sort by

7 publications mentioning osa-MIR1428e

Open access articles that are associated with the species Oryza sativa and mention the gene name MIR1428e. Click the [+] symbols to view sentences that include the gene name, or the word cloud on the right for a summary.

1
[+] score: 61
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-MIR164a, osa-MIR164b, osa-MIR166a, osa-MIR166b, osa-MIR166c, osa-MIR166d, osa-MIR166e, osa-MIR166f, osa-MIR169a, osa-MIR393a, 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-MIR156k, osa-MIR156l, osa-MIR159a, osa-MIR159b, osa-MIR159c, osa-MIR159d, osa-MIR159e, osa-MIR159f, osa-MIR164c, osa-MIR164d, osa-MIR164e, osa-MIR166k, osa-MIR166l, 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-MIR166g, osa-MIR166h, osa-MIR166i, osa-MIR393b, 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-MIR164a, zma-MIR164d, zma-MIR164b, zma-MIR164c, zma-MIR169a, zma-MIR169b, zma-MIR166a, zma-MIR166h, zma-MIR166e, zma-MIR166i, zma-MIR166f, zma-MIR166g, zma-MIR166b, zma-MIR166c, zma-MIR166d, osa-MIR444a, zma-MIR395b, zma-MIR395c, zma-MIR395a, zma-MIR156j, zma-MIR159a, zma-MIR159b, zma-MIR159c, zma-MIR159d, zma-MIR166k, zma-MIR166j, zma-MIR168a, zma-MIR168b, zma-MIR169c, zma-MIR169f, zma-MIR169g, zma-MIR169h, zma-MIR169i, zma-MIR169k, zma-MIR169j, zma-MIR169d, zma-MIR169e, zma-MIR166l, zma-MIR166m, zma-MIR393a, zma-MIR156k, osa-MIR395m, osa-MIR395n, osa-MIR395o, osa-MIR395p, osa-MIR395q, osa-MIR395v, osa-MIR395w, osa-MIR395r, osa-MIR820a, osa-MIR820b, osa-MIR820c, osa-MIR1425, osa-MIR1428a, osa-MIR169r, osa-MIR444b, osa-MIR444c, osa-MIR444d, osa-MIR444e, osa-MIR444f, osa-MIR1428b, osa-MIR1428c, osa-MIR1428d, osa-MIR1874, osa-MIR2055, osa-MIR827, osa-MIR1428f, osa-MIR1428g, zma-MIR396d, osa-MIR396d, zma-MIR156l, zma-MIR159e, zma-MIR159f, zma-MIR159g, zma-MIR159h, zma-MIR159i, zma-MIR159j, zma-MIR159k, zma-MIR164e, zma-MIR164f, zma-MIR164g, zma-MIR164h, zma-MIR166n, zma-MIR169l, zma-MIR169m, zma-MIR169n, zma-MIR169o, zma-MIR169p, zma-MIR169q, zma-MIR169r, zma-MIR393b, zma-MIR393c, zma-MIR395d, zma-MIR395e, zma-MIR395f, zma-MIR395g, zma-MIR395h, zma-MIR395i, zma-MIR395j, zma-MIR395k, zma-MIR395l, zma-MIR395m, zma-MIR395n, zma-MIR395o, zma-MIR395p, zma-MIR827, osa-MIR395x, osa-MIR395y, zma-MIR444a, zma-MIR444b
For instance the osa-miR1428e target, Os03g0289100, which encodes a predicted protein kinase (see Additional file 2), is expressed but its expression level is very low as revealed by MPSS signatures corresponding to these genes [9]. [score:7]
Osa-miR1428e had lowest level of expression and was preferentially expressed in panicles (inflorescences) while osa-miR1874 was detected only in fertilised panicles. [score:5]
Also in the case of osa-miR1428e this was difficult to assess as this miRNA is expressed mainly in panicles, with very little expression in seedlings (Figure 1B). [score:5]
We could not validate cleavage of predicted targets for osa-miR1428e, osa-miR2055 and osa-miR1874 by 5'RACE. [score:3]
For osa-miR1428e, osa-miR2055 and osa-miR1874 we could not detect any 5'RACE product to confirm cleavage of the predicted target. [score:3]
Predicted targets for osa-miR2055, osa-miR1428e, and osa-miR1874. [score:3]
Click here for file Predicted targets for osa-miR2055, osa-miR1428e, and osa-miR1874. [score:3]
Predicted targets for osa-miR2055, osa-miR1428e, and osa-miR1874 are shown in panels A, B and C, respectively. [score:3]
