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12 publications mentioning ath-MIR161

Open access articles that are associated with the species Arabidopsis thaliana and mention the gene name MIR161. Click the [+] symbols to view sentences that include the gene name, or the word cloud on the right for a summary.

1
[+] score: 50
Expression of (a) NF-YA8 -target of miR169; (b) PPR superfamily- target of miR161.1; (c) PHO2- target of miR399; (d) AGL16- target of miR824; (e) CIP4.1 or CIP4- target of miR834; (f) R3H- target of miR854. [score:15]
We observed the maximum significant expression of miR161.1 during 24 h/4 °C (Fig.   3c), followed by 12 h/4 °C (Fig.   3c); and we observed the maximum significant downregulation of the target PPR superfamily at 24 h/4 °C (Fig.   6b), then 12 h/4 °C (Fig.   6b). [score:8]
The highest expression of miR161.1 was observed at 24 h/4 °C and then 12 h/4 °C (Fig.   3c), and the lower expressions were observed at 48 h/RT and 12 h/RT, which were almost same (Fig.   3c). [score:5]
We validated expression of miR161 target PPR (PENTATRICOPEPTIDE REPEAT) super family (Fig.   6b). [score:5]
miR161.1 targets PPR superfamily through negative regulation, which has a major impact on evolutionary background [46]. [score:4]
This inverse correlation of miR161.1 and its target PPR superfamily indicates the post- transcriptional regulation of miRNA. [score:4]
Our result indicates the role of miR161.1 –target PPR superfamily module in seed germination process. [score:3]
The miR161 is a non conserved miRNA, since it is represented by single genes rather than multigene families [45]. [score:1]
The miR161 locus is unusual as it encodes overlapping miRNAs (miR161.1 and miR161.2) from a single precursor sequence [45]. [score:1]
RT and they are miR157c; miR161.2; miR834 and miR854a, b, d. Only two miRNAs, miR161.2 and miR854a, were common in all three cases here. [score:1]
DS and they are miR161.2; miR169b, d, e; miR399a, b; miR824 and miR854a, c, e. Similarly, 8 miRNA genes were common in IS-4 °C vs. [score:1]
RT and they are miR160b, c; miR161.2; miR164a, miR395a; miR447a and miR854a; while 6 miRNA genes were common in IS-RT vs. [score:1]
The other miRNAs for validation were miR165/166 (Fig.   2a), miR172a (Fig.   2b), miR390b (Fig.   2c), miR160a (Fig.   2d), miR156h (Fig.   2e), miR164a (Fig.   3a), miR169b (Fig.   3b), miR161.1 (Fig.   3c), miR399a (Fig.   3d), miR824 (Fig.   3f), miR834 (Fig.   3g), miR854 (Fig.   3h) and miR2112-5p (Fig.   3i). [score:1]
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2
[+] score: 34
To avoid biasing the analysis with miRNAs that target disproportionately high numbers of target mRNAs, such as miR161 and PPR target gene family members, the number of genes analyzed for each miRNA family was limited to two validated targets, or two predicted targets with the lowest scores. [score:11]
Another non-conserved miRNA, miR173, targets tasiRNA primary transcripts (TAS1 and TAS2) [34], which in turn yield siRNAs that also target several of the miR161- and miR400 -targeted PPR transcripts ([29]; data not shown). [score:7]
Interestingly, several non-conserved miRNAs (miR161 and miR400) target transcripts from a clade within the large PPR family [19], [41]. [score:3]
The exceptions that were affected at levels of 1.6-fold or greater in either mutant included transcripts from AGL16, MYB12 and a PPR gene (At1g63130), which were targeted by miR824, miR858 and miR161.1, respectively (Figure 2A). [score:3]
Arrows indicate targets for miR824 (AGL16), miR858 (MYB12) and miR161.1 (At1g63130, a PPR gene). [score:3]
Known miRNAs also failed due to length (miR163), an incorrectly predicted foldback (miR164b and miR167d) or because the MIRNA gene yielded bidirectional small RNAs (miR156d and miR161). [score:2]
