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Bottom-Up Synthetic Biology Using Cell-Free Protein Synthesis

https://doi.org/10.1007/10_2023_232

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Outgoing claims: the papers this work cites, builds on, or argues with.

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Prolonging cell-free protein synthesis with a novel ATP regeneration system

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Artificial Organelles for Energy Regeneration

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Compartmentalization Approaches in Soft Matter Science: From Nanoreactor Development to Organelle Mimics

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Bioinspired Protein‐Based Assembling: Toward Advanced Life‐Like Behaviors

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Directed Evolution of an Artificial Imine Reductase

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MaxSynBio: Avenues Towards Creating Cells from the Bottom Up

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Interfacing Living and Synthetic Cells as an Emerging Frontier in Synthetic Biology

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An efficient cell‐free protein synthesis platform for producing proteins with pyrrolysine‐based noncanonical amino acids

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Regeneration of adenosine triphosphate from glycolytic intermediates for cell‐free protein synthesis

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Mimicking the Escherichia coli cytoplasmic environment activates long‐lived and efficient cell‐free protein synthesis

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Energizing cell‐free protein synthesis with glucose metabolism

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Prolonged cell‐free protein synthesis using dual energy sources: Combined use of creatine phosphate and glucose for the efficient supply of ATP and retarded accumulation of phosphate

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A New Embedded Process for Compartmentalized Cell‐Free Protein Expression and On‐line Detection in Microfluidic Devices

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Artificial Riboswitches: Synthetic mRNA‐Based Regulators of Gene Expression

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Giant Vesicles: Preparations and Applications

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Cell‐Like Nanostructured Environments Alter Diffusion and Reaction Kinetics in Cell‐Free Gene Expression

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Microfluidics for Biosynthesizing: from Droplets and Vesicles to Artificial Cells

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Cell-Free Membrane Protein Expression into Hybrid Lipid/Polymer Vesicles

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Actin Polymerization: Regulation by Divalent Metal Ion and Nucleotide Binding, ATP Hydrolysis and Binding of Myosin

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Self-replicating micelles — A chemical version of a minimal autopoietic system

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ATP Photosynthetic vesicles for light-driven bioprocesses

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Overview of the mechanism of cytoskeletal motors based on structure

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ATP synthesis catalyzed by purified DCCD-sensitive ATPase incorporated into reconstituted purple membrane vesicles

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Actin polymerization and ATP hydrolysis

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Nucleotide hydrolysis in cytoskeletal assembly

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Synthesis of 2.3 mg/ml of protein with an all Escherichia coli cell-free transcription–translation system

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Cell-free protein synthesis: Applications come of age

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Bacteriophage T7 transcription system: an enabling tool in synthetic biology

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Riboswitches and the role of noncoding RNAs in bacterial metabolic control

inferredcites →https://doi.org/10.1016/j.cell.2014.10.004openalex-snapshot

Paper-Based Synthetic Gene Networks

inferredcites →https://doi.org/10.1016/j.cobme.2019.08.005openalex-snapshot

Cell-free biosensors for biomedical applications

inferredcites →https://doi.org/10.1016/j.cub.2013.05.024openalex-snapshot

The bacterial Min system

inferredcites →https://doi.org/10.1016/j.cub.2016.06.071openalex-snapshot

Actomyosin Ring Formation and Tension Generation in Eukaryotic Cytokinesis

inferredcites →https://doi.org/10.1016/j.devcel.2012.04.015openalex-snapshot

Actin Depolymerization Drives Actomyosin Ring Contraction during Budding Yeast Cytokinesis

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Energizing eukaryotic cell‐free protein synthesis with glucose metabolism

inferredcites →https://doi.org/10.1016/j.jbiosc.2014.04.019openalex-snapshot

Synthesis of milligram quantities of proteins using a reconstituted in vitro protein synthesis system

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An economical and highly productive cell-free protein synthesis system utilizing fructose-1,6-bisphosphate as an energy source

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Hybrid polymer/lipid vesicles: state of the art and future perspectives

inferredcites →https://doi.org/10.1016/j.nbt.2017.06.014openalex-snapshot

Cell-free protein synthesis in micro compartments: building a minimal cell from biobricks

inferredcites →https://doi.org/10.1016/j.procbio.2011.03.008openalex-snapshot

Prolonged production of proteins in a cell-free protein synthesis system using polymeric carbohydrates as an energy source

inferredcites →https://doi.org/10.1016/j.sbi.2015.04.008openalex-snapshot

Conceptual and methodological advances in cell-free directed evolution

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Metabolic Burden: Cornerstones in Synthetic Biology and Metabolic Engineering Applications

inferredcites →https://doi.org/10.1016/j.ymben.2011.09.002openalex-snapshot

Cell-free synthetic biology: Thinking outside the cell

inferredcites →https://doi.org/10.1016/j.ymben.2016.03.002openalex-snapshot

A cell-free framework for rapid biosynthetic pathway prototyping and enzyme discovery

