18S & COI mesozooplankton metabarcoding - California Current Ecosystem 0-200m

Metabarcoding dataset of zooplankton communities from the California Current Ecosystem, generated to examine cross-shore diversity patterns and to calibrate PCR amplification bias. Zooplankton were collected with 202 um Bongo nets (0-200 m), size-fractionated (0.2-0.5 mm, 0.5-1 mm, 1-2 mm), and analyzed in parallel with Zooscan imaging for biomass and size structure. DNA was extracted from each size fraction and amplified using Leray COI primers (jgLCO1490 and jgHCO2198) and Zhang 18S-V4 primers (Uni18S and Uni18SR ). Amplicons were sequenced on an Illumina MiSeq and processed into amplicon sequence variants (ASVs) with DADA2, and taxonomy was assigned against the MetaZooGene database supplemented with CCE voucher specimens and BLAST. Samples span an upwelling-to-offshore gradient, enabling analysis of zooplankton diversity, size structure, and environmental relationships. In parallel, variable PCR cycle experiments were conducted on the mixed-community samples to quantify amplification efficiencies using a Bayesian multinomial logistic-normal model (fido package in R). Attempts to correct for PCR bias and improve quantitative interpretation of metabarcoding-based abundance estimates were made through comparison to Zooscan biomass.

加利福尼亚流生态系统浮游动物群落的元条形码（metabarcoding）数据集，旨在探究跨岸多样性格局并校正聚合酶链式反应（PCR）扩增偏差。浮游动物通过孔径202 μm的邦戈网（Bongo net）于0~200 m水层采集，随后按粒径分级为0.2~0.5 mm、0.5~1 mm、1~2 mm三个组别，并同步采用Zooscan成像技术分析其生物量与粒径结构。从各粒径分级样本中提取DNA，分别使用Leray COI引物（jgLCO1490与jgHCO2198）及Zhang 18S-V4引物（Uni18S与Uni18SR）进行扩增。扩增子在Illumina MiSeq平台上完成测序，通过DADA2工具处理得到扩增子序列变异体（amplicon sequence variants, ASVs）；分类学注释基于MetaZooGene数据库，并辅以加利福尼亚流生态系统（CCE）凭证标本及BLAST比对。样本覆盖从上升流区至远海的梯度范围，可用于分析浮游动物多样性、粒径结构及其与环境因子的关联。同步针对混合群落样本开展不同循环数的PCR实验，采用R语言中fido包实现的贝叶斯多项逻辑正态模型量化扩增效率。本研究通过与Zooscan测得的生物量进行比对，尝试校正PCR偏差并优化基于元条形码的丰度估计值的定量解读。