Non-LTR retrotransposons in fungi
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Non-long terminal repeat (non-LTR) retrotransposons have contributed to shaping the structure and function of genomes. Fungi have small genomes, usually with limited amounts of repetitive DNA. In silico approach has been used to survey the non-LTR elements in 57 fungal genomes. More than 100 novel non-LTR retrotransposons were found, which belonged to five diverse clades. The present survey identified two novel clades of fungal non-LTR retrotransposons. The copy number of non-LTR retroelements varied widely. Some of the studied species contained a single copy of non-LTR retrotransposon, whereas others possessed a great number of non-LTR retrotransposon copies per genome. Although evolutionary relationships of most elements are congruent with phylogeny of host species, a new case of possible horizontal transfer was found between Eurotiomycetes and Sordariomycetes.
KeywordsFungi Non-LTR retrotransposons Horizontal transmission Ribonuclease H
The sequence data for P. chrysosporium, L. bicolor, T. reesei, A. niger, and P. stipitis were produced by the US Department of Energy Joint Genome Institute (http://www.jgi.doe.gov/). Preliminary sequence data for Ascosphaera apis was obtained from Baylor College of Medicine Human Genome Sequencing Center website at http://www.hgsc.bcm.tmc.edu. Preliminary sequence data for Alternaria brassicicola were obtained from Genome Sequencing Center at Washington University Medical School (http://genome.wustl.edu/index.cgi).
This work was supported in part by state contract 10002-251/П-25/155-270/200404-082 and Siberian Branch of the Russian Academy of Sciences (project No. 10.4).
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