ArticlePloS one2014
Bioinformatic approaches reveal metagenomic characterization of soil microbial community.
Article in PloS one, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers, 1 of them a synthesis that pooled it.
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Who cites it
26 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Recent Advanced Technologies for the Characterization of Xenobiotic-Degrading Microorganisms and Microbial Communities.Frontiers in bioengineering and biotechnology · 2021Pooled it
- Assessing soil microbiome alterations in agricultural land exposed to pesticides through amplicon-based sequencing.Biodegradation · 2026Article
- Metagenomics approaches in the discovery and development of new bioactive compound of 8-demethoxy-10-deoxysteffimycin from mangrove sediments.3 Biotech · 2024Article
- Autotrophy to Heterotrophy: Shift in Bacterial Functions During the Melt Season in Antarctic Cryoconite Holes.Journal of microbiology (Seoul, Korea) · 2024Article
- Topographically Distinguished Microbiome Taxonomy and Stress-Response Genes of Royal Belum Rainforest and Raja Muda Musa Peat Swamp Revealed through Metagenomic Inquisition.International journal of molecular sciences · 2023Article
- Article
- Metagenomic Insights Into the Mechanisms for Biodegradation of Polycyclic Aromatic Hydrocarbons in the Oil Supply Chain.Frontiers in microbiology · 2020Review
- A novel graph theoretical approach for modeling microbiomes and inferring microbial ecological relationships.BMC genomics · 2019Article
- Variation in Actinobacterial Community Composition and Potential Function in Different Soil Ecosystems Belonging to the Arid Heihe River Basin of Northwest China.Frontiers in microbiology · 2019Article
- Applications of the Soil, Plant and Rumen Microbiomes in Pastoral Agriculture.Frontiers in nutrition · 2019Review
- Variations in Soil Bacterial Composition and Diversity in Newly Formed Coastal Wetlands.Frontiers in microbiology · 2018Article
- Sampling Terrestrial Environments for Bacterial Polyketides.Molecules (Basel, Switzerland) · 2017Review
- Bioinformatic Approaches Including Predictive Metagenomic Profiling Reveal Characteristics of Bacterial Response to Petroleum Hydrocarbon Contamination in Diverse Environments.Scientific reports · 2017Article
- Legal immigrants: invasion of alien microbial communities during winter occurring desert dust storms.Microbiome · 2017Article
- Effects of Physiochemical Factors on Prokaryotic Biodiversity in Malaysian Circumneutral Hot Springs.Frontiers in microbiology · 2017Article
- Article
- Inferring microbial interactions in thermophilic and mesophilic anaerobic digestion of hog waste.PloS one · 2017Article
- Article
- Associative nitrogen fixation in nodules of the conifer Lepidothamnus fonkii (Podocarpaceae) inhabiting ombrotrophic bogs in southern Patagonia.Scientific reports · 2016Article
- Bacterial community structure and function shift along a successional series of tidal flats in the Yellow River Delta.Scientific reports · 2016Article
Corrections and comments
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
As is well known, soil is a complex ecosystem harboring the most prokaryotic biodiversity on the Earth. In recent years, the advent of high-throughput sequencing techniques has greatly facilitated the progress of soil ecological studies. However, how to effectively understand the underlying biological features of large-scale sequencing data is a new challenge. In the present study, we used 33 publicly available metagenomes from diverse soil sites (i.e. grassland, forest soil, desert, Arctic soil, and mangrove sediment) and integrated some state-of-the-art computational tools to explore the phylogenetic and functional characterizations of the microbial communities in soil. Microbial composition and metabolic potential in soils were comprehensively illustrated at the metagenomic level. A spectrum of metagenomic biomarkers containing 46 taxa and 33 metabolic modules were detected to be significantly differential that could be used as indicators to distinguish at least one of five soil communities. The co-occurrence associations between complex microbial compositions and functions were inferred by network-based approaches. Our results together with the established bioinformatic pipelines should provide a foundation for future research into the relation between soil biodiversity and ecosystem function.
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Registered trials
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.