6 publications mentioning dme-mir-4

Open access articles that are associated with the species Drosophila melanogaster and mention the gene name mir-4. Click the [+] symbols to view sentences that include the gene name, or the word cloud on the right for a summary.

1

Tg-miR-4 and other non-polysomal miRNA may regulate target mRNAs at later stages of parasite differentiation (e. g. bradyzoite); alternatively, they might not be involved in translation control (data not shown), as has been recently shown for a class of Arabidopsis miRNA [41] that use cleavage-competent and/or cleavage-resistant target sites found in specific non-coding RNAs to initiate the production of trans-acting (tasi)RNAs via the action of RDR6 [42].

MIR-60, together with MIR-4, also constitute the two most diversified Tg-MIRNA gene families (with 8 distinct members in each) among the 14 families identified with high confidence (Figure S2B and S3B).

Likewise Tg-miR-4, -49 and -60 were more abundant in type I strain, whereas Tg-miR-40 and -56 were clearly more abundant in type II.

Number of reads: Tg-proto-miR-1 (158 reads), Tg-proto-miR-2 (109 reads), Tg-proto-miR-3 (138 reads) and Tg-proto-miR-4 (107 reads).

Not all Tg-miRNA, however, were found associated to polysomes, and this was notably the case of Tg-miR-4 (Figure 4E).

Tg-miR-4 and -43, and as well Tg-rdsRNA-17 and -28 were indeed detected in the HaFlag- Tg-AGO immuno-precipitates but not in control immuno-precipitates (Figure 7A), indicating that Tg-AGO is a common effector of both types of sRNAs.

Thus, normalized to the Tg-tRNA [Ala] signal, the miR-4 signal was six fold greater in type I than it was in types II and III (Figure 4A).

Figure S3 Tg-microRNA-4 family.

RNAs isolated from the immunoprecipitates were probed for Tg-miR-4, Tg-miR-43, Tg-rdsRNA-17 and Tg-rdsRNA-28.

2

Furthermore, many targets of Notch signaling were also predicted as targets of the Bearded-box microRNAs miR-4 and miR-79 (E(spl)m5, Bearded, E(spl)mγ, and Tom) and of the K-box microRNAs miR-2 and miR-11 (E(spl)m5, E(spl)m2, E(spl)mδ, and E(spl)m3), consistent with previous observations [27].

The same microRNA is thought to repress bagpipe [14], which ranks second in the list of miR-4 target predictions (S3).

This gene is again very high scoring (15.6) and ranks second in the list of miR-4 target predictions (setting S1).

The Notch gene Bearded is recovered as a target of miR-4 (or miR-79, equivalently).

3

We also examined expression of a different reporter transgene, GMR > eGFP:: Brdmut, which has its miR-4/-79 binding sites mutated in the Brd 3′UTR.

A GMR > eGFP:: Brd fragment, which had its miR-4 binding site seeds changed from AGCTTTA to ATAGGGA, was cloned into a pPelican vector with its mini- white marker gene deleted.

Binding sites for miR-4/-79 (red) and miR-7 (blue) are indicated in the Brd 3′UTR.

This UTR has been experimentally demonstrated to contain three binding sites for miR-4/miR-79 and one binding site for miR-7 (Lai et al. 2005).

4

The target sets for the miRNAs targeting the Brd box, miR-4 and miR-79, are also enriched with genes involved in the Notch signaling pathway (p < 10 [−5] in both cases).

5

Finally, of the four conserved genomic miRNA clusters identified in B. dorsalis, only the mir-309-6 cluster (dme-mir-4, dme-mir-6-3, dme-mir-5, dme-mir-286, and dme-mir-309) had an analogous expression pattern across life stages.

Six out of the 11 novel B. dorsalis miRNAs belong to this group, as did miRNAs belonging to the D. melanogaster miR-309-6 cluster (i. e. mir-4, mir-5 and mir-286), (Fig.   2, group 3).

6

Of particular interest is the miRNA 309 cluster, which, in addition to mir-309, comprises mir-286, mir-3, mir-4, mir-5 and mir-6. The latter gives rise to three alternative stem-loop configurations with similar conserved seed regions [31, 32].