Publications

 

Multi-omics study of Planobispora rosea, producer of the thiopeptide antibiotic GE2270A

Del Carratore F, Iorio M, Pérez-Bonilla M, Schmidt K, Pérez-Redondo R, et al.

mSystems 2021 6(3):e00341-21 (doi:10.1128/mSystems.00341-21)

 

Synthetic biology approaches to actinomycete strain improvement

Brietling R, Avbelj M, Bilyk O, Del Carratore F, Filisetti A, Hanko EKR, et al.

FEMS Microbiology Letters 2021: fnab069 (doi:10.1093/femsle/fnab060)

 

Multi-omics Analysis of the Effect of cAMP on Actinorhodin Production in Streptomyces coelicolor

Nitta K, Del Carratore F, Breitling R, Takano E, Putri SP, Fukusaki E

Front. Bioeng. Biotechnol. 2020 8:1267 (doi:10.3389/fbioe.2020.595552)

 

Unravelling the γ-butyrolactone network in Streptomyces coelicolor by computational ensemble modelling

Tsigkinopoulou A, Takano E & Breitling R

PLoS Computational Biology 2020 16(7): e1008039 (doi: 10.1371/journal.pcbi.1008039)

 

Fine-tuning the Regulation of Cas9 Expression Levels for Efficient CRISPR-Cas9 Mediated Recombination in Streptomyces

Ye Huang S, Enghiad B, Zhao H & Takano E

J. Ind. Microbiol. Biotechnol. 2020 47:413-423 (doi:10.1007/s10295-020-02277-5)

 

Structure and function of a novel elongation factor P subfamily in Actinobacteria.

Pinheiro B, Scheidler C, Kielkowski P, Schmid M, Forne I, Ye Huang S, Reiling N, Takano E, Imhof A, Sieber S, Schneider S & Jung K

Cell Reports 2020 30(13):4332-4342.e5 (doi: 10.1016/j.celrep.2020.03.009)

 

Switchable foldamer ion channels with antibacterial activity

Peters AD, Borsley S, Della Sala F, Cairns-Gibson DF, Leonidou M, Clayden J, et al.

Chem Sci. 2020 11(27):7023-30 (doi:10.1039/D0SC02393K)

 

Highly multiplexed, fast and accurate nanopore sequencing for verification of synthetic DNA constructs and sequence libraries

Currin A, Swainston N, Dunstan MS, Jervis AJ, Mulherin P, Robinson CJ, et al.

Synth Biol (Oxf). 2019 4(1):ysz025 (doi:10.1093/synbio/ysz025)

Integrated Probabilistic Annotation: A Bayesian-Based Annotation Method for Metabolomic Profiles Integrating Biochemical Connections, Isotope Patterns, and Adduct Relationships

Del Carratore F, Schmidt K, Vinaixa M, Hollywood KA, Greenland-Bews C, Takano E, Rogers S & Breitling R

Anal. Chem 2019 91(20):12799-12807 (doi:10.1021/acs.analchem.9b02354)

 

Computational identification of co-evolving multi-gene modules in microbial biosynthetic gene clusters

Del Carratore F, Zych K, Cummings M, Takano E, Medema MH & Breitling R

Communications Biology 2019 2(1):83 (doi: 10.1038/s42003-019-0333-6)

 

Antibiotic export: transporters involved in the final step of natural product production

Severi E & Thomas GH

Microbiology 2019 165(8):805-818 (doi: 10.1099/mic.0.000794)

 

The antiSMASH database version 2: a comprehensive resource on secondary metabolite biosynthetic gene clusters

Blin K, Pascal Andreu V, de Los Santos ELC, Del Carratore F, Lee SY, Medema MH & Weber T

Nucleic Acids Res. 2019 47(D1):D625-D630 (doi: 10.1093/nar/gky1060)

 

Metabolomics tools for the synthetic biology of natural products

Hollywood KA, Schmidt K, Takano E, Breitling R

Curr Opin Biotechnol. 2018 54:114-20 (doi:10.1016/j.copbio.2018.02.015)

 

Defining informative priors for ensemble modelling in systems biology

Tsigkinopoulou A, Hawari A, Uttley M & Breitling R

Nature Protocols 2018 13:2643–2663 (doi: 10.1038/s41596-018-0056-z

 

Development and validation of an updated computational model of Streptomyces coelicolor primary and secondary metabolism

Amara A, Takano E & Breitling R

BMC Genomics 2018 19(1):519. (doi: 10.1186/s12864-018-4905-5)