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30 publications mentioning tae-MIR164

Open access articles that are associated with the species Triticum aestivum and mention the gene name MIR164. Click the [+] symbols to view sentences that include the gene name, or the word cloud on the right for a summary.

1
[+] score: 104
Other miRNAs from this paper: tae-MIR159a, tae-MIR159b
Tae-miR164 Regulates Expression of TaMAPK4In this study, we predicted target genes of miR164 in wheat, and found that one candidate target of miR164 in wheat is TaMAPK4 (Supplementary Table S1). [score:8]
Prediction of miR164 RNA Target and Co-transformation of miR164 and TaMAPK4The target gene of miR164 was predicted using the psRNATarget [1] program at default settings. [score:7]
In the present study, we verified that TaMAPK4 is a candidate target of miR164 by co -expression studies in N. benthamiana. [score:5]
To verify the suppression of TaMAPK4 by miR164, we co-expressed factors in N. benthamiana (Figure 1A). [score:5]
Moreover, we found miR164 was up-regulated in the TaMAPK4 knocked-down leaves inoculated with CYR23 (Supplementary Figure S2). [score:5]
In this study, we predicted target genes of miR164 in wheat, and found that one candidate target of miR164 in wheat is TaMAPK4 (Supplementary Table S1). [score:5]
The target gene of miR164 was predicted using the psRNATarget [1] program at default settings. [score:5]
Tae-miR164 Regulates Expression of TaMAPK4. [score:4]
The conserved plant miRNA miR164 regulates multiple target genes through cleavage to mRNA (Kim et al., 2009). [score:4]
Thus, these results suggested that miR164 might regulate target genes in the wheat- Pst interaction. [score:4]
The target gene of tae-miR164, a novel NAC transcription factor from the NAM subfamily, negatively regulates resistance of wheat to stripe rust. [score:4]
miR164 also regulates multiple target genes, such as NAC genes and ethylene insensitive 3 (EIN3) (Kim et al., 2009). [score:4]
In a previous study, we observed that TaNAC21, a target of miR164, played a negative role in Pst resistance in wheat. [score:3]
Prediction of miR164 RNA Target and Co-transformation of miR164 and TaMAPK4. [score:3]
However, GUS staining was markedly reduced in leaves co -expressing the mixture (pBI121- TaMAPK4 and pBI121-pre-miR164). [score:3]
In the present study, we predicted one candidate target of miR164 in wheat was TaMAPK4 (not the homolog of Arabidopsis MPK4), which involved wheat responses to multiple stresses (Hao et al., 2015). [score:3]
TaNAC21 in wheat is a target gene of miR164, leading to increase susceptibility to stripe-rust in wheat (Feng et al., 2014). [score:3]
FIGURE 1Co -expression of tae-miR164 and TaMAPK4 in Nicotiana benthamiana leaves. [score:3]
TABLE S1 Prediction of tae-miR164 target in wheat. [score:3]
In the present study, we demonstrate TaMAPK4 could be regulated by miR164. [score:2]
Trifurcate feed-forward regulation of age -dependent cell death involving miR164 in Arabidopsis. [score:2]
miR164 participates in a range of physiological processes, including flower development, age -dependent cell death, and plant defense (Laufs et al., 2004; Kim et al., 2009; Li et al., 2014). [score:2]
Plants miR164 plays important roles in responding to biotic stresses; this molecule regulates the transcript levels of the genes to which it binds. [score:2]
FIGURE S2Relative transcript levels of miR164 in TaMAPK4 knockdown leaves infected with Pst race CYR23. [score:2]
Our results suggest that TaMAPK4 is regulated by miR164, and these data provide further insights into how MAPK genes might be involved in plant defense. [score:2]
The pBI121-pre-miR164 construct produced no GUS phenotype in the leaf, in which the GUS gene was replaced by the precursor of miR164. [score:1]
Moreover, we used miR159 as a control, which shared no sequence similarity with miR164. [score:1]
In previous research, we predicted that miR164 binds to a mitogen-activated protein kinase (MAPK) gene in wheat (Wang et al., 2014). [score:1]
Strains carrying different recombinant vectors (EV, TaMAPK4, and miR164) were cultured to an optical density of 0.8 at OD [600] prior to injection. [score:1]
No fluorescence was detected in leaves injected with pBI121-miR164 or pBI121-miR159. [score:1]
For example, miR164 was induced in rice inoculated with Magnaporthe oryzae (Li et al., 2014). [score:1]
TaMAPK4 and miR164 were each integrated into the pBI121 vector containing the GUS reporter gene. [score:1]
However, the detailed mechanisms of the interplay between TaMAPK4 and miR164 in plant defense need to be further explored. [score:1]
Compared with the EV treatments, fluorescence with the mixture (pBI121- TaMAPK4 and pBI121-miR164) showed a slow increase, demonstrating that miR164 effectively regulated TaMAPK4. [score:1]
The tae-miR164 precursor miR164 was digested using restriction endonucleases SacI and BamHI, and cloned into the pBI121 vector. [score:1]
miR164+ TaMAPK4 were mixed in equal volumes, and the mixture (OD [600] = 1.0), was used to test for the cleavage activity of miR164. [score:1]
[1 to 20 of 36 sentences]
2
[+] score: 83
In their study, they found that the expression of miR164, miR395, and miR156 was downregulated while miR159, miR167, and miR171 expression was upregulated in leaf tissues of wheat. [score:11]
For example, miR164 targeting heat shock protein 17 (HSP17) is upregulated during a cold stress response but downregulated in response to heat stress in wheat (Gupta et al. 2014; Kumar et al. 2014a, b). [score:9]
