Modular integration of nanopore sequencing, alphafold modeling, and statistical design boosts 1-hydroxyphenazine yield in Pseudomonas aeruginosa strain KAEH25.

Mahmoud Abd El-Mongy, Khaled Abuelhaded, Adel AbdelKhalek, Ahmed Hassan Ibrahim Faraag

Abstract read

In one paragraph

Article in BMC microbiology, 2026. 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

4 authors.

Mahmoud Abd El-MongyDepartment of Microbial Biotechnology, Genetic Engineering and Biotechnology Research Institute, University of Sadat City, Sadat City, Egypt.

Khaled AbuelhadedDepartment of Microbial Biotechnology, Genetic Engineering and Biotechnology Research Institute, University of Sadat City, Sadat City, Egypt.

Adel AbdelKhalekFood Safety, Hygiene and Technology Department, Faculty of Veterinary Medicine, Badr University in Cairo (BUC), Badr, 11829, Egypt.

Ahmed Hassan Ibrahim FaraagBotany and Microbiology Department, Faculty of Science, Capital University (formerly Helwan University), Cairo, Egypt. Professor_ahmed85@science.helwan.edu.eg.ORCID 0000-0002-2568-6059

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

This study establishes an integrated genome-to-structure-to-process framework that significantly enhances 1-hydroxyphenazine (1-OH-PHZ) biosynthesis in Pseudomonas aeruginosa KAEH25. Nanopore long-read sequencing completely resolved the 10,358 bp phenazine biosynthetic locus, confirming intact organization of core (phzB-phzG) and tailoring (phzH, phzS) genes. AlphaFold modeling and InterProScan analysis validated conserved catalytic domains across all pathway enzymes, confirming functional coherence. Plackett-Burman screening identified temperature, pH, glucose, peptone, inoculum size, and incubation time as significant production determinants, while response surface methodology optimized these factors to achieve a maximum 1-OH-PHZ titre of 24.85 µg mL⁻

Indexed as

Nanopore SequencingPhenazinesPseudomonas aeruginosaBiosynthetic PathwaysHydrogen-Ion ConcentrationTemperature1-hydroxyphenazinePhenazines1-hydroxyphenazineAlphaFoldNanopore sequencingPhenazine biosynthesisPlackett–BurmanPseudomonas aeruginosaResponse surface methodology

Identifiers

PMID42443741

DOI10.1186/s12866-026-05221-2

PMCPMC13366989

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.