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Protein synthesis by pure translation systems

inferredcites →https://doi.org/10.1016/j.ymeth.2015.05.020openalex-snapshot

Characterizing and Prototyping Genetic Networks with Cell-Free Transcription-Translation Reactions

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Budding and fission of vesicles

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THE ORIGIN OF THE REACTION OF HARDEN AND YOUNG IN CELL-FREE ALCOHOLIC FERMENTATION

inferredcites →https://doi.org/10.1016/s0021-9258(19)43080-9openalex-snapshot

Reconstitution of Purple Membrane Vesicles Catalyzing Light-driven Proton Uptake and Adenosine Triphosphate Formation

inferredcites →https://doi.org/10.1017/s1355838202029722openalex-snapshot

Osmolytes stimulate the reconstitution of functional 50S ribosomes from in vitro transcripts of Escherichia coli 23S rRNA

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Physical Principles and Extant Biology Reveal Roles for RNA-Containing Membraneless Compartments in Origins of Life Chemistry

inferredcites →https://doi.org/10.1021/acs.nanolett.8b03469openalex-snapshot

Light-Guided Motility of a Minimal Synthetic Cell

inferredcites →https://doi.org/10.1021/acscentsci.6b00330openalex-snapshot

Two-Way Chemical Communication between Artificial and Natural Cells

inferredcites →https://doi.org/10.1021/acsomega.8b02955openalex-snapshot

Synthetic Minimal Cell: Self-Reproduction of the Boundary Layer

inferredcites →https://doi.org/10.1021/acssynbio.0c00110openalex-snapshot

Bottom-Up Construction of a Minimal System for Cellular Respiration and Energy Regeneration

inferredcites →https://doi.org/10.1021/acssynbio.0c00433openalex-snapshot

Compartmentalizing Cell-Free Systems: Toward Creating Life-Like Artificial Cells and Beyond

inferredcites →https://doi.org/10.1021/acssynbio.2c00287openalex-snapshot

Actomyosin-Driven Division of a Synthetic Cell

inferredcites →https://doi.org/10.1021/acssynbio.2c00406openalex-snapshot

Reconstitution of a Reversible Membrane Switch via Prenylation by One-Pot Cell-Free Expression

inferredcites →https://doi.org/10.1021/acssynbio.5b00296openalex-snapshot

The All E. coli TX-TL Toolbox 2.0: A Platform for Cell-Free Synthetic Biology

inferredcites →https://doi.org/10.1021/acssynbio.6b00154openalex-snapshot

Cell-Free Mixing of Escherichia coli Crude Extracts to Prototype and Rationally Engineer High-Titer Mevalonate Synthesis

inferredcites →https://doi.org/10.1021/acssynbio.6b00342openalex-snapshot

Cogenerating Synthetic Parts toward a Self-Replicating System

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RNA Thermometers for the PURExpress System

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Gene-Mediated Chemical Communication in Synthetic Protocell Communities

inferredcites →https://doi.org/10.1021/acssynbio.7b00376openalex-snapshot

Cell-Free and In Vivo Characterization of Lux, Las, and Rpa Quorum Activation Systems in E. coli

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Artificial Cells Capable of Long-Lived Protein Synthesis by Using Aptamer Grafted Polymer Hydrogel

inferredcites →https://doi.org/10.1021/bp050052yopenalex-snapshot

An Economical Method for Cell-Free Protein Synthesis using Glucose and Nucleoside Monophosphates

inferredcites →https://doi.org/10.1021/ja504213mopenalex-snapshot

Design and Construction of Higher-Order Structure and Function in Proteinosome-Based Protocells

inferredcites →https://doi.org/10.1021/jacs.6b02107openalex-snapshot

Monodisperse Uni- and Multicompartment Liposomes

inferredcites →https://doi.org/10.1021/jacs.9b11468openalex-snapshot

Multiphase Complex Coacervate Droplets

inferredcites →https://doi.org/10.1021/la404146gopenalex-snapshot

Multiphase Water-in-Oil Emulsion Droplets for Cell-Free Transcription–Translation

