Habitats and environmental variables investigated in a diversity survey on Polynucleobacter bacteria revealed by amplicon sequencing of priB genes

Freshwater habitats (ditches, ponds, lakes and rivers) sampled for a biodiversity survey on subcluster PnecC of the genus Polynucleobacter (Bacteria, Proteobacteria, Burkholderiaceae). Subcluster PnecC represents a monophyletic linage within the genus Polynucleobacter and equals a subgenus. The dataset contains data on the geographic location of the habitats and the measured environmental variables. The obtained molecular data and reference sequences of the priB gene and genome sequences of reference strains were deposited in GenBank/EMBL/DDBJ.

Methods
In total, 102 freshwater habitats (Habitat_ID) were sampled. Some of the habitats were sampled two to three times at different dates (usually in different years). Samples 2_Ounas47 and 2_Ounas48 represent the same sample, which was used twice as a technical replicate for the determination of the priB diversity by Illumina sequencing (two Illumina libraries were established). The habitats were classified in three different categories (ditch, Lake_Pond, River). All samples represent surface water samples. Some variables were measured on location, while the absorbance values and the major ion concentrations (mg/L) were measured in the laboratory by using 0.2µm-filtered (on location) samples, which were cooled upon arrival in the laboratory. Major ions concentrations were determined by ion chromatography. No concentrations are given if concentrations of ion species were below the detection limit or outside the calibration range. Geographic coordinates were recorded on location. Altitude (m) and surface area (ha) of the standing water habitats were inferred by using Google Earth. For running waters no surface area data are given. Absorbance values were determined for 0.2µm-filtered water samples by using 1cm cuvettes.

本数据集为针对多核杆菌属（Polynucleobacter）PnecC亚簇的生物多样性调查所采集的淡水生境样本，该亚簇隶属于细菌域（Bacteria）、变形菌门（Proteobacteria）、伯克霍尔德菌科（Burkholderiaceae）。PnecC亚簇是多核杆菌属内的单系演化支，相当于一个亚属。本数据集包含生境的地理位置信息与实测环境变量数据，所获得的分子数据、priB基因参考序列以及参考菌株的基因组序列已提交至GenBank/EMBL/DDBJ数据库。

方法
本研究共采集102个淡水生境样本，样本编号为Habitat_ID。部分生境在不同时期（通常为不同年份）进行了2~3次采样。样本2_Ounas47与2_Ounas48为同一份样本，作为技术重复用于通过Illumina测序测定priB基因多样性，本次实验共构建了2个Illumina文库。所有生境被划分为3个类别：沟渠、湖塘、河流，所有样本均为地表水样本。
部分环境变量在采样现场完成测定，而吸光度值与主要离子浓度（单位：mg/L）则通过实验室分析得到：先在现场将水样经0.2μm滤膜过滤，带回实验室后冷藏保存，再进行检测。主要离子浓度采用离子色谱法测定。若离子浓度低于检测限或超出校准曲线范围，则未给出具体浓度值。
采样现场记录了地理坐标。静水生生境的海拔（单位：m）与表面积（单位：ha）通过Google Earth估算得到，流水生境未提供表面积数据。吸光度值通过对经0.2μm滤膜过滤的水样使用1cm比色皿测定获得。