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34 publications mentioning ath-MIR319c

Open access articles that are associated with the species Arabidopsis thaliana and mention the gene name MIR319c. Click the [+] symbols to view sentences that include the gene name, or the word cloud on the right for a summary.

1
[+] score: 188
Similarly in the small ears (flowers) of maize mop1/ rdr2 mutants, the expression of MIR319 ACR miRNAs is selectively up-regulated (Figure 7C and Additional file 6C). [score:6]
Expression of miR159 is abundant and widespread over the whole plant, while miR319 is expressed at much lower level and confined to specific tissues and developmental stages [9]. [score:6]
In addition to the unexpected up-regulation of ACR miRNAs, we also observed some cases of higher expression of miR319* than miR319, namely a shift in strand selection (Figure 5A and 5B). [score:6]
The proportion of mature products from the moss MIR319 differs from all other clades in that the ACR miRNAs are rarely expressed while the sp2 and sp4 miRNAs are expressed at significantly higher level (Figure 5N and Additional file 5K). [score:5]
However, only the mature miR159 or miR319 are abundantly expressed while the alternative miRNAs are expressed at low levels, indicating that only miR159 or miR319 are incorporated into RISC and stabilized. [score:5]
In consensus, expressions of the ACR3 miRNAs are promoted and higher than the miR319 in aly-MIR319c/d, albeit differences in the expressions of aly-MIR319a and aly-MIR319b between the two databases, which is probably due to sampling of the tissues at different stages. [score:5]
MiR159 restricts the expression of some MYB transcription factors, while miR319 targets a subset of TCP transcription factor genes [5- 8]. [score:5]
Conversely, differences in expression patterns, target genes and functions indicate that miR159 and miR319 are evolutionarily distinct groups. [score:5]
Despite high similarity in conservation pattern and mature miRNA sequences, miR159 and miR319 have distinct expression patterns, targets and functions. [score:5]
The observation that ath-MIR159a and ath-MIR159b have very similar expression patterns and are functionally redundant while the three MIR319 paralogues have distinct expression patterns also supports the inferred relative distances among the paralogues of MIR159 and MIR319 in A. thaliana [10, 14]. [score:5]
The selective up-regulation of MIR319 ACR miRNAs is absent in dcl3 single mutants (Figure 7B and Additional file 6B), probably due to redundant DCL activities [38, 40]. [score:4]
Although the miR319 can also mediate the cleavage of MYB33 and MYB65 mRNAs, miR319 does not normally make significant contribution to the regulation of MYB because of its low and specialized expression [5]. [score:4]
In contrast to miR159, miR319 and corresponding targets regulate embryonic patterning, jasmonate synthesis, leaf morphogenesis and senescence [6, 12, 13]. [score:4]
In Nicotiana Tabacum plants, data from Comparative Sequencing of Plant Small RNAs (CSPSR) showed non-canonical expressions of both MIR159 and MIR319 [29] (Figure 5D). [score:3]
Again using CSPSR data [29], non-canonical expression of MIR319 was observed in Vitis vinifera (Figure 5F). [score:3]
Similarly, the three members of Arabidopsis miR319, which arose from more recent duplications, also diverged into genes with distinct expression patterns and possibly different functions [14]. [score:3]
Normalizations are the same as in Figure 5. A-B and D-J: Related databases and series are the same as in Figure 5. C: Mature miRNA expressions of MIR159 and MIR319 from Arabidopsis lyrata leaves and two replicates of flowers stage 1-12. [score:3]
In contrast, the increased miR319 and miR319* expression is undistinguishable from the enrichment of the 20~21-nt sRNAs in these mutants (Figure 7A). [score:3]
MiR159 can not induce mRNA cleavage of the miR319 -targeted TCP transcription factors due to sequence specificity. [score:3]
This is consistent with the finding that miR159 is more specialized in target spectrum than the miR319 in A. thaliana [5]. [score:3]
In the flowering tissues of the closely related species Arabidopsis lyrata, the non-canonical expression of MIR319 was also supported by two databases [GEO:GSE20442, GEO:GSE20662] from two independent studies using SOLiD and Illumina Genome Analyzer respectively [26, 27] (Figure 5B and Additional file 5C). [score:3]
The paralogues of MIR319 also showed distinct expressions in A. lyrata (Figure 5B and Additional file 5C). [score:3]
A recent study also showed the regulatory role of miR319 in the development of petal and stamen [14]. [score:3]
The sequences corresponding to the four partitions are colored in the same way as in Figure 2. We also observed the switching on of the MIR159 or MIR319 ACR miRNA expression in monocots. [score:3]
The sequences corresponding to the four partitions are colored in the same way as in Figure 2. We also observed the switching on of the MIR159 or MIR319 ACR miRNA expression in monocots. [score:3]
Together with phylogenetic reconstruction and mature miRNA expression analysis, evidences support that the MIR159 and MIR319 have a common origin. [score:3]
Because small RNA sequencing and PARE are different technologies in nature, the observed differential expressions of MIR159 and MIR319 in Arabidopsis inflorescence are unlikely to be resulted from biased sequencing. [score:3]
Hypothesis has been proposed that the miR159 might evolve from miR319 because miR159 seems more specialized in the spectrum of targets [5]. [score:3]
We also found ACR5-predominant expression of MIR319 in Solanum lycopersicum using data from CSPSR [29] (Figure 5E). [score:3]
MiR159 and miR319 are highly conserved miRNAs essential for plant development and fertility. [score:2]
Alternatively, since the theoretical ratio of ACR miRNA to miR159 or miR319 should be one, the variable proportion of MIR159/319 mature products could be resulted from regulation of mature miRNA stability. [score:2]
Likewise, mutations outside of the mature miR319 may lead to failure in the processing of MIR319 in B. oleracea [21]. [score:2]
Moreover, duplicated gene members maintained in one clade of plants, e. g. miR159 and miR319 in flowering plants, tend to diverge into subfunctionalized groups improving the complexity of miRNA regulation. [score:2]
Evolution of MIR319 genes in closely related Brassicaceae species has been studied revealing that the stem-loop and an upstream element of MIR319 are recalcitrant to fast mutations while sequences of other parts are highly variable [21]. [score:2]
The phylogeny of highly conserved miRNA genes is largely unknown including the ancient miRNA gene family -- MIR319 and MIR159, which play important roles in plant development [5]. [score:2]
Likewise, the ACR miRNA accumulation of MIR319 genes might be downstream of RDR2 -dependent siRNA regulation. [score:2]
These results indicate that both in eudicots and monocots, the major products of MIR159 or MIR319 genes shift to ACR miRNAs in a highly spatio-temporal specific manner during plant development. [score:2]
Through duplication and loss of genes this miRNA gene family formed clades specific to moss, lycopods, gymnosperms and angiosperms including the two major clades of flowering plants containing the founding members of MIR319 and MIR159 genes in A. thaliana. [score:1]
