ArticleNature communications2023
An integrase toolbox to record gene-expression during plant development.
Article in Nature communications, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.
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Who cites it
28 citing papers in PubMed.
- Article
- Challenges and Future Directives of Synthetic Biology in Engineering Plant-Microbe Partnerships for Sustainable Agriculture.Biotechnology and bioengineering · 2026Review
- Designing and testing CRISPRi-based synthetic gene circuits in plants.Nature protocols · 2026Review
- Auxin promotes robust founder cell specification during Arabidopsis lateral root initiation.Genetics · 2026Article
- CONSERVATION AND DIVERGENCE WITHIN THEbioRxiv : the preprint server for biology · 2026Article
- From Gene Knockouts to Genome Remodeling: Large DNA Fragment Deletion Technologies in Plants.Plants (Basel, Switzerland) · 2026Review
- Engineering Conditional Transgene Expression in Nicotiana benthamiana.Plant biotechnology journal · 2026Review
- Exploring the untapped potential of single-cell and spatial omics in plant biology.The New phytologist · 2025Review
- Identification of cognate recombination directionality factors for large serine recombinases by virtual pulldown.Nucleic acids research · 2025Article
- A Hot-Swappable Genetic Switch: Building an Inducible and Trackable Functional Assay for the Essential Gene MEDIATOR 21.ACS synthetic biology · 2025Article
- Utilizing plant synthetic biology to accelerate plant-microbe interactions research.Biodesign research · 2025Review
- The switch-liker's guide to plant synthetic gene circuits.The Plant journal : for cell and molecular biology · 2025Review
- CRISPRi-based circuits to control gene expression in plants.Nature biotechnology · 2025Article
- A function of TPL/TBL1-type corepressors is to nucleate the assembly of the preinitiation complex.The Journal of cell biology · 2025Article
- Structural basis of directionality control in large serine integrases.bioRxiv : the preprint server for biology · 2025Article
- Synthetic gene circuits in plants: recent advances and challenges.Quantitative plant biology · 2025Review
- There and turn back again: the application of phage serine integrases in eukaryotic systems.Frontiers in bioengineering and biotechnology · 2025Review
- CuBe: a geminivirus-based copper-regulated expression system suitable for post-harvest activation.Plant biotechnology journal · 2025Article
- Rooting for survival: how plants tackle a challenging environment through a diversity of root forms and functions.Plant physiology · 2024Review
- A history-dependent integrase recorder of plant gene expression with single-cell resolution.Nature communications · 2024Article
Corrections and comments
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Authors and funding
4 authors.
Funding
Abstract
There are many open questions about the mechanisms that coordinate the dynamic, multicellular behaviors required for organogenesis. Synthetic circuits that can record in vivo signaling networks have been critical in elucidating animal development. Here, we report on the transfer of this technology to plants using orthogonal serine integrases to mediate site-specific and irreversible DNA recombination visualized by switching between fluorescent reporters. When combined with promoters expressed during lateral root initiation, integrases amplify reporter signal and permanently mark all descendants. In addition, we present a suite of methods to tune the threshold for integrase switching, including: RNA/protein degradation tags, a nuclear localization signal, and a split-intein system. These tools improve the robustness of integrase-mediated switching with different promoters and the stability of switching behavior over multiple generations. Although each promoter requires tuning for optimal performance, this integrase toolbox can be used to build history-dependent circuits to decode the order of expression during organogenesis in many contexts.
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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.