Evidence map›Paper›PMID 40866499›Full record

ArticleCommunications biology2025

Mechanism of soil bacteria (Cupriavidus sp. LA-1) for degrading natural pterin and lumazine pigments.

Yuki Doi, Norifumi Maeda, Naoki Takaya

Abstract read
In one paragraph

Article in Communications biology, 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. Article
  2. Review
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

3 authors.

Yuki DoiFaculty of Life and Environmental Sciences, Microbiology Research Center for Sustainability, University of Tsukuba, Tsukuba, Ibaraki, Japan. yuki.doi.doct@gmail.com.ORCID http://orcid.org/0000-0001-6557-4740
Norifumi MaedaFaculty of Life and Environmental Sciences, Microbiology Research Center for Sustainability, University of Tsukuba, Tsukuba, Ibaraki, Japan.
Naoki TakayaFaculty of Life and Environmental Sciences, Microbiology Research Center for Sustainability, University of Tsukuba, Tsukuba, Ibaraki, Japan.ORCID http://orcid.org/0000-0003-2962-3829

Funding

Kato Memorial Bioscience Foundation N/AMEXT | Japan Society for the Promotion of Science (JSPS) 19H05679KMEXT | Japan Society for the Promotion of Science (JSPS) 19H05687KMEXT | Japan Society for the Promotion of Science (JSPS) 21K05357MEXT | Japan Society for the Promotion of Science (JSPS) 24K08654Noda Institute for Scientific Research (NISR) N/A
6 · The paper itself

Abstract

Diverse microbial metabolic mechanisms help maintain the environmental dynamics of natural compounds in biogeochemical cycles. This study revealed the bacterial mechanism for degrading pterin and lumazine compounds, which are natural cofactors and pigments. The bacterial isolate Cupriavidus sp. LA-1 degraded lumazine via xanthine using a molybdenum-containing lumazine dehydrogenase, an amidohydrolase signature isomerase, and a prenylated flavin mononucleotide-dependent decarboxylase, which are encoded by chromosomal cluster I genes. Among these enzymes, lumazine dehydrogenase is essential for bacterial degradation of lumazine. Cluster I also included a gene encoding a pterin deaminase that converts pterin compounds to their corresponding lumazine forms. The isolate degraded pterin compounds in the organic matter of various insects, reflecting the important effects of lumazine-degrading enzymes and pterin deaminase on the environmental dynamics of natural pterin compounds. The presence of cluster I genes in soil bacteria across phyla suggests that the pterin- and lumazine-degrading mechanism is widely distributed in natural environments. Our results have clarified the degradation of pterin and lumazine compounds in biogeochemical cycles, providing insights into a natural mechanism mediating the degradation of insect pterin and lumazine pigments that had remained undiscovered for many decades.

Indexed as

CupriavidusPigments, BiologicalPterinsSoil MicrobiologyBacterial ProteinsBiodegradation, EnvironmentalPhylogenyPteridinesBacterial ProteinslumazinePigments, BiologicalPteridinesPterins

Identifiers

PMID40866499
PMCPMC12391406

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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.