In flowering plants, there are two early-branching clades leading to the founding members of MIR159 and MIR319 identified in A. thaliana respectively [6, 24] (Figure 4 and Additional file 3). [score:1]
Our results support that the MIR159 and MIR319 genes evolve from a common ancestor, which is likely to be a phased stem-loop small RNA. [score:1]
The smo-MIR319 and smo-MIR159 are two extant genes of two clades branching before the emergence of seed plants (Figure 4 and Additional file 3). [score:1]
Our results support a common origin of MIR159 and MIR319 from two aspects. [score:1]
In [GEO:GSE20442], the miR319* is significantly higher than miR319 and ACR3 of aly-MIR319a is lower than aly-MIR319b (Figure 5B). [score:1]
In the lycopod S. moellendorffii, the predominant products of both smo-MIR159 and smo-MIR319 are ACR5 miRNAs, consistent with the distance in the inferred phylogenetic tree (Figure 4, Figure 5M and Additional file 5J). [score:1]
The tree shows that the split of the MIR319 and MIR159 clades in flowering plants and gymnosperms originated from a series of duplications occurring in the common ancestor of seed plants (Figure 4). [score:1]
Homologues identified in following studies are classified into two groups according to sequence similarity to the miR319 and miR159 founding members [19]. [score:1]
Recent studies have shown that both miR159 and miR319 play important roles in reproductive growth of flowering plants [8, 14], indicating their functional relatedness to the evolution of seed bearing in plants. [score:1]
When sequencing tags can not be unambiguously assigned to a unique MIR159/319 stem-loop, such as maize MIR319 genes in Figure 5I, related paralogues are analyzed collectively. [score:1]
However, in the case of nta-MIR319, the ACR5 miRNA is the most abundant in flower but not in pod (Figure 5D). [score:1]
MiR159 and miR319 are highly conserved miRNAs that play important roles in plant growth, morphogenesis and reproduction [4]. [score:1]
Although clear evidences are absent to support the common origin of miR159 and miR319 [5], they are categorized into one miRNA gene family in the miRbase and some other studies [7, 19]. [score:1]
This suggests that the MIR319 and MIR159 genes classified by the founding members identified in A. thaliana originated from a common ancestor, which may have emerged after the split of moss and lycopod MIR159/319 clades. [score:1]
Second, the inferred phylogenetic tree shows that the MIR159 and MIR319 founding members in A. thaliana evolve from two early-branching clades specific to flowering plants, which derived from the common ancestor of seed plant MIR159/319 (Figure 4 and Additional file 3). [score:1]
The reads for all of the MIR319 genes in moss were included. [score:1]
In most cases, angiosperm MIR319 and MIR159 generate miR319 or miR159 as major products (Figure 4, Figure 5 and Additional file 4). [score:1]
A: Distribution of uncapped 5'RNA end sequencing frequency (vertical axis) in an approximately 1 kb region (horizontal axis) with the precursor stem-loops located at the centre (green for MIR159; orange for MIR319). [score:1]
Known MIR159/319 sequences were collected from the miRbase Version 11.0 [19], homologues in EST were identified by Jones-Rhoades and Bartel [7], and the Brassicaceae MIR319 sequences were identified by Warthmann et al. [21]. [score:1]
These observations suggest that MIR159 and MIR319 originated from a common phased stem-loop RNA similar to those discovered in the green alga Chlamydomonas reinhardtii and rice recently [42- 44]. [score:1]
The duplications and subsequent losses that occurred before the split of monocots and eudicots are more frequent in the MIR319 clade than the MIR159, indicating that the two clades might have evolved in different ways (Figure 4 and Additional file 3). [score:1]
Using the same small RNA sequencing data, it can be observed that the miR319 increased approximately seven-fold and became the most abundant mature product of MIR319 gene (Figure 7D and Additional file 6D). [score:1]
The tree also shows that the angiosperm MIR319 major clade branched earlier than the angiosperm MIR159 clade (Figure 4). [score:1]
E: Proportion of mature miRNA from moss MIR319 genes. [score:1]
Therefore, these two losses and loss of gymnosperm MIR159/319 in 'early branching eudicot MIR319' need to be verified in the future using the whole genomes of gymnosperm species (Figure 4). [score:1]
Sequencing data from [GEO:GSE23217] suggest that ACR3 miRNA is the major product of osa-MIR319 in rice seedlings [32] (Figure 5H). [score:1]
In the species of Brassicaceae closely related to Arabidopsis thaliana, the most conserved part of MIR319 genes is the sequence of the precursor stem-loop [21], which is also conserved in distantly related species [6, 15, 16]. [score:1]
Thus, MIR159 and MIR319 appear to be related in origin and considerably diverged. [score:1]
According to this scenario, when miR159 or miR319 duplexes are produced the same amount of miRNAs derived from the other two duplexes must be generated. [score:1]
Moreover, a small number of MIR159/319 genes (type 2 to 5) lost conservation of the loop-proximal part corresponding to the ACRs of type 1. Since the correct processing of the loop-proximal miRNA duplex is the prerequisite for the dicing of miR159 or miR319 [17], the ACR-lacking MIR159/319 might become pseudo genes unable to produce mature miRNAs like the ath-MIR159c, which can not be efficiently processed when transformed into plants [5]. [score:1]
The tags that represent uncapped 5' RNA ends were mapped to the Arabidopsis thaliana MIR159 and MIR319 genes, stem-loops or an approximately 1 kb sequence with the stem-loop at the centre. [score:1]
The miR319 or miR159 can not be efficiently excised without correct processing of the loop-proximal miRNA duplex [17]. [score:1]
A distinguished feature of the MIR159 and MIR319 genes conserved from moss to flowering plant is that their stem-loop precursors usually have elongated stem structure. [score:1]
In 10-day-old moss protonemata the miR319* are the most abundant products (Figure 5N). [score:1]
Conservation of such an uncommon pattern in biogenesis during the long time evolution of land plants is inexplicable by the known function of miR159 and miR319. [score:1]
Since only ACR miRNAs are induced to high levels while increment of miR319 is similar to the overall enrichment of miRNAs in rdr2 or dcl234 triple mutants, a post-transcriptional mechanism may distinguish the two miRNA duplexes on the same stem-loop and link the siRNA pathway. [score:1]
For MIR319 precursors, the most abundantly sequenced cleavage site was the 5' end of ACR3 miRNAs. [score:1]
The ACR miRNAs are much more variable than the miR159 or miR319 (Figure 3), indicating different selection pressure imposed on the two miRNAs on the same stem-loop. [score:1]
However the phylogeny of MIR159 and MIR319 genes and why such unusual style of miRNA production has been conserved during evolution is not well understood. [score:1]
The differences of miRNA production between MIR159 and MIR319 are also supported by data from Arabidopsis PARE database [25] (Figure 6). [score:1]
First, another duplex outside miR159/319 are highly conserved in most MIR159 and MIR319 stem-loops across land plants (Figure 2, Figure 3, Table 1 and Additional file 2). [score:1]
