ArticleACS synthetic biology2022
Multiplexed Assembly and Annotation of Synthetic Biology Constructs Using Long-Read Nanopore Sequencing.
Article in ACS synthetic biology, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
What it found
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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.
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.
Who cites it
19 citing papers in PubMed.
- BASELINE: a CRISPR base editing platform for mammalian-scale single-cell lineage tracing.Nucleic acids research · 2026Article
- Hierarchical lineage tracing reveals diverse pathways of cytarabine resistance.Nature communications · 2026Article
- Sequencing complete plasmids on Oxford Nanopore Technologies sequencers using R2C2 and Chopper.PloS one · 2026Article
- Enhanced cleavage of genomicRNA biology · 2025Article
- Synthesis of large single-transcript pathways from oligonucleotide pools: Design of STARBURST, an autobioluminescent reporter.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- How many plasmids can bacteria carry? A synthetic biology perspective.Open biology · 2025Review
- Hierarchical Lineage Tracing Reveals Diverse Pathways of AML Treatment Resistance.bioRxiv : the preprint server for biology · 2025Article
- Validation of Golden Gate Assemblies Using Highly Multiplexed Nanopore Amplicon Sequencing.Methods in molecular biology (Clifton, N.J.) · 2025Article
- AistSeq: An in-house easy-to-purify Tn5-based plasmid sequencing platform using a compact benchtop sequencer.Frontiers in bioengineering and biotechnology · 2025Article
- Arrayed in vivo barcoding for multiplexed sequence verification of plasmid DNA and demultiplexing of pooled libraries.Nucleic acids research · 2024Article
- Direct transposition of native DNA for sensitive multimodal single-molecule sequencing.Nature genetics · 2024Article
- DuBA.flow─A Low-Cost, Long-Read Amplicon Sequencing Workflow for the Validation of Synthetic DNA Constructs.ACS synthetic biology · 2024Article
- Biofoundry-Scale DNA Assembly Validation Using Cost-Effective High-Throughput Long-Read Sequencing.ACS synthetic biology · 2024Article
- Identifying widespread and recurrent variants of genetic parts to improve annotation of engineered DNA sequences.PloS one · 2024Article
- ArrayedbioRxiv : the preprint server for biology · 2023Article
- Review
- Multiplexed long-read plasmid validation and analysis using OnRamp.Genome research · 2023Article
- Complete sequence verification of plasmid DNA using the Oxford Nanopore Technologies' MinION device.BMC bioinformatics · 2023Article
- Assembly of plant virus agroinfectious clones using biological material or DNA synthesis.STAR protocols · 2022Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
Abstract
Recombinant DNA is a fundamental tool in biotechnology and medicine. These DNA sequences are often built, replicated, and delivered in the form of plasmids. Validation of these plasmid sequences is a critical and time-consuming step, which has been dominated for the last 35 years by Sanger sequencing. As plasmid sequences grow more complex with new DNA synthesis and cloning techniques, we need new approaches that address the corresponding validation challenges at scale. Here we prototype a high-throughput plasmid sequencing approach using DNA transposition and Oxford Nanopore sequencing. Our method, Circuit-seq, creates robust, full-length, and accurate plasmid assemblies without prior knowledge of the underlying sequence. We demonstrate the power of Circuit-seq across a wide range of plasmid sizes and complexities, generating full-length, contiguous plasmid maps. We then leverage our long-read data to characterize epigenetic marks and estimate plasmid contamination levels. Circuit-seq scales to large numbers of samples at a lower per-sample cost than commercial Sanger sequencing, accelerating a key step in synthetic biology, while low equipment costs make it practical for individual laboratories.
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Registered trials
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.