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The rice leaf microbiome has a conserved community structure controlled by complex host-microbe interactions
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What this work says
Outgoing claims: the papers this work cites, builds on, or argues with.
inferredcites →https://doi.org/10.1002/ece3.4170openalex-snapshot
The bacterial community structure and functional profile in the heavy metal contaminated paddy soils, surrounding a nonferrous smelter in South Korea
inferredcites →https://doi.org/10.1007/s00253-017-8550-8openalex-snapshot
Interactions of plant growth-promoting rhizobacteria and soil factors in two leguminous plants
inferredcites →https://doi.org/10.1016/j.tim.2016.11.008openalex-snapshot
Disentangling Interactions in the Microbiome: A Network Perspective
inferredcites →https://doi.org/10.1038/77347openalex-snapshot
Overproduction of salicylic acid in plants by bacterial transgenes enhances pathogen resistance
inferredcites →https://doi.org/10.1038/ismej.2011.192openalex-snapshot
Metaproteogenomic analysis of microbial communities in the phyllosphere and rhizosphere of rice
inferredcites →https://doi.org/10.1038/ismej.2012.32openalex-snapshot
Leaf microbiota in an agroecosystem: spatiotemporal variation in bacterial community composition on field-grown lettuce
inferredcites →https://doi.org/10.1038/ismej.2017.118openalex-snapshot
Drought and host selection influence bacterial community dynamics in the grass root microbiome
inferredcites →https://doi.org/10.1038/nature16192openalex-snapshot
Functional overlap of the Arabidopsis leaf and root microbiota
inferredcites →https://doi.org/10.1038/ncomms12151openalex-snapshot
Host genotype and age shape the leaf and root microbiomes of a wild perennial plant
inferredcites →https://doi.org/10.1038/ncomms6320openalex-snapshot
Genome-wide association study of Arabidopsis thaliana leaf microbial community
inferredcites →https://doi.org/10.1038/ng.2310openalex-snapshot
Genome-wide efficient mixed-model analysis for association studies
inferredcites →https://doi.org/10.1038/nplants.2017.9openalex-snapshot
Improvement of multiple agronomic traits by a disease resistance gene via cell wall reinforcement
inferredcites →https://doi.org/10.1038/nrmicro2910openalex-snapshot
Microbial life in the phyllosphere
inferredcites →https://doi.org/10.1038/s41559-016-0015openalex-snapshot
High taxonomic variability despite stable functional structure across microbial communities
inferredcites →https://doi.org/10.1038/s41586-018-0063-9openalex-snapshot
Genomic variation in 3,010 diverse accessions of Asian cultivated rice
inferredcites →https://doi.org/10.1038/s41588-018-0040-0openalex-snapshot
Genomes of 13 domesticated and wild rice relatives highlight genetic conservation, turnover and innovation across the genus Oryza
inferredcites →https://doi.org/10.1038/s41588-018-0261-2openalex-snapshot
Publisher Correction: Genomes of 13 domesticated and wild rice relatives highlight genetic conservation, turnover and innovation across the genus Oryza
inferredcites →https://doi.org/10.1073/pnas.0900992106openalex-snapshot
Genomewide SNP variation reveals relationships among landraces and modern varieties of rice
inferredcites →https://doi.org/10.1073/pnas.0905240106openalex-snapshot
Community proteogenomics reveals insights into the physiology of phyllosphere bacteria
inferredcites →https://doi.org/10.1073/pnas.1302837110openalex-snapshot
Diversity and heritability of the maize rhizosphere microbiome under field conditions
inferredcites →https://doi.org/10.1073/pnas.1414592112openalex-snapshot
Structure, variation, and assembly of the root-associated microbiomes of rice
inferredcites →https://doi.org/10.1073/pnas.1717617115openalex-snapshot
Assembly and ecological function of the root microbiome across angiosperm plant species
inferredcites →https://doi.org/10.1080/00365549950163572openalex-snapshot
Helicobacter pylori in the Natural Environment
inferredcites →https://doi.org/10.1086/519795openalex-snapshot
PLINK: A Tool Set for Whole-Genome Association and Population-Based Linkage Analyses
inferredcites →https://doi.org/10.1093/bioinformatics/bth457openalex-snapshot
Haploview: analysis and visualization of LD and haplotype maps
