Evidence map›Paper›PMID 41102242›Full record

ArticleScientific reports2025

Label-free structural imaging of plant roots and microbes using third-harmonic generation microscopy.

Daisong Pan, Jose A Rivera, Max Miao, Peter Kim, Tomáš Tyml, Cristina Rodríguez, Umaima Afifa, Bing Wang, Yasuo Yoshikuni, Nathalie H Elisabeth and 3 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Scientific reports, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing 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

2 citing papers in PubMed.

  1. Multiphoton and Harmonic Imaging of Microarchitected Materials.ACS applied materials & interfaces · 2025
    Article
  2. Article
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

13 authors.

Daisong Pan *Department of Physics, University of California, Berkeley, CA, 94720, USA.
Jose A Rivera *Department of Physics, University of California, Berkeley, CA, 94720, USA.
Max MiaoUnited States Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
Peter KimUnited States Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
Tomáš TymlUnited States Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
Cristina RodríguezDepartment of Physics, University of California, Berkeley, CA, 94720, USA.
Umaima AfifaDepartment of Physics, University of California, Berkeley, CA, 94720, USA.
Bing WangUnited States Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
Yasuo YoshikuniUnited States Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
Nathalie H ElisabethBiosciences Area, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
Trent R NorthenUnited States Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
John P VogelUnited States Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
Na JiDepartment of Physics, University of California, Berkeley, CA, 94720, USA. jina@berkeley.edu.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Root biology is pivotal in addressing global challenges including sustainable agriculture and climate change. However, roots have been relatively understudied among plant organs, partly due to the difficulties in imaging root structures in their natural environment. Here we used microfabricated ecosystems (EcoFABs) to establish growing environments with optical access and employed nonlinear multimodal microscopy of third-harmonic generation (THG) and three-photon fluorescence (3PF) to achieve label-free, in situ imaging of live roots and microbes at high spatiotemporal resolution. THG enabled us to observe key plant root structures including the vasculature, Casparian strips, dividing meristematic cells, and root cap cells, as well as subcellular features including nuclear envelopes, nucleoli, starch granules, and putative stress granules. THG from the cell walls of bacteria and fungi also provides label-free contrast for visualizing these microbes in the root rhizosphere. With simultaneously recorded 3PF signal, we demonstrated our ability to investigate root-microbe interactions by achieving single-bacterium tracking and subcellular imaging of fungal spores and hyphae in the rhizosphere.

Indexed as

ArabidopsisBrachypodiumMicroscopy, FluorescencePlant RootsHypocrealesMeristemPseudomonasRhizosphere

Identifiers

PMID41102242
PMCPMC12533127

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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.