B: The number of MIR159/319 genes in land plant species is indicated by two separate numbers in square brackets, the first for MIR159 and the second for MIR319. [score:1]
After the diversification of lycopod MIR319 and MIR159, clades of MIR159/319 specific to either gymnosperm or angiosperm formed (Figure 4 and Additional file 3). [score:1]
In maize, a shift in the proportion of mature MIR319 products was observed in the tissues of shoots and roots using the data from [GEO:GSE15286] [33] (Figure 5I). [score:1]
Recent studies show that the MIR159 and MIR319 precursors are processed from loop to base to liberate three phased miRNA duplexes [15, 17, 18]. [score:1]
A series of duplications occurred in the common ancestor of seed plants leading to the original split of flowering plant MIR159 and MIR319. [score:1]
The miR319 and miR159 were identified in independent studies using different methods [6, 24]. [score:1]
These duplications initialized the split of MIR159 and MIR319 in flowering plants. [score:1]
The three A. thaliana MIR319 paralogues are far more distantly related to each other than that of the ath-MIR159a and ath-MIR159b in the tree, consistent with the inference from the miRNA-carrying segmental duplications in Arabidopsis [23]. [score:1]
The two angiosperm MIR319 clades branched earlier than the angiosperm MIR159 clades. [score:1]
In addition, both MIR319 and MIR159 precursors produce multiple miRNAs in a phased loop-to-base manner. [score:1]
In flower and young panicle of Sorghum bicolor, ACR3 miRNAs are more abundant than miR319 (Figure 5K). [score:1]
Evolution history of this gene family was revealed that the two clades containing the MIR159 and MIR319 founding members identified in A. thaliana are specific to flowering plants and originated from duplications occurring before the split of gymnosperm and angiosperms. [score:1]
In Arabidopsis, the 21-nt mature miR159 and miR319 share 17 identical nucleotides. [score:1]
Second, genes from angiosperm major MIR319 clade and major MIR159 clade can have different proportions of mature miRNAs in specific organs of the same plant (Figure 4, Figure 5 and Additional file 5). [score:1]
Although miR159 and miR319 are seemingly related in evolution, because of their similarity in mature miRNA sequence, secondary structure, conservation pattern and biogenesis, their origin is still unclear [5, 17]. [score:1]
With similarities in sequence, conservation pattern and biogenesis, miR159 and miR319 might originate from a common ancestor. [score:1]
Conservation of the type 1 MIR159/319 genes across land plants indicates the origin of MIR159 and MIR319 from a long stem-loop. [score:1]
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[+] score: 186
We found that miR159 targets affected anther and petal development even when miR319 targets were suppressed in jaw-D plants (Figure 4C), indicating that MYBs and TCPs work in parallel to trigger miR167 -mediated ARF6/8 regulation. [score:9]
MiR159 and miR319 dampen the expression of their TF targets, which can otherwise lead to miR167 misexpression both individually and cooperatively through engaging in common protein complexes. [score:7]
Differential regulation of MIR167 genes by miR159 and miR319 targetsThe divergent promoter activities of MIR167 family members are paralleled by their different abilities to downregulate ARF6/8, both of which indicate subfunctionalization [1]. [score:7]
MiR159- and miR319 -dependent ARF6/8 function contributes to later aspects of development by promoting JA synthesis in sepals through the induction of LOX2 expression and in petals and anthers through the regulation of DAD1 expression [2]. [score:7]
MiR159 and miR319 regulate directly interacting targets, which in turn control the expression of MIR167 family members during this process. [score:7]
While the expression of ProARF8:ARF8-GUS was altered in Pro35S:MIM159 and Pro35S:MIM319 plants, that of ProARF8: mARF8-GUS was not, indicating that miR159 and miR319 targets regulate ARF8 by increasing miR167 activity (Figure 3B). [score:6]
Accordingly, STM and BP upregulation was paralleled by reduced expression of the PIN1 auxin transporter gene in Pro35S:MIM159, Pro35S:MIR319 and Pro35S:MIR167C lines (Figure 2A). [score:6]
Since TFs that regulate the same gene often form higher-order heteromeric complexes [41], we hypothesized that this might be the case for miR159-targetd MYBs and miR319 -targeted TCPs. [score:6]
Since petals and stamens were particularly sensitive to depletion of miR159 and miR319, we investigated the specific functions of two of their main targets, MYB33 and TCP4 [16], [17], [19], [20], [25], by expressing miRNA-non-targetable versions (mMYB33 and mTCP4) under the control of the petal- and stamen-specific APETALA3 (AP3) promoter [26]. [score:5]
Simultaneous sequestration of both miR159 and miR319 resulted in additive phenotypic and molecular effects (Figure 4A, 4B, 4D), suggesting that the miR159- and miR319-regulated MYB and TCP transcription factors regulate shared target genes. [score:5]
Figure S1Expression levels of representative miR159 and miR319 targets in plants with specific miRNA attenuated function. [score:5]
We also analyzed Pro35S:MIR167C plants deficient in ARF6/8 function, to address whether altered reporter expression was a direct consequence of the absence of miR159 and miR319, or a downstream consequence of disrupting development by reducing ARF6/8 levels. [score:5]
In addition to regulation by miR159 and miR319 targets, there is cross-regulation among MIR167 genes, one example being repression of MIR167C in stamen filaments by miR167a. [score:5]
Flowers of Pro35S:MIM159 and Pro35S:MIM319 transgenic plants, in which miR159 and miR319 activities are impaired by constitutive expression of target mimics (Figure S1), have defects reminiscent of those found in plants with reduced ARF6/8 activity [5]. [score:5]
ARF6/8 activate the expression of genes encoding two major JA biosynthetic enzymes, LOX2 and DAD1 [2], [4], a role that they share with the miR319 target TCP4 [31]. [score:5]
These results showed that miR159, miR319, just like ARF6/8, were negative regulators of the expression of class I KNOX genes, thereby confining cytokinin -dependent meristematic activity. [score:4]
Second, we conclude that the convergent downstream effects of miR159 and miR319 are at least partially due to direct interaction of their MYB and TCP transcription factor targets. [score:4]
In addition, LOX2 is directly controlled by miR319 -targeted TCP transcription factors at the base of pedicels independently of ARF6/8 levels. [score:4]
To determine whether miR159 and miR319 targets are likely to regulate ARF6/8 directly or through miR167, we compared the response of ProARF8: ARF8-GUS and its miRNA insensitive form, ProARF8: mARF8-GUS, to changes in miR159 and miR319 activity (Figure 3B). [score:4]
Consistent with a role of miR159, miR167 and miR319 in JA regulation, LOX2 promoter activity was reduced in sepals of Pro35S:MIM319, Pro35S:MIM159 and Pro35S:MIR167c plants (Figure 2C), with ectopic activation at the base of Pro35S: MIM319 pedicels, where MIR319B is normally expressed (Figure 2C, Figure S4C). [score:4]
Later on, miR159- and miR319 -dependent ARF6/8 activities control a checkpoint for a transition that requires inhibition of KNOXI genes, which in turn regulates auxin transport and GA signaling (Figure 7) [2], [7], [52], [53]. [score:4]
