ArticleThe ISME journal2017
Ecological dynamics and co-occurrence among marine phytoplankton, bacteria and myoviruses shows microdiversity matters.
Article in The ISME journal, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 91 papers.
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Who cites it
91 citing papers in PubMed, 189 citations in OpenAlex.
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- Shared Microbial Blueprints Underlying Symbiotic Plasticity in Desert Plant Endophytes.Microorganisms · 2026Article
- Ribonucleotide reductases recapitulate biogeographic patterns within virioplankton according to ocean biogeochemistry.bioRxiv : the preprint server for biology · 2026Article
- Multi-domain temporal patterns reveal stable community membership but dynamic interactions in the coastal microbiome.Environmental microbiome · 2025Article
- A high-resolution diel survey of surface ocean metagenomes, metatranscriptomes, and transfer RNA transcripts.Scientific data · 2025Article
- Phage diversity mirrors bacterial strain diversity in the honey bee gut microbiota.Nature communications · 2025Article
- Arctic Ocean virus communities and their seasonality, bipolarity, and prokaryotic associations.Nature communications · 2025Article
- Genome-resolved year-round dynamics reveal a broad range of giant virus microdiversity.mSystems · 2025Article
- Microbial functional diversity and redundancy: moving forward.FEMS microbiology reviews · 2025Review
- Global dominance of Haloquadratum walsbyi by a single genomovar with distinct gene content and viral cohorts from close relatives.The ISME journal · 2025Article
- Marine phytoplankton impose strong selective pressures onISME communications · 2025Article
- Microdiversity and fine-scale niche differentiation support persistence and coexistence of acidophiles in acid mine drainage.Frontiers in microbiology · 2025Article
- Phylogenetic proximity is a key driver of temporal succession of marine giant viruses in a five-year metagenomic time-series.ISME communications · 2025Article
- Long journey of 16S rRNA-amplicon sequencing toward cell-based functional bacterial microbiota characterization.iMetaOmics · 2024Review
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- Decoding populations in the ocean microbiome.Microbiome · 2024Article
- Metagenomic time series reveals a Western English Channel viral community dominated by members with strong seasonal signals.The ISME journal · 2024Article
- Disentangling microbial networks across pelagic zones in the tropical and subtropical global ocean.Nature communications · 2024Article
31 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Numerous ecological processes, such as bacteriophage infection and phytoplankton-bacterial interactions, often occur via strain-specific mechanisms. Therefore, studying the causes of microbial dynamics should benefit from highly resolving taxonomic characterizations. We sampled daily to weekly over 5 months following a phytoplankton bloom off Southern California and examined the extent of microdiversity, that is, significant variation within 99% sequence similarity clusters, operational taxonomic units (OTUs), of bacteria, archaea, phytoplankton chloroplasts (all via 16S or intergenic spacer (ITS) sequences) and T4-like-myoviruses (via g23 major capsid protein gene sequence). The extent of microdiversity varied between genes (ITS most, g23 least) and only temporally common taxa were highly microdiverse. Overall, 60% of taxa exhibited microdiversity; 59% of these had subtypes that changed significantly as a proportion of the parent taxon, indicating ecologically distinct taxa. Pairwise correlations between prokaryotes and myoviruses or phytoplankton (for example, highly microdiverse Chrysochromulina sp.) improved when using single-base variants. Correlations between myoviruses and SAR11 increased in number (172 vs 9, Spearman>0.65) and became stronger (0.61 vs 0.58, t-test: P<0.001) when using SAR11 ITS single-base variants vs OTUs. Whole-community correlation between SAR11 and myoviruses was much improved when using ITS single-base variants vs OTUs, with Mantel rho=0.49 vs 0.27; these results are consistent with strain-specific interactions. Mantel correlations suggested >1 μm (attached/large) prokaryotes are a major myovirus source. Consideration of microdiversity improved observation of apparent host and virus networks, and provided insights into the ecological and evolutionary factors influencing the success of lineages, with important implications to ecosystem resilience and microbial function.
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