The osa-miR1428e, osa-miR2055 and osa-miR1874 are predicted to target genes with different functions (see Additional file 2). [score:3]
osa-miR1428e and osa-miR1428d derive from the same locus. [score:1]
Here we present potential primary precursors for osa-miR1425, osa-miR1428e, osa-miR2055 and osa-miR159a. [score:1]
In any case, the cloned osa-miR1428e can be distinguished from all other osa-miR1428 isoforms by one or two nucleotide differences (Figure 3C), clearly indicating that it derives by processing from the osa-miR1428 tandem miRNA precursor. [score:1]
For all our genes we used the RAP DB annotation on IRGSP4 built 4. The different osa-miR1428 locus, shown in Figure 3 correspond to: chr3a: chromosome 3, position 23836656, 23837655 chr3b:. [score:1]
We also identified a nearly identical tandem osa-miR1428 gene in Oryza sativa sp indica showing that this tandem miRNA gene has been conserved in other rice subspecies (not shown). [score:1]
Remarkably, the host intron for osa-miR1428.1 is 3531 nucleotides which is much larger than the 150–200 nucleotide average for plant introns [19]. [score:1]
We do not know whether the intronic osa-miR1428.1 is produced in vivo, as is the case for several intronic miRNAs [1]. [score:1]
The osa-miR1425 and osa-miR1428e were cloned twice in the seedling and panicle libraries respectively, while the 3 others were cloned only once. [score:1]
The cloned sequence corresponds to osa-miR1428e produced from the second stem-loop and differs by one nucleotide from osa-miR1428d (Figures 3B & 3C). [score:1]
B) Stem-loop predicted structures for osa-miR1428e and osa-miR1428d found in AK102950. [score:1]
osa-miR1428e, a tandem miRNA gene precursor. [score:1]
The only exception is osa-miR1428.1 which maps to an intron of gene Os03g0791800 which gives an mRNA (AK067703) coding for a conserved ubiquitin-carrier protein. [score:1]
The first corresponds to the Os03g0611100 gene which gives a large precursor encoding tandem copies of osa-miR1428e and osa-miR1428d stem-loop structures (Figure 3). [score:1]
C) Alignment of osa-miR1428 isoforms from the different loci. [score:1]
For all our genes we used the RAP DB annotation on IRGSP4 built 4. The different osa-miR1428 locus, shown in Figure 3 correspond to: chr3a: chromosome 3, position 23836656, 23837655 chr3b:. [score:1]
Nucleotides in small cases indicate divergence related to the cloned osa-miR1428e sequence. [score:1]
The hatched boxes indicate repeated sequenced in the mRNA including the two predicted stem-loop structures containing osa-miR1428e identified in our library, and the predicted osa-miR1428d. [score:1]
Figure 3 osa-miR1428e gene and transcript precursor. [score:1]
In addition to the tandem osa-miR1428e locus, we found 10 other loci encoding osa-miR1428 homologs (Figure 3C) flanked by highly conserved genomic regions including and extending beyond the predicted stem-loop structures (not shown). [score:1]
The cloned osa-miR1428e is encoded by a single locus (Os03g0611100) on chromosome 3 which gives a 1179 nucleotide mRNA (AK102950) with no protein coding capacity. [score:1]
Finally we also identified by BLASTN analysis a nearly identical tandem osa-miR1428 gene conserved in Oryza sativa ssp indica, another rice subspecies, showing that the osa-miR1428 tandem miRNA gene is conserved and could have an important function in rice (not shown). [score:1]
Remarkably none of the additional osa-miR1428 loci had a tandem osa-miR1428 stem-loop organisation. [score:1]
