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Versatile approach for functional analysis of human proteins and efficient stable cell line generation using FLP-mediated recombination system

Szczęsny, Roman J. and Kowalska, Katarzyna and Kłosowska-Kosicka, Kamila and Chlebowski, Aleksander and Owczarek, Ewelina P. and Warkocki, Zbigniew and Kuliński, Tomasz M. and Adamska, Dorota and Affek, Kamila and Jędroszkowiak, Agata and Kotrys, Anna V. and Tomecki, Rafał and Krawczyk, Pawel S and Borowski, Lukasz S and Dziembowski, Andrzej (2018) Versatile approach for functional analysis of human proteins and efficient stable cell line generation using FLP-mediated recombination system. PLOS ONE, 13 (3). e0194887. ISSN 1932-6203


Official URL: http://doi.org/10.1371/journal.pone.0194887


Deciphering a function of a given protein requires investigating various biological aspects. Usually, the protein of interest is expressed with a fusion tag that aids or allows subsequent analyses. Additionally, downregulation or inactivation of the studied gene enables functional studies. Development of the CRISPR/Cas9 methodology opened many possibilities but in many cases it is restricted to non-essential genes. Recombinase-dependent gene integration methods, like the Flp-In system, are very good alternatives. The system is widely used in different research areas, which calls for the existence of compatible vectors and efficient protocols that ensure straightforward DNA cloning and generation of stable cell lines. We have created and validated a robust series of 52 vectors for streamlined generation of stable mammalian cell lines using the FLP recombinase-based methodology. Using the sequence-independent DNA cloning method all constructs for a given coding-sequence can be made with just three universal PCR primers. Our collection allows tetracycline-inducible expression of proteins with various tags suitable for protein localization, FRET, bimolecular fluorescence complementation (BiFC), protein dynamics studies (FRAP), co-immunoprecipitation, the RNA tethering assay and cell sorting. Some of the vectors contain a bidirectional promoter for concomitant expression of miRNA and mRNA, so that a gene can be silenced and its product replaced by a mutated miRNA-insensitive version. Our toolkit and protocols have allowed us to create more than 500 constructs with ease. We demonstrate the efficacy of our vectors by creating stable cell lines with various tagged proteins (numatrin, fibrillarin, coilin, centrin, THOC5, PCNA). We have analysed transgene expression over time to provide a guideline for future experiments and compared the effectiveness of commonly used inducers for tetracycline-responsive promoters. As proof of concept we examined the role of the exoribonuclease XRN2 in transcription termination by RNAseq.

Item Type:Article
Subjects:Q Science > QH Natural history > QH301 Biology
Divisions:Laboratory of RNA Biology and Functional Genomics
ID Code:1545
Deposited By: Dr Roman J Szczęsny
Deposited On:11 Jun 2018 14:33
Last Modified:15 Oct 2018 08:19

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