The nuclear and organellar tRNA-derived RNA fragment population in Arabidopsis thaliana is highly dynamic

In the expanding repertoire of small noncoding RNAs (ncRNAs), tRNA-derived RNA fragments (tRFs) have been identified in all domains of life. Their existence in plants has been already proven but no detailed analysis has been performed. Here, short tRFs of 19-26 nucleotides were retrieved from Arabidopsis thaliana small RNA libraries obtained from various tissues, plants submitted to abiotic stress or fractions immunoprecipitated with ARGONAUTE 1 (AGO1). Large differences in the tRF populations of each extract were observed. Depending on the tRNA, either tRF-5D (due to a cleavage in the D region) or tRF-3T (via a cleavage in the T region) were found and hot spots of tRNA cleavages have been identified. Interestingly, up to 25% of the tRFs originate from plastid tRNAs and we provide evidence that mitochondrial tRNAs can also be a source of tRFs. Very specific tRF-5D deriving not only from nucleus-encoded but also from plastid-encoded tRNAs are strongly enriched in AGO1 immunoprecipitates. We demonstrate that the organellar tRFs are not found within chloroplasts or mitochondria but rather accumulate outside the organelles. These observations suggest that some organellar tRFs could play regulatory functions within the plant cell and may be part of a signaling pathway.Cognat, Valerie Morelle, Geoffrey Megel, Cyrille Lalande, Stephanie Molinier, Jean Vincent, Timothee Small, Ian Duchene, Anne-Marie Marechal-Drouard, Laurence eng England 2016/12/03 06:00 Nucleic Acids Res. 2017 Apr 7;45(6):3460-3472. doi: 10.1093/nar/gkw1122.PMC538970

Investigating the low-flux states in six intermediate polars

We present optical photometry of six intermediate polars that exhibit transitions to a low-flux state. For four of these systems, DW Cnc, V515 And, V1223 Sgr, and RX J2133.7+5107, we are able to perform timing analysis in and out of the low states. We find that, for DW Cnc and V515 And, the dominant periodicities in the light curves change as the flux decreases, indicating a change in the sources' accretion properties as they transition to the low state. For V1223 Sgr, we find that the variability is almost completely quenched at the lowest flux, but we do not find evidence for a changing accretion geometry. For RX J2133.7+5107, the temporal properties do not change in the low state, but we do see a period of enhanced accretion that is coincident with increased variability on the beat frequency, which we do not associate with a change in the accretion mechanisms in the system.peer-reviewe