Tags

Type your tag names separated by a space and hit enter

Fragmentation of tRNA in Phytophthora infestans asexual life cycle stages and during host plant infection.
BMC Microbiol. 2014 Dec 10; 14:308.BM

Abstract

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.

Authors+Show Affiliations

Department of Plant Biology, Uppsala BioCenter, Linnéan Centre for Plant Biology, Swedish University of Agricultural Sciences, PO. Box 7080, SE-75007, Uppsala, Sweden. Anna.Asman@slu.se.Department of Plant Biology, Uppsala BioCenter, Linnéan Centre for Plant Biology, Swedish University of Agricultural Sciences, PO. Box 7080, SE-75007, Uppsala, Sweden. Ramesh.Vetukuri@slu.se.Department of Plant Biology, Uppsala BioCenter, Linnéan Centre for Plant Biology, Swedish University of Agricultural Sciences, PO. Box 7080, SE-75007, Uppsala, Sweden. Sultana.Jahan@slu.se.Department of Plant Biology, Uppsala BioCenter, Linnéan Centre for Plant Biology, Swedish University of Agricultural Sciences, PO. Box 7080, SE-75007, Uppsala, Sweden. Johan.Fogelqvist@slu.se.Department of Plant Biology, Uppsala BioCenter, Linnéan Centre for Plant Biology, Swedish University of Agricultural Sciences, PO. Box 7080, SE-75007, Uppsala, Sweden. padraiccorcoran1@gmail.com. Current affiliation: Department of Evolutionary Biology, Uppsala University, SE-75236, Uppsala, Sweden. padraiccorcoran1@gmail.com.Cell and Molecular Sciences, The James Hutton Institute, Invergowrie, Dundee, DD2 5DA, UK. Anna.Avrova@hutton.ac.uk.Cell and Molecular Sciences, The James Hutton Institute, Invergowrie, Dundee, DD2 5DA, UK. Steve.Whisson@hutton.ac.uk.Department of Plant Biology, Uppsala BioCenter, Linnéan Centre for Plant Biology, Swedish University of Agricultural Sciences, PO. Box 7080, SE-75007, Uppsala, Sweden. Christina.Dixelius@slu.se.

Pub Type(s)

Journal Article
Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

25492044

Citation

Åsman, Anna K M., et al. "Fragmentation of tRNA in Phytophthora Infestans Asexual Life Cycle Stages and During Host Plant Infection." BMC Microbiology, vol. 14, 2014, p. 308.
Åsman AK, Vetukuri RR, Jahan SN, et al. Fragmentation of tRNA in Phytophthora infestans asexual life cycle stages and during host plant infection. BMC Microbiol. 2014;14:308.
Åsman, A. K., Vetukuri, R. R., Jahan, S. N., Fogelqvist, J., Corcoran, P., Avrova, A. O., Whisson, S. C., & Dixelius, C. (2014). Fragmentation of tRNA in Phytophthora infestans asexual life cycle stages and during host plant infection. BMC Microbiology, 14, 308. https://doi.org/10.1186/s12866-014-0308-1
Åsman AK, et al. Fragmentation of tRNA in Phytophthora Infestans Asexual Life Cycle Stages and During Host Plant Infection. BMC Microbiol. 2014 Dec 10;14:308. PubMed PMID: 25492044.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Fragmentation of tRNA in Phytophthora infestans asexual life cycle stages and during host plant infection. AU - Åsman,Anna K M, AU - Vetukuri,Ramesh R, AU - Jahan,Sultana N, AU - Fogelqvist,Johan, AU - Corcoran,Pádraic, AU - Avrova,Anna O, AU - Whisson,Stephen C, AU - Dixelius,Christina, Y1 - 2014/12/10/ PY - 2014/09/08/received PY - 2014/11/24/accepted PY - 2014/12/11/entrez PY - 2014/12/11/pubmed PY - 2016/2/10/medline SP - 308 EP - 308 JF - BMC microbiology JO - BMC Microbiol VL - 14 N2 - 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. SN - 1471-2180 UR - https://www.unboundmedicine.com/medline/citation/25492044/Fragmentation_of_tRNA_in_Phytophthora_infestans_asexual_life_cycle_stages_and_during_host_plant_infection_ L2 - https://bmcmicrobiol.biomedcentral.com/articles/10.1186/s12866-014-0308-1 DB - PRIME DP - Unbound Medicine ER -