Evidence map›Paper›PMID 39400703›Full record

ArticleCurrent microbiology2024

Exploring the Genome-wide Expression Level of the Bacterial Strain Belonging to Bacillus safensis (MM19) Against Phomopsis viticola.

Ragıp Soner Silme, Ömür Baysal, Ahmet Can, Yiğit Kürüm, Ahmet Korkut, Kevser Kübra Kırboğa, Agit Çetinkaya

Abstract read
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Article in Current microbiology, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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

0 citing papers in PubMed.

No citing paper in PubMed yet.

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.

Ragıp Soner Silme *Center for Research and Practice in Biotechnology and Genetic Engineering, Istanbul University, Istanbul, Fatih, Turkey. rsoner@istanbul.edu.tr.ORCID http://orcid.org/0000-0001-6547-3747
Ömür Baysal *Molecular Microbiology Unit, Department of Molecular Biology and Genetics, Faculty of Science, Muğla Sıtkı Koçman University, Kötekli-Muğla, Turkey. omurbaysal@mu.edu.tr.ORCID http://orcid.org/0000-0001-5104-0983
Ahmet CanMolecular Microbiology Unit, Department of Molecular Biology and Genetics, Faculty of Science, Muğla Sıtkı Koçman University, Kötekli-Muğla, Turkey.ORCID http://orcid.org/0000-0003-2197-0885
Yiğit KürümMolecular Microbiology Unit, Department of Molecular Biology and Genetics, Faculty of Science, Muğla Sıtkı Koçman University, Kötekli-Muğla, Turkey.ORCID http://orcid.org/0000-0002-3250-9851
Ahmet KorkutMolecular Microbiology Unit, Department of Molecular Biology and Genetics, Faculty of Science, Muğla Sıtkı Koçman University, Kötekli-Muğla, Turkey.ORCID http://orcid.org/0000-0002-4258-0627
Kevser Kübra KırboğaFaculty of Engineering, Department of Bioengineering, Bilecik Seyh Edebali University, Bilecik, Turkey.ORCID http://orcid.org/0000-0002-2917-8860
Agit ÇetinkayaDepartment of Molecular Biology and Genetics, Gebze Technical University, Kocaeli, Gebze, Turkey.ORCID http://orcid.org/0000-0003-1532-3614

Funding

Bilimsel Araştirma Projeleri Birimi, Istanbul Üniversitesi FBA-2019-33451
6 · The paper itself

Abstract

Rhizobacteria have the ability to compete with pathogenic microorganisms and contribute to plant immunity and defense mechanisms. Their growth and survival in the rhizosphere ensure a biological balance in favor of the host plant. The differential gene expression profiles of B. safensis (MM19) revealed significantly increased expression of prominent genes related to thiamine biosynthesis involving various metabolites and enzymes that participate in the suppression of mycelium growth and pathogen inhibition. Correspondingly, the expression of three major genes (HOG1, FUS3, SGI) involved in the virulence of P. viticola was assessed using qPCR analysis. HOG1 was the highest expressed gene in the pathogen when it was co-cultivated with MM19. Based on these findings, we performed molecular docking and dynamics analysis to explore the interaction between HOG1 and thiamine, as well as expression network analysis constructed using Cytoscape. The functional genomic data related to thiamine biosynthesis and the corresponding pathways ensure a priming role in the antagonistic behavior of B. safensis (MM19) against P. viticola as a support for plant immunity.

Indexed as

BacillusPlant DiseasesThiamineAscomycotaBacterial ProteinsGene Expression ProfilingGene Expression Regulation, BacterialGenome, BacterialMolecular Docking SimulationVirulenceBacterial ProteinsThiamine

Identifiers

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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.