Downregulation of miR156, miR159, miR164, miR398, and miR408 was observed under Cd stress while their targets were mostly upregulated. [score:9]
Interestingly, the target of miR164, a member of the NAC transcription factor family, was positively correlated with miRNA expression suggesting an indirect role in the regulatory pathway (Qiu et al. 2016). [score:7]
The suppressed expression of miR160 and miR164 probably results with the induction of heat shock protein expression and supports the maintenance of vitality under high temperatures. [score:7]
Wang and collogues identified induced expression of miR159 and miR399 upon wounding while miR164, miR167, miR393, and miR398 were detected as downregulated by the same process. [score:6]
In Brassica, miR164 was shown to target a NAC TF, whose expression was negatively correlated with miR164 under drought, salinity, and high-temperature stresses (Bhardwaj et al. 2014). [score:5]
The targeting of several Auxin response factors by miR167 and miR160, HD-ZIP transcription factors by miR166, NAC family transcription factors by miR164, and MYB family transcription factors by miR159 in soybean (Song et al. 2011) and the miR824 targeting of MADS box genes were recently shown to be involved in drought stress responses in Brachypodium and rice, and all provide examples of how this mechanism can mediate responses to numerous abiotic stresses (Arora et al. 2007; Kutter et al. 2007; Wei et al. 2014a). [score:5]
Additionally, maize miR164 contributed to lateral root development through cleavage of a target NAC TF (J. Li et al. 2012), which also suggests a role in abiotic stress responses, given the role of roots in drought and salinity responses. [score:4]
Furthermore, ONAC60 is targeted by miR164 in rice (Wu et al. 2009b). [score:3]
However, several studies revealed altered expression of numerous miRNAs such as miR159, miR164, miR167, miR172, miR319, and miR398 in response to both heat and cold stresses (Tang et al. 2012; Gupta et al. 2014; Wang et al. 2014) (Fig.   4). [score:3]
They observed that miR159, miR160, miR164, miR399, miR1117, and miR1120 exhibited differential expression suggesting a role in N homeostasis (Sinha et al. 2015) (Table 3). [score:3]
Many conserved miRNAs across monocots and dicots, such as miR156, miR159, or miR164, have been shown to target stress -associated transcription factors such as MYB and NAC family members (Gupta et al. 2014; Qiu et al. 2016). [score:3]
Among these studies, the miR164 family was reported to target six NAC family members, of which four had negative effects on drought tolerance in rice seedlings (Fang et al. 2014b). [score:3]
Additionally, a recent study from Feng and colleagues showed miR164 regulation of TaNAC21/22 gene under infection by wheat stripe rust (Feng et al. 2014). [score:2]
miR167, miR319, miR398, miR172, miR164, miR159, and miR169 are responsive to both heat and cold stresses Heat and cold stress result in distinct and independent modifications to cellular processes. [score:1]
miR167, miR319, miR398, miR172, miR164, miR159, and miR169 are responsive to both heat and cold stresses Heat and cold stress result in distinct and independent modifications to cellular processes. [score:1]
miR159, miR164, miR172, miR173, and miR394 were detected as Fe-responsive in Arabidopsis by Kong and Yang, but the role of these miRNAs on Fe uptake and transport remains elusive (Kong and Yang 2010). [score:1]
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3
[+] score: 73
Tae-miR156 targets the SBP (SQUAMOSA-promoter binding protein) domain (Traes_2BS_186EA570A), miR164 targets the CUP-SHAPED COTYLEDON (CUC)/ NO APICAL MERISTEM (NAM) gene family (Traes_2BL_6AEE8AC28.1), miR159 targets a myeloblastosis (MYB) transcription factor (Traes_1AL_041EBB4A6.2), tae-miR171a targets the SCL (Scarecrow-like) gene (Traes_6DL_26DDCA106.1), tae-aly-miR825-5p targets the CaBP gene (Ca [2+] binding transmembrane protein) (Traes_1DL_F77022E34.2), tae-aly-miRNA398a-5p and tae-blo-miRNA398a-5p may target the EXPB gene (expansin precursor protein) (Traes_1AL_DB4D32ABB. [score:13]
To examine the functional relationship between the targets and their corresponding miRNAs, 9 known miRNAs (tae-miRNA156, tae-miRNA171, tae-miRNA159, tae-miRNA172, tae-blo-miRNA398, tae-miRNA164, tae-miRNA825, miRNA1120, and miRNA1130) and 2 novel miRNAs (novel-miR-964 and novel-miR-2186) and expression of their targets were examined by qRT-PCR to analyze their principle regulation during male fertility transition (Figure 6). [score:8]
The most frequent term for “biological process” was “regulation of transcription” [such as the targets of tae-miR1120c-5p (Traes_4BS_35F8C45F6), tae-miR1130b-3p (Traes_2AL_EE1350B36) and tae-miR164 (Traes_2BL_6AEE8AC28)] followed by “transporter” and “auxin-activated signaling pathway” [such as the targets of tae-miR167a (Traes_2AL_A7941CB12)] in three comparison groups (FS1/SS1, FS2/SS2 and FS3/SS3) of targets for known miRNAs (Figure 4 and Table S6). [score:8]
In addition, miR164 was up-regulated under UV-B radiation treatment in maize, suggesting that the expression of miR164 might be regulated by light (Casati, 2013). [score:7]
In the present study, tae-miR164 was found to be down-regulated in the pollen at later developmental stages (SS2 and SS3) in sterile plants (Table 4) but not in SS1/FS1, and this finding was verified by qRT-PCR (Figure 6A), indicating that miR164 may participate in fertility regulation during pollen development. [score:7]
