ArticleThe ISME journal2012
Using network analysis to explore co-occurrence patterns in soil microbial communities.
Article in The ISME journal, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 1,009 papers, 1 of them a synthesis that pooled it.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
1,009 citing papers in PubMed, 1 synthesis or guideline pooled it.
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- Effects of Microencapsulated and Nanoemulsified β-Carotene on Antioxidant and Anti-Inflammatory Function in Weaned Piglets.Antioxidants (Basel, Switzerland) · 2026Article
- Factors shaping the lichen photobiome and mycobiome in a tropical lichen community.FEMS microbiology ecology · 2026Article
- Soil properties, rather than urbanization time, drive shifts in soil bacterial communities in a subtropical city of China.Applied and environmental microbiology · 2026Article
- Regulatory Effects of Tannin Supplementation on Microbial Succession and Flavor Formation During Xiaoqu Light-Flavor Baijiu Fermentation.Foods (Basel, Switzerland) · 2026Article
- Blood and gut virome remodeling in gastric cancer: Anellovirus expansion and novel virus discovery.Virologica Sinica · 2026Article
- Phages released from Acidithiobacillus ferrooxidans enhance chalcopyrite bioleaching by alleviating passivation and promoting sulfur turnover.Advanced biotechnology · 2026Article
949 more citing papers are in PubMed but not listed here.
Corrections and comments
- Erratum issued
Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Exploring large environmental datasets generated by high-throughput DNA sequencing technologies requires new analytical approaches to move beyond the basic inventory descriptions of the composition and diversity of natural microbial communities. In order to investigate potential interactions between microbial taxa, network analysis of significant taxon co-occurrence patterns may help to decipher the structure of complex microbial communities across spatial or temporal gradients. Here, we calculated associations between microbial taxa and applied network analysis approaches to a 16S rRNA gene barcoded pyrosequencing dataset containing >160 000 bacterial and archaeal sequences from 151 soil samples from a broad range of ecosystem types. We described the topology of the resulting network and defined operational taxonomic unit categories based on abundance and occupancy (that is, habitat generalists and habitat specialists). Co-occurrence patterns were readily revealed, including general non-random association, common life history strategies at broad taxonomic levels and unexpected relationships between community members. Overall, we demonstrated the potential of exploring inter-taxa correlations to gain a more integrated understanding of microbial community structure and the ecological rules guiding community assembly.
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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.