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  Identification and analysis of functional associations among natural eukaryotic genome editing components

Swart, E., Wilkes, C., Sandoval, P., Hoehener, C., Singh, A., Furrer, D., et al. (2017). Identification and analysis of functional associations among natural eukaryotic genome editing components. F1000Research, 2017(6): 1374. doi:10.12688/f1000research.12121.1.

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Swart, EC1, Author                 
Wilkes, CD, Author
Sandoval, PY, Author
Hoehener, C, Author
Singh, A1, Author                 
Furrer, DI, Author
Arambasic, M, Author
Ignarski, M, Author
Nowacki, M, Author
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1External Organizations, ou_persistent22              

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 Abstract: During development in the ciliate Paramecium, excess DNA interspersed throughout the germline genome is deleted to generate a new somatic genome. In this process, most of the intervening DNA is excised by a Piggybac-derived transposase, assisted by small RNAs (scnRNAs and iesRNAs) and chromatin remodelling. As the list of genes involved in DNA elimination has been growing, a need for a general approach to discover functional relationships among these genes now exists. We show that deep sequencing-based comparisons of experimentally-induced DNA retention provide a sensitive, quantitative approach to identify and analyze functional associations among genes involved in native genome editing. This reveals two functional molecular groups: (i) iesRNAs/scnRNAs, the putative Piwi- and RNA-binding Nowa1/2 proteins, and the transcription elongation factor TFIIS4; and (ii) PtCAF1 and Ezl1, two proteins involved in chromatin remodelling. Comparative analyses of silencing effects upon the largely unstudied regions comprising most developmentally eliminated DNA in Paramecium suggests a continuum between precise and imprecise DNA elimination. These findings show there is now a way forward to systematically elucidate the main components of natural eukaryotic genome editing systems.

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 Dates: 2017-08
 Publication Status: Published online
 Pages: -
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 Rev. Type: -
 Identifiers: DOI: 10.12688/f1000research.12121.1
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Title: F1000Research
  Abbreviation : F1000Research
Source Genre: Journal
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Publ. Info: London : BioMed Central
Pages: 24 Volume / Issue: 2017 (6) Sequence Number: 1374 Start / End Page: - Identifier: ISSN: 2046-1402
CoNE: https://pure.mpg.de/cone/journals/resource/2046-1402