Datasets supporting Leasi et al. Communications Biology

This file includes 8 datasets used in Leasi et al. - Communications Biology. Title of the manuscript "Biodiversity estimates and ecological interpretations of meiofaunal communities are biased by the taxonomic approach".<br>We compare biodiversity assessments of a diverse meiofaunal community derived by applying multiple taxonomic methods based on comparative morphology, molecular phylogenetic analysis, DNA barcoding of individual specimens, and metabarcoding of environmental DNA. We show that biodiversity estimates are strongly biased across taxonomic methods and phyla. Such biases affect understanding of community structures and ecological interpretations. Samples were collected from 19 sites located in Panama.<br>Table S1. List of sampled locations and environmental parameters investigated. <br><br>Table S2. List of individuals and taxa collected and analyzed with the respective unique barcode voucher number. Each r18S sequence, entity revealed with GMYC, and OTU is associated to an ID code. Identical ID codes indicate identical r18S sequences, EEs, or OTUs. The same ID codes are shown in the phylogenetic trees. <br>Table S3. Operational taxonomic units of the seven focal phyla. Number of genetic reads is indicated for each sampled station. The phylogenetic trees are constructed considering the Sample-ID code. The last column indicates the percentage of blasting with the reference. The term “TREE” indicates that the taxonomy was obtained by reconstructed the phylogeny.<br>Table S4. Sequence variants of the seven focal phyla. Number of genetic reads is indicated for each sampled station. The phylogenetic trees are constructed considering the Sample-ID code. The last column indicates the percentage of blasting with the reference. The term “TREE” indicates that the taxonomy was obtained by reconstructed the phylogeny.<br>Table S5. Values of richness estimation obtained using Chao and Jackknife algorithms on morphotypes and sequence variants. <br>Table S6. Values of Jaccard dissimilarity based on incidence datasets measured within and between communities. <br>Table S7. Results obtained with PERMANOVA among all taxonomic methods and environmental parameters. <br>Table S8. Values of Phylogenetic Diversity (PD), Mean Phylogenetic Diversity (MPD), and Mean Nearest Taxon Distance (MNTD) measured for each phylum and sampled site. SR, species richness.

本数据集涵盖Leasi等人发表于《Communications Biology》期刊的研究中使用的8组数据集，对应论文标题为《小型底栖动物群落的生物多样性估算与生态学解读因分类学方法存在偏倚》。
本研究对比了基于多种分类学方法得到的多样小型底栖动物群落的生物多样性评估结果，所采用的方法包括比较形态学、分子系统发育分析、个体标本DNA条形码技术以及环境DNA元条形码（metabarcoding）技术。研究表明，不同分类学方法以及不同门类间的生物多样性估算结果均存在显著偏倚，这类偏倚会影响对群落结构的认知及生态学解读。所有样本均采集自巴拿马境内的19个采样位点。
表S1：采样位点列表及调查获取的环境参数。
表S2：采集并分析的个体与类群清单，附各自唯一的条形码凭证编号。每个18S rRNA序列、通过广义混合耶尔可联合模型（Generalized Mixed Yule Coalescent，GMYC）界定的实体以及操作分类单元（Operational Taxonomic Unit，OTU）均关联有专属ID编码；相同ID编码代表一致的18S rRNA序列、GMYC界定实体或OTU，且此类ID编码也会出现在系统发育树中。
表S3：7个核心门类的操作分类单元列表，标注了每个采样站位的遗传读段数。系统发育树基于采样ID编码构建，最后一列显示了与参考序列比对的百分比；标注"TREE"表示该分类学信息通过重构系统发育得到。
表S4：7个核心门类的序列变异体信息，标注了每个采样站位的遗传读段数。系统发育树基于采样ID编码构建，最后一列显示了与参考序列比对的百分比；标注"TREE"表示该分类学信息通过重构系统发育得到。
表S5：基于形态型和序列变异体，使用查奥（Chao）算法与刀切法（Jackknife）得到的丰富度估算值。
表S6：基于物种出现-缺失数据集的雅卡尔（Jaccard）相异度数值，该数值通过群落内部及群落间的出现-缺失数据集计算得到。
表S7：针对所有分类学方法及环境参数开展置换多元方差分析（Permutational Multivariate Analysis of Variance，PERMANOVA）得到的分析结果。
表S8：针对每个门类及采样位点测得的系统发育多样性（Phylogenetic Diversity，PD）、平均系统发育多样性（Mean Phylogenetic Diversity，MPD）以及平均最近分类单元距离（Mean Nearest Taxon Distance，MNTD）数值，其中SR代表物种丰富度。