inferredcites →https://doi.org/10.1093/bioinformatics/btp324openalex-snapshot
Fast and accurate short read alignment with Burrows–Wheeler transform
inferredcites →https://doi.org/10.1093/bioinformatics/btp352openalex-snapshot
The Sequence Alignment/Map format and SAMtools
inferredcites →https://doi.org/10.1093/bioinformatics/btq033openalex-snapshot
BEDTools: a flexible suite of utilities for comparing genomic features
inferredcites →https://doi.org/10.1093/bioinformatics/btr507openalex-snapshot
FLASH: fast length adjustment of short reads to improve genome assemblies
inferredcites →https://doi.org/10.1093/bioinformatics/btu170openalex-snapshot
Trimmomatic: a flexible trimmer for Illumina sequence data
inferredcites →https://doi.org/10.1094/mpmi-10-14-0331-fiopenalex-snapshot
Seasonal Community Succession of the Phyllosphere Microbiome
inferredcites →https://doi.org/10.1094/phyto-12-11-0349openalex-snapshot
Soil Suppressiveness to Fusarium Disease: Shifts in Root Microbiome Associated with Reduction of Pathogen Root Colonization
inferredcites →https://doi.org/10.1094/phyto.2001.91.3.282openalex-snapshot
Bacterial Populations Associated with Rice Seed in the Tropical Environment
inferredcites →https://doi.org/10.1111/1462-2920.13824openalex-snapshot
Grazing of leaf‐associated Cercomonads (Protists: Rhizaria: Cercozoa) structures bacterial community composition and function
inferredcites →https://doi.org/10.1111/j.1365-2672.2011.04969.xopenalex-snapshot
Changes in spinach phylloepiphytic bacteria communities following minimal processing and refrigerated storage described using pyrosequencing of 16S rRNA amplicons
inferredcites →https://doi.org/10.1111/j.1365-313x.2006.02836.xopenalex-snapshot
Early infection of scutellum tissue with Agrobacterium allows high‐speed transformation of rice
inferredcites →https://doi.org/10.1111/j.1469-8137.2009.03079.xopenalex-snapshot
The structure of the culturable root bacterial endophyte community of Nicotiana attenuata is organized by soil composition and host plant ethylene production and perception
inferredcites →https://doi.org/10.1111/j.1758-2229.2011.00323.xopenalex-snapshot
Bacterial anoxygenic photosynthesis on plant leaf surfaces
inferredcites →https://doi.org/10.1111/nph.13312openalex-snapshot
The importance of the microbiome of the plant holobiont
inferredcites →https://doi.org/10.1126/science.1069424openalex-snapshot
The Structure of Haplotype Blocks in the Human Genome
inferredcites →https://doi.org/10.1126/science.1203980openalex-snapshot
Deciphering the Rhizosphere Microbiome for Disease-Suppressive Bacteria
inferredcites →https://doi.org/10.1126/science.aaa8764openalex-snapshot
Salicylic acid modulates colonization of the root microbiome by specific bacterial taxa
inferredcites →https://doi.org/10.1126/science.aan5712openalex-snapshot
Ocean biogeochemistry modeled with emergent trait-based genomics
inferredcites →https://doi.org/10.1128/aem.71.9.4951-4959.2005openalex-snapshot
Use of Plant Growth-Promoting Bacteria for Biocontrol of Plant Diseases: Principles, Mechanisms of Action, and Future Prospects
inferredcites →https://doi.org/10.1128/mmbr.00050-14openalex-snapshot
The Hidden World within Plants: Ecological and Evolutionary Considerations for Defining Functioning of Microbial Endophytes
inferredcites →https://doi.org/10.1186/gb-2014-15-3-r46openalex-snapshot
Kraken: ultrafast metagenomic sequence classification using exact alignments
inferredcites →https://doi.org/10.1186/s12284-015-0069-yopenalex-snapshot
Allele mining and enhanced genetic recombination for rice breeding
inferredcites →https://doi.org/10.1186/s40168-018-0445-0openalex-snapshot
Microbial interactions within the plant holobiont
inferredcites →https://doi.org/10.1264/jsme2.me14077openalex-snapshot
Phylogeny and Functions of Bacterial Communities Associated with Field-Grown Rice Shoots
inferredcites →https://doi.org/10.1371/journal.pbio.1002352openalex-snapshot
Microbial Hub Taxa Link Host and Abiotic Factors to Plant Microbiome Variation
inferredcites →https://doi.org/10.1371/journal.pbio.1002378openalex-snapshot
Networking in the Plant Microbiome
inferredcites →https://doi.org/10.1371/journal.pbio.2003862openalex-snapshot
