Evidence map›Paper›PMID 34789769›Full record

ArticleScientific reports2021

Functional roles of multiple Ton complex genes in a Sphingobium degrader of lignin-derived aromatic compounds.

Masaya Fujita, Shodai Yano, Koki Shibata, Mizuki Kondo, Shojiro Hishiyama, Naofumi Kamimura, Eiji Masai

Open access · goldAbstract read
In one paragraph

Article in Scientific reports, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.

0numbers the graph read from it
0cells of the map it votes in
7citing papers in PubMed
0.6field-weighted citation impact, top 35% of its field
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

7 citing papers in PubMed, 14 citations in OpenAlex.

  1. Platform Potential ofJournal of agricultural and food chemistry · 2026
    Article
  2. Cooperative siderophore use stabilizes a protective leaf microbiome.bioRxiv : the preprint server for biology · 2026
    Article
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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

7 authors at 4 institutions in 1 country.

Masaya FujitaDepartment of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata, 940-2188, Japan.
Shodai YanoDepartment of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata, 940-2188, Japan.
Koki ShibataDepartment of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata, 940-2188, Japan.
Mizuki KondoCenter for Integrated Technology Support, Nagaoka University of Technology, Nagaoka, Niigata, Japan.
Shojiro HishiyamaForestry and Forest Products Research Institute, Tsukuba, Ibaraki, Japan.
Naofumi KamimuraDepartment of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata, 940-2188, Japan.
Eiji MasaiDepartment of Bioengineering, Nagaoka University of Technology, Nagaoka, Niigata, 940-2188, Japan. emasai@vos.nagaokaut.ac.jp.ORCID 0000-0001-9194-7483
Nagaoka University of Technology · JPNagaoka University · JPForestry and Forest Products Research Institute · JPHigh Energy Accelerator Research Organization · JP

Funding

Japan Society for the Promotion of Science 15H04473Japan Society for the Promotion of Science 19J11312
6 · The paper itself

Abstract

TonB-dependent transporters (TBDTs) mediate outer membrane transport of nutrients using the energy derived from proton motive force transmitted from the TonB-ExbB-ExbD complex localized in the inner membrane. Recently, we discovered ddvT encoding a TBDT responsible for the uptake of a 5,5-type lignin-derived dimer in Sphingobium sp. strain SYK-6. Furthermore, overexpression of ddvT in an SYK-6-derivative strain enhanced its uptake capacity, improving the rate of platform chemical production. Thus, understanding the uptake system of lignin-derived aromatics is fundamental for microbial conversion-based lignin valorization. Here we examined whether multiple tonB-, exbB-, and exbD-like genes in SYK-6 contribute to the outer membrane transport of lignin-derived aromatics. The disruption of tonB2-6 and exbB3 did not reduce the capacity of SYK-6 to convert or grow on lignin-derived aromatics. In contrast, the introduction of the tonB1-exbB1-exbD1-exbD2 operon genes into SYK-6, which could not be disrupted, promoted the conversion of β-O-4-, β-5-, β-1-, β-β-, and 5,5-type dimers and monomers, such as ferulate, vanillate, syringate, and protocatechuate. These results suggest that TonB-dependent uptake involving the tonB1 operon genes is responsible for the outer membrane transport of the above aromatics. Additionally, exbB2/tolQ and exbD3/tolR were suggested to constitute the Tol-Pal system that maintains the outer membrane integrity.

Indexed as

Bacterial ProteinsBiological TransportEscherichia coliEscherichia coli ProteinsHydrocarbons, AromaticLigninMembrane ProteinsProton-Motive ForceSphingomonadaceaeBacterial ProteinsEscherichia coli ProteinsExbB protein, E coliexbD protein, E coliHydrocarbons, AromaticLigninMembrane ProteinstonB protein, Bacteria

Identifiers

PMID34789769
PMCPMC8599685
OpenAlexW3214291318

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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.