However, many differentially expressed miRNAs such as tae-miR167a, tae-miR156 and tae-miR164, showed differentially expressed miRNAs peaked at stage 3 (Figure 2), suggesting that the transition of male fertility may occur at this time. [score:5]
Among these targets, the targets of miR156, miR164, and tae-miR171a were predicted, and the others were confirmed using degradation sequencing. [score:5]
In contrast, the interactions of miR398, miR159, miR164, and novel-miR964/novel-miR2186 with their corresponding target genes (EXPB, MYB, NAM, and PPR) participate in the auxin signaling pathway and the GA/ABA signaling pathway to modulate pollen germination, auxin/IAA responded gene expression and male fertility transition to result in defects of pollen fertility. [score:5]
These predicted targets of known miRNAs, such as miR156, miR159, miR164, miR1120, and miR167, are described as growth -regulating factors, MYB family transcription factors, F-box domain-containing proteins, MADS-box family proteins, and SBP-box gene family members (Table S5). [score:4]
In plants, it is well known that miR164 targets the NAM gene family [CUC1 (CUP-SHAPED COTYLEDON1) and CUC2 (CUP-SHAPED COTYLEDON2)] which are a type of plant-specific transcription factor; they have been shown to participate in various physiological and biochemical processes during plant development and in response to biotic/abiotic stresses (Kikuchi et al., 2000; Fujita et al., 2004; Hu et al., 2006; Takasaki et al., 2010; Tran et al., 2010; Nuruzzaman et al., 2012; Tang Y. et al., 2012). [score:4]
In this mo del, miR825, miR172, miR156, and miR171 are mainly regulated by light, whereas miR1130/miR1120, miR398, miR159, miR164, and two novel-miRNAs (novel-miR964 and novel-miR2186) may be regulated by light. [score:3]
Trifurcate feed-forward regulation of age -dependent cell death involving miR164 in Arabidopsis. [score:2]
In addition, mir164-CUC1 and mir164-CUC2 plants both exhibit leaf shape and polarity defects, extra petals, missing sepals, and reduced fertility (Laufs et al., 2004; Mallory et al., 2004). [score:1]
miR164 is also involved in age -dependent cell death in Arabidopsis leaves by cleaving ORE1, which is another NAM transcription factor (Kim et al., 2009). [score:1]
[1 to 20 of 14 sentences]
4
[+] score: 46
The targets of miR156 and miR164 were significantly up-regulated in spikelet tissue, which correlates inversely with the expression levels of corresponding miRNAs in the same tissue. [score:8]
While 7 of the 9 known miRNAs tested (miR156, miR160, miR164, miR166a, miR167a, miR171a, miR396d) were down-regulated in root tissues, expression of miR1135 and miR5139 was comparable in root and shoot tissues. [score:6]
In Arabidopsis, MIR164 family members act redundantly during shoot development [56] and expression of miR164 in shoot tissue is indicative of its physiological role in wheat shoot development. [score:5]
Identification of more members of SPL, ARF and NAC family of transcription factors in wheat would help in delineating more targets of miR156, miR160 and miR164, respectively and further provide insights on their role in plant development. [score:4]
All the known miRNAs that were studied showed down-regulation, with miR156, miR164 and miR5139 exhibiting more than 2-fold change, in response to high temperature stress (Figure 5A). [score:4]
The maximum numbers of targets were 46 in case of MIR164 family and 24 for tae_16. [score:3]
We analyzed the expression pattern of 9 known miRNAs (miR156, miR160, miR164, miR166a, miR167a, miR171a, miR396d, miR1135 and miR5139) and 9 true novel miRNAs (tae_6, tae_7, tae_10, tae_15, tae_19, tae_22, tae_27, tae_44 and tae_45) (Figure 4 and Figure S2). [score:3]
We further validated the target genes: SPL-like, ARF10 and NAC1 of wheat miR156, miR160 and miR164, respectively by RLM-RACE method. [score:3]
However, miR164 showed enhanced expression levels only when seedlings were exposed to potassium -deficient condition. [score:3]
More than one member of wheat ARF and NAC family was targeted by miR160 and miR164, respectively [86]. [score:3]
miR156, miR160 and miR164 were found to target wheat homologs of A. thaliana SPL gene, ARF10 and NAC1 [16], [58], [78]– [80]. [score:3]
Interestingly, levels of miR164 that remained unchanged in response to 150 mM NaCl solution displayed more than four-fold decline when 250 mM NaCl of salt solution was applied hydroponically. [score:1]
[1 to 20 of 12 sentences]
5
[+] score: 40
A unique set of miRNAs expressed or differentially expressed in embryogenic callus were identified in rice (Luo et al., 2006; Chen et al., 2014); miRNAs and their target genes were analyzed in cotton (Gossypium hirsutum L. ) revealing their regulation role during somatic embryogenesis (Yang et al., 2013), miRNA expression during somatic embryogenesis in citrus (Citrus sinensis L. ) shows that miR156, miR168, and miR171 as well as miR159, miR164, miR390, and miR397 are related to somatic embryo induction or formation (Wu et al., 2011). [score:10]
In this study, miR164, miR1432, and tae-miR9657b-5p were all significantly up-regulated in IMEs at 3 DC and/or 6 DC compared to MEs but down-regulated in IME15 vs. [score:6]
It was reported that miR164 targeting NAC transcription factor family was a key regulator in diverse developmental processes, including embryonic, vegetative, floral, and lateral root development (Mallory et al., 2004). [score:6]
It also revealed that miR164 targeted transcription factor that regulated a group of genes important for cell differentiation and development in Larixleptolepis (Zhang et al., 2010). [score:5]
