Detection and prevalence of Cryptosporidium in irrigation water, soil, and fresh produce : spiking experiments and environmental monitoring

There are four datasets, two detailing the materials and methods used in the study and two presenting the results obtained. These datasets provide a comprehensive overview of the experimental design, data collection, and findings.Dataset 1: Materials and Methods – Spiking Trials<br>This file contains detailed information on the methodology used for spiking Cryptosporidium oocysts into distilled water, commercial soil, and RTE spinach and lettuce. The methodology included sample spiking, DNA extraction and molecular detection using both Real-Time PCR and Droplet Digital PCR (ddPCR).Dataset 2: Results – Spiking Trials<br>This dataset presents the results obtained from the spiking trials, including recovery rates, detection efficiencies using real-time PCR and ddPCR, and variations across different sample matrices.Dataset 3: Materials and Methods – Environmental Detection<br>This file describes the protocols used for detecting Cryptosporidium in environmental samples collected from the water-soil-plant nexus from smallholder farms in South Africa. It details the sampling strategy, DNA extraction methods, and molecular detection techniques applied. The methodology involved collecting water, soil, and fresh produce samples from various farms and sample processing. Thereafter, DNA extraction using the best methods from results from dataset 2 and molecular detection using both Real-Time PCR and Droplet Digital PCR (ddPCR) were performed.Dataset 4: Results – Environmental Detection<br>This dataset contains the findings from environmental sample testing, including Cryptosporidium prevalence in various matrices.<br>

本数据集共包含4份文件，其中2份详细阐述了本研究采用的材料与方法，另外2份展示了实验所得结果。这些数据集全面覆盖了实验设计、数据采集与研究发现的全维度信息。<br>数据集1：材料与方法——加标试验<br>本文件详细记载了向蒸馏水、商用土壤以及即食（Ready-to-Eat）菠菜与生菜中人工添加隐孢子虫（Cryptosporidium）卵囊的实验方法。该方法涵盖样品加标、DNA提取，以及采用实时荧光定量PCR（Real-Time PCR）与微滴式数字PCR（Droplet Digital PCR，ddPCR）的分子检测流程。<br>数据集2：结果——加标试验<br>本数据集展示了加标试验所得结果，包括不同样品基质下的回收率、实时荧光定量PCR与微滴式数字PCR的检测效率，以及各参数在不同基质间的变异情况。<br>数据集3：材料与方法——环境样本检测<br>本文件描述了从南非小农经营农场的水-土-植物连续体中采集的环境样本内隐孢子虫的检测方案。文件详细记载了采样策略、DNA提取方法与所采用的分子检测技术。具体流程为：从多个农场采集水体、土壤与新鲜农产品样本并完成样品前处理，随后采用数据集2结果中筛选出的最优方法开展DNA提取，再分别通过实时荧光定量PCR与微滴式数字PCR完成分子检测。<br>数据集4：结果——环境样本检测<br>本数据集包含环境样本检测的研究发现，涵盖不同基质中的隐孢子虫检出率。