野外考察，整合了水体化学数据、LTMP野外调查数据与微生物宏基因组数据。本次数据采集是QRCIF IMOS GBR微生物基因组数据库项目的核心组成部分，该项目旨在构建覆盖该区域的开放式微生物基因组数据综合存储库。每个珊瑚礁点位均通过水肺潜水（SCUBA）或尼斯金采水器（Niskin Bottles）采集四份平行海水样本：先以5μm滤膜完成预过滤，再将水样通过0.22μm的Sterivex过滤器（Sterivex filter），随后快速冷冻并置于-20℃保存，以备DNA提取。研究人员采用苯酚-氯仿-异戊醇抽提法、乙醇沉淀法，并使用Zymo Clean and Concentrator® 试剂盒对样本进行纯化，从Sterivex过滤器中提取基因组DNA，随后将样本送至澳大利亚生态基因组学测序中心（Australian Centre for Ecogenomics）的Illumina测序平台开展测序。本数据集以Illumina双端鸟枪宏基因组测序运行结果的形式呈现，格式为fastq，由澳大利亚昆士兰州布里斯班的Microba Life Sciences公司生成。每个可下载归档文件均包含对应点位所有平行采样样本的正向与反向测序读段。水质颗粒物与溶解态营养盐数据的生成方法已在既往研究中发表（https://doi.org/10.25845/5c09b551f315b），数据来源于各珊瑚礁点位同期采集的水样。压缩包可通过各点位下的"illumina.seawater.zip"空间图层获取，请注意此类文件体积较大，单文件大小介于6 GB至14 GB之间。