The phenotypic differences might be explained by a crosstalk between different miR319 TCP targets, or, as suggested in [23], by TCP4 movement or feed-forward regulation. [score:4]
MiR159 and miR319 regulation enable ARF6/8 to play a central role in setting the cytokinin-auxin differentiation boundary by delimiting the expression of KNOXI genes. [score:4]
In addition to epidermal defects, vascular development in stamen filaments appeared to be arrested at the procambium stage, since the expression of the procambial marker Q0990 [24] was expanded in plants with diminished miR159, miR319 and ARF6/8 activities (Figure 1C). [score:4]
Differential regulation of MIR167 genes by miR159 and miR319 targets. [score:4]
MiR159 levels are positively regulated by GA [15], and at least in rice, this is also true for miR319 expression [21]. [score:4]
The expression pattern of miR167a in ovaries, which was unaffected by changes in miR159 and miR319, resembled its promoter activity as well (Figure 5B, 5C) [1], [42]. [score:3]
In addition, we found that the expression of the ProARF8:ARF8-GUS reporter was specifically absent from stamens when miR159 and miR319 activities were reduced (Figure 3B). [score:3]
Auxin action, mediated by ARF5/MP and ARF6/8, also promotes cambium development [4], [55], [56], and we propose that progression of vascular development which appears to follow a similar sequence of signaling events as floral organ maturation (Figure 7) [36], [57], is mediated by the miR159-miR167-miR319 network as well. [score:3]
Since the miR159-167-miR319 network is crucial for the development of sepals, petals and stamens, modulation of its activity might provide a regulatory entry point for different reproductive strategies. [score:3]
miR159- and miR319 -dependent expression of miR167 in inflorescences. [score:3]
We next assayed ARF6/8 expression in Pro35S:MIM159 and Pro35S:MIM319 plants in order to determine how ARF6/8 are regulated by miR159 and miR319. [score:3]
These results point to miR159 and miR319 as coordinating the expression pattern of MIR167 family members in petals, sepals and stamen. [score:3]
Interaction of miR159 and miR319 targets. [score:3]
MiR319 is encoded by three genomic loci with overlapping expression patterns in A. thaliana. [score:2]
As similar developmental defects were found in plants deficient in miR159 and miR319 activity, we asked whether their absence was also affecting the sequence of hormone-related events leading to flower maturation. [score:2]
miR167 -dependent regulation of ARF6/8 by miR159 and miR319. [score:2]
Petal and anther development are particularly sensitive to perturbations in the miR159-miR167-miR319 network. [score:2]
First, we have discovered that the miR159-MYB and miR319-TCP nodes can independently regulate the miR167-ARF node. [score:2]
The A. thaliana genome encodes 24 TCPs, including several in the miR319-regulated TCP4 clade, and many can homo- and heterodimerize (Figure S5B) [43]– [46]. [score:2]
Mediation of miR159 and miR319 effects by miR167. [score:1]
Taken together, the phenotypic and physiological resemblance of plants with a reduction in ARF6/8 or miR159/miR319 activities supports links between miR167, miR159 and miR319 in growth and hormone -dependent maturation of sepals, petals and anthers. [score:1]
Effects of miR159, miR167, and miR319 on flower morphology. [score:1]
We therefore compared in detail the consequences of reducing ARF6/8, miR159 and miR319 function during reproductive development. [score:1]
Transcription of MIR319A coincides with MIR319C at the base of all floral organs, in stamen filaments and petals, while MIR319B is restricted to stamens and the abscission zone of sepals [22], [23]. [score:1]
To better understand miR159- and miR319 -dependent regulation of MIR167 genes, we assayed the transcriptional activity of MIR167A, MIR167B and MIR167C in Pro35S:MIM159 and Pro35S:MIM319 plants. [score:1]
Moreover, the interactions can be complex, with miR319 contributing to activation of MIR167B and repression of MIR167A at the base of pedicels. [score:1]
In contrast to the wild-type promoter (Figure 4A), the mutant promoter variants do not respond to a change in miR319 activity. [score:1]
Defects seen in arf6/8 mutant flowers are reminiscent of ones observed when the function of two other miRNAs, miR159 and miR319, is compromised. [score:1]
These results placed miR159 and miR319 upstream of miR167. [score:1]
Increased KNOXI activity might also explain the abnormal angle of petiole growth in mutants affected in ARF6/8, miR159 and miR319 activities. [score:1]
The miR159-miR167-miR319 circuit acts in sepals, petals and anthers to modulate the activity of ARF6/8, which control a large number of floral genes [4]. [score:1]
Figure S4Effect of miR159, miR167 and miR319 on MIR167A promoter activity, and comparison of MIR167A and MIR319B promoter activities. [score:1]
Together, these results suggested that the effects of miR159 and miR319 are mainly mediated by MIR167A. [score:1]
Floral defects caused by altered miR159, miR167, and miR319 activities. [score:1]
Reduction of miR319 activity results in smaller flowers with short petals, strap-like petals and underdeveloped stamens; in extreme cases, petals and stamens are lost [5], [23]. [score:1]
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[+] score: 79
Other miRNAs from this paper: ath-MIR319a, ath-MIR319b, ath-MIR396b, ath-MIR164c
In petal development, overexpression of miR319-resistant m TCP4 and a mutation in the miR319a [129] allele that reduces the targeting of TCP4 both resulted in a dramatic reduction of petal growth (Nag et al., 2009). [score:7]
rbe-1 enhances the effect of TCP4 overexpression and miR319 loss-of-function in floral organ developmentThe function of TCP4 is controlled by the combined effect of transcriptional and post-transcriptional regulation. [score:5]
These results all suggested that TCP4 is a major target of RBE among the miR319-regulated TCP genes and that RBE likely regulates TCP4 independent of miR319. [score:5]
In this study, we identified another upstream regulator of TCP4, RBE, which acts in concert with miR319 to control the expression of TCP4 in petal development. [score:5]
Apart from miR319 regulation, comparatively little is known of how TCP4 expression itself is regulated. [score:5]
Among these miR319-regulated genes, TCP4 has been extensively studied: ectopic expression of a miR319-insensitive TCP4 (mTCP4) gene during early stages of leaf development resulted in the formation of miniature leaves, presumably due to the early onset of a maturation program that precociously terminates cell division in developing leaf primordia (Efroni et al., 2008). [score:5]
In this study, we show that RBE directly associates with the promoter of TCP4 and acts in concert with miR319 to control TCP4 expression during early petal development. [score:5]
It has been proposed that the relative levels and domains of expression of TCP4 and its regulator miR319 are critical for defining TCP4 activity (Palatnik et al., 2003; Palatnik et al., 2007), indicating that transcriptional and post-transcriptional regulation are both important in controlling the function of TCP4. [score:5]
In order to test whether RBE also influences other miR319 target genes, we examined the expression of TCP2, TCP3, TCP10, and TCP24 in the floral tissues of DEX- and mock -treated 35S:GR-RBE plants, as well as in rbe-1 and wild type flowers (see Supplementary Fig. S1). [score:5]
