Publications
2024
Journal Article
7 (1), 519 (2024)
Rationally designed chromosome fusion does not prevent rapid growth of Vibrio natriegens. Communications Biology
Preprint
A library-based approach allows systematic and rapid evaluation of seed region length and reveals design rules for synthetic bacterial small RNAs. (2024)
Journal Article
13 (4), pp. 1116 - 1127 (2024)
An optimized genotyping workflow for identifying highly SCRaMbLEd synthetic yeasts. ACS Synthetic Biology
Journal Article
628 (8009), pp. 894 - 900 (2024)
Emergence of fractal geometries in the evolution of a metabolic enzyme. Nature
Preprint
T4 phage RNA is NAD-capped and alters the NAD-cap epitranscriptome of Escherichia coli during infection through a phage-encoded decapping enzyme. (2024)
Book Chapter
2760 (Ed. Braman, J. C.). Humana, New York, NY. (2024)
In Silico Design, In Vitro Construction, and In Vivo Application of Synthetic Small Regulatory RNAs in Bacteria. In: Synthetic Biology. Methods in Molecular Biology, Vol.
Preprint
Use of a Golden Gate plasmid set enabling scarless MoClo-compatible transcription unit assembly. (2024)
Journal Article
DuBA.flow─A low-cost, long-read amplicon sequencing workflow for the validation of synthetic DNA constructs. ACS Synthetic Biology (2024)
Preprint
Temporal epigenome modulation enables efficient bacteriophage engineering and functional analysis of phage DNA modifications. (2024)
Journal Article
15 (1), 770 (2024)
Large-scale genomic rearrangements boost SCRaMbLE in Saccharomyces cerevisiae. Nature Communications
Preprint
Validation of Golden Gate assemblies using highly multiplexed Nanopore amplicon sequencing. (2024)
Preprint
Identification, structure and function of the methyltransferase involved in the biosynthesis of the dithiolopyrrolone antibiotic xenorhabdin. (2024)
Journal Article
4 (4), 100761 (2024)
Methodological advances enabled by the construction of a synthetic yeast genome. Cell Reports Methods 2023
Preprint
Automation and miniaturization of Golden Gate DNA assembly reactions using acoustic dispensers. (2023)
Preprint
In silico design, in vitro construction and in vivo application of synthetic small regulatory RNAs in bacteria. (2023)
Journal Article
39 (5), btad285 (2023)
DIGGER-Bac: prediction of seed regions for high-fidelity construction of synthetic small RNAs in bacteria. Bioinformatics
Journal Article
22 (1), 259 (2023)
A supernumerary synthetic chromosome in Komagataella phaffii as a repository for extraneous genetic material. Microbial Cell Factories
Preprint
A supernumerary synthetic chromosome in Komagataella phaffii as a repository for extraneous genetic material. (2023)
Journal Article
6 (12), pp. 1228 - 1240 (2023)
Construction and modular implementation of the THETA cycle for synthetic CO2 fixation. Nature Catalysis
Preprint
DNA replication is not a limiting factor for the rapid growth of Vibrio natriegens. (2023)
Journal Article
186 (24), pp. 5237 - 5253.e22 (2023)
Design, construction, and functional characterization of a tRNA neochromosome in yeast. Cell
Journal Article
3 (11), 100364 (2023)
Dissecting aneuploidy phenotypes by constructing Sc2.0 chromosome VII and SCRaMbLEing synthetic disomic yeast. Cell genomics
Journal Article
7, pp. 756 - 767 (2023)
Fortuitously compatible protein surfaces primed allosteric control in cyanobacterial photoprotection. Nature Ecology & Evolution 2022
Preprint
Reconstruct a eukaryotic chromosome arm by de novo design and synthesis. (2022)
Journal Article
10, 982975 (2022)
Microbes of traditional fermentation processes as synthetic biology chassis to tackle future food challenges. Frontiers in Bioengineering and Biotechnology
Journal Article
11 (9), pp. 2989 - 3003 (2022)
An easy-to-use plasmid toolset for efficient generation and benchmarking of synthetic small RNAs in bacteria. ACS Synthetic Biology
Preprint
L-SCRaMbLE creates large-scale genome rearrangements in synthetic Sc2.0 chromosomes. (2022)
Preprint
Design, construction, and functional characterization of a tRNA neochromosome in yeast. (2022)
Preprint
Dissecting aneuploidy phenotypes by constructing Sc2.0 chromosome VII and SCRaMbLEing synthetic disomic yeast. (2022)
2021
Journal Article
8 (3), 42 (2021)
SCRaMbLE: A study of its robustness and challenges through enhancement of Hygromycin B resistance in a semi-synthetic yeast. Bioengineering
Journal Article
22 (1), 5 (2021)
Compacting a synthetic yeast chromosome arm. Genome Biology: Biology for the Post-Genomic Era 2020
Journal Article
7 (4), pp. 137 - Article No.: 137 (2020)
Genetic Engineering and Synthetic Genomics in Yeast to Understand Life and Boost Biotechnology. Bioengineering-Basel
Journal Article
9 (7), pp. 1736 - 1752 (2020)
Leveraging the Hermes Transposon to Accelerate the Development of Nonconventional Yeast-based Microbial Cell Factories. ACS SYNTHETIC BIOLOGY 2018
Journal Article
9, 2932 (2018)
Functionality of Two Origins of Replication in Vibrio cholerae Strains With a Single Chromosome. FRONTIERS IN MICROBIOLOGY
Journal Article
46, pp. 56 - 62 (2018)
Synthetic genomics: a new venture to dissect genome fundamentals and engineer new functions. CURRENT OPINION IN CHEMICAL BIOLOGY
Journal Article
7 (1), 3 (2018)
Establishing a System for Testing Replication Inhibition of the Vibrio cholerae Secondary Chromosome in Escherichia coli. ANTIBIOTICS-BASEL
Conference Paper
Modular Assembly of Synthetic Secondary Chromosomes. In: BACTERIAL CHROMATIN: Methods and Protocols, pp. 71 - 94. (2018)
2016
Journal Article
4, 96 (2016)
Optimization and characterization of the synthetic secondary chromosome synVicII in Escherichia coli. FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY
Journal Article
5 (12), pp. 1362 - 1368 (2016)
Design and Assembly of DNA Sequence Libraries for Chromosomal Insertion in Bacteria Based on a Set of Modified MoClo Vectors. ACS SYNTHETIC BIOLOGY 2015
Journal Article
39 (6), pp. 871 - 891 (2015)
Synthetic chromosomes. FEMS MICROBIOLOGY REVIEWS
Journal Article
10 (2), pp. 302 - 314 (2015)
Synthetic secondary chromosomes in Escherichia coli based on the replication origin of chromosome II in Vibrio cholerae. SI 2014
Journal Article
68, pp. 48 - 59 (2014)
The polyketide synthase gene pks4 is essential for sexual development and regulates fruiting body morphology in Sordaria macrospora. FUNGAL GENETICS AND BIOLOGY 2013
Journal Article
14, 638 (2013)
"Non-canonical protein-DNA interactions identified by ChIP are not artifacts": response. BMC GENOMICS
Journal Article
53 (9), pp. 742 - 751 (2013)
Suppression subtractive hybridization and comparative expression analysis to identify developmentally regulated genes in filamentous fungi. JOURNAL OF BASIC MICROBIOLOGY 2012
Journal Article
84 (4), pp. 748 - 765 (2012)
The histone chaperone ASF1 is essential for sexual development in the filamentous fungus Sordaria macrospora. MOLECULAR MICROBIOLOGY