Supplementary Materials 1 from Biases in bulk: DNA metabarcoding of marine communities and the methodology involved

Dataset belonging to "Biases in bulk: DNA metabarcoding of marine communities and the methodology involved" Molecular Ecology (2020). LM van der Loos &amp; R Nijland.<br>In order to synthesise and do a ‘stock take’ of recent approaches and methods used for DNA metabarcoding of bulk samples, we conducted a systematic literature survey. We searched the database Web of Science in April 2019 using the key words “DNA metabarcoding”, “marine”, “benthos”, “fauna”, “biodiversity”, “meiofauna”, “macrofauna”, “sediment”, “diet” and “hard substrate” in various combinations of 2-3 keywords, resulting in 518 returned records. Duplicate papers were removed as well as those that were not primary research articles, not published in peer-reviewed journals and not written in English. Following initial filtering, a total of 133 studies were considered for future reading, with data extracted only from papers that concerned (a) eukaryotic organisms; (b) organisms sampled in a marine environment, and (c) DNA metabarcoding of bulk samples. After excluding all studies that did not meet these criteria, 64 studies published between 2010 and 2019 were analysed. For each study, we extracted information about the sample type (plankton, soft sediment, hard substrate, or stomach content/faeces), the target species groups, sample pre-processing, the preservation method, the DNA extraction method, the selected markers (target DNA region and primers), the PCR thermal profile, the number of technical PCR replicates, and the sequencing platform used. This data is presented in the current table (Supplementary Materials 1).

本数据集源自发表于《Molecular Ecology》2020年的《Biases in bulk: DNA metabarcoding of marine communities and the methodology involved》一文，作者为LM van der Loos与R Nijland。为系统总结并梳理当前批量样本DNA元条形码技术（DNA metabarcoding）的常用研究方法与技术路径，本研究开展了系统性文献调研。研究于2019年4月以Web of Science数据库为检索平台，采用2-3个关键词的组合方式，以"DNA metabarcoding"、"marine"、"底栖生物（benthos）"、"动物群（fauna）"、"生物多样性（biodiversity）"、"小型底栖生物（meiofauna）"、"大型底栖生物（macrofauna）"、"沉积物（sediment）"、"食性（diet）"与"硬质底质（hard substrate）"作为检索词，最终获得518条检索记录。研究人员剔除了重复文献、非原创研究论文、未发表于同行评议期刊的文献以及非英文撰写的文献。经过初步筛选后，共得到133篇待后续研读的文献，且仅从满足以下三项标准的文献中提取数据：(a) 研究对象为真核生物（eukaryotic organisms）；(b) 采样环境为海洋环境；(c) 针对批量样本开展DNA元条形码技术分析。剔除不符合上述标准的文献后，最终纳入64篇2010至2019年间发表的文献进行分析。针对每一篇纳入分析的文献，研究人员提取了以下信息：样本类型（浮游生物（plankton）、软沉积物（soft sediment）、硬质底质（hard substrate）或胃容物/粪便（stomach content/faeces））、目标物种类群、样本前处理流程、保存方法、DNA提取方法、选用的分子标记（目标DNA区域与引物（primers））、PCR热循环程序、PCR技术重复次数以及所用的测序平台（sequencing platform）。本数据集的相关数据已整理至当前表格（补充材料1）。