ArticleMicrobiome2024
Host genotype, soil composition, and geo-climatic factors shape the fonio seed microbiome.
Article in Microbiome, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed.
- Challenges and Future Directives of Synthetic Biology in Engineering Plant-Microbe Partnerships for Sustainable Agriculture.Biotechnology and bioengineering · 2026Review
- Harnessing microRNA regulatory networks for engineering climate resilience and nutritional enhancement in millets.Stress biology · 2026Review
- Linking Host Provenance, Microbial Assembly, and Environmental Legacy Effects in the Root-Associated Microbiome ofMicroorganisms · 2026Article
- Review
- Nanopore sequencing reveals coordinated host and microbiome responses across barley genotypes.BMC biology · 2026Article
- What do we know about the seed microbiome?Microbiome · 2026Review
- Plant health in the era of global changes, holobiont biology, and microbiome-based solutions.Horticulture research · 2026Article
- Seed-microbiome interactions: Mechanistic insights and utilization toward seed performance for sustainable agriculture.Plant communications · 2026Review
- Environmental variables drive the latitudinal decline in diversity and functional guild distribution of seed endophytic fungi in the invasive plantFrontiers in microbiology · 2026Article
- Host genome and bacterial taxa shape the Arabidopsis seed microbiome.EMBO reports · 2026Article
- Characterization of the mango phyllosphere microbiome during fruit-setting unveils unique community assembly and coexisting beneficial-pathogenic microbiota.BMC plant biology · 2025Article
- The seed microbiota from an application perspective: an underexplored frontier in plant-microbe interactions.Crop health · 2025Review
- Seed microbiomes promote Astragalus mongholicus seed germination through pathogen suppression and cellulose degradation.Microbiome · 2025Article
- The diversity, dynamics, and culturability of bacterial and fungal communities present in warm-season pasture grass seeds.Frontiers in microbiology · 2025Article
- Article
- Comparative Metagenomic Analysis of Seed Endobiome of Domesticated and Wild Finger Millet Species (Eleusine spp.): Unveiling Microbial Diversity and Composition.Current microbiology · 2024Article
- UHPLC-QTOF-MS-Based Targeted Metabolomics Provides Novel Insights into the Accumulative Mechanism of Soil Types on the Bioactive Components ofMolecules (Basel, Switzerland) · 2024Article
- Unravelling the impact of environmental factors in shaping plant microbiomes.Microbial biotechnology · 2024Review
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7 authors.
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No grant is acknowledged in the PubMed record.
Abstract
backgroundFonio (Digitaria exilis), an orphan millet crop, is the oldest indigenous crop in West Africa. Although the yield is low due to pre-domestication characteristics, the quick maturation time, drought tolerance, and the ability to thrive on poor soils make fonio a climate-smart crop. Being holobionts, plants evolve in close interaction with microbial partners, which is crucial for plant phenology and fitness. As seeds are the bottleneck of vertically transmitting plant microbiota, we proposed to unravel the seed microbiome of the under-domesticated and resilient crop fonio. Our study investigated the bacterial seed endophyte diversity across 126 sequenced fonio accessions from distinct locations in West Africa. We conducted a correlation study of the structures and functions of the seed-associated microbiomes with the native geo-climate and soil structure data. We also performed Genome-wide association studies (GWAS) to identify genetic loci associated with seed endophyte diversity.
resultWe report that fonio millet has diverse heritable seed endophytic taxa. We analyzed the seed microbiomes of 126 fonio accessions and showed that despite the diversity of microbiomes from distinct geographical locations, all fonio genetic groups share a core microbiome. In addition, we observed that native soil composition, geo-climatic factors, and host genotype correlate with the seed microbiomes. GWAS analysis of genetic loci associated with endophyte seed bacterial diversity identified fonio SNPs associated with genes functioning in embryo development and stress/defense response.
conclusionAnalysis of the seed endophyte of the climate-smart crop fonio indicated that despite possessing a heritable core microbiome, native conditions may shape the overall fonio seed microbiomes in different populations. These distinct microbiomes could play important roles in the adaptation of fonio to different environmental conditions. Our study identified the seed microbiome as a potential target for enhancing crop resilience to climate stress in a sustainable way. Video Abstract.
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