Sixteen foldbacks, including the MIR161 and MIR163 controls, contained at least one arm with similarity or complementarity (NEEDLE score with p<0.001) to one or more genes when an alignment was done with both intact and deleted arms (Figure 4C, Table S3). [score:1]
Whereas the majority of these loci yield complex populations of siRNAs, two (MIR161 and MIR163) yield functional, non-conserved miRNAs [22]. [score:1]
MIR163 and MIR161 were analyzed in detail previously [22] and were included here as controls. [score:1]
The intact foldback arms from 13 of the 16 gene-similar MIRNA loci were aligned with up to three gene sequences, and alignment quality was displayed using heat maps (Figure 5; MIR161, MIR163 and MIR447c were not included). [score:1]
Two foldback arm sets from MIR161, with miR161.1/miR161.1-complementary and the overlapping miR161.2/miR161.2-complementary sequences deleted independently, were analyzed. [score:1]
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3
[+] score: 5
The level of enrichment of siRNA854 in AGO1 complexes in ddm1 mutants is not as high as miR161, but is more similar to the level of enrichment of the tasiRNA TAS3a-D8 in wt Col (Figure 5C), likely due the fact that both siRNA854 and TAS3a-D8 are single siRNAs from transcripts that generate multiple siRNAs through the activity of RDR6 and DCL4. [score:1]
We accounted for the equal loading and sizes of small RNAs by re-probing our Northern blots with a known 21 nt microRNA (miR161) and/or a known 24 nt siRNA (siRNA02). [score:1]
We found no AGO1-IP enrichment of siRNA854 or the control siRNAs, siRNA02 and siRNA1003, in the wt Col plant body, while we did detect enrichment of the control microRNA miR161 and control tasiRNA TAS3a-D8 (Figure 5C). [score:1]
For Northern blots in parts B and D, microRNA161 (miR161) and a heterochromatic-region 24 nt siRNA (siRNA02) are shown as loading controls. [score:1]
Probes for siRNA854, miR161, and siRNA02 were generated by 5′ labeling DNA oligonucleotides with P [32]-ATP, whereas the probe for Athila 3′ was generated by randomly degrading a P [32]-UTP labeled in vitro transcribed RNA as in [80]. [score:1]
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4
[+] score: 5
Two target mimics were also designed for the miR161 family, which produce two mature miRNAs that have only partially overlapping sequences, and that target similar subsets of the PPR gene family [38]. [score:5]
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5
[+] score: 4
Other miRNAs from this paper: ath-MIR854a, ath-MIR854b, ath-MIR854c, ath-MIR854d, ath-MIR854e
Moreover, the mature miRNAs ath-miR161.1 and ath-miR161.2 target transcripts belonging to PPR family based on our prediction results generating by miRU. [score:3]
Another intriguing observation is that the only pre-miRNA in clustering analysis, ath-MIR161 (MI0000193), is subjected to leaf-specific editing (Fig. 1D and Additional File 6: Fig. S1). [score:1]
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6
[+] score: 4
In addition, the sequencing results also revealed that various other stress-regulated miRNAs were expressed in response to LPS which include: miR161, miR165, miR166, miR167, miR168 miR401, miR403, miR405 and miR5635. [score:4]
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7
[+] score: 4
Another important category of identified microRNAs targets the PPR protein family with 65 reads (16.4%) for miR158 and 45 (11.4%) for miR161. [score:3]
We performed qRT-PCR on a subset of 17 microRNAs, ranging from those frequently detected (miR156 and miR161, with respectively 59 and 45 reads) to singletons (miR162, miR171a, miR171bc, and miR773), and including those showing 1 or 2 sequence mismatches (miR162, miR165, miR173 and miR773, see Additional file 1: Table S1). [score:1]