rbe-1 enhances the effect of TCP4 overexpression and miR319 loss-of-function in floral organ development. [score:4]
The expression of MIR319a partly overlaps with that of TCP4 in developing petals (Nag et al., 2009), suggesting that miR319 functions to dampen rather than eliminate the transcription of TCP4, thus fine-tuning the function of TCP4 during petal growth. [score:3]
This is also consistent with our RNA-seq results in that none of the three primary miR319 genes (MIR319a/ At4g23713, MIR319b/ At5g41663, and MIR319c/ At2g40805) were expressed at statistically different levels in 35S:GR-RBE upon DEX- versus mock-treatment (Huang et al., 2012). [score:3]
Moreover, the tcp4soj6 mutant with a mutation in the TCP4 coding sequence that complements the miR319a [129] allele could largely rescue the miR319a [129] phenotypes, suggesting that TCP4 is a major downstream effector of miR319 in petal development (Nag et al., 2009). [score:3]
To test how the ectopic expression of TCP4 in rbe-1 influences the effect of TCP4 in controlling petal growth, we introduced a mutated form of TCP4 into rbe-1. The mutant TCP4, tcp4soj6, contained a single base pair change that partially disrupts cleavage by miR319 (Palatnik et al., 2007; Nag et al., 2009). [score:3]
TCP4 is a major target gene of miR319 in the CIN-TCP family. [score:3]
Fig. S1: RBE has minor and indirect effects on other miR319 -regulating TCP genes. [score:3]
TCP5 has a similar function to TCP4 in repressing cell proliferation, but is not a target of miR319. [score:3]
Schommer C Debernardi JM Bresso EG Rodriguez RE Palatnik JF 2014 Repression of cell proliferation by miR319-regulated TCP4. [score:2]
Five of them, TCP2, TCP3, TCP4, TCP10, and TCP24 are post-transcriptionally regulated by microRNA319 (Palatnik et al., 2003; Nag et al., 2009). [score:1]
Among the three genes that encode mature miR319, MIR319a was thought to play a more prominent role in the petal. [score:1]
TCP4 is one of the five TCP genes that are post-transcriptionally regulated by microRNA319 (Palatnik et al., 2003; Nag et al., 2009). [score:1]
RBE functions with microRNA319 to control the growth of petals by regulating the transcription of TCP4 in Arabidopsis. [score:1]
This was shown by a partially miR319-resistant form of TCP4 driven by promoters with different strengths leading to different severities of morphological defects (Palatnik et al., 2007). [score:1]
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[+] score: 31
Because most class II CIN-TCP transcripts are regulated by miR319/JAW, we generated plants that express the miR319-resistant form of TCP4 cDNA (mTCP4 [35]) translationally fused to the 3xFLAG-6xHis (3F6H) epitope tag in phloem companion cells under the control of SUCROSE-PROTON SYMPOTER 2 (SUC2) promoter (SUC2: mTCP4-3F6H, S2 Fig). [score:6]
The target site of microRNA319 /JAW (miR319/JAW) in the TCP4 coding sequences was replaced with a non-target sequence by site-directed mutagenesis with the following primers (5′-CTCAGAGGGGTCCCTTGCAAAGTAGCTACAGTCCCATGATCCG-3′ and 5′-CGGATCATGGGACTGTAGCTACTTTGCAAGGGACCCCTCTGAG-3′) (designated as mTCP4). [score:5]
In addition, overexpression of rice miR319 confers salt tolerance in creeping bentgrass, Agrostis stolonifera [87]. [score:3]
We also found that miR319 -targeted homologs of CIN-TCPs are present more abundantly in the TCP4 complex (Table 1). [score:3]
Our results indicated that TCP4 preferentially interacts with miR319 -targeted CIN-TCPs and that they work together (Figs 4 and 8 and Table 1). [score:3]
Previous studies indicated that miR319 expression is induced by multiple stresses such as drought, salt or cold temperatures [85, 86]. [score:3]
The CIN-TCP group consists of 8 members (TCP2, 3, 4, 5, 10, 13, 17, and 24), and 5 of them are targeted by microRNA 319/JAW (miR319/JAW) [35]. [score:3]
Repression of cell proliferation by miR319-regulated TCP4. [score:2]
mTCP4 contains synonymous mutations in the miR319 -binding site. [score:2]
Although the role of miR319 in stress response remains largely unknown, it is possible that the miR319-TCP pathway affects flowering in response to environmental stress. [score:1]
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5
[+] score: 26
Other miRNAs from this paper: ath-MIR319a, ath-MIR319b
Although PeCIN8 was predicted to possess an miR319 targeting site, it seems that cleavage of PeCIN8 transcripts did not occur in the PeCIN8 -overexpressing Arabidopsis. [score:5]
Similar results were found when miR319-resistant or -sensitive versions of AtTCP2 and AtTCP4 were expressed, suggesting the phenotype differences are likely due to the presence of miR319 (Palatnik et al., 2003, 2007). [score:3]
However, overexpression of a mutant form of AtTCP3 without the miR319 -binding sequence (35S:mAtTCP3) induced fusion of cotyledons, defects in the formation of shoots and elongation of hypocotyls in Arabidopsis. [score:3]
High levels of miR319 or low miR319 -targeted TCP activity might cause excess cell proliferation, thus resulting in a crinkled leaf in Arabidopsis, snapdragon, and tomato or larger leaves in monocotyledonous plants (rice and creeping bentgrass) (Nath et al., 2003; Palatnik et al., 2003; Ori et al., 2007; Yang et al., 2013). [score:3]
This suggests that the regulation of TCP genes for plant development depends on the miR319 level or the ratio of TCP transcripts and miR319. [score:3]
It was reported that only one point mutation at the miR319 -binding site of tomato LA alleles could confer partial resistance of LA transcripts to miR319 cleavage activity (Ori et al., 2007). [score:2]
In addition, in Arabidopsis, five of the CIN members are post-transcriptionally regulated by miRNA319 (AtTCP2, 3, 4, 10, and 24) (Palatnik et al., 2003, 2007; Ori et al., 2007). [score:2]
These data, which contradict previous results, might be due to no cleavage of the PeCIN8 transcripts occurring or a lower sensitivity of PeCIN8 transcripts to Arabidopsis miR319 regulation. [score:2]
Six orchid TCP genes in the CIN subclade were identified to have a putative binding site for Phalaenopsis miR319 (Fig. 1C). [score:1]
Previous studies have reported that Arabidopsis TCP genes including TCP2, TCP3, TCP4, TCP10, and TCP24 possess miR319 -binding sites. [score:1]
The cleavage activity of miR319 on these AtTCP transcripts has been demonstrated (Nag et al., 2009; Palatnik et al., 2003). [score:1]
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[+] score: 25
This is consistent with what has been reported for plants that express non-targetable forms of TCP2 and TCP4, which are both exclusive miR319 targets [29], suggesting that target mimics can at least partially discriminate between these two miRNA families. [score:9]
Consistent with this, plants overexpressing non -modified versions of miR156 and miR319 target genes show much milder phenotypes than plants expressing the corresponding target mimics [18], [29], [30]. [score:9]
In particular, upward curled leaves have been observed in plant expressing non-targetable forms of MYB33, which can be targeted both by miR159 and miR319 [43]. [score:7]
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[+] score: 22
In Arabidopsis, up-regulation of miR319 in the jaw-D mutant reduces the expression of TCP2, TCP3, TCP4, TCP10, and TCP24 producing large and wrinkled leaves (Palatnik et al., 2003). [score:6]
