Pasteuria_Nematode_Metabarcoding_Supporting_Data

<i>Pasteuria</i> spp. are endospore forming bacteria which act as natural antagonists to many of the most economically significant plant parasitic nematodes (PPNs). Highly species-specific nematode suppression may be observed in soils containing a sufficiently high density of <i>Pasteuria</i> spp. spores. This suppression is enacted by the bacteria <i>via</i> inhibition of root invasion and sterilization of the nematode host. Molecular methods for the detection of <i>Pasteuria</i> spp. from environmental DNA (eDNA) have been described; however, these methods are limited in both scale and in depth. We report the use of metabarcoding to profile <i>Pasteuria</i> spp. and nematode communities in parallel. We have investigated <i>Pasteuria</i> spp. population structure in Scottish soils using eDNA from two sources: soil extracted DNA from the second National Soil Inventory of Scotland (NSIS2); and nematode extracted DNA collected from farms in the East Scotland Farm Network (ESFN). We compared the <i>Pasteuria</i> spp. community culture to both nematode community structure and the physiochemical properties of soils. Our results indicate that <i>Pasteuria</i> spp. populations in Scottish soils are broadly dominated by two sequence variants. The first of these aligns with high identity to <i>Pasteuria</i> <i>hartismeri</i>, a species first described parasitizing <i>Meloidogyne</i> <i>ardenensis, </i>a nematode parasite of woody and perennial plants in northern Europe. The second aligns with a <i>Pasteuria</i>-like sequence which was first recovered from a farm near Edinburgh which was found to contain <i>Pratylenchus</i> spp. encumbered by <i>Pasteuria</i> spp. endospores. Further, soil carbon, moisture, bulk density, and pH showed a strong correlation with the <i>Pasteuria</i> spp. community composition. These results indicate that metabarcoding is appropriate for the sensitive, specific, and semi-quantitative profiling of <i>Pasteuria</i> species from eDNA.

嗜芽孢杆菌属（Pasteuria）物种是一类形成内生孢子的细菌，可作为多种经济价值突出的植物寄生线虫（PPNs）的天然拮抗因子。当土壤中嗜芽孢杆菌属孢子密度达到足够高的水平时，可观测到具有高度物种特异性的线虫抑制效应。该抑制作用由该细菌通过阻断线虫根系侵染并使线虫宿主绝育得以实现。基于环境DNA（eDNA）检测嗜芽孢杆菌属物种的分子方法已有报道，但此类方法在检测规模与深度上均存在局限。本研究采用宏条形码技术（metabarcoding），对嗜芽孢杆菌属与线虫群落进行平行分析表征。本研究利用两种来源的环境DNA探究苏格兰土壤中嗜芽孢杆菌属的种群结构：其一为取自苏格兰第二次全国土壤调查（NSIS2）的土壤提取DNA，其二为采集自东苏格兰农场网络（ESFN）各农场的线虫提取DNA。本研究将嗜芽孢杆菌属群落组成与线虫群落结构及土壤理化性质进行了对比分析。研究结果显示，苏格兰土壤中的嗜芽孢杆菌属种群主要由两种序列变异体主导。其中第一种序列变异体与哈氏嗜芽孢杆菌（*Pasteuria hartismeri*）具有高度同源性，该物种最初被描述为寄生于阿德根结线虫（*Meloidogyne ardenensis*）——一种北欧木本与多年生植物寄生线虫——的病原菌。第二种序列变异体则与一株首次在爱丁堡附近农场分离得到的类嗜芽孢杆菌序列高度匹配，该农场的土壤中发现短体线虫属（*Pratylenchus*）物种被嗜芽孢杆菌属内生孢子侵染。进一步分析表明，土壤有机碳含量、含水量、容重及pH值均与嗜芽孢杆菌属群落组成具有显著相关性。上述结果证实，宏条形码技术可用于基于环境DNA的嗜芽孢杆菌属物种的高灵敏度、高特异性及半定量分析表征。

搜集汇总

背景与挑战

背景概述

该数据集支持一项关于苏格兰土壤中Pasteuria细菌和线虫群落的元条形码研究，通过环境DNA分析，揭示了Pasteuria种群主要由两个序列变体主导，并与土壤理化性质（如碳、湿度、密度和pH）密切相关。数据集包含22个文件，总大小30.81 MB，发布于2019年，适用于微生物生态学领域的研究。