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17 publications mentioning ghr-MIR396a

Open access articles that are associated with the species Gossypium hirsutum and mention the gene name MIR396a. Click the [+] symbols to view sentences that include the gene name, or the word cloud on the right for a summary.

[+] score: 36
Analyzing miRNA expression between WT and its GMS mutant anthers revealed that Gh-miR394, Gh-miR396, Gh-miR398, Gh-miR399, and Gh-miR482 were differentially expressed during the meiosis stage, three of which (i. e., Gh-miR394, Gh-miR398, and Gh-miR399) were also differentially expressed during the tetrad stage and two of which (i. e., Gh-miR398 and Gh-miR482) together with Gh-miR827 were differentially expressed during the uninucleate microspore stage (Additional file 3). [score:9]
On the contrary, the GMS mutant anthers at the tetrad stage had similar (in Gh-miR167) or lower (in Gh-miR396 and Gh-miR398) expression levels of the miRNAs, but their target genes had significantly higher expression levels, as compared with the WT (Figure  6). [score:6]
In the current study, Gh-miR396 was differentially expressed between ‘Dong A’ WT and its GMS mutant anthers in the meiosis stage, and it had a higher level of expression in the GMS mutant anthers in the uninucleate microspore stage. [score:5]
To examine miRNA expression during three stages of anther development as well as validate the sequencing results, Gh-miR156a, Gh-miR166a, Gh-miR167, Gh-miR172, Gh-miR396a and Gh-miR398 were assayed to validate if these miRNAs had significant differences in expressions between the WT and GMS mutant anthers (Additional file 8). [score:5]
However, whether the opposite expressions of Gh-miR396 and its target gene in the GMS mutant anthers leading to a significant reduction in ethylene synthesis remains to be studied. [score:5]
Gh-miR396 was identified to target ACC oxidase 3 (TC280456), a key branch-point enzyme involved in ethylene biosynthetic process [42]. [score:3]
The results of degradome analysis revealed that Gh-miR156, Gh-miR166, Gh-miR167, Gh-miR172, Gh-miR396, and Gh-miR398 directed cleavages of SBP-box (TC238023, Figure  5a), class III HD-Zip like protein (TC237127, Figure 5b), auxin response factor 4 (TC256045, Figure 5c), AP2 (TC275039, Figure 5d), ACC oxidase 3 (TC280456, Figure 5e), and Cu/Zn superoxide dismutase (TC237725, Figure 5f) genes, respectively, which are key genes involved in hormone signals, cell patterning, and anti-oxidant metabolism. [score:2]
In each of these t-plots, a clear peak for the absolute number of tags is found at the predicted cleavage site for Gh-miR156, Gh-miR166, Gh-miR167, Gh-miR172, Gh-miR396, or Gh-miR398 (Additional file 7), indicated that there are correspondences between the cleavage positions and significant sites on the t-plots. [score:1]
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[+] score: 21
These included five auxin response factors (ARF) targeted by miR160; two No Apical Meristem domain transcription factor (NAC) targeted by miR164; one HD-Zip protein targeted by miR165; one ARF6 gene targeted by miR167; one NF-YA3 gene targeted by miR169; one AP2 targeted by miR172; one MYB targeted by miR319; one growth -regulating factor (GRF) gene targeted by miR396; and one MYB targeted by miR828. [score:20]
miR160, miR171, miR172 and miR396 contained nine members; miR167 and miR399 contained seven members; miR159, miR164 and miR390 contained five members; and miR168, miR169, miR319, miR393 and miR482 contained four members. [score:1]
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[+] score: 17
Especially, ghr-miR156a/b/d, ghr-miR160, ghr-miR166b, ghr-miR482b, ghr-miR2948-5p, ghr-miR2949a-5p, and ghr-miR7508 as well as 21 novel miRNAs were specifically down-regulated only in salt-tolerant genotype (E7) after 4 h and 24 h, and ghr-miR169a, ghr-miR394a/b, ghr-miR396a/b, ghr-miR482a, and ghr-miR7505 as well as 21 novel miRNAs were up-regulated, suggesting that these miRNAs might play more important roles in the cotton response to salt stress. [score:7]