A total of 14 target genes, of which miRNAs have been validated by qRT-PCR or were involved in embryogenic callus formation (including tae-miR164, zma-miR156k-5p, ata-miR396b-5p, sbi-miR1432, novel-m0837_5p, novel-m0411_5p, novel-m0713_3p, novel-m0130_3p and novel-m0143_5p), were selected for expression profile validation by qRT-PCR. [score:5]
Research in citrus somatic embryogenesis showed that expressions of the miR156 and miR164 were significantly higher in embryogenic callus than in non-embryogenic callus (Wu et al., 2011), suggesting that these two miRNAs were involved in embryogenic callus formation. [score:3]
Targets function analysis indicated that some miRNA families, such as miR156, miR164, miR1432, miR398, miR397 and some novel miRNAs, play important roles in callus formation. [score:3]
It suggested that miR164, miR1432, tae-miR9657b-5p as well as novel-m0868_3p, novel-m0874_3p and novel-m0220_3p might be involved in embryogenic callus formation in wheat. [score:1]
IME6, including three members of miR156 family, miR164, miR1432, tae-miR9657b-5p and several novel miRNAs. [score:1]
[1 to 20 of 9 sentences]
6
[+] score: 37
In addition, miR319 -targeted TCP transcription factors can positively regulate the expression of miR164 and miR396, leading to reduced activities of NAC and GRF transcription factors and an inhibition of cell proliferation [11, 45]. [score:8]
By comparing the expression of miR164 and its validated targets, NAC and PSK1 (Fig 4A), we found that the negative correlation with miR164 was more evident for PSK1 than NAC (S5 Fig), inferring that PSK1 might be a major target of miR164 in grain development. [score:8]
For example, miR156 and miR164 from Group II both showed high expression levels at 14 DPA, miR166, miR393 and Ta-miRn8 from Group I showed gradual decreases in expression from 7 to 28 DPA, whereas expression of miR9666 from Group IV increased gradually from 7 to 28 DPA (Figs 6A and S5). [score:7]
For 13 highly conserved miRNA families differentially expressed in wheat grain development (Fig 3), five (miR165/166, miR171, miR393, miR396 and miR444), three (miR156, miR164 and miR168), two (miR319 and miR827), one (miR408) and two miRNAs (miR159 and miR167) belonged to Group I, II, III, IV and V, respectively. [score:4]
In particular, miR164 was validated to regulate a new class of targets encoding phytosulfokine-alpha 1 precursor (PSK1). [score:4]
The targets of miR164 were confirmed to be NAC transcription factors and PSK1. [score:3]
Most verified targets/miRNA modules were highly conserved among monocots and dicots, such as SPLs/miR156, NACs/miR164, HOXs/miR166, ARFs/miR167, SCL1/miR171, TCPs/miR319, GRFs/miR396, SPX/miR827 (Fig 4A). [score:3]
[1 to 20 of 7 sentences]
7
[+] score: 37
Thus, the down-regulation of these TFs might result in the repression of miR164, confirming a fine regulation of cellular processes implicated in FHB response, and might correlates with the differential expression detected in auxin metabolism-related genes observed in the experiment. [score:7]
This miRNA was also identified as implicated in the regulation of auxin signaling, since it was demonstrated that TFs belonging to the TCP class activate miR164 expression and inhibit auxin signaling and transport (Koyama et al., 2010). [score:6]
miRNA164 is implicated in the response to abiotic stresses, like drought and salinity (Golldack et al., 2011) and targets NAC TFs, which are implicated in abiotic stress response and are regulators of plant disease resistance (Nuruzzaman et al., 2013). [score:6]
For a further general validation of the NGS data, a sample of randomly selected miRNAs (miR9666a—MT22, miR9774—MT33, miR164—MT6, miR167c—MT17, miR168—MT8, and miR9653b—MT61) was tested by RT-qPCRs in 2DL+ 2-2618/null 2-2890 giving comparable results in term of up- and down-regulation with however different FCs (Table 4), thus confirming results. [score:4]
Among the miRNAs differentially regulated, we observed that miR164 was more repressed by infection the S NIL and more expressed in the infected rachis of the R NIL, with respect to the S one. [score:4]
According to literature, predicted putative targets of the miR164 family were identified among DEGs differentially regulated among R and S NILs (Traes_7dl_91cfe828f and Traes_7al_628a69311). [score:4]
miR164, which targets NAC TFs, was repressed by infection in both genotypes and tissues but at higher levels in S null 2-2890 (FC of about−12 in the S NIL and of −2.79 and −8.25 in the R genotype; MT6; Table 2 and Supplementary Data Sheet 2-Sheet 1). [score:3]
TCP transcription factors regulate the activities of ASYMMETRIC LEAVES1 and miR164, as well as the auxin response, during differentiation on leaves in Arabidopsis. [score:2]
This behavior might be related to the negative effect of miR164. [score:1]
[1 to 20 of 9 sentences]
8
[+] score: 32
