ArticleMicrobiome2020
Domestication of Oryza species eco-evolutionarily shapes bacterial and fungal communities in rice seed.
Article in Microbiome, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 74 papers.
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Who cites it
74 citing papers in PubMed, 197 citations in OpenAlex.
- Article
- Review
- Germination and Polishing Reshape Microbial Communities inJournal of agricultural and food chemistry · 2026Article
- Predicting the seed microbiome using phylogeny-driven machine learning.Environmental microbiome · 2026Article
- A synthetic microbial community for soybean biofertilization designed via chlorophyll-based iterative selection.Applied and environmental microbiology · 2026Article
- Microbiome-mediated environmental adaptation in tea plants and its potential applications.Journal of advanced research · 2026Review
- Study on the diversity, structure, and function of endophytic bacteria in seeds of genuine medicinal plants in gansu province.BMC plant biology · 2026Article
- What do we know about the seed microbiome?Microbiome · 2026Review
- Seed-microbiome interactions: Mechanistic insights and utilization toward seed performance for sustainable agriculture.Plant communications · 2026Review
- Microbiome eco-evolution of cultivated and wild rice species across the genus Oryza and its importance in supporting rice growth.Microbiome · 2026Article
- Microbial interaction networks as climate thermometers: redefining temperature sensitivity of aerobic methanotrophy in freshwater ecosystems.npj biodiversity · 2026Article
- Tree Species Mixing Regulates Soil Multi-Nutrient Cycling by Altering Microbial Network Complexity and Assembly Processes inMicroorganisms · 2026Article
- Phylogenetic Divergence and Domestication Jointly Shape the Tomato Root Microbiome.Plants (Basel, Switzerland) · 2026Article
- Species-level bacterial community shift in rice growth stages.Plant biotechnology (Tokyo, Japan) · 2025Article
- The effect of developmental stages on microbiome assembly in the phyllosphere and rhizosphere of rice grown in urban area soil.Environmental microbiome · 2025Article
- Blueprints for sustainable plant production through the utilization of crop wild relatives and their microbiomes.Nature communications · 2025Review
- Adaptive Laboratory Evolution of a Microbial Consortium Enhancing Non-Protein Nitrogen Assimilation for Feed Protein Production.Microorganisms · 2025Article
- Seed microbiomes promote Astragalus mongholicus seed germination through pathogen suppression and cellulose degradation.Microbiome · 2025Article
- Seed banking impacts native Acacia ulicifolia seed microbiome composition and function.Environmental microbiome · 2025Article
- Host genotype-driven shifts in theFrontiers in microbiology · 2025Article
14 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors at 1 institution in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundPlant-associated microbiomes, which are shaped by host and environmental factors, support their hosts by providing nutrients and attenuating abiotic and biotic stresses. Although host genetic factors involved in plant growth and immunity are known to shape compositions of microbial communities, the effects of host evolution on microbial communities are not well understood.
resultsWe show evidence that both host speciation and domestication shape seed bacterial and fungal community structures. Genome types of rice contributed to compositional variations of both communities, showing a significant phylosymbiosis with microbial composition. Following the domestication, abundance inequality of bacterial and fungal communities also commonly increased. However, composition of bacterial community was relatively conserved, whereas fungal membership was dramatically changed. These domestication effects were further corroborated when analyzed by a random forest model. With these changes, hub taxa of inter-kingdom networks were also shifted from fungi to bacteria by domestication. Furthermore, maternal inheritance of microbiota was revealed as a major path of microbial transmission across generations.
conclusionsOur findings show that evolutionary processes stochastically affect overall composition of microbial communities, whereas dramatic changes in environments during domestication contribute to assembly of microbiotas in deterministic ways in rice seed. This study further provides new insights on host evolution and microbiome, the starting point of the holobiome of plants, microbial communities, and surrounding environments.
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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.