ArticleThe ISME journal2012
Salt marsh sediment diversity: a test of the variability of the rare biosphere among environmental replicates.
Article in The ISME journal, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 40 papers.
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Who cites it
40 citing papers in PubMed.
- Getting to the Core of the Matter-Assessing the Role of Replication in Metabarcoding-Based sedaDNA.Molecular ecology resources · 2026Article
- Microbial Community multi-omic analysis of marsh sediment post crustacean shell compost enrichment: pathogen emergence and community response.bioRxiv : the preprint server for biology · 2026Article
- Assessing environmental gradients in relation to dark COApplied and environmental microbiology · 2025Article
- Article
- Systematic evaluation of protein extraction for metaproteomic analysis of marine sediment with high clay content.ISME communications · 2025Article
- Microbial Community Succession Along a Chronosequence in Constructed Salt Marsh Soils.Microbial ecology · 2023Article
- Correlative SIP-FISH-Raman-SEM-NanoSIMS links identity, morphology, biochemistry, and physiology of environmental microbes.ISME communications · 2022Article
- Longitudinal patterns in sediment type and quality during daily flow regimes and following natural hazards in an urban estuary: a Hurricane Harvey retrospective.Environmental science and pollution research international · 2022Article
- Spatially resolved correlative microscopy and microbial identification reveal dynamic depth- and mineral-dependent anabolic activity in salt marsh sediment.Environmental microbiology · 2021Article
- Mechanistic strategies of microbial communities regulating lignocellulose deconstruction in a UK salt marsh.Microbiome · 2021Article
- Trimethylornithine Membrane Lipids: Discovered in Planctomycetes and Identified in Diverse Environments.Metabolites · 2021Review
- The Saltpan Microbiome is Structured by Sediment Depth and Minimally Influenced by Variable Hydration.Microorganisms · 2020Article
- The Link Between the Ecology of the Prokaryotic Rare Biosphere and Its Biotechnological Potential.Frontiers in microbiology · 2020Review
- Bacterial Community Assembly in a Typical Estuarine Marsh with Multiple Environmental Gradients.Applied and environmental microbiology · 2019Article
- Shotgun Metagenomics Reveals the Benthic Microbial Community Response to Plastic and Bioplastic in a Coastal Marine Environment.Frontiers in microbiology · 2019Article
- Short-term effect of simulated salt marsh restoration by sand-amendment on sediment bacterial communities.PloS one · 2019Article
- Bacterial Communities Inhabiting the Sponge Biemna fortis, Sediment and Water in Marine Lakes and the Open Sea.Microbial ecology · 2018Article
- Community Structure, Dynamics and Interactions of Bacteria, Archaea and Fungi in Subtropical Coastal Wetland Sediments.Scientific reports · 2018Article
- Filter forensics: microbiota recovery from residential HVAC filters.Microbiome · 2018Article
- Desiccation- and Saline-Tolerant Bacteria and Archaea in Kalahari Pan Sediments.Frontiers in microbiology · 2018Article
Corrections and comments
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Authors and funding
4 authors.
Funding
Abstract
Much of the phylogenetic diversity in microbial systems arises from rare taxa that comprise the long tail of taxon rank distribution curves. This vast diversity presents a challenge to testing hypotheses about the effects of perturbations on microbial community composition because variability of rare taxa among environmental replicates may be sufficiently large that it would require a prohibitive degree of sequencing to discern differences between samples. In this study we used pyrosequencing of 16S rRNA tags to examine the diversity and within-site variability of salt marsh sediment bacteria. Our goal was to determine whether pyrosequencing could produce similar patterns in community composition among replicate environmental samples from the same location. We hypothesized that repeated sampling from the same location would produce different snapshots of the rare community due to incomplete sequencing of the taxonomically rich rare biosphere. We demonstrate that the salt marsh sediments we sampled contain a remarkably diverse array of bacterial taxa and, in contrast to our hypothesis, repeated sampling from within the same site produces reliably similar patterns in bacterial community composition, even among rare organisms. These results demonstrate that deep sequencing of 16s tags is well suited to distinguish site-specific similarities and differences among rare taxa and is a valuable tool for hypothesis testing in microbial ecology.
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