Other miRNAs from this paper: 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-MIR164a, osa-MIR164b, osa-MIR166a, osa-MIR166b, osa-MIR166c, osa-MIR166d, osa-MIR166e, osa-MIR166f, osa-MIR167a, osa-MIR167b, osa-MIR167c, osa-MIR169a, osa-MIR396a, osa-MIR396b, osa-MIR396c, osa-MIR397a, osa-MIR397b, osa-MIR398a, osa-MIR398b, osa-MIR156k, osa-MIR156l, osa-MIR159a, osa-MIR159b, osa-MIR159c, osa-MIR159d, osa-MIR159e, osa-MIR159f, osa-MIR160e, osa-MIR160f, osa-MIR164c, osa-MIR164d, osa-MIR164e, osa-MIR166k, osa-MIR166l, osa-MIR167d, osa-MIR167e, osa-MIR167f, osa-MIR167g, osa-MIR167h, osa-MIR167i, osa-MIR168a, osa-MIR168b, 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-MIR172a, osa-MIR172b, osa-MIR172c, osa-MIR166g, osa-MIR166h, osa-MIR166i, osa-MIR172d, osa-MIR167j, osa-MIR166m, osa-MIR166j, osa-MIR164f, zma-MIR156d, zma-MIR156f, zma-MIR156g, zma-MIR156b, zma-MIR156c, zma-MIR156e, zma-MIR156a, zma-MIR156h, zma-MIR156i, zma-MIR160a, zma-MIR160c, zma-MIR160d, zma-MIR160b, zma-MIR164a, zma-MIR164d, zma-MIR164b, zma-MIR164c, zma-MIR169a, zma-MIR169b, zma-MIR167a, zma-MIR167b, zma-MIR167d, zma-MIR167c, zma-MIR160e, zma-MIR166a, zma-MIR166h, zma-MIR166e, zma-MIR166i, zma-MIR166f, zma-MIR166g, zma-MIR166b, zma-MIR166c, zma-MIR166d, zma-MIR171b, zma-MIR172a, zma-MIR172d, zma-MIR172b, zma-MIR172c, osa-MIR396e, zma-MIR396b, zma-MIR396a, zma-MIR156j, zma-MIR159a, zma-MIR159b, zma-MIR159c, zma-MIR159d, zma-MIR166k, zma-MIR166j, zma-MIR167e, zma-MIR167f, zma-MIR167g, zma-MIR167h, zma-MIR167i, zma-MIR168a, zma-MIR168b, zma-MIR169c, zma-MIR169f, zma-MIR169g, zma-MIR169h, zma-MIR169i, zma-MIR169k, zma-MIR169j, zma-MIR169d, zma-MIR169e, zma-MIR172e, zma-MIR166l, zma-MIR166m, zma-MIR156k, zma-MIR160f, tae-MIR159a, tae-MIR159b, tae-MIR160, tae-MIR167a, tae-MIR1127a, osa-MIR169r, osa-MIR396f, zma-MIR396c, zma-MIR396d, osa-MIR2275a, osa-MIR2275b, zma-MIR2275a, zma-MIR2275b, zma-MIR2275c, zma-MIR2275d, osa-MIR396g, osa-MIR396h, osa-MIR396d, zma-MIR156l, zma-MIR159e, zma-MIR159f, zma-MIR159g, zma-MIR159h, zma-MIR159i, zma-MIR159j, zma-MIR159k, zma-MIR160g, zma-MIR164e, zma-MIR164f, zma-MIR164g, zma-MIR164h, zma-MIR166n, zma-MIR167j, zma-MIR169l, zma-MIR169m, zma-MIR169n, zma-MIR169o, zma-MIR169p, zma-MIR169q, zma-MIR169r, zma-MIR396e, zma-MIR396f, zma-MIR396g, zma-MIR396h, zma-MIR397a, zma-MIR397b, zma-MIR398a, zma-MIR398b, hvu-MIR156a, tae-MIR156, hvu-MIR159b, hvu-MIR159a, hvu-MIR166a, tae-MIR167b, hvu-MIR168, hvu-MIR169, tae-MIR169, hvu-MIR397a, tae-MIR398, tae-MIR171b, hvu-MIR166b, hvu-MIR166c, osa-MIR2275c, osa-MIR2275d, tae-MIR1122b, tae-MIR9653a, tae-MIR9654a, tae-MIR9656, tae-MIR9657a, tae-MIR9659, tae-MIR9660, tae-MIR1127b, tae-MIR9661, tae-MIR396, tae-MIR9665, tae-MIR2275, tae-MIR9667, tae-MIR167c, tae-MIR1120b, tae-MIR397, tae-MIR1130b, tae-MIR5384, tae-MIR9675, tae-MIR1120c, tae-MIR9679, tae-MIR9657b, hvu-MIR397b, hvu-MIR156b, tae-MIR9653b
miR164 regulates NAC-domain target genes in Arabidopsis, and perturbation of miR164-directed regulation causes developmental abnormalities in embryonic, vegetative and floral organs [12]. [score:7]
Although low expression (976 RPM and 921 RPM, respectively) was observed for both miR164 and miR396 families, their expression level was still about 4 to 200 times greater than any of the 6 remaining highly conserved miRNA families (Table  2 and Additional file 2). [score:5]
miR160 and miR164 targeted Auxin response factor (ARF) and NAC transcription factor (NAC), respectively (Additional file 11), which control key steps in plant development. [score:4]
In the present study, the expression level of miR164 increased with wheat grain development, from 135 RPM in the 5-d seeds to more than 240 RPM in the 10-d and 20-d seeds (Table  2). [score:4]
Of the 15 known miRNA families, 4 (miR169, miR166, miR164 and miR160) were preferentially expressed in the developing seeds (with the logarithm of the fold changes of 0.3 ~ 3.0 in the developing seeds, more than those in the flag leaves) (Figure  3a, Table  2). [score:3]
Four of the 15 known miRNA families, including miR169, miR166, miR164 and miR160 were preferentially expressed in the developing seeds with the logarithm of the fold changes of 0.3 ~ 3.0. [score:3]
From 5 days post-anthesis to 20 days post-anthesis, miR164 and miR160 increased in abundance, whereas miR169 decreased, suggesting that these miRNAs have coordinating functions in the different developmental stages of wheat seed. [score:2]
From 5 days post-anthesis to 20 days post-anthesis, miR164 and miR160 increased in abundance in the developing seeds, whereas miR169 decreased, suggesting their coordinating functions in the different developmental stages of wheat seed. [score:2]
This result is consistent with the previously reported functions of miR164. [score:1]
From 5 DPA to 20 DPA, miR164 and miR160 increased in abundance, whereas miR169 decreased (Figure  3a, Table  2). [score:1]
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[+] score: 27
Compared with J19, tae-miR319 was up-regulated both in T349 and L21; tae-miR164 and tae-miR9678-3p were up-regulated both in T349 and J22 and tae-miR9659-3p was up-regulated in T349, L21 and J22 (Table 2). [score:9]
miR319 targets TCP transcription factors and miR164 targets NAC domain gene, which contributes to leaf development [33]. [score:6]
In another study, miRNA microarray analysis showed that miR156, miR167, miR164, miR319, miR396 and miR166 were up-regulated in leaf or root of bread wheat under drought stress [43]. [score:4]
Moreover, the NAC domain gene is known as the target gene of miR164 in rice [40], and TCP genes have been shown to regulate miR164 in Arabidopsis [34]. [score:4]
2009; 106(52): 22534– 9. 34 Koyama T, Mitsuda N, Seki M, Shinozaki K, Ohme-Takagi M. TCP transcription factors regulate the activities of ASYMMETRIC LEAVES1 and miR164, as well as the auxin response, during differentiation of leaves in Arabidopsis. [score:2]