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An E. coli Cell-Free Expression Toolbox: Application to Synthetic Gene Circuits and Artificial Cells

inferredcites →https://doi.org/10.1021/sb4000977openalex-snapshot

Gene Position More Strongly Influences Cell-Free Protein Expression from Operons than T7 Transcriptional Promoter Strength

inferredcites →https://doi.org/10.1021/sb400131aopenalex-snapshot

Linear DNA for Rapid Prototyping of Synthetic Biological Circuits in an Escherichia coli Based TX-TL Cell-Free System

inferredcites →https://doi.org/10.1021/sb400203popenalex-snapshot

Gene Circuit Performance Characterization and Resource Usage in a Cell-Free “Breadboard”

inferredcites →https://doi.org/10.1021/sb400206copenalex-snapshot

Rapidly Characterizing the Fast Dynamics of RNA Genetic Circuitry with Cell-Free Transcription–Translation (TX-TL) Systems

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Central Dogma of Molecular Biology

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Cell-free translation reconstituted with purified components

inferredcites →https://doi.org/10.1038/msb.2013.31openalex-snapshot

In vitro integration of ribosomal RNA synthesis, ribosome assembly, and translation

inferredcites →https://doi.org/10.1038/msb4100090openalex-snapshot

Towards synthesis of a minimal cell

inferredcites →https://doi.org/10.1038/nature01257openalex-snapshot

Engineered gene circuits

inferredcites →https://doi.org/10.1038/nature01599openalex-snapshot

Cell division

inferredcites →https://doi.org/10.1038/nature07018openalex-snapshot

Template-directed synthesis of a genetic polymer in a model protocell

inferredcites →https://doi.org/10.1038/nature08187openalex-snapshot

Programming cells by multiplex genome engineering and accelerated evolution

inferredcites →https://doi.org/10.1038/nature14862openalex-snapshot

Protein synthesis by ribosomes with tethered subunits

inferredcites →https://doi.org/10.1038/nature18930openalex-snapshot

Synchronized cycles of bacterial lysis for in vivo delivery

inferredcites →https://doi.org/10.1038/nature25506openalex-snapshot

Peptidoglycan synthesis drives an FtsZ-treadmilling-independent step of cytokinesis

inferredcites →https://doi.org/10.1038/nbt.4140openalex-snapshot

Photosynthetic artificial organelles sustain and control ATP-dependent reactions in a protocellular system

inferredcites →https://doi.org/10.1038/nbt0798-652openalex-snapshot

Man-made cell-like compartments for molecular evolution

inferredcites →https://doi.org/10.1038/nchem.2644openalex-snapshot

Engineering genetic circuit interactions within and between synthetic minimal cells

inferredcites →https://doi.org/10.1038/nchembio.1737openalex-snapshot

Creating small transcription activating RNAs

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Octanol-assisted liposome assembly on chip

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inferredcites →https://doi.org/10.1038/nmeth897openalex-snapshot

Directed evolution by in vitro compartmentalization

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Macromolecular crowding creates heterogeneous environments of gene expression in picolitre droplets

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Growth and division of active droplets provides a model for protocells

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Structural basis of enzyme encapsulation into a bacterial nanocompartment

inferredcites →https://doi.org/10.1038/s41467-017-00757-4openalex-snapshot

Heterogeneous multi-compartmental hydrogel particles as synthetic cells for incompatible tandem reactions

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Cell-free protein synthesis from genomically recoded bacteria enables multisite incorporation of noncanonical amino acids

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Self-replication of DNA by its encoded proteins in liposome-based synthetic cells

inferredcites →https://doi.org/10.1038/s41467-018-05110-xopenalex-snapshot

Single-pot glycoprotein biosynthesis using a cell-free transcription-translation system enriched with glycosylation machinery

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Artificial photosynthetic cell producing energy for protein synthesis

inferredcites →https://doi.org/10.1038/s41467-020-14694-2openalex-snapshot

In vitro self-replication and multicistronic expression of large synthetic genomes

inferredcites →https://doi.org/10.1038/s41467-020-17863-5openalex-snapshot

Genetically controlled membrane synthesis in liposomes

inferredcites →https://doi.org/10.1038/s41467-022-33679-xopenalex-snapshot

In vitro assembly, positioning and contraction of a division ring in minimal cells

inferredcites →https://doi.org/10.1038/s41567-019-0767-2openalex-snapshot

Elastic ripening and inhibition of liquid–liquid phase separation

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Cell-free biosensors for rapid detection of water contaminants

