Analysis of soil bacteria susceptibility to manufactured nanoparticles via data visualization.

Rong Liu, Yuan Ge, Patricia A Holden, Yoram Cohen

Abstract read

In one paragraph

Article in Beilstein journal of nanotechnology, 2015. 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.

Fungal microbiota dysbiosis in IBD.Gut · 2017
Article
Nanoinformatics for environmental health and biomedicine.Beilstein journal of nanotechnology · 2015
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

4 authors.

Rong LiuCenter for Environmental Implications of Nanotechnology, University of California, United States ; Institute of the Environment and Sustainability, University of California, Los Angeles, United States.

Yuan GeCenter for Environmental Implications of Nanotechnology, University of California, United States ; Earth Research Institute, University of California, Santa Barbara, United States.

Patricia A HoldenCenter for Environmental Implications of Nanotechnology, University of California, United States ; Earth Research Institute, University of California, Santa Barbara, United States ; Bren School of Environmental Science and Management, University of California, Santa Barbara, United States.

Yoram CohenCenter for Environmental Implications of Nanotechnology, University of California, United States ; Institute of the Environment and Sustainability, University of California, Los Angeles, United States ; Chemical and Biomolecular Engineering Department, University of California, Los Angeles, United States.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

The impact of ZnO and TiO2 manufactured nanoparticles (MNPs) on soil bacterial communities for different exposure periods and MNP doses was explored via data visualization techniques. Interrelationships between MNP treatments and responses of bacterial taxa were illustrated by bipartite graphs, allowing fast identification of important soil bacterial taxa that are susceptible to MNPs. Contribution biplots with subcompositional coherence property were generated via log-ratio analysis (LRA), which jointly display the treatment distribution and the variance (contribution) of bacterial taxa. The LRA contribution biplots and nonmetric multi-dimensional scaling (NMDS) of the dataset, along with hierarchical clustering, demonstrated that high doses of ZnO and TiO2 MNPs caused significant compositional changes in soil bacterial communities. The suitability of family level for MNP taxonomic impact assessment was demonstrated by both the LRA biplots and simplified NMDSs with quantification provided by the distance correlation between MNP impacts summarized at different taxonomic levels. The present study demonstrates that visual exploration could potentially assist in knowledge discovery and interpretation of data on soil bacterial communities exposed to MNPs and thus evaluate the potential for environmental impacts.

Indexed as

environmental impactmanufactured nanoparticlesnanoinformaticssoil bacteriavisualization

Identifiers

PMID26425414

DOI10.3762/bjnano.6.166

PMCPMC4578442

What OpenQuestion holds

Textmetadata

LicenceCC BY

Read underepoch 390

Registered trials

None linked

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.