Unraveling community adaption and survival strategy of soil microbiome under vanadium stress in nationwide mining environments

The vanadium (V) smelters soil harbor wide ranges of microorganisms, whose survival relies on their metabolic activities under stress. Nonetheless, the characteristics and functions of soil microbiome in V mining environments have not been recognized at a continental scale. This study investigates microbial diversity, community assembly and metabolic traits of soil microbiome across 90 V smelters in China. A decrease in alpha diversity is observed, along with community variation, which is also jointly explained by other environmental, climatic and geographic factors. Null model shows that V promotes homogeneous selection. V also mediates co-occurrence patterns, with increased positive interspecific associations under higher V concentrations (＞559.6 mg/kg), e.g., f_Gemmatimonadaceae, Nocardioides, Micromonospora, Rubrobacter. In addition, 67 metagenome assembled genomes are retrieved via metagenomic analysis. The metabolic pathways of keystone taxa are disentangled to reveal their putati..., The datasets herein serve as the basis to perform data analysis for this article. Physicochemical data was obtained from actual measurements, which was used to perform analysis to uncover the key driving factors for shaping the community structure, and implemented in models such as Variation partitioning analysis (VPA), Mantel’s test, and Random forest (RF). Community assembling process was characterized using Neutral community modeling (NCM) and Null model (NM) using 16S rRNA data. All mentioned models were performed by executing the R script, which were also provided here. Functional genes were obtained from metagenomic investigations. 67 qualified Metagenome assembled genome (MAG) were also retrieved from metagenomic binning, among which keystone taxa were focused and their functional potential were annotated., , # Unraveling community adaption and survival strategy of soil microbiome under vanadium stress in nationwide mining environments

Four types of datasets are included herein:
1\. Sites information (physicochemical measurements)
2\. 16S rRNA (community profile at OTU and genera level)
3\. Metagenome (functional genes profile, MAG results, annotation tables for keystone taxa, carbon fixation marker genes, naming convention)
4\. R script
5\. fastq files for metagenome sequence for binning

## Description of the data and file structure

The datasets herein serve as the basis to perform data analysis for this article. Physicochemical data was obtained from actual measurements, which was used to perform analysis to uncover the key driving factors for shaping the community structure, and implemented in models such as Variation partitioning analysis (VPA), Mantel’s test, and Random forest (RF). Community assembling process was characterized using Neutral community modeling (NCM) and Null model...

钒（vanadium, V）冶炼厂土壤中栖息着种类繁多的微生物，其生存依赖于胁迫环境下的代谢活动。然而，目前在大陆尺度上，人们对钒采矿环境中土壤微生物组（soil microbiome）的特征与功能仍缺乏认知。本研究针对中国90座钒冶炼厂的土壤微生物组，探究其微生物多样性、群落组装（community assembly）模式与代谢特征。研究发现α多样性（alpha diversity）随群落变异出现下降，且该现象同时受其他环境、气候与地理因素共同解释。空模型（null model）分析显示，钒会促进同质选择作用。此外，钒还会介导微生物共现模式：当钒浓度高于559.6 mg/kg时，种间正关联显著增强，例如f_Gemmatimonadaceae、诺卡氏菌属（Nocardioides）、小单孢菌属（Micromonospora）、红色杆菌属（Rubrobacter）。本研究通过宏基因组分析获取了67个宏基因组组装基因组（metagenome assembled genome, MAG），并解析了关键类群（keystone taxa）的代谢通路以揭示其潜在功能……本数据集为本文的数据分析提供了基础。理化数据来自实地实测，用于解析塑造群落结构的关键驱动因子，并应用于变异分区分析（Variation partitioning analysis, VPA）、曼特尔检验（Mantel’s test）与随机森林（Random forest, RF）等模型。群落组装过程通过基于16S rRNA数据的中性群落模型（Neutral community modeling, NCM）与空模型（Null model, NM）进行表征。所有上述模型均通过R脚本运行，相关脚本也已随数据集提供。功能基因来自宏基因组测序分析。本研究还通过宏基因组分箱获得了67个合格的MAG，重点聚焦其中的关键类群并对其功能潜能进行注释。

# 揭示全国范围内采矿环境中土壤微生物组在钒胁迫下的群落适应与生存策略

本数据集包含五类数据：
1. 样点信息（理化测定数据）
2. 16S rRNA数据（操作分类单元（operational taxonomic unit, OTU）与属水平的群落谱）
3. 宏基因组数据（功能基因谱、MAG分析结果、关键类群注释表、固碳标记基因序列、命名规范）
4. R脚本文件
5. 用于宏基因组分箱的宏基因组测序FASTQ（fastq）文件

## 数据与文件结构说明
本数据集为本文的数据分析提供了基础。理化数据来自实地实测，用于解析塑造群落结构的关键驱动因子，并应用于变异分区分析（VPA）、曼特尔检验与随机森林（RF）等模型。群落组装过程通过基于16S rRNA数据的中性群落模型（NCM）与空模型进行表征……