ArticlemBio2017
Bacterial Physiological Adaptations to Contrasting Edaphic Conditions Identified Using Landscape Scale Metagenomics.
Article in mBio, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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Who cites it
24 citing papers in PubMed, 76 citations in OpenAlex.
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- Free ammonia stress rewires microbial signaling networks and constrains metabolic cooperation in oxygenic photogranules.The ISME journal · 2026Article
- Linking microbial taxonomy and function in N and P metabolism: a study of organic amendments in semiarid restored soils.Environmental microbiome · 2026Article
- Comparative analysis of rhizobacterial communities across five medicinal plants in Xinjiang.Frontiers in microbiology · 2026Article
- Soil pH modulates microbial nitrogen allocation in soil via compositional and metabolic shifts across forests in Japan.iMetaOmics · 2025Article
- Climate-linked biogeography of mycorrhizal fungal spore traits.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Soil properties in agricultural systems affect microbial genomic traits.FEMS microbes · 2025Article
- The role of halophyte-induced saline fertile islands in soil microbial biogeochemical cycling across arid ecosystems.Communications biology · 2024Article
- Environmentally dependent interactions shape patterns in gene content across natural microbiomes.Nature microbiology · 2024Article
- Global patterns in gene content of soil microbiomes emerge from microbial interactions.bioRxiv : the preprint server for biology · 2023Article
- Building a genome-based understanding of bacterial pH preferences.Science advances · 2023Article
- Evaluation of the lignocellulose degradation potential of Mediterranean forests soil microbial communities through diversity and targeted functional metagenomics.Frontiers in microbiology · 2023Article
- Life and death in the soil microbiome: how ecological processes influence biogeochemistry.Nature reviews. Microbiology · 2022Review
- Root phenotypes as modulators of microbial microhabitats.Frontiers in plant science · 2022Review
- Forest succession improves the complexity of soil microbial interaction and ecological stochasticity of community assembly: Evidence fromFrontiers in microbiology · 2022Article
- Community Organization and Metagenomics of Bacterial Assemblages Across Local Scale pH Gradients in Northern Forest Soils.Microbial ecology · 2021Article
- Recent advances in exploring the heavy metal(loid) resistant microbiome.Computational and structural biotechnology journal · 2021Review
- Drought and plant litter chemistry alter microbial gene expression and metabolite production.The ISME journal · 2020Article
- Defining trait-based microbial strategies with consequences for soil carbon cycling under climate change.The ISME journal · 2020Review
- Diversity-triggered deterministic bacterial assembly constrains community functions.Nature communications · 2019Article
Corrections and comments
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Authors and funding
5 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Environmental factors relating to soil pH are important regulators of bacterial taxonomic biodiversity, yet it remains unclear if such drivers affect community functional potential. To address this, we applied whole-genome metagenomics to eight geographically distributed soils at opposing ends of a landscape soil pH gradient (where "low-pH" is ~pH 4.3 and "high-pH" is ~pH 8.3) and evaluated functional differences with respect to functionally annotated genes. First, differences in taxonomic and functional diversity between the two pH categories were assessed with respect to alpha diversity (mean sample richness) and gamma diversity (total richness pooled for each pH category). Low-pH soils, also exhibiting higher organic matter and moisture, consistently had lower taxonomic alpha and gamma diversity, but this was not apparent in assessments of functional alpha and gamma diversity. However, coherent changes in the relative abundances of annotated genes between low- and high-pH soils were identified; with strong multivariate clustering of samples according to pH independent of geography. Assessment of indicator genes revealed that the acidic organic-rich soils possessed a greater abundance of cation efflux pumps, C and N direct fixation systems, and fermentation pathways, indicating adaptations to both acidity and anaerobiosis. Conversely, high-pH soils possessed more direct transporter-mediated mechanisms for organic C and N substrate acquisition. These findings highlight the distinctive physiological adaptations required for bacteria to survive in soils of various nutrient availability and edaphic conditions and more generally indicate that bacterial functional versatility with respect to functional gene annotations may not be constrained by taxonomy.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.