Evidence map›Paper›PMID 41310786›Full record

ArticleMicrobiome2025

Breeding of microbiomes conferring salt tolerance to plants.

Caio Guilherme Pereira, Joseph A Edwards, Albina Khasanova, Alexis Carlson, Vanessa Brisson, Estelle Schaefer, Tijana Glavina Del Rio, Susannah Tringe, John P Vogel, David L Des Marais and 2 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Microbiome, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.

0numbers the graph read from it
0cells of the map it votes in
6citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from 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.

2 · The registry

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.

3 · Its place in the literature

Who cites it

6 citing papers in PubMed.

  1. Article
  2. Review
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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

12 authors.

Caio Guilherme Pereira *Department of Integrative Biology, The University of Texas at Austin, Austin, TX, USA. caiogp@utexas.edu.
Joseph A Edwards *Department of Plant Pathology and Microbiology, Texas A&M University, College Station, TX, USA. joseph.edwards@ag.tamu.edu.
Albina KhasanovaDepartment of Integrative Biology, The University of Texas at Austin, Austin, TX, USA.
Alexis CarlsonDepartment of Integrative Biology, The University of Texas at Austin, Austin, TX, USA.
Vanessa BrissonU.S. Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
Estelle SchaeferU.S. Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
Tijana Glavina Del RioU.S. Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
Susannah TringeU.S. Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
John P VogelU.S. Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
David L Des MaraisDepartment of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, MA, USA.
Thomas E JuengerDepartment of Integrative Biology, The University of Texas at Austin, Austin, TX, USA.
Ulrich G MuellerDepartment of Integrative Biology, The University of Texas at Austin, Austin, TX, USA. umueller@utexas.edu.

Funding

Department of Energy DE-AC02-05CH11231Department of Energy DE-SC0021126
6 · The paper itself

Abstract

backgroundMicrobiome breeding through host-mediated selection is a technique to artificially select for microbiomes conferring beneficial properties to plants. Using a systematic selection protocol that maximises the heritability of microbiome effects, transmission fidelity, and microbiome stability through multiple selection cycles, we previously developed root-associated microbial communities conferring sodium and aluminium tolerance to Brachypodium distachyon, a model for cereal crops. Here, we explore the physiological mechanisms underlying our selected microbiomes' effect on plant fitness and analyse how our selection protocol shaped the composition and structure of these microbiomes. We analysed the effects of our selected microbiomes on plant fitness and tissue-nutrient concentration, then used 16S rRNA amplicon sequencing to examine microbial community composition and co-occurrence network patterns.

resultsOur sodium-selected microbiomes reduced leaf sodium concentration by ~ 50%, whereas the aluminium-selected microbiomes had no effect on leaf-tissue nutrient concentration, suggesting different mechanisms underlying the microbiome-mediated stress tolerance. By testing the selected microbiomes in a cross-fostering experiment, we show that our artificially selected microbiomes attained (a) ecological robustness contributing to transplantability (i.e. inheritance) of microbiome-encoded effects between plants; and (b) network features identifying key bacteria promoting salt-stress tolerance.

conclusionsCombined, these findings elucidate critical mechanisms underlying host-mediated artificial selection as a framework to breed microbiomes with targeted benefits for plants under salt stresses, with significant implications for sustainable agriculture. Video Abstract.

Indexed as

BacteriaBrachypodiumMicrobiotaPlant BreedingSalt ToleranceAluminumPlant LeavesPlant RootsRNA, Ribosomal, 16SSodiumAluminumRNA, Ribosomal, 16SSodiumAbiotic stressAluminium stressHost-mediated artificial selectionMicrobial co-occurrence networksPlant growth-promoting bacteriaPlant–microbe interactionsSodium stress

Identifiers

PMID41310786
PMCPMC12659146

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Registered trials

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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.