tae-miR164 TC416811 CA642340 TC390810 TC376198 NAC domain-containing protein TC394945 TC373635 TC371535 TC410195 TC429623 CA704421 TC393137 TC421735 Efflux ABC transporter permease protein, TC369110 CA681504 TC398164 TC406273 Harpin -induced protein 1 containing protein, TC394481 TC371551 TC370694 TC382290 Mitogen-activated protein kinase homolog 1, TC375350 DR741669 TC368951 DR741517 ZmRR2 protein, TC378810 BE515854 TC435250 TC430604 Phytosulfokine-alpha 1 precursor, CK211831 TC445043 TC458082 CA648036 OTU-like cysteine protease family protein, TC408311 TC407532 TC430881 TC407133 Sugar transport protein. [score:1]
Several known miRNAs (miR319, miR164, miR167, and miR156) are involved in drought response. [score:1]
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[+] score: 25
Considering that the ‘sponge’ of miR160 is highly expressed in early panicles and seeds after pollination and that the ‘sponge’ of miR164 is specifically expressed in pistil and anther, it is intriguing to associate these two lncRNAs with the functions of miR160/miR164 in regulating floral and/or seed development. [score:7]
Both XLOC_0063639 and XLOC_007072 dramatically increased the mRNA abundance of corresponding miRNA (OsmiR160 and OsmiR164) targets (LOC_Os02g36880 for miR164 [59]; LOC_Os06G47150 and LOC_Os10g33940 for miR160 [60]) in their transiently expressed protoplasts, suggesting that XLOC_0063639 and XLOC_007072 indeed inhibited the functions of OsmiR160 and miR164, respectively (Figure  6C,E-H). [score:7]
We further verify the functions of a set of lncRNAs that are preferentially expressed in reproductive stages and identify several lncRNAs as competing endogenous RNAs (ceRNAs), which sequester miR160 or miR164 in a type of target mimicry. [score:5]
After experimental verification, two of these reproduction-related lncRNAs were confirmed to be target mimics of miR160 and miR164, respectively. [score:3]
It has been reported that a decrease in miR160 causes abnormal flower morphology, reduced fertility and aberrant seeds and that miR164 plays a role in specifying particular cell types during the later stages of flower development [61- 63]. [score:2]
Interestingly, 65 of the identified rice lincRNAs were predicted to be ‘decoys’ of conserved miRNAs, such as miR160, miR164, miR168, miR169 and miR408 (Additional files 9 and 10). [score:1]
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[+] score: 24
The conserved miRNA-target interaction previously proved to be essential for floral development in plant, like tae-miR156-SPL17, tae-miR159a-GAMYB, tae-miR160-ARF18, tae-miR164-CUC2 and tae-miR167a-ARF12, showed very little changes in expression between SL and NN plants at MMC and MP stages (Additional file  19: Figure S7). [score:6]
The relative expression of selected targets from degradome data for miR156 (SPL17), miR159 (GAMYB), miR160 (ARF18), miR164 (CUC2), miR167 (ARF12) and miR1127b (DAD1). [score:5]
c and d Screening of significant differentially expressed genes with Volcano chart by comparing SL1 and NN1, SL2 and NN2 There are several conserved miRNAs that have been reported to be essential for reproductive development in plants, including miR156/7, miR159, miR160, miR164, miR165/166, miR167, miR169, miR172, miR319 and miR396 [14]. [score:4]
No obvious expression changes of tae-miR159a, tae-miR160, tae-miR164, tae-miR167a and tae-miR167c were found between SL1 and NN1, and between SL2 and NN2 samples. [score:3]
Error bars indicated s. d. based on three biological replicates (** P < 0.01, Student’s t-test) There are several conserved miRNAs that have been reported to be essential for reproductive development in plants, including miR156/7, miR159, miR160, miR164, miR165/166, miR167, miR169, miR172, miR319 and miR396 [14]. [score:2]
According to previous studies, miR156, miR159, miR160, miR164, miR167, miR319, miR396 and miR5200 were mainly involved in floral development [14, 28]. [score:2]
In this study, miR156, miR159, miR160, miR164, miR167, miR319 and miR396 were identified from our data. [score:1]
Some conserved and classical miRNAs such as, miR156, miR159, miR160, miR164, miR167, miR396, miR5200, etc. [score:1]
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12
[+] score: 19
It was found that after powdery mildew infection miR156 was down-regulated both in JD8 and JD8-Pm30, miR164 was down-regulated only in JD8-pm30 but not in JD8, miR393 was down-regulated only in JD8-pm30 but not in JD8 (Figure 4). [score:10]
In Arabidopsis, miR156 and miR164 were induced by infection with plant virus TYMV p69, and also induced in transgenic Arabidopsis plants expressing the viral silencing suppressor P1/HC-Pro [52]. [score:5]
Group 3 contained 10 miRNAs, in which miR156, miR159, miR164 and miR396 were significantly decreased with same expression pattern in JD8 and JD8- Pm30. [score:3]
fusiforme [32], and miR156, miR164 and miR160 were induced in tobacco after plant virus's infection [51]. [score:1]
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13
[+] score: 13
In addition, miR164 targets the NAC family transcription factors, namely, CUC1 (cup-shaped cotyledon1) and CUC2, to regulate petal number [71, 72], age -dependent cell death [73] in Arabidopsis, and abiotic and biotic stress response in wheat [37]. [score:4]
Furthermore, previous studies suggested that CUC1 and CUC2 regulation by miR164 prevents organ boundary enlargement and formation of extra petals during flower development [76, 77]. [score:3]
Redundancy and specialization among plant microRNAs: role of the MIR164 family in developmental robustness. [score:2]
Thus, we speculated that the down-regulation of miR164 may also contribute to large grain and strong stalk of the mutant strain Yunong 3114; however, these findings should be further investigated. [score:2]