Compositional shifts in root-associated bacterial and archaeal microbiota track the plant life cycle in field-grown rice
inferredcites →https://doi.org/10.1371/journal.pcbi.1004226openalex-snapshot
Sparse and Compositionally Robust Inference of Microbial Ecological Networks
inferredcites →https://doi.org/10.1371/journal.pone.0056329openalex-snapshot
Bacterial Communities Associated with the Leaves and the Roots of Arabidopsis thaliana
inferredcites →https://doi.org/10.1371/journal.pone.0112763openalex-snapshot
Bacterial Endophytic Communities in the Grapevine Depend on Pest Management
inferredcites →https://doi.org/10.1371/journal.pone.0148347openalex-snapshot
Vikodak - A Modular Framework for Inferring Functional Potential of Microbial Communities from 16S Metagenomic Datasets
inferredcites →https://doi.org/10.3389/fmicb.2012.00417openalex-snapshot
Fundamentals of Microbial Community Resistance and Resilience
inferredcites →https://doi.org/10.3389/fmicb.2017.02414openalex-snapshot
Plant Phylogeny and Life History Shape Rhizosphere Bacterial Microbiome of Summer Annuals in an Agricultural Field
inferredcites →https://doi.org/10.3390/microorganisms6010014openalex-snapshot
Bacterial Microbiota of Rice Roots: 16S-Based Taxonomic Profiling of Endophytic and Rhizospheric Diversity, Endophytes Isolation and Simplified Endophytic Community
inferredcites →https://doi.org/10.3732/ajb.1200572openalex-snapshot
Inside the root microbiome: Bacterial root endophytes and plant growth promotion
inferredcites →https://doi.org/10.7287/peerj.preprints.27295v1openalex-snapshot
QIIME 2: Reproducible, interactive, scalable, and extensible microbiome data science
inferredcites →https://doi.org/10.7717/peerj-cs.104openalex-snapshot
Bracken: estimating species abundance in metagenomics data
What points at this work
Incoming claims: where this work appears in other papers’ reference lists and arguments.
inferred← citeshttps://doi.org/10.1007/978-1-0716-2237-7_20openalex-snapshot
Plant Microbiome-Based Genome-Wide Association Studies
inferred← citeshttps://doi.org/10.1007/978-981-95-5887-2_3openalex-snapshot
Multi-omics and Meta-omics Approaches for Rice Improvement
inferred← citeshttps://doi.org/10.1007/s00203-024-04225-8openalex-snapshot
Microbial inheritance through seed: a clouded area needs to be enlightened
inferred← citeshttps://doi.org/10.1007/s13199-026-01116-yopenalex-snapshot
Harnessing plant–microbe interactions for sustainable crop improvement: from genomics to breeding
inferred← citeshttps://doi.org/10.1016/b978-0-323-85665-2.00023-6openalex-snapshot
Molecular investigation of plant-environment interaction at functional level
inferred← citeshttps://doi.org/10.1016/b978-0-323-89938-3.00009-8openalex-snapshot
Microbiome stimulants and their applications in crop plants
inferred← citeshttps://doi.org/10.1016/b978-0-443-18822-0.00010-4openalex-snapshot
Cross-talk of signaling molecules between microorganisms and plants
inferred← citeshttps://doi.org/10.1016/j.copbio.2021.06.016openalex-snapshot
Integration of omics data to unravel root microbiome recruitment
inferred← citeshttps://doi.org/10.1016/j.envint.2023.107986openalex-snapshot
The dynamics and transmission of antibiotic resistance associated with plant microbiomes
inferred← citeshttps://doi.org/10.1016/j.ncrops.2024.100013openalex-snapshot
Current, faltering, and future strategies for advancing microbiome-assisted sustainable agriculture and environmental resilience
inferred← citeshttps://doi.org/10.1016/j.scitotenv.2023.165346openalex-snapshot
Distinct patterns of the soil and phyllosphere antibiotic resistome in natural forest ecosystems under an altitudinal gradient
inferred← citeshttps://doi.org/10.1038/s41396-021-00993-zopenalex-snapshot
Genome wide association study reveals plant loci controlling heritability of the rhizosphere microbiome
inferred← citeshttps://doi.org/10.1038/s41579-020-0361-8openalex-snapshot
Xanthomonas diversity, virulence and plant–pathogen interactions
inferred← citeshttps://doi.org/10.1038/s41579-020-0412-1openalex-snapshot
Plant–microbiome interactions: from community assembly to plant health
inferred← citeshttps://doi.org/10.1101/2021.08.06.455490openalex-snapshot
Good and bad lettuce leaf microbes? Unravelling the genetic architecture of the microbiome to inform plant breeding for enhanced food safety and reduced food waste