Remarkably, this mRNA has two osa-miR1428 stem-loops in tandem (Figure 3A). [score:1]
The high sequence conservation of these osa-miR1428 loci suggests that they could be functional. [score:1]
The miR1428.1 to miR1428.7 refer to predicted miRNAs not annotated in Sanger database. [score:1]
Thus the osa-miR1428e/d gene is a fourth example in flowering plants producing a tandemly arrayed miRNA precursor but for the first time it concerns a non-conserved miRNA. [score:1]
[1 to 20 of 35 sentences]
2
[+] score: 16
0145424.g007 Fig 7 (A) Real-time RT-PCR analysis of the relative expression of osa-miR159b, osa-miR159f, osa-miR1428e and OsmiR203 and their corresponding targets in embryos of 0, 12, and 24 HAI and ABA- or GA- treated seeds. [score:5]
In contrast, osa-miR1428e-3p was induced significantly by GA, implying that GA displayed antagonistic role to ABA through up -regulating the inhibitor of the positive regulator in ABA signaling. [score:5]
One is OSK3, targeted by rice known miRNA osa-miR1428e-3p. [score:3]
Real-time RT-PCR results indicated that rice special miRNA osa-miR1428e-3p was increased during seed imbibition and induced greatly by GA. [score:1]
The 5ʹ-RACE also detected the canonical cleavage sites on the OSK3 and LOC_Os11g37540 for osa-miR1428e-3p and OsmiR-203, while most clones carried fragments matched to the downstream sequences, suggesting that mRNA fragments induced by miRNA -mediated cleavage were easily degraded from the 5ʹ terminal (Fig 7B). [score:1]
S2 Fig Lanes 3–19 are the 17 known rice miRNAs: osa-miR156abcei, osa-miR156dj, osa-miR160e, osa-miR166j, osa-miR167abc, osa-miR168a, osa-miR171bcde, osa-miR171h, osa-miR319b, osa-miR390, osa-miR535, osa-miR820abc, osa-miR1428e, osa-miR1862abc, osa-miR1882e, osa-miR1883a, and osa-miR5150. [score:1]
[1 to 20 of 6 sentences]
3
[+] score: 6
Conversely, 14 miRNAs, i. e. miR5799, miR529b, miR399i, miR2863a, miR2118o, miR2118e, miR1874-5p, miR1874-3p, miR1846d-3p, miR1428f-5p, miR1428e-5p, miR1428d, miR1428c and miR1428b, were significantly down-regulated compared with the non-transgenic CK. [score:3]
This indicated that the miR1428 family may respond to Cry1Ac and EPSPS insertion or expression independent from the site of insertion. [score:3]
[1 to 20 of 2 sentences]
4
[+] score: 5
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-MIR397a, osa-MIR397b, osa-MIR398a, osa-MIR398b, 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-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-MIR166g, osa-MIR166h, osa-MIR166i, osa-MIR393b, osa-MIR408, osa-MIR167j, osa-MIR166m, osa-MIR166j, osa-MIR164f, osa-MIR390, osa-MIR528, osa-MIR529a, osa-MIR812a, osa-MIR812b, osa-MIR812c, osa-MIR812d, osa-MIR812e, osa-MIR815c, osa-MIR818d, osa-MIR529b, osa-MIR1425, osa-MIR1428a, osa-MIR169r, osa-MIR1436, osa-MIR1428b, osa-MIR1428c, osa-MIR1428d, osa-MIR1858a, osa-MIR1861a, osa-MIR1861b, osa-MIR1861c, osa-MIR1861d, osa-MIR1861e, osa-MIR1861f, osa-MIR1861g, osa-MIR1861h, osa-MIR1861i, osa-MIR1861j, osa-MIR1861k, osa-MIR1861l, osa-MIR1861m, osa-MIR1861n, osa-MIR812f, osa-MIR1862d, osa-MIR812g, osa-MIR812h, osa-MIR812i, osa-MIR812j, osa-MIR1428f, osa-MIR1428g, osa-MIR812k, osa-MIR812l, osa-MIR812m, osa-MIR812n, osa-MIR812o, osa-MIR812p, osa-MIR812q, osa-MIR812r, osa-MIR812s, osa-MIR812t, osa-MIR812u, osa-MIR812v, osa-MIR1861o
MiR1428e-3p targets a sucrose non-fermenting-1-related kinase 1 (SnRK1b) gene, which has a regulating role in starch accumulation [20]. [score:3]
