Evidence map›Paper›PMID 39896529›Full record

ArticlebioRxiv : the preprint server for biology2025

Synthesizing unmodified, supercoiled circular DNA molecules

Sepideh Rezaei, Monica Moncada-Restrepo, Sophia Leng, Jeremy W Chambers, Fenfei Leng

Abstract readPreprint
In one paragraph

Article in bioRxiv : the preprint server for biology, 2025. 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

5 · Who and what money

Authors and funding

5 authors.

Sepideh RezaeiBiomolecular Sciences Institute, Florida International University, Miami, FL 33199, United States.
Monica Moncada-RestrepoBiomolecular Sciences Institute, Florida International University, Miami, FL 33199, United States.
Sophia LengBiomolecular Sciences Institute, Florida International University, Miami, FL 33199, United States.
Jeremy W ChambersBiomolecular Sciences Institute, Florida International University, Miami, FL 33199, United States.
Fenfei LengBiomolecular Sciences Institute, Florida International University, Miami, FL 33199, United States.ORCID 0000-0002-9024-1216

Funding

Targeting transcription-coupled DNA supercoiling for discovering antibiotics against bacterial DNA gyraseR21AI125973 · NIAID · FLORIDA INTERNATIONAL UNIVERSITY · PI LENG, FENFEI · 2017 to 2018
$478k
Novel gyrase inhibitors targeting Mycobacterium tuberculosisR21AI178134 · NIAID · FLORIDA INTERNATIONAL UNIVERSITY · PI LENG, FENFEI, NEFZI, ADEL · 2023 to 2024
$422k
High Throughput Screening to Discover Bacterial DNA Gyrase Poisoning InhibitorsR41TR005250 · NCATS · TOP BIOSCIENCES, LLC · PI LENG, FENFEI · 2024 to 2024
$298k
NCATS NIH HHS R41 TR005250NIAID NIH HHS R21 AI125973NIAID NIH HHS R21 AI178134
6 · The paper itself

Abstract

Supercoiled (Sc) circular DNA, such as plasmids, has shown therapeutic potential since the 1990s, but is limited by bacterial modifications, unnecessary DNA sequences, and contaminations that may trigger harmful responses. To overcome these challenges, we have developed two novel scalable biochemical methods to synthesize unmodified Sc circular DNA. Linear DNA with two loxP sites in the same orientation is generated via PCR or rolling circle amplification. Cre recombinase then converts this linear DNA into relaxed circular DNA. After T5 exonuclease removes unwanted linear DNA, topoisomerases are employed to generate Sc circular DNA. We have synthesized EGFP-FL, a 2,002 bp mini-circular DNA carrying essential EGFP expression elements. EGFP-FL transfected human HeLa and mouse C2C12 cells with much higher efficiency than

Indexed as

EGFP-FLPCRplasmidsRCASupercoiled circular DNA molecules

Identifiers

PMID39896529
PMCPMC11785245

What Socratic holds

Textmetadata
LicenceCC BY-NC-ND
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 Socratic graph.