Evidence map›Paper›PMID 40986107›Full record

ArticleArchives of microbiology2025

Phenotypic, secondary metabolite, and genomic characterization of Bacillus siamensis B03 from brackish water with Anti‑Vibrio potential.

Co Thi Kim Nguyen, Phuc Giang Hong Lam, Ngoc Thi Thuy Dang, Suong Ngoc Le, Ty Viet Pham, Nam Vo, Hung Tan Dinh, Oanh Viet Kieu Nguyen, Hoang Duc Nguyen

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Article in Archives of microbiology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing 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

3 citing papers in PubMed.

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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

9 authors.

Co Thi Kim NguyenCenter for Bioscience and Biotechnology, University of Science, Ho Chi Minh, Vietnam.ORCID https://orcid.org/0009-0008-3864-0018
Phuc Giang Hong LamFaculty of Biology, University of Education, Hue University, Hue, Vietnam.
Ngoc Thi Thuy DangFaculty of Biology, University of Education, Hue University, Hue, Vietnam.
Suong Ngoc LeFaculty of Biology, University of Education, Hue University, Hue, Vietnam.
Ty Viet PhamFaculty of Chemistry, University of Education, Hue University, Hue, Vietnam.ORCID https://orcid.org/0000-0002-6883-0823
Nam VoCenter for Bioscience and Biotechnology, University of Science, Ho Chi Minh, Vietnam.
Hung Tan DinhCenter for Bioscience and Biotechnology, University of Science, Ho Chi Minh, Vietnam.
Oanh Viet Kieu NguyenCenter for Bioscience and Biotechnology, University of Science, Ho Chi Minh, Vietnam.
Hoang Duc NguyenCenter for Bioscience and Biotechnology, University of Science, Ho Chi Minh, Vietnam. ndhoang@hcmus.edu.vn.ORCID https://orcid.org/0000-0003-2437-3568

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

This study aimed to provide the first genomic, functional, and metabolic characterization of Bacillus siamensis B03 from Lang Co Bay, Vietnam, and to evaluate the hypothesis that it harbors unique metabolic traits and antimicrobial potential against Vibrio spp.. B03 showed no hemolytic activity, moderate biofilm formation, tolerance to 10% NaCl, and broad extracellular enzyme secretion. Ethyl acetate extracts from the cell-free supernatant exhibited in vitro antibacterial activity against five Vibrio species, with inhibition zones of 14.7-22.3 mm. Metabolomic analysis tentatively identified 20 compounds, mainly cyclic dipeptides, some previously reported to possess antimicrobial properties. Draft, plasmid-free genome (3,745,205 bp; 46.4% GC) encodes 3,561 proteins and 72 tRNAs, with genes mainly for amino acid and carbohydrate metabolism, and contains gene clusters for bacillaene, fengycin, difficidin, bacillibactin (100% similarity), and surfactin (78%). Pan-genome analysis of 24 B. siamensis genomes revealed 2,254 core genes, with B03 contributing 31 unique genes, including those encoding NAD-dependent malic enzyme and adenylation domain proteins. These findings suggest B. siamensis B03 as a potential control agent against Vibrio pathogens.

Indexed as

Anti-Bacterial AgentsBacillusVibrioBacterial ProteinsGenome, BacterialGenomicsMicrobial Sensitivity TestsMultigene FamilyPhenotypePhylogenySecondary MetabolismVietnamAnti-Bacterial AgentsBacterial ProteinsAntimicrobial potentialBacillus siamensisChromatography-mass spectrometryCyclic dipeptidesGenome sequencingPan-genome analysis

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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.