miR164 also contributes to the developmental robustness of Arabidopsis [74] and may be necessary to establish proper plant architecture in cultivated rice [75]. [score:2]
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[+] score: 13
Other miRNAs from this paper: 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-MIR164a, osa-MIR164b, osa-MIR167a, osa-MIR167b, osa-MIR167c, osa-MIR169a, osa-MIR171a, osa-MIR393a, osa-MIR396a, osa-MIR396b, osa-MIR396c, osa-MIR397a, osa-MIR397b, osa-MIR399a, osa-MIR399b, osa-MIR399c, osa-MIR399d, osa-MIR399e, osa-MIR399f, osa-MIR399g, osa-MIR399h, osa-MIR399i, osa-MIR399j, osa-MIR399k, 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-MIR164c, osa-MIR164d, osa-MIR164e, osa-MIR167d, osa-MIR167e, osa-MIR167f, osa-MIR167g, osa-MIR167h, osa-MIR167i, osa-MIR168a, osa-MIR168b, 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-MIR171h, osa-MIR393b, osa-MIR408, osa-MIR172d, osa-MIR171i, osa-MIR167j, osa-MIR164f, osa-MIR390, osa-MIR439a, osa-MIR439b, osa-MIR439c, osa-MIR439d, osa-MIR439e, osa-MIR439f, osa-MIR439g, osa-MIR439h, osa-MIR439i, osa-MIR396e, osa-MIR444a, tae-MIR159a, tae-MIR159b, tae-MIR160, tae-MIR167a, tae-MIR171a, tae-MIR399, tae-MIR408, tae-MIR444a, osa-MIR169r, osa-MIR444b, osa-MIR444c, osa-MIR444d, osa-MIR444e, osa-MIR444f, osa-MIR396f, osa-MIR396g, osa-MIR396h, osa-MIR396d, tae-MIR156, tae-MIR319, tae-MIR167b, tae-MIR169, tae-MIR444b, tae-MIR171b, tae-MIR396, tae-MIR167c, tae-MIR397
Twelve conserved miRNA families (miR156/157, miR159/319, miR160, miR164, miR165/166, miR167, miR169, miR170/171, miR172 and miR444) have been predicted to target 24 transcription factors, including squamosa promoter binding proteins, MYB, NAC1, homeodomain-leucine zipper protein, auxin response factor, CCAAT -binding protein, scarecrow-like protein, APETELA2 protein and MADS box protein (Additional data file 2). [score:3]
The expression patterns of miR156, miR159, miR164, and miR171, which are conserved miRNAs, were examined by (Figure 5). [score:3]
However, Arabidopsis miR164 displayed higher levels of expression in roots and inflorescences than in leaves [53, 54]. [score:3]
MiR164 showed moderate expression in roots and was barely detectable in other tissues. [score:2]
This analysis revealed perfect matching of nine miRNA families, miR159, miR160, miR164, miR167, miR169, miR170, miR399, miR408 and miR444, to 14 ESTs. [score:1]
These include miRNA156/157, miR159, miR160, miR164, miR165/166, miR167, miR168, miR169, miR170/171, miR172, miR319, miR390, miR393, miR396, miR397, miR399 and miR408, which are conserved in diverse plant species (Table 2). [score:1]
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[+] score: 13
We have also confirmed strong expression of miR164 in various wheat organs (roots, leaves, inflorescences, seeds) at different developmental stages (Gasparis et al. unpublished). [score:4]
miR164 targets NAC transcription factors and is conserved among dicot and monocot plants. [score:3]
Artificial microRNA for silencing of Pina or Sina genes (Pina-derived amiR) and Pinb or Sinb genes (Pinb-derived amiR) was constructed on the base on precursor miRNA of wheat Tae-miR164 (Mirbase. [score:1]
In this research, a silencing cassette was designed based on the endogenous precursor of wheat miRNA Tae-miR164. [score:1]
Secondary structure of the wild type of the Tae-miR164 precursor (A). [score:1]
amiRNAs were designed based on conserved precursor miRNA of wheat, Tae-miR164. [score:1]
Artificial microRNA cassettes for silencing Pina and Pinb genes in wheat, and Sina and Sinb genes in triticale, were constructed based on precursor microRNA of wheat Tae-miR164 (Mirbase. [score:1]
In the next step, native fragments of microRNA of 21 bp in precursor Tae-miR164 were replaced with the sequence complementary to the Pin and Sin genes. [score:1]
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miRNA Target Alignment score Alignment range Cleavage site Annotation tae-miR164 Unigene8858 4 270–290 281WRKY2 transcription factor [Triticum aestivum] 2b-zma-miR169a_1ss21AG Unigene14969 2 855–875 866nuclear transcription factor Y subunit A-3 [Zea mays] 1a-tae-miR1433-p5 Unigene14969 4 853–875 866nuclear transcription factor Y subunit A-3 [Zea mays] PC-162 Unigene130584 3 123–146 137Cysteine-rich receptor-like protein kinase 41 [Triticum urartu] PC-190 Unigene118084 1.5 120–140 131Peroxisome assembly protein 12 [Aegilops tauschii] PC-277 Unigene148631 4 134–157 148dehydrogenase [Aequorivita capsosiphonis] PC-305 Unigene11831 3 628–651 642disease resistance protein [Aegilops tauschii] PC-328 Unigene53415 3 115–137 128LRR receptor-like serine/threonine-protein kinase [Aegilops tauschii] PC-375 Unigene85325 4 947–970 961diacylglycerol kinase [Arabidopsis thaliana] PC-377 Unigene36720 1 248–264 255RNA -binding protein 39 [Triticum urartu] PC-452 Unigene12315 3.5 99–122 1133-hydroxyisobutyryl-CoA hydrolase [Zea mays] PC-490 Unigene8446 1.5 888–908 899TBC domain-containing protein [Brachypodium distachyon] To confirm whether the candidate target genes were involved in the interactions between wheat and Pst, six unigenes involved in stress signal transduction were selected for transcript accumulation analysis in wheat after challenge with CYR32 at adult stage (AI24, AI48, and AI120), respectively (Table 2). [score:7]
The target gene of tae-miR164, a novel NAC transcription factor from the NAM subfamily, negatively regulates resistance of wheat to stripe rust. [score:4]