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8
[+] score: 4
Other miRNAs from this paper: ath-MIR156a, ath-MIR156b, ath-MIR156c, ath-MIR156d, ath-MIR156e, ath-MIR156f, ath-MIR157d, ath-MIR158a, ath-MIR159a, ath-MIR160a, ath-MIR160b, ath-MIR160c, ath-MIR162a, ath-MIR162b, ath-MIR163, ath-MIR164a, ath-MIR164b, ath-MIR165a, ath-MIR165b, ath-MIR166a, ath-MIR166b, ath-MIR166c, ath-MIR166d, ath-MIR166e, ath-MIR166f, ath-MIR166g, ath-MIR167a, ath-MIR167b, ath-MIR169a, ath-MIR170, ath-MIR172a, ath-MIR172b, ath-MIR173, ath-MIR159b, ath-MIR319a, ath-MIR319b, ath-MIR167d, ath-MIR169b, ath-MIR169c, ath-MIR169d, ath-MIR169e, ath-MIR169f, ath-MIR169g, ath-MIR169h, ath-MIR169i, ath-MIR169j, ath-MIR169k, ath-MIR169l, ath-MIR169m, ath-MIR169n, ath-MIR171b, ath-MIR172c, ath-MIR172d, ath-MIR391, ath-MIR395a, ath-MIR395b, ath-MIR395c, ath-MIR395d, ath-MIR395e, ath-MIR395f, ath-MIR397a, ath-MIR397b, ath-MIR398a, ath-MIR398b, ath-MIR398c, ath-MIR399a, ath-MIR399b, ath-MIR399c, ath-MIR399d, ath-MIR399e, ath-MIR399f, ath-MIR400, ath-MIR408, ath-MIR156g, ath-MIR156h, ath-MIR158b, ath-MIR159c, ath-MIR319c, ath-MIR164c, ath-MIR167c, ath-MIR172e, ath-MIR447a, ath-MIR447b, ath-MIR447c, ath-MIR773a, ath-MIR775, ath-MIR822, ath-MIR823, ath-MIR826a, ath-MIR827, ath-MIR829, ath-MIR833a, ath-MIR837, ath-MIR841a, ath-MIR842, ath-MIR843, ath-MIR845a, ath-MIR848, ath-MIR852, ath-MIR824, ath-MIR854a, ath-MIR854b, ath-MIR854c, ath-MIR854d, ath-MIR857, ath-MIR864, ath-MIR2111a, ath-MIR2111b, ath-MIR773b, ath-MIR841b, ath-MIR854e, ath-MIR833b, ath-MIR156i, ath-MIR156j, ath-MIR826b
Under –N conditions, miR165, miR167c, miR171b/c, miR172c–e, miR773, miR823, miR824, miR826, miR829.1, and miR842 were induced specifically, whereas miR157d, miR158a, miR161.2, miR400, miR447, miR822, miR833-5p, miR843, and miR852 were suppressed. [score:3]
For example, miR163, miR773, miR843, miR848, and miR854-3p were responsive to –C; miR158a, miR161.2, miR400, miR447, miR773, miR822, miR823, miR826, miR833-5p, miR843, and miR852 were responsive to –N; and miR845a was responsive to –S. [score:1]
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9
[+] score: 3
Among the 30 miRNA families detected at 2dpi, 10 (miR160, miR161, miR167, miR171, miR172, miR390, miR394, miR396, miR398 and miR408) displayed contrasting expression levels between viruses. [score:3]
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10
[+] score: 3
Other miRNAs from this paper: ath-MIR163
Within the transcribed regions, this was due primarily to loss of secondary siRNA formation from miR161 and TAS2 tasiRNA -targeted transcripts encoding pentatricopeptide repeat proteins (unpublished data). [score:3]
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11
[+] score: 2
The PPR genes are also regulated by miR161.1, miR161.2 and miR1427 in rice [20]. [score:2]
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12
[+] score: 1
The newly identified genes were members of diverse gene families such as major facilitator super family (MFS) transporters [AT1G08900, AT1G30560, AT1G33440, AT1G72140, AT1G80530, AT2G26690, AT2G34355, AT3G20460, AT3G45680, AT3G47960, AT4G19450, STP8 (AT5G26250), AT5G27350, and AT5G62680], MATE efflux transporters (AT1G71140, AT5G17700, AT5G19700, and AT5G38030), microRNA genes [MIR156b (AT4G30972), MIR161 (AT1G48267), MIR162b (AT5G23065), MIR164 (AT5G01747), MIR167c (AT3G04765), MIR168b (AT5G45307), MIR396a (AT2G10606), MIR402 (AT1G77235), MIR777a (AT1G70645), and MIR848a (AT5G13887)], various transcription factors (MYB, NAC domain, WRKY, etc. [score:1]
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