ReviewMicrobiome2021
Holo-omics for deciphering plant-microbiome interactions.
Review in Microbiome, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers, 1 of them a synthesis that pooled it.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
35 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Exploring agro-ecological significance, knowledge gaps, and research priorities in arbuscular mycorrhizal fungi.Frontiers in microbiology · 2024Pooled it
- Review
- From Traditional to Omics-Driven: Emerging Strategies for Isolation, Cultivation, and Identification of Plant Endophytes.Plants (Basel, Switzerland) · 2026Review
- Review
- Endophyte Acrocalymma vagum establishes the holobiont with rice to attract beneficial microorganisms and promote disease resistance.Journal of advanced research · 2026Article
- Beyond chronological age: a decision tree model integrating nutritional and renal function indicators for risk prediction in pre-frail older adults with hepatolithiasis.Frontiers in medicine · 2026Article
- Root microbiome dynamics favor slow-growth strategies duringISME communications · 2026Article
- High-resolution profiling of bacterial and fungal communities using pangenome-informed taxon-specific long-read amplicons.Microbiome · 2025Article
- Roots: metabolic architects of beneficial microbiome assembly.Plant physiology · 2025Review
- I-SVVS: integrative stochastic variational variable selection to explore joint patterns of multi-omics microbiome data.Briefings in bioinformatics · 2025Article
- Growth promotion and stress tolerance of soybean plants driven by seed treatment with synthetic bacterial community of soybean-associated beneficial bacteria.Frontiers in plant science · 2025Article
- Deciphering Molecular Mechanisms and Diversity of Plant Holobiont Bacteria: Microhabitats, Community Ecology, and Nutrient Acquisition.International journal of molecular sciences · 2024Review
- Root hair developmental regulators orchestrate drought triggered microbiome changes and the interaction with beneficial Rhizobiaceae.Nature communications · 2024Article
- A practical introduction to holo-omics.Cell reports methods · 2024Review
- A multi-omics approach to unravel the interaction between heat and drought stress in theFrontiers in plant science · 2024Article
- Holo-omics analysis reveals the influence of gut microbiota on obesity indicators in Jinhua pigs.BMC microbiology · 2023Article
- Collision cross section measurement and prediction methods in omics.Journal of mass spectrometry : JMS · 2023Review
- Linking plant functional genes to rhizosphere microbes: a review.Plant biotechnology journal · 2023Review
- Omics Approaches in Invasion Biology: Understanding Mechanisms and Impacts on Ecological Health.Plants (Basel, Switzerland) · 2023Review
- The coral microbiome: towards an understanding of the molecular mechanisms of coral-microbiota interactions.FEMS microbiology reviews · 2023Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
7 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Host-microbiome interactions are recognized for their importance to host health. An improved understanding of the molecular underpinnings of host-microbiome relationships will advance our capacity to accurately predict host fitness and manipulate interaction outcomes. Within the plant microbiome research field, unlocking the functional relationships between plants and their microbial partners is the next step to effectively using the microbiome to improve plant fitness. We propose that strategies that pair host and microbial datasets-referred to here as holo-omics-provide a powerful approach for hypothesis development and advancement in this area. We discuss several experimental design considerations and present a case study to highlight the potential for holo-omics to generate a more holistic perspective of molecular networks within the plant microbiome system. In addition, we discuss the biggest challenges for conducting holo-omics studies; specifically, the lack of vetted analytical frameworks, publicly available tools, and required technical expertise to process and integrate heterogeneous data. Finally, we conclude with a perspective on appropriate use-cases for holo-omics studies, the need for downstream validation, and new experimental techniques that hold promise for the plant microbiome research field. We argue that utilizing a holo-omics approach to characterize host-microbiome interactions can provide important opportunities for broadening system-level understandings and significantly inform microbial approaches to improving host health and fitness. Video abstract.
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Registered trials
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.