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 repositor 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).

本数据集涵盖了大堡礁（Great Barrier Reef）48个珊瑚礁点位采集的海水微生物宏基因组测序读段。样本采集于2019年11月至2020年7月期间的4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综合性开放获取微生物基因组数据资源库。每个珊瑚礁点位均采集四份平行海水样本，采集方式包括水肺潜水（SCUBA）或使用尼斯金采水器（Niskin Bottles）。取5升海水经5μm滤膜预过滤后，再通过0.22μm赛瑞维克斯滤器（sterivex filter）截留微生物，随后快速冷冻并保存于-20℃环境中，以备DNA提取。从赛瑞维克斯滤器中提取DNA的步骤包括：采用酚-氯仿-异戊醇抽提法、乙醇沉淀，随后使用Zymo Clean and Concentrator®试剂盒进行纯化，之后将样本送至澳大利亚生态基因组学测序中心的Illumina测序平台进行测序。本数据集以fastq格式提供Illumina双端鸟枪法宏基因组测序读段，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。水质颗粒物与溶解性营养盐数据的生成方法如先前文献所述（https://doi.org/10.25845/5c09b551f315b），数据来源于每个珊瑚礁点位同期采集的海水样本。

压缩包可通过每个点位对应的空间图层下的"illumina.seawater.zip"获取——请注意此类文件体积较大，单文件大小介于6至14 GB之间。