In addition, four known miRNAs (ghr-miR393, ghr-miR396a/b, and ghr-miR482a) and 15 novel miRNAs, all of which target growth -regulating factors, basic helix-loop-helix (bHLH) DNA -binding superfamily proteins, GRAS family transcription factors, and heat shock proteins, etc. [score:4]
In addition, ghr-miR396a/b was predicted to target growth -regulating factors. [score:4]
Compared with the results of known miRNA expression profiles from previous studies, the results showed that miR156, miR166, miR169, miR393, miR396, and miR482 were DE only in the salt-tolerant genotype (E7) but not significantly in the salt-sensitive genotype (NH) or in TM-1 genotype [90]. [score:2]
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[+] score: 11
Expression of miR165/166, miR159, miR160, miR162, miR167, miR171, miR172, miR390, miR393, miR394, miR396, miR403, miR408, miR503, miR535 and miR894 were significantly up-regulated in mutant compared to the wild-type, whereas miR156/157, miR164, miR168, miR169, miR395, miR397 and miR399 showed down-regulation in mutant relative to the wild-type. [score:8]
In this study, several members of putative MYB families were predicted to have binding sites for miR169, miR396, miR399 and miR858, suggesting the potential regulation of fiber development. [score:3]
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[+] score: 10
Other highly expressed families, including miR396, miR482, miR159, miR1697, miR394, and miR156, were represented by approximately 100,000 RPM, whereas miR319, miR2118, miR858, miR828, miR829 and miR1310 families had less than 100 RPM. [score:3]
Of these, 108 members of miR156, miR159, miR164, miR167, miR171, miR172, miR393, miR396, miR397, and miR482 families were differentially expressed at 4 and 24 h under salt stress in the salt-tolerant genotype. [score:3]
Some miRNAs, including miR156, miR164, miR166, miR171, miR172, miR393, miR396, and miR397, exhibited altered expression profiles in at least one genotype in our study. [score:3]
miR166 was the largest family, with 29 members, while miR159, miR396, miR171, and miR156 possessed 28, 26, 23, and 20 members, respectively. [score:1]
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[+] score: 8
And all the 11 differentially expressed miRNAs in cotton including ghr-miR162a, ghr-miR164a, ghr-miR167a, ghr-miR2949b, ghr-miR2949a-5p, ghr-miR390a, ghr-miR394a, ghr-miR396a, ghr-miR399d, ghr-miR482a and ghr-miR827 were up regulated in dwarf mutant (A1) but down regulated in tall-culm mutant (A3) compared with the wild type (A9), and three miRNA, ghr-miR479, ghr-miR2949a-3p and ghr-miR393b-5p were highly expressed in the dwarf mutant (A1) compared with that in the tall-culm mutant (A3) (Table  4). [score:5]
Of these, 16 miRNA families including miR160,miR162, miR164, miR167, miR168, miR171, miR172, miR2949, miR2950, miR390, miR394, miR396, miR399, miR403, miR482, miR530 were up regulated in dwarf mutant (A1) but down regulated in tall-culm mutant (A3) compared with the wild type (A9). [score:2]
The fold Change of aly-miR396a-3p, pab-miR3711, ath-miR396b, and ath-miR171b was more than 4 with 4.43, 4.49, 4.95 and 5.01, respectively. [score:1]
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[+] score: 7
Among the identified targets of known miRNAs, squamosa-promoter binding protein (SBP) and squamosa-promoter binding protein-like (SPL) transcription factor genes, NAM, ATAF, and CUC (NAC) domain-containing protein genes, Class III homeodomain leucine-zipper (HD-Zip) protein genes, APETALA2 (AP2)-like factor genes, F-box/RNI-like superfamily protein (TIR1) genes, and growth -regulating factor (GRF) genes were targeted by several conserved miRNA families (including miR156, miR164, miR166, miR172, miR393, and miR396) that play significant roles in gene regulation (Table S4). [score:7]
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[+] score: 7
Chromosomes on which miR396 and miR396a are located are also on homologous chromosomes (Chr07 and Chr16), and their target, TC35055, has two sites. [score:3]