A point mutation in the miR319 target site of TCP4 induces miR396 which in turn decreases GRF expression and results in smaller leaves (Figure 8). [score:6]
The TCP family of transcription factors regulates the expression of miR396 and miR319 (Palatnik et al., 2003; Rodriguez et al., 2010). [score:4]
Regulation of LANCEOLATE by miR319 is required for compound-leaf development in tomato. [score:3]
Control of jasmonate biosynthesis and senescence by miR319 targets. [score:3]
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8
[+] score: 19
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-MIR161, 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-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
miR163, miR169b/c, miR170, miR391, miR447, miR843 and miR848 were specifically upregulated, whereas miR159, miR162, miR164a/b, miR165, miR169d–g, miR172c/d, miR173, miR319, miR773, and miR864-3p were specifically downregulated by –C conditions. [score:7]
It is likely that carbon starvation induces leaf senescence by suppressing the expression of miR164 and miR319. [score:5]
This suggested that leaf senescence regulation mediated by miR164 and miR319 is specific to –C, whereas –N and –S induce leaf senescence by other regulatory pathways. [score:3]
Notably, two negative regulators of leaf senescence, miR164a/b and miR319, were specifically repressed by –C. [score:2]
The miR319-regulated clade of TCP transcription factor genes facilitates the biosynthesis of the hormone jasmonic acid, which then accelerates leaf senescence 45. [score:2]
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[+] score: 10
In total about 86 targets genes were predicted among which most of them encode transcription factors (TFs) targeted by miR156, miR159, miR165, miR166, miR169, miR319, miR408, miR829, miR2934, miR5029 and miR5642. [score:5]
Experimental studies in Arabidopsis and other plants have shown that abiotic and biotic stresses induce differential expression of a set of miRNAs such as: miR156, miR159, miR165, miR167, miR168, miR169, miR319, miR393, miR395, miR396, miR398, miR399, and miR402 [7, 18- 23]. [score:3]
are regulated by the identified miR156, miR159, miR165, miR166, miR169, miR319, miR408, miR829, miR2934, miR5029 and miR5642 (Tables  3 and 4). [score:2]
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10
[+] score: 10
While miR319 can guide both types of targets to cleavage [17], miR159 can only affect the MYBs [16], [17], [19]. [score:3]
This has been previously shown for the miRNAs miR319 and miR159, which are similar in sequence but still regulate different genes [16], [17], [18], [19]. [score:2]
In Arabidopsis, the miR159/miR319 family of miRNAs comprises six small RNAs that share 17 out of their 21 nt and regulate transcription factors of the TCP and MYB classes [16], [17], [18], [19], [20]. [score:2]
Sequence differences among related miRNAs could be important in plants as it has been shown for miR319 and miR159, which have very similar sequences but regulate different genes [17]. [score:2]
While miR319 can guide TCP and MYB genes to cleavage, specific base differences prevent miR159 activity on the TCPs [17]. [score:1]
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[+] score: 10
Sequence and expression differences underlie functional specialization of Arabidopsis microRNAs miR159 and miR319. [score:3]
The function of miR319 seems to be conserved also in maize where, in addition, this specific miRNA together with miR171 target genes that participate in secondary pathways of auxin and GA signaling transduction, thus affecting embryo differentiation (Zhang et al., 2009a; Kang et al., 2012; Shen et al., 2013). [score:3]
miR319 has a central role in coordinating multiple miRNAs and is strictly connected to phytohormone regulation (Luo et al., 2011). [score:2]
Others miRNAs affecting seed size belong to two families, miR159 and miR319 (Palatnik et al., 2007; Li et al., 2011). [score:1]
Most miR167 and miR319 families were found enriched in seeds rather than leaves (Kang et al., 2012). [score:1]
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[+] score: 10
Given the presence of miRs targeting transcription factor families such as SPL (miR156/miR157), MYB/TCP (miR159, miR319), ARF (miR160, miR167), AP2 (miR172), and GRF (miR396) there can be no doubt that miRs modulate the expression of many transcription factors during later stages of pollen development. [score:6]
This discovery of mature miR319 in pollen confirms a recent analysis of miR319a promoter expression patterns [25]. [score:3]
All of those found by the previous RT-PCR analysis were confirmed by this sequencing approach; indeed, the sensitivity of the 454 sequencing approach is such that one miRNA, miR319, undetectable in the RT-PCR analysis, was identified. [score:1]
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[+] score: 8
For instance, miR397 overexpression was described to improve rice yield by increasing grain size and promoting panicle branching (Zhang et al. 2013), whereas rice plants overexpressing miR319 had wider leaf blades and enhanced cold tolerance (Yang and Huang 2014). [score:5]
While auxin signalling pathway is regulated by miR160, miR167, miR390 and miR393, the JA biosynthetic pathway is under the control of miR319 and miR159, and miR159 regulate the ABA signalling pathway (Curaba et al. 2014). [score:3]
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[+] score: 6
The targets of miR172 and miR319 are AP2 and TCP, transcription factors, respectively. [score:3]
While the abundance of many stress -induced miRNAs is unaltered, the abundance of some miRNAs related to plant growth and development (miR172 and miR319) is elevated in the fast-growing lines. [score:2]
Only the abundance of miR172 and miR319 were significantly higher in the leaves of the OE lines (Table  2). [score:1]
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[+] score: 6
Other miRNAs from this paper: ath-MIR156a, ath-MIR156b, ath-MIR156c, ath-MIR156d, ath-MIR156e, ath-MIR156f, ath-MIR157a, ath-MIR157b, ath-MIR157c, ath-MIR157d, ath-MIR159a, ath-MIR160a, ath-MIR160b, ath-MIR160c, 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-MIR172a, ath-MIR172b, ath-MIR159b, ath-MIR319a, ath-MIR319b, osa-MIR156a, osa-MIR156b, osa-MIR156c, osa-MIR156d, osa-MIR156e, osa-MIR156f, osa-MIR156g, osa-MIR156h, osa-MIR156i, osa-MIR156j, osa-MIR160a, osa-MIR160b, osa-MIR160c, osa-MIR160d, osa-MIR166a, osa-MIR166b, osa-MIR166c, osa-MIR166d, osa-MIR166e, osa-MIR166f, osa-MIR167a, osa-MIR167b, osa-MIR167c, osa-MIR169a, 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-MIR172c, ath-MIR172d, ath-MIR394a, ath-MIR394b, ath-MIR396a, ath-MIR396b, osa-MIR394, osa-MIR396a, osa-MIR396b, osa-MIR396c, ath-MIR403, ath-MIR408, ath-MIR156g, ath-MIR156h, ath-MIR159c, ath-MIR167c, ath-MIR172e, osa-MIR156k, osa-MIR156l, osa-MIR159a, osa-MIR159b, osa-MIR159c, osa-MIR159d, osa-MIR159e, osa-MIR159f, osa-MIR319a, osa-MIR319b, osa-MIR160e, osa-MIR160f, osa-MIR166k, osa-MIR166l, osa-MIR167d, osa-MIR167e, osa-MIR167f, osa-MIR167g, osa-MIR167h, osa-MIR167i, osa-MIR169b, osa-MIR169c, osa-MIR169d, osa-MIR169e, osa-MIR169f, osa-MIR169g, osa-MIR169h, osa-MIR169i, osa-MIR169j, osa-MIR169k, osa-MIR169l, osa-MIR169m, osa-MIR169n, osa-MIR169o, osa-MIR169p, osa-MIR169q, osa-MIR172a, osa-MIR172b, osa-MIR172c, osa-MIR166g, osa-MIR166h, osa-MIR166i, osa-MIR408, osa-MIR172d, osa-MIR167j, osa-MIR166m, osa-MIR166j, ath-MIR414, osa-MIR414, osa-MIR396e, ath-MIR856, ath-MIR858a, osa-MIR169r, osa-MIR396f, ath-MIR2111a, ath-MIR2111b, osa-MIR396g, osa-MIR396h, osa-MIR396d, ath-MIR858b, ath-MIR156i, ath-MIR156j