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Multicompartmentalized polymersomes for selective encapsulation of biomacromolecules

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Cell-like systems with riboswitch controlled gene expression

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DNA-functionalized hydrogels for confined membrane-free in vitro transcription/translation

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In vitro gene expression within membrane-free coacervate protocells

inferredcites →https://doi.org/10.1039/c5ib00301fopenalex-snapshot

Chemical communication between bacteria and cell-free gene expression systems within linear chains of emulsion droplets

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inferredcites →https://doi.org/10.1039/c9cc02734copenalex-snapshot

Temperature-sensitive protein expression in protocells

inferredcites →https://doi.org/10.1039/d0cc02582hopenalex-snapshot

Cell-free protein synthesis in hydrogel materials

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Division in synthetic cells

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Recent developments in microfluidic synthesis of artificial cell-like polymersomes and liposomes for functional bioreactors

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A vesicle bioreactor as a step toward an artificial cell assembly

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Implementation of cell-free biological networks at steady state

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Cell-free gene-regulatory network engineering with synthetic transcription factors

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The dependence of cell-free protein synthesis in E. coli upon naturally occurring or synthetic polyribonucleotides

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ATP Synthesis by F0F1-ATP Synthase Independent of Noncatalytic Nucleotide Binding Sites and Insensitive to Azide Inhibition

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Nine unanswered questions about cytokinesis

inferredcites →https://doi.org/10.1093/jb/mvab121openalex-snapshot

In vitroreconstitution of theEscherichia coli70S ribosome with a full set of recombinant ribosomal proteins

inferredcites →https://doi.org/10.1101/gr.5776007openalex-snapshot

Synthetic biology projects in vitro

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Suppression of Ostwald ripening in active emulsions

inferredcites →https://doi.org/10.1103/physrevlett.106.048104openalex-snapshot

Coarse-Grained Dynamics of Protein Synthesis in a Cell-Free System

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Enzymology of the pathway for ATP production by arginine breakdown

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The preparation and properties of niosomes—non-ionic surfactant vesicles

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Proteopolymersomes: In vitro production of a membrane protein in polymersome membranes

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Experimental Models of Primitive Cellular Compartments: Encapsulation, Growth, and Division

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A riboswitch-containing sRNA controls gene expression by sequestration of a response regulator

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Programmable on-chip DNA compartments as artificial cells

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The new frontier of genome engineering with CRISPR-Cas9

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Treadmilling by FtsZ filaments drives peptidoglycan synthesis and bacterial cell division

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GTPase activity–coupled treadmilling of the bacterial tubulin FtsZ organizes septal cell wall synthesis

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Light-powered CO 2 fixation in a chloroplast mimic with natural and synthetic parts

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Synthesis and hydrolysis of ATP by the mitochondrial ATP synthase

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Protein Self-Organization: Lessons from the Min System

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Bottom-Up Synthesis of Artificial Cells: Recent Highlights and Future Challenges

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Comparative Properties and Methods of Preparation of Lipid Vesicles (Liposomes)

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BACTERIAL CELL DIVISION AND THE Z RING

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IN VITRO SYNTHESIS OF PROTEIN IN MICROBIAL SYSTEMS

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Bridging Nonliving and Living Matter

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Engineering BioBrick vectors from BioBrick parts

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Efficient cell-free expression with the endogenous E. Coli RNA polymerase and sigma factor 70

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Principles and mechanisms of asymmetric cell division

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What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

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Organizational change of synthetic biology research: Emerging initiatives advancing a bottom-up approach

inferred← citeshttps://doi.org/10.1016/j.synbio.2025.11.005openalex-snapshot

Functions and optimization of soft law in the international governance of synthetic biology: The predicament of hard law vs. the rise of soft law

inferred← citeshttps://doi.org/10.1021/acssynbio.4c00441openalex-snapshot

The Potential of Artificial Cells Functioning under In Situ Deep-Sea Conditions

inferred← citeshttps://doi.org/10.1038/s41467-024-52085-zopenalex-snapshot

Chemiosmotic nutrient transport in synthetic cells powered by electrogenic antiport coupled to decarboxylation

inferred← citeshttps://doi.org/10.1073/pnas.2511283122openalex-snapshot

Artificial cells with liquid–liquid phase separation–regulated cell-free protein synthesis

inferred← citeshttps://doi.org/10.2139/ssrn.5392350openalex-snapshot

A Robust Method for On-Chip Production and Manipulation of Lipid Vesicles by Inverted Emulsion

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