MiR156 and miR166 play a role in overall spikelets development, while miR167, miR164, miR812, miR1861, miR1428 and miR45 play a specific role in the differentiation during rice grain filling (Fig. 8 ). [score:2]
[1 to 20 of 2 sentences]
5
[+] score: 3
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-MIR166a, osa-MIR166b, osa-MIR166c, osa-MIR166d, osa-MIR166e, osa-MIR166f, osa-MIR167a, osa-MIR167b, osa-MIR167c, osa-MIR169a, osa-MIR393a, osa-MIR394, 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-MIR396a, osa-MIR396b, osa-MIR396c, osa-MIR397b, osa-MIR398a, osa-MIR398b, 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-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-MIR166g, osa-MIR166h, osa-MIR166i, osa-MIR393b, osa-MIR167j, osa-MIR166m, osa-MIR166j, osa-MIR440, osa-MIR396e, osa-MIR528, osa-MIR529a, osa-MIR530, osa-MIR395m, osa-MIR395n, osa-MIR395o, osa-MIR395p, osa-MIR395q, osa-MIR395v, osa-MIR395w, osa-MIR395r, osa-MIR529b, osa-MIR1428a, osa-MIR169r, osa-MIR1428b, osa-MIR1428c, osa-MIR1428d, osa-MIR1862a, osa-MIR1862b, osa-MIR1862c, osa-MIR1866, osa-MIR1862d, osa-MIR1862e, osa-MIR1877, osa-MIR1428f, osa-MIR1428g, osa-MIR396f, osa-MIR2275a, osa-MIR2275b, osa-MIR2871a, osa-MIR2871b, osa-MIR396g, osa-MIR396h, osa-MIR396d, osa-MIR395x, osa-MIR395y, osa-MIR1862f, osa-MIR1862g, osa-MIR2863c, osa-MIR5159, osa-MIR5337a, osa-MIR5485, osa-MIR2275c, osa-MIR2275d, osa-MIR5337b
This list includes miR1428, miR160, miR1866, miR2275, miR2871, and miR530 that were regulated by drought stress, miR1866, miR2275, miR2871, miR394, and miR529 that were regulated by cold stress, and miR1866 by salt stress. [score:3]
[1 to 20 of 1 sentences]
6
[+] score: 3
As shown in Figure 3, the expression patterns of most selected miRNAs detected by qRT-PCR were consistent with the sequencing data, such as osa-miR167a-5p, osa-miR169h, osa-miR2879, osa-miR530-5p_R+1, osa-miR1428e-3p. [score:3]
[1 to 20 of 1 sentences]
7
[+] score: 1
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-MIR162a, 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-MIR394, 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-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-MIR162b, 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-MIR172a, osa-MIR172b, osa-MIR172c, osa-MIR166g, osa-MIR166h, osa-MIR166i, osa-MIR408, osa-MIR172d, osa-MIR167j, osa-MIR166m, osa-MIR166j, osa-MIR164f, osa-MIR413, osa-MIR414, osa-MIR415, osa-MIR416, osa-MIR417, osa-MIR418, osa-MIR419, osa-MIR426, osa-MIR390, osa-MIR396e, osa-MIR444a, osa-MIR530, osa-MIR535, osa-MIR395m, osa-MIR395n, osa-MIR395o, osa-MIR395p, osa-MIR395q, osa-MIR395v, osa-MIR395w, osa-MIR395r, osa-MIR818a, osa-MIR818b, osa-MIR818c, osa-MIR818d, osa-MIR818e, osa-MIR820a, osa-MIR820b, osa-MIR820c, osa-MIR1423, osa-MIR1425, osa-MIR1427, osa-MIR1428a, osa-MIR1429, osa-MIR1430, osa-MIR1431, osa-MIR1432, osa-MIR169r, osa-MIR444b, osa-MIR444c, osa-MIR444d, osa-MIR444e, osa-MIR444f, osa-MIR810b, osa-MIR1435, osa-MIR1436, osa-MIR1437a, osa-MIR1440a, osa-MIR1441, osa-MIR1442, osa-MIR1439, osa-MIR1428b, osa-MIR1428c, osa-MIR1428d, osa-MIR1428f, osa-MIR1428g, osa-MIR396f, osa-MIR396g, osa-MIR396h, osa-MIR396d, osa-MIR395x, osa-MIR395y, osa-MIR1440b, osa-MIR818f, osa-MIR1437b
Five of the new miRNAs (Osa-miR1425, Osa-miR1427, Osa-miR1428, Osa-miR1431 and Osa-miR1439) with single locus in rice genome could be detected using gel blot analysis out of eight miRNAs tested (Figure 3). [score:1]
[1 to 20 of 1 sentences]