For example, both unigene8858 and tae-miR164 showed no significant induction when wheat was challenged with Pst. [score:1]
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[+] score: 9
Some of the conserved miRNAs differentially expressed in response to powdery mildew infection in wheat such as miR156, miR159, miR164, miR171, and miR396 were downregulated whereas miR393, miR444, and miR827 were upregulated, respectively [16]. [score:9]
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[+] score: 7
The downregulation of NAC1 transcripts by either auxin -induced miR164 or ubiquitination may decrease auxin signals [42, 43]. [score:4]
Similarly, the expression levels of miR156, miR159, miR164, miR167a, miR171, miR395 and miR6000 have been shown to be altered in wheat under UV-B stress [13]. [score:3]
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[+] score: 7
Similarly, six miRNAs were identified as UV-B-responsive miRNAs in wheat (Wang et al., 2013), in which miR159, miR167a, and miR171 are upregulated and miR156, miR164, miR395 are downregulated. [score:7]
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[+] score: 6
Four members of the miR164 family (osa-miR164a, osa-miR164b, osa-miR164d, and osa-miR164e) were found to target NAC1 (ONAC15; Os07g48550.1) and NAC21/NAC22 (ONAC104; Os08g10080.1). [score:3]
A pathway involving EIN2, ORE1, and miR164 in Arabidopsis has been shown to regulate age -dependent leaf senescence and cell death [59]. [score:2]
This may indicate one of the mechanisms of osa-miR164 mediated senescence-resistance in rice [76]. [score:1]
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21
[+] score: 5
Among the known miRNAs, total 523 ESTs and 18 full-length cDNAs as target genes were found for miR164 while only one full-length cDNA (RFL_Contig3586) as target was predicted for miR5077 (S2 and S4 Tables). [score:5]
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[+] score: 5
Some conserved plant miRNAs such as miR159 (Triticum, French bean, cotton, maize), miR164 (Triticum, Brachypodium, sugarcane), miR172 (Triticum, Arabidopsis, Brachypodium, Oryza, cotton) and miR393 (Triticum, Oryza, Medicago, Pinguicula, Arabidopsis) control the expression of key TFs which regulate development and signaling pathways (Gupta et al., 2014). [score:5]
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23
[+] score: 4
Feng H. Duan X. Zhang Q. Li X. Wang B., 2014  The target gene of tae-miR164, a novel NAC transcription factor from the NAM subfamily, negatively regulates resistance of wheat to stripe rust. [score:4]
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24
[+] score: 4
Other miRNAs from this paper: ath-MIR164a, ath-MIR164b, ath-MIR164c
The target gene of tae-miR164, a novel NAC transcription factor from the NAM subfamily, negatively regulates resistance of wheat to stripe rust. [score:4]
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25
[+] score: 3
We employed a gene-specific 5′-rapid amplification of cDNA ends (RACE) assay to isolate cleavage remnants for 15 target genes, including 2 SPL genes for miR156, 1 ARF gene for miR160, 2 NAC genes for miR164, 2 HOMEOBOX-LEUCINE ZIPPER genes for miR166, 5 genes encoding nuclear transcription factor Y subunit A proteins for miR169, 1 scarecrow-like protein gene for miR171 and 1 AP2 gene for miR172, and 1 gene encoding a C3HC4 type zinc finger protein that was regulated by miR444 in wheat. [score:3]
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26
[+] score: 3
In Arabidopsis, 16 miRNAs, including miR156, miR159, miR164, miR165, miR168, miR169, miR172, miR319, miR389, miR393, miR396, miR397, miR398, miR400, miR402, and miR408, were identified by RNA gel blot analysis [12], microarray analysis [13], and a computation -based approach to be related to cold response [14]. [score:1]
In Populus, 19 cold stress-responsive miRNAs were identified by miRNA microarray [15], among which miR156, miR164, miR168, miR169, miR393, and miR396 were overlapped with those in Arabidopsis. [score:1]
In addition, seven miRNAs, miR159, miR164, miR169, miR319, miR398, miR1029, and miR1126 were also identified to be cold-responsive in the seedling of wheat [9]. [score:1]
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27
[+] score: 3
Gene expression proved that they are implicated in Xingzi 9104 responding to stripe rust pathogene CYR 32, such as miR156, miR160, miR164, miR167, miR393, miR398, miR829, etc [33], while Xin et al substantiated that some of them are involved in powdery mildew stress [34]. [score:3]
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28
[+] score: 2
Kim J. H., Woo H. R., Kim J., Lim P. O., Lee I. C., Choi S. H., Hwang D., Nam H. G. (2009) Trifurcate feed‐forward regulation of age‐dependent cell death involving miR164 in Arabidopsis. [score:2]
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[+] score: 2
Li Z Peng J Wen X Guo H Ethylene-insensitive3 is a senescence -associated gene that accelerates age -dependent leaf senescence by directly repressing miR164 transcription in ArabidopsisPlant cell. [score:2]
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30
[+] score: 1
Sixteen miRNA families were shown to be putatively present on chromosome 5A: two of them (miR164 and miR167) were found only in the short arm, three families (miR156, miR399 and miR2118) were found only in the long arm, while the remaining eleven families were found in both arms (Table 3). [score:1]
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