AI Article Synopsis
- Ciliates are unique among single-celled eukaryotes for their ability to eliminate DNA during development, but there are no standard methods to study this.
- The authors introduced the Paramecium Toolbox for Interspersed DNA Elimination Studies (ParTIES), which helps identify eliminated sequences, quantify them in sequencing samples, and find rare variations.
- ParTIES is available as multi-threaded Perl software and can be accessed online, distributed under the GNU General Public License v3.
Article Abstract
Motivation: Developmental DNA elimination occurs in a wide variety of multicellular organisms, but ciliates are the only single-celled eukaryotes in which this phenomenon has been reported. Despite considerable interest in ciliates as models for DNA elimination, no standard methods for identification and characterization of the eliminated sequences are currently available.
Results: We present the Paramecium Toolbox for Interspersed DNA Elimination Studies (ParTIES), designed for Paramecium species, that (i) identifies eliminated sequences, (ii) measures their presence in a sequencing sample and (iii) detects rare elimination polymorphisms.
Availability And Implementation: ParTIES is multi-threaded Perl software available at https://github.com/oarnaiz/ParTIES. ParTIES is distributed under the GNU General Public Licence v3.
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| http://dx.doi.org/10.1093/bioinformatics/btv691 | DOI Listing |
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