PXD054024

PXD054024 is an original dataset announced via ProteomeXchange.

Title	Darwinian Evolution of Self-Replicating DNA in a Synthetic Protocell
Description	Replication, heredity, and evolution are characteristic of Life. We and others have postulated that the reconstruction of a synthetic living system in the laboratory will be contingent on the development of a genetic self-replicator capable of undergoing Darwinian evolution. Although DNA-based life dominates, the in vitro reconstitution of an evolving DNA self-replicator has remained challenging. We hereby emulate in liposome compartments the principles according to which life propagates information and evolves. Using two different experimental configurations supporting intermittent or semi-continuous evolution (i.e., with or without DNA extraction, PCR, and re-encapsulation), we demonstrate sustainable replication of a linear DNA template – encoding the DNA polymerase and terminal protein from the Phi29 bacteriophage – expressed in the ‘protein synthesis using recombinant elements’ (PURE) system. The self-replicator can survive across multiple rounds of replication-coupled transcription-translation reactions in liposomes and, within only ten evolution rounds, accumulates mutations conferring a selection advantage. Combined data from next-generation sequencing with reverse engineering of some of the enriched mutations reveal nontrivial and context-dependent effects of the introduced mutations. The present results are foundational to build up genetic complexity in an evolving synthetic cell, as well as to study evolutionary processes in a minimal cell-free system.
HostingRepository	PanoramaPublic
AnnounceDate	2026-01-12
AnnouncementXML	Submission_2026-01-12_21:51:25.984.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Christophe Danelon
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: 562;
ModificationList	Label:15N(1); Label:15N(2); Label:15N(4)
Instrument	6460 Triple Quadrupole LC/MS

Revision	Datetime	Status	ChangeLog Entry
0	2024-07-17 22:57:10	ID requested
⏵ 1	2026-01-12 21:51:26	announced

Darwinian Evolution of Self-Replicating DNA in a Synthetic Protocell Zhanar Abil, Ana María Restrepo Sierra, Andreea R. Stan, Amélie Châne, Alicia del Prado, Miguel de Vega, Yannick Rondelez, Christophe Danelon https://www.nature.com/articles/s41467-024-53226-0

submitter keyword: DNA self-replicator, Darwinian evolution, Phi29 DNA polymerase, PURE, synthetic cells.

Christophe Danelon
contact affiliation	TU Delft, Toulouse Biotechnology Institute (TBI)
contact email	c.j.a.danelon@tudelft.nl
lab head
Christophe Danelon
contact affiliation	TU Delft, Toulouse Biotechnology Institute (TBI)
contact email	c.j.a.danelon@tudelft.nl
dataset submitter

Panorama Public dataset URI