Further targets were predicted for certain more conserved miRNAs including miR166, miR167, miR319, miR 396 and miR408, miR856 and miR1310 (Additional file 2 Table S1). [score:3]
miR156, miR159, miR167, miR319, miR396 and miR172 possessed 5, 8, 10, 8, 7 and 6 members respectively whereas other miRNA families such as miR157, miR160, miR169, miR858, miR894, miR2111 etc. [score:1]
Most of the miRNA families were found to be conserved in a variety of plant species e. g. using a comparative genomics based strategy homologs of miR319, miR156/157, miR169, miR165/166, miR394 and miR159 were found in 51,45,41,40,40 and 30 diverse plant species respectively [38]. [score:1]
In addition, miR167 and miR394 were found to have some thousands to tens of thousands of redundancies while miR319, miR166 and miR156 had more than one hundred redundancies. [score:1]
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[+] score: 5
microRNA Target Gene familymir165 [51] HD-ZIPIII family members including PHV, PHB, REV, ATHB-8, and ATHB-15 mir166 [97] HD-ZIPIII family members including PHV, PHB, REV, ATHB-8, and ATHB-15 mir319 [51], [52] TCP family members. [score:3]
mir319c At1g53230 mir319a, mir319b. [score:1]
Mir319c At2g28190 mir398a, mir398b, mir398c At1g63360 mir472a At1g24880 mir859a Data retrieved from searches of the published literature and databases. [score:1]
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17
[+] score: 5
We found that At2g33810 in the At2g33810/At2g33815 pair was a target of miR156 and At1g53230 in the At1g53230/At1g53233 pair was a target of miR319. [score:5]
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[+] score: 4
During early seedling development the regulation mediated by the presence of miR165, miR166, miR164, and miR319 is of special importance for germination and developmental phase transitions (Wang and Li, 2007; Rubio-Somoza and Weigel, 2011). [score:4]
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For example, miR319 positively controls leaf senescence by regulating the activity of TCP transcription factors [24]. [score:2]
miR319 regulates leaf senescence by controlling TCP transcription factors. [score:2]
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[+] score: 3
Differential expression was also observed among members of the miR167, miR171, miR172, and miR319 families (Table S2). [score:3]
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[+] score: 3
Control of jasmonate biosynthesis and senescence by miR319 targets. [score:3]
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[+] score: 3
Based on A. thaliana annotation, miRNA target genes were found for several conserved miRNAs in hybrid yellow poplar (Table S4): ARF10 (miR160), CYP96A1 (miR162), NAC (miR164), PHB and DNA -binding factor (miR165/166), NF-YA8 (miR169), SCARECROW transcription factor family protein (miR170/171), SNZ (miR172), MYB (miR319), GRF (miR396), copper ion binding (miR408), SPL11 (miR529) etc. [score:3]
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[+] score: 3
As shown in the radial chart in Fig 4C, expression of the miR157, miR160, miR165, miR168, miR171, miR319, and miR403 families was decreased by around 80% to 140% in CsCl -treated seedlings. [score:3]
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24
[+] score: 3
Other miRNAs from this paper: ath-MIR319a, ath-MIR319b
Control of jasmonate biosynthesis and senescence by miR319 targets. [score:3]
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25
[+] score: 2
The repertoire of known bacterial-responsive miRNAs has increased and includes several families known to regulate hormone signaling, such as miR160, miR167 and miR390 involved in auxin signaling, miR159 involved in ABA signaling and miR319 involved in jasmonic acid signaling [13- 15]. [score:2]
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26
[+] score: 2
Repression of cell proliferation by miR319-regulated TCP4. [score:2]
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27
[+] score: 2
In addition, miR319 -mediated regulation of TCP4 is required for the biogenesis of jasmonic acid through the modulation of LIPOXYGENASE2 (LOX2) [58]. [score:2]
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28
[+] score: 1
Other miRNAs from this paper: ath-MIR159a, ath-MIR162a, ath-MIR162b, ath-MIR166a, ath-MIR166b, ath-MIR166c, ath-MIR166d, ath-MIR166e, ath-MIR166f, ath-MIR166g, ath-MIR169a, ath-MIR171a, ath-MIR159b, ath-MIR319a, ath-MIR319b, osa-MIR162a, osa-MIR166a, osa-MIR166b, osa-MIR166c, osa-MIR166d, osa-MIR166e, osa-MIR166f, osa-MIR169a, osa-MIR171a, 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-MIR171c, ath-MIR390a, ath-MIR390b, ath-MIR396a, ath-MIR396b, ath-MIR398a, ath-MIR398b, ath-MIR398c, ath-MIR399a, ath-MIR399b, ath-MIR399c, ath-MIR399d, ath-MIR399e, ath-MIR399f, osa-MIR396a, osa-MIR396b, osa-MIR396c, osa-MIR398a, osa-MIR398b, osa-MIR399a, osa-MIR399b, osa-MIR399c, osa-MIR399d, osa-MIR399e, osa-MIR399f, osa-MIR399g, osa-MIR399h, osa-MIR399i, osa-MIR399j, osa-MIR399k, ath-MIR408, ath-MIR159c, osa-MIR156k, osa-MIR159a, osa-MIR159b, osa-MIR159c, osa-MIR159d, osa-MIR159e, osa-MIR159f, osa-MIR319a, osa-MIR319b, osa-MIR162b, osa-MIR166k, osa-MIR166l, osa-MIR169b, osa-MIR169c, osa-MIR169d, osa-MIR169e, osa-MIR169f, osa-MIR169g, osa-MIR169h, osa-MIR169i, osa-MIR169j, osa-MIR169k, osa-MIR169l, osa-MIR169m, osa-MIR169n, osa-MIR169o, osa-MIR169p, osa-MIR169q, osa-MIR171b, osa-MIR171c, osa-MIR171d, osa-MIR171e, osa-MIR171f, osa-MIR171g, osa-MIR166g, osa-MIR166h, osa-MIR166i, osa-MIR171h, osa-MIR408, osa-MIR171i, osa-MIR166m, osa-MIR166j, ath-MIR414, osa-MIR414, osa-MIR390, osa-MIR396e, ptc-MIR156k, ptc-MIR159a, ptc-MIR159b, ptc-MIR159d, ptc-MIR159e, ptc-MIR159c, ptc-MIR162a, ptc-MIR162b, ptc-MIR166a, ptc-MIR166b, ptc-MIR166c, ptc-MIR166d, ptc-MIR166e, ptc-MIR166f, ptc-MIR166g, ptc-MIR166h, ptc-MIR166i, ptc-MIR166j, ptc-MIR166k, ptc-MIR166l, ptc-MIR166m, ptc-MIR166n, ptc-MIR166o, ptc-MIR166p, ptc-MIR166q, ptc-MIR169a, ptc-MIR169aa, ptc-MIR169ab, ptc-MIR169ac, ptc-MIR169ad, ptc-MIR169ae, ptc-MIR169af, ptc-MIR169b, ptc-MIR169c, ptc-MIR169d, ptc-MIR169e, ptc-MIR169f, ptc-MIR169g, ptc-MIR169h, ptc-MIR169i, ptc-MIR169j, ptc-MIR169k, ptc-MIR169l, ptc-MIR169m, ptc-MIR169n, ptc-MIR169o, ptc-MIR169p, ptc-MIR169q, ptc-MIR169r, ptc-MIR169s, ptc-MIR169t, ptc-MIR169u, ptc-MIR169v, ptc-MIR169w, ptc-MIR169x, ptc-MIR169y, ptc-MIR169z, ptc-MIR171a, ptc-MIR171b, ptc-MIR171c, ptc-MIR171d, ptc-MIR171e, ptc-MIR171f, ptc-MIR171g, ptc-MIR171h, ptc-MIR171i, ptc-MIR319a, ptc-MIR319b, ptc-MIR319c, ptc-MIR319d, ptc-MIR319e, ptc-MIR319f, ptc-MIR319g, ptc-MIR319h, ptc-MIR319i, ptc-MIR390a, ptc-MIR390b, ptc-MIR390c, ptc-MIR390d, ptc-MIR396a, ptc-MIR396b, ptc-MIR396c, ptc-MIR396d, ptc-MIR396e, ptc-MIR396f, ptc-MIR396g, ptc-MIR398a, ptc-MIR398b, ptc-MIR398c, ptc-MIR399a, ptc-MIR399b, ptc-MIR399d, ptc-MIR399f, ptc-MIR399g, ptc-MIR399h, ptc-MIR399i, ptc-MIR399j, ptc-MIR399c, ptc-MIR399e, ptc-MIR408, ptc-MIR482a, ptc-MIR171k, osa-MIR169r, ptc-MIR171l, ptc-MIR171m, ptc-MIR171j, ptc-MIR1448, osa-MIR396f, osa-MIR2118a, osa-MIR2118b, osa-MIR2118c, osa-MIR2118d, osa-MIR2118e, osa-MIR2118f, osa-MIR2118g, osa-MIR2118h, osa-MIR2118i, osa-MIR2118j, osa-MIR2118k, osa-MIR2118l, osa-MIR2118m, osa-MIR2118n, osa-MIR2118o, osa-MIR2118p, osa-MIR2118q, osa-MIR2118r, osa-MIR396g, osa-MIR396h, osa-MIR396d, ptc-MIR482d, ptc-MIR169ag, ptc-MIR482b, ptc-MIR482c, pde-MIR159, pde-MIR162, pde-MIR166a, pde-MIR166b, pde-MIR169, pde-MIR171, pde-MIR390, pde-MIR396, pde-MIR482a, pde-MIR482b, pde-MIR482c, pde-MIR482d, pde-MIR946, pde-MIR947, pde-MIR949a, pde-MIR950, pde-MIR951, pde-MIR952a, pde-MIR952b, pde-MIR952c, pde-MIR1311, pde-MIR1312, pde-MIR1313, pde-MIR1314, pde-MIR3701, pde-MIR3704a, pde-MIR3704b, pde-MIR3712
