Evidence map›Paper›PMID 39558231›Full record

ArticleMicrobiology and immunology2025

Genetic Characterization of a Novel Retron Element Isolated from Vibrio mimicus.

Jant Cres Caigoy, Toshi Shimamoto, Yojiro Ishida, Ashraf M Ahmed, Shin-Ichi Miyoshi, Tadashi Shimamoto

Abstract read
In one paragraph

Article in Microbiology and immunology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing 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

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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

1 citing paper in PubMed.

  1. Article
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

6 authors.

Jant Cres CaigoyLaboratory of Food Microbiology and Hygiene, Graduate School of Integrated Sciences for Life, Hiroshima University, Higashi-Hiroshima, Japan.ORCID https://orcid.org/0000-0002-9662-2511
Toshi ShimamotoLaboratory of Food Microbiology and Hygiene, Graduate School of Integrated Sciences for Life, Hiroshima University, Higashi-Hiroshima, Japan.
Yojiro IshidaDepartment of Structural Biology, Protein Technologies Center, St. Jude Children's Research Hospital, Memphis, Tennessee, USA.ORCID http://orcid.org/0000-0001-6781-367X
Ashraf M AhmedDepartment of Bacteriology, Mycology and Immunology, Faculty of Veterinary Medicine, Kafrelsheikh University, Kafr El-Sheikh, Egypt.ORCID http://orcid.org/0000-0003-2852-7798
Shin-Ichi MiyoshiGraduate School of Medicine Dentistry and Pharmaceutical Sciences, School of Pharmaceutical Sciences, Okayama University, Okayama, Japan.ORCID http://orcid.org/0000-0003-3718-3878
Tadashi ShimamotoLaboratory of Food Microbiology and Hygiene, Graduate School of Integrated Sciences for Life, Hiroshima University, Higashi-Hiroshima, Japan.ORCID http://orcid.org/0000-0002-5538-0595

Funding

This work was supported in part by the Grant-in-Aid for Scientific Research to Tadashi S. from the Japan Society for the Promotion of Science (no. 18K07113, 21K07025).
6 · The paper itself

Abstract

Bacterial reverse transcriptase coding gene (RT) is essential for the production of a small satellite DNA-RNA complex called multicopy single-stranded DNA (msDNA). In this study, we found a novel retron, retron-Vmi1 (Vm85) from Vibrio mimicus. The retron is comprised of the msr-msd region, orf323, and the ret gene, a genetic organization similar to Salmonella's retron-Sen2 (St85). The protein sequence of the RNA-directed DNA polymerase (RT-Vmi1) is highly homologous to the RTs of Vibrio metoecus, Vibrio parahaemolyticus, and Vibrio vulnificus. Phylogenetic and protein sequence similarity analysis of retron-Vmi1 ORF323 and RT revealed a close relatedness to retron-Sen2. We found that retron-Vmi1 was inserted in the dusA gene, similar to the insertion of the retron-Vpa1 (Vp96) of V. parahaemolyticus AQ3354, suggesting that retrons can be transferred via the tRNA gene. These results are the first convincing evidence that retron is moving across species. The neighboring genes of retron-Vmi1 shared high homology with the genetic environment of V. parahaemolyticus and V. vulnificus retrons. We also found two junction points within the retron-Vmi1 and the dusA gene suggesting that retron-Vmi1 was inserted into this site in a two-step manner.

Indexed as

PhylogenyVibrio mimicusAmino Acid SequenceBacterial ProteinsDNA, BacterialDNA, Single-StrandedRNA-Directed DNA PolymeraseVibrioVibrio parahaemolyticusBacterial ProteinsDNA, BacterialDNA, Single-StrandedRNA-Directed DNA PolymerasemsDNAretronreverse transcriptaseVibrio mimicus

Identifiers

PMID39558231
PMCPMC11701397

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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.