inferred← citeshttps://doi.org/10.1111/mpp.12914openalex-snapshot
Genome‐scale metabolic reconstruction and in silico analysis of the rice leaf blight pathogen, Xanthomonas oryzae
inferred← citeshttps://doi.org/10.1111/nph.19792openalex-snapshot
Phyllosphere fungal diversity generates pervasive nonadditive effects on plant performance
inferred← citeshttps://doi.org/10.1186/s12870-025-06871-6openalex-snapshot
The blueberry phyllosphere microbiota: tissue-specific core communities and their stability across cultivars and years
inferred← citeshttps://doi.org/10.1186/s40168-023-01725-5openalex-snapshot
Host genotype, soil composition, and geo-climatic factors shape the fonio seed microbiome
inferred← citeshttps://doi.org/10.1371/journal.pone.0228550openalex-snapshot
Phenotypic diversity of Methylobacterium associated with rice landraces in North-East India
inferred← citeshttps://doi.org/10.1371/journal.pone.0246687openalex-snapshot
Comparison of wild rice (Oryza longistaminata) tissues identifies rhizome-specific bacterial and archaeal endophytic microbiomes communities and network structures
inferred← citeshttps://doi.org/10.1371/journal.ppat.1011175openalex-snapshot
The soil bacterial community regulates germination of Plasmodiophora brassicae resting spores rather than root exudates
inferred← citeshttps://doi.org/10.15252/embr.202357455openalex-snapshot
Co‐evolution within the plant holobiont drives host performance
inferred← citeshttps://doi.org/10.21203/rs.3.rs-5440144/v1openalex-snapshot
Blueberry plants support a distinctive microbiome as a function of plant genetics and tissue
inferred← citeshttps://doi.org/10.2139/ssrn.4178006openalex-snapshot
Do Volatiles Affect Bacteria and Plants in the Same Way? Growth and Biochemical Response of Non-Stressed and Cd Stressed Arabidopsis Thaliana and Rhizobium E20-8
inferred← citeshttps://doi.org/10.3389/fmicb.2021.780458openalex-snapshot
Integrated Metabarcoding and Culturomic-Based Microbiome Profiling of Rice Phyllosphere Reveal Diverse and Functional Bacterial Communities for Blast Disease Suppression
inferred← citeshttps://doi.org/10.3389/fmicb.2025.1492141openalex-snapshot
Plant developmental stage drives the assembly and functional adaptability of endophytic microbial communities
inferred← citeshttps://doi.org/10.3389/fpls.2023.1168760openalex-snapshot
Attribution of dispersal limitation can better explain the assembly patterns of plant microbiota
inferred← citeshttps://doi.org/10.3389/fpls.2023.1265362openalex-snapshot
Differentiated responses of the phyllosphere bacterial community of the yellowhorn tree to precipitation and temperature regimes across Northern China
inferred← citeshttps://doi.org/10.3390/agronomy16060595openalex-snapshot
In-Depth Insights into the Complex Interplay Between Microbial Diversity, Ecological Functionality, and Soil Health in Rice Agroecosystems
inferred← citeshttps://doi.org/10.3390/microorganisms12040779openalex-snapshot
Current Advances in the Functional Diversity and Mechanisms Underlying Endophyte–Plant Interactions
inferred← citeshttps://doi.org/10.3390/microorganisms13020233openalex-snapshot
Microbiome Engineering for Sustainable Rice Production: Strategies for Biofertilization, Stress Tolerance, and Climate Resilience
inferred← citeshttps://doi.org/10.3390/plants12122307openalex-snapshot
The Microbial Connection to Sustainable Agriculture
inferred← citeshttps://doi.org/10.53550/eec.2023.v29i03s.068openalex-snapshot
Sustainable agriculture through enhancement and understanding the micro biomes: A Review
inferred← citeshttps://doi.org/10.64898/2026.02.22.707303openalex-snapshot
Phyllosphere and rhizosphere microbiomes empower Nicotiana tobacum complex traits dissection and prediction
inferred← citeshttps://doi.org/10.70675/3abf8bcdzf0d6z4a56za162zf0eef1a59260openalex-snapshot
Caractérisation et rôle du microbiote rhizosphérique fonctionnel dans la résistance de la vigne à Plasmopara viticola
inferred← citeshttps://doi.org/10.70675/544c5b24z1f93z4d27zaae6zf94076559f61openalex-snapshot
Exploration and exploitation of the rice-associated microbiome for sustainable rice agriculture in Cambodia
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