Fragmentation of tRNA in Phytophthora infestans asexual life cycle stages and during host plant infection

BMC Microbiology

Christina Dixelius¹  Stephen C Whisson²  Anna O Avrova²  Pádraic Corcoran³  Johan Fogelqvist¹  Sultana N Jahan¹  Ramesh R Vetukuri¹  Anna KM Åsman¹ 

[1] Department of Plant Biology, Uppsala BioCenter, Linnéan Centre for Plant Biology, Swedish University of Agricultural Sciences, Uppsala, SE-75007, Sweden;Cell and Molecular Sciences, The James Hutton Institute, Dundee DD2 5DA, Invergowrie, UK;Current affiliation: Department of Evolutionary Biology, Uppsala University, Uppsala, SE-75236, Sweden

关键词: tRNA;    tRF;    Small RNA;    RNA silencing;    Potato;    Phytophthora infestans;    Dicer;    Argonaute;   

Others  :  1131222
DOI  :  10.1186/s12866-014-0308-1

 received in 2014-09-08, accepted in 2014-11-24,  发布年份 2014

【 摘 要 】

Background

The oomycete Phytophthora infestans possesses active RNA silencing pathways, which presumably enable this plant pathogen to control the large numbers of transposable elements present in its 240 Mb genome. Small RNAs (sRNAs), central molecules in RNA silencing, are known to also play key roles in this organism, notably in regulation of critical effector genes needed for infection of its potato host.

Results

To identify additional classes of sRNAs in oomycetes, we mapped deep sequencing reads to transfer RNAs (tRNAs) thereby revealing the presence of 19–40 nt tRNA-derived RNA fragments (tRFs). Northern blot analysis identified abundant tRFs corresponding to half tRNA molecules. Some tRFs accumulated differentially during infection, as seen by examining sRNAs sequenced from P. infestans-potato interaction libraries. The putative connection between tRF biogenesis and the canonical RNA silencing pathways was investigated by employing hairpin RNA-mediated RNAi to silence the genes encoding P. infestans Argonaute (PiAgo) and Dicer (PiDcl) endoribonucleases. By sRNA sequencing we show that tRF accumulation is PiDcl1-independent, while Northern hybridizations detected reduced levels of specific tRNA-derived species in the PiAgo1 knockdown line.

Conclusions

Our findings extend the sRNA diversity in oomycetes to include fragments derived from non-protein-coding RNA transcripts and identify tRFs with elevated levels during infection of potato by P. infestans.

【 授权许可】

   
2014 Åsman et al.; licensee BioMed Central Ltd.

【 图 表 】

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