Three P. taeda miRNA families, including pta-MIR319, pta-MIR398 and pta-MIR408, were not found in P. densata. [score:1]
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29
[+] score: 1
Such substitutions were found in miR169 (site 14) and miR319 (site 7) (Table 3). [score:1]
[1 to 20 of 1 sentences]
30
[+] score: 1
Other miRNAs from this paper: ath-MIR156a, ath-MIR156b, ath-MIR156c, ath-MIR156d, ath-MIR156e, ath-MIR156f, ath-MIR159a, ath-MIR172a, ath-MIR172b, ath-MIR159b, ath-MIR319a, ath-MIR319b, ath-MIR172c, ath-MIR172d, ath-MIR390a, ath-MIR390b, ath-MIR399a, ath-MIR399b, ath-MIR399c, ath-MIR399d, ath-MIR399e, ath-MIR399f, ath-MIR156g, ath-MIR156h, ath-MIR159c, ath-MIR172e, gma-MIR156d, gma-MIR156e, gma-MIR156c, gma-MIR159a, gma-MIR172a, gma-MIR172b, gma-MIR319a, gma-MIR319b, gma-MIR156a, gma-MIR319c, gma-MIR156b, gma-MIR159b, gma-MIR159c, gma-MIR390a, gma-MIR390b, gma-MIR172c, gma-MIR172d, gma-MIR172e, gma-MIR156f, gma-MIR172f, gma-MIR156g, gma-MIR159d, gma-MIR156h, gma-MIR156i, gma-MIR319d, gma-MIR319e, gma-MIR319f, gma-MIR390c, gma-MIR156j, gma-MIR156k, gma-MIR156l, gma-MIR156m, gma-MIR156n, gma-MIR156o, gma-MIR159e, gma-MIR159f, gma-MIR172g, gma-MIR172h, gma-MIR172i, gma-MIR172j, gma-MIR319g, gma-MIR319h, gma-MIR319i, gma-MIR319j, gma-MIR319k, gma-MIR319l, gma-MIR319m, ath-MIR156i, ath-MIR156j, gma-MIR399a, gma-MIR156p, gma-MIR172k, gma-MIR156q, gma-MIR172l, gma-MIR319n, gma-MIR156r, gma-MIR399b, gma-MIR156s, gma-MIR156t, gma-MIR399c, gma-MIR399d, gma-MIR399e, gma-MIR399f, gma-MIR399g, gma-MIR399h, gma-MIR156u, gma-MIR156v, gma-MIR156w, gma-MIR156x, gma-MIR156y, gma-MIR156z, gma-MIR156aa, gma-MIR156ab, gma-MIR390d, gma-MIR390e, gma-MIR390f, gma-MIR390g, gma-MIR319o, gma-MIR319p, gma-MIR399i, gma-MIR319q, gma-MIR399j, gma-MIR399k, gma-MIR399l, gma-MIR399m, gma-MIR399n, gma-MIR399o
In addition, the miR319, miR390 and miR399 families also play a role in the control of flowering time [8, 9, 10, 11]. [score:1]
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31
[+] score: 1
Other miRNAs from this paper: ath-MIR156a, ath-MIR156b, ath-MIR156c, ath-MIR156d, ath-MIR156e, ath-MIR156f, ath-MIR157a, ath-MIR157b, ath-MIR157c, ath-MIR157d, ath-MIR159a, ath-MIR165a, ath-MIR165b, ath-MIR166a, ath-MIR166b, ath-MIR166c, ath-MIR166d, ath-MIR166e, ath-MIR166f, ath-MIR166g, ath-MIR169a, ath-MIR170, ath-MIR171a, ath-MIR172a, ath-MIR172b, ath-MIR159b, ath-MIR319a, ath-MIR319b, osa-MIR156a, osa-MIR156b, osa-MIR156c, osa-MIR156d, osa-MIR156e, osa-MIR156f, osa-MIR156g, osa-MIR156h, osa-MIR156i, osa-MIR156j, osa-MIR166a, osa-MIR166b, osa-MIR166c, osa-MIR166d, osa-MIR166e, osa-MIR166f, osa-MIR169a, osa-MIR171a, 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-MIR171c, ath-MIR172c, ath-MIR172d, ath-MIR395a, ath-MIR395b, ath-MIR395c, ath-MIR395d, ath-MIR395e, ath-MIR395f, ath-MIR399a, ath-MIR399b, ath-MIR399c, ath-MIR399d, ath-MIR399e, ath-MIR399f, osa-MIR395b, osa-MIR395d, osa-MIR395e, osa-MIR395g, osa-MIR395h, osa-MIR395i, osa-MIR395j, osa-MIR395k, osa-MIR395l, osa-MIR395s, osa-MIR395t, osa-MIR395c, osa-MIR395a, osa-MIR395f, osa-MIR395u, osa-MIR399a, osa-MIR399b, osa-MIR399c, osa-MIR399d, osa-MIR399e, osa-MIR399f, osa-MIR399g, osa-MIR399h, osa-MIR399i, osa-MIR399j, osa-MIR399k, ath-MIR401, ath-MIR156g, ath-MIR156h, ath-MIR159c, ath-MIR172e, osa-MIR156k, osa-MIR156l, osa-MIR159a, osa-MIR159b, osa-MIR159c, osa-MIR159d, osa-MIR159e, osa-MIR159f, osa-MIR319a, osa-MIR319b, osa-MIR166k, osa-MIR166l, osa-MIR169b, osa-MIR169c, osa-MIR169d, osa-MIR169e, osa-MIR169f, osa-MIR169g, osa-MIR169h, osa-MIR169i, osa-MIR169j, osa-MIR169k, osa-MIR169l, osa-MIR169m, osa-MIR169n, osa-MIR169o, osa-MIR169p, osa-MIR169q, osa-MIR171b, osa-MIR171c, osa-MIR171d, osa-MIR171e, osa-MIR171f, osa-MIR171g, osa-MIR172a, osa-MIR172b, osa-MIR172c, osa-MIR166g, osa-MIR166h, osa-MIR166i, osa-MIR171h, osa-MIR172d, osa-MIR171i, osa-MIR166m, osa-MIR166j, ath-MIR413, ath-MIR414, ath-MIR415, ath-MIR416, ath-MIR417, osa-MIR413, osa-MIR414, osa-MIR415, osa-MIR416, osa-MIR417, ath-MIR426, osa-MIR426, osa-MIR438, osa-MIR444a, ptc-MIR156a, ptc-MIR156b, ptc-MIR156c, ptc-MIR156d, ptc-MIR156e, ptc-MIR156f, ptc-MIR156g, ptc-MIR156h, ptc-MIR156i, ptc-MIR156j, ptc-MIR156k, ptc-MIR159a, ptc-MIR159b, ptc-MIR159d, ptc-MIR159e, ptc-MIR159c, ptc-MIR166a, ptc-MIR166b, ptc-MIR166c, ptc-MIR166d, ptc-MIR166e, ptc-MIR166f, ptc-MIR166g, ptc-MIR166h, ptc-MIR166i, ptc-MIR166j, ptc-MIR166k, ptc-MIR166l, ptc-MIR166m, ptc-MIR166n, ptc-MIR166o, ptc-MIR166p, ptc-MIR166q, ptc-MIR169a, ptc-MIR169aa, ptc-MIR169ab, ptc-MIR169ac, ptc-MIR169ad, ptc-MIR169ae, ptc-MIR169af, ptc-MIR169b, ptc-MIR169c, ptc-MIR169d, ptc-MIR169e, ptc-MIR169f, ptc-MIR169g, ptc-MIR169h, ptc-MIR169i, ptc-MIR169j, ptc-MIR169k, ptc-MIR169l, ptc-MIR169m, ptc-MIR169n, ptc-MIR169o, ptc-MIR169p, ptc-MIR169q, ptc-MIR169r, ptc-MIR169s, ptc-MIR169t, ptc-MIR169u, ptc-MIR169v, ptc-MIR169w, ptc-MIR169x, ptc-MIR169y, ptc-MIR169z, ptc-MIR171a, ptc-MIR171b, ptc-MIR171c, ptc-MIR171d, ptc-MIR171e, ptc-MIR171f, ptc-MIR171g, ptc-MIR171h, ptc-MIR171i, ptc-MIR172a, ptc-MIR172b, ptc-MIR172c, ptc-MIR172d, ptc-MIR172e, ptc-MIR172f, ptc-MIR172g, ptc-MIR172h, ptc-MIR172i, ptc-MIR319a, ptc-MIR319b, ptc-MIR319c, ptc-MIR319d, ptc-MIR319e, ptc-MIR319f, ptc-MIR319g, ptc-MIR319h, ptc-MIR319i, ptc-MIR395a, ptc-MIR395b, ptc-MIR395c, ptc-MIR395d, ptc-MIR395e, ptc-MIR395f, ptc-MIR395g, ptc-MIR395h, ptc-MIR395i, ptc-MIR395j, ptc-MIR399a, ptc-MIR399b, ptc-MIR399d, ptc-MIR399f, ptc-MIR399g, ptc-MIR399h, ptc-MIR399i, ptc-MIR399j, ptc-MIR399c, ptc-MIR399e, ptc-MIR481a, ptc-MIR482a, osa-MIR395m, osa-MIR395n, osa-MIR395o, osa-MIR395p, osa-MIR395q, osa-MIR395v, osa-MIR395w, osa-MIR395r, ptc-MIR171k, osa-MIR169r, osa-MIR444b, osa-MIR444c, osa-MIR444d, osa-MIR444e, osa-MIR444f, ptc-MIR171l, ptc-MIR171m, ptc-MIR171j, osa-MIR395x, osa-MIR395y, ath-MIR156i, ath-MIR156j, ptc-MIR482d, ptc-MIR156l, ptc-MIR169ag, ptc-MIR482b, ptc-MIR395k, ptc-MIR482c
In Arabidopsis, only the miR171 family is divided in two families, and the following miRBase families are pairwise grouped together: MIR319–MIR159, MIR156–MIR157, MIR165–MIR166, and MIR170–MIR171. [score:1]
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32
[+] score: 1
Other miRNAs from this paper: ath-MIR159a, ath-MIR159b, ath-MIR319a, ath-MIR319b, ath-MIR159c
A loop-to-base processing mechanism underlies the biogenesis of plant microRNAs miR319 and miR159. [score:1]
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33
[+] score: 1
In Arabidopsis, miR156, miR158, miR159, miR165, miR167, miR168, miR169, miR171, miR319, miR393, miR394 and miR396 are drought-responsive. [score:1]
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34
[+] score: 1
Note that MIR159 and MIR319 derived members were counted separately, even though they are frequently assigned to the same family [31], [57]. [score:1]
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