The miR396 (Additional file 7: Figure S2K) and miR396a families (Additional file 7: Figure S2L) have the same targets as depicted in the network diagram: TC35055 and TC39199. [score:3]
Families are as follows: A: miR156c family; B: miR157b family; C: miR159 family; D: miR164 family; E: miR167 family; F: miR169a family; G: miR169b family; H: miR172 family; I: miR393 family; J: miR395 family; K: miR396 family; L: miR396a family; M: miR397 family; N: miR397a family; O: miR403 family; P: miR479 family. [score:1]
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[+] score: 5
For instance, most conserved miRNAs (miR156, miR159, miR164, miR165/166, miR167, miR169, miR171, miR172, miR319, and miR396) target mRNAs encoding diverse families of transcription factors such as SPLs, ARFs, MYBs, TCPs, NACs, HD-ZIPs, NFY subunits, AP2-like factors, SCLs and GRFs, and the miRNA -guided regulation of these factors is critical for plant development. [score:5]
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[+] score: 5
Some of these miRNAs and their predicted targets were also found to be expressed differentially in terms of dose dependence and tissue dependence under salinity and drought conditions, such as miR156-SPL2, miR162-DCL1, miR159-TCP3, miR395-APS1, and miR396-GRF1 (Yin et al., 2012; Wang et al., 2013). [score:5]
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[+] score: 3
Other miRNAs from this paper: ghr-MIR396b
The Arabidopsis microRNA396-GRF1/GRF3 regulatory module acts as a developmental regulator in the reprogramming of root cells during cyst nematode infection. [score:3]
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[+] score: 3
Furthermore, 13 miRNAs have been nominated to be regulated differentially against drought stress: miR156, miR166, miR171, miR396, miR398, miR474, miR528, miR894, miR896, miR1432, miR1450, miR1867, and miR1881 in wild emmer wheat (Kantar et al., 2011). [score:2]
In Arabidopsis, miR156, miR158, miR159, miR165, miR167, miR168, miR169, miR171, miR319, miR393, miR394, and miR396 have been reported for drought stress (Liu et al., 2009). [score:1]
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[+] score: 3
In 2007, three individual miRNAs, including miR414, miR396, miR782, were predicted to target fiber protein Fb23, callous synthase and fiber quinone-oxidoreductase, respectively; these three genes play essential roles in the process of cotton fiber differentiation [34]. [score:3]
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[+] score: 2
Our sequencing efforts have confirmed 20 microRNA signatures from 8 families including miR-156 (7), miR-156* (1), miR-166 (4), miR-167 (1), miR-168 (1), miR-169 (2), miR-171 (2), miR-396 (1), and miR-457 (1), suggesting their involvement during early root development of cotton seed germination process (Figure 5). [score:2]
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[+] score: 2
In addition, miR396 in opium poppy was involved in regulation of secondary metabolite synthesis [66]. [score:2]
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[+] score: 2
Furthermore, miR160-3p and miR396-3p were even more abundant than miR160-5p and miR396-5p (Additional file 1: Table S1); similar phenomena were also reported in a study of the small RNAs in Brassica napus[25]. [score:1]
The miR156 (six members), miR159/319 (four members), miR165/166 (five members), miR167 (three members), miR169_1 (six members), miR169_2 (five members), miR172 (five members), miR396 (three members), miR399 (six members), miR477 (six members), miR482 (seven members) and miR7504b (three members) families all contained more than two distinct members (“member” column in Additional file 2: Table S2). [score:1]
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[+] score: 1
The maximum copy number was observed for gar-miR7504 with 17 members and gar-miR166, gar-miR8771, gar-miR7484, gar-miR171, gar-miR156, gar-miR396, gar-miR7502, gar-miR164, gar-miR395, gar-miR8672 and gar-miR167 have 14, 14, 11, 9, 8, 7, 7, 6, 6, 6 and 5 precursor members, respectively. [score:1]
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