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4 publications mentioning mes-MIR390

Open access articles that are associated with the species Manihot esculenta and mention the gene name MIR390. Click the [+] symbols to view sentences that include the gene name, or the word cloud on the right for a summary.

1
[+] score: 63
Other miRNAs from this paper: rco-MIR156a, rco-MIR156b, rco-MIR156c, rco-MIR156d, rco-MIR156e, rco-MIR156f, rco-MIR156g, rco-MIR156h, rco-MIR159, rco-MIR160a, rco-MIR160b, rco-MIR162, rco-MIR164a, rco-MIR164b, rco-MIR164c, rco-MIR164d, rco-MIR166a, rco-MIR166b, rco-MIR166c, rco-MIR166d, rco-MIR166e, rco-MIR167a, rco-MIR167b, rco-MIR167c, rco-MIR168, rco-MIR169a, rco-MIR169b, rco-MIR169c, rco-MIR171a, rco-MIR171b, rco-MIR171c, rco-MIR171d, rco-MIR171e, rco-MIR171f, rco-MIR171g, rco-MIR172, rco-MIR319a, rco-MIR319b, rco-MIR319c, rco-MIR319d, rco-MIR390a, rco-MIR390b, rco-MIR393, rco-MIR395a, rco-MIR395b, rco-MIR395c, rco-MIR395d, rco-MIR395e, rco-MIR396, rco-MIR398a, rco-MIR398b, rco-MIR399a, rco-MIR399b, rco-MIR399c, rco-MIR399d, rco-MIR399e, rco-MIR399f, rco-MIR408, rco-MIR160c, mes-MIR159a, mes-MIR167a, mes-MIR168a, mes-MIR171a, mes-MIR172a, mes-MIR399a, mes-MIR408, mes-MIR156a, mes-MIR156b, mes-MIR156c, mes-MIR156d, mes-MIR156e, mes-MIR156f, mes-MIR156g, mes-MIR156h, mes-MIR156i, mes-MIR156j, mes-MIR156k, mes-MIR159b, mes-MIR159c, mes-MIR159d, mes-MIR160a, mes-MIR160b, mes-MIR160c, mes-MIR160d, mes-MIR160e, mes-MIR160f, mes-MIR160g, mes-MIR160h, mes-MIR162, mes-MIR164a, mes-MIR164b, mes-MIR164c, mes-MIR164d, mes-MIR166a, mes-MIR166b, mes-MIR166c, mes-MIR166d, mes-MIR166e, mes-MIR166f, mes-MIR166g, mes-MIR166h, mes-MIR166i, mes-MIR166j, mes-MIR167b, mes-MIR167c, mes-MIR167d, mes-MIR167e, mes-MIR167f, mes-MIR167g, mes-MIR167h, mes-MIR169a, mes-MIR169b, mes-MIR169c, mes-MIR169d, mes-MIR169e, mes-MIR169f, mes-MIR169g, mes-MIR169h, mes-MIR169i, mes-MIR169j, mes-MIR169k, mes-MIR169l, mes-MIR169m, mes-MIR169n, mes-MIR169o, mes-MIR169p, mes-MIR169q, mes-MIR169r, mes-MIR169s, mes-MIR169t, mes-MIR169u, mes-MIR169v, mes-MIR169w, mes-MIR169x, mes-MIR169y, mes-MIR169z, mes-MIR169aa, mes-MIR169ab, mes-MIR169ac, mes-MIR171b, mes-MIR171c, mes-MIR171d, mes-MIR171e, mes-MIR171f, mes-MIR171g, mes-MIR171h, mes-MIR171i, mes-MIR171j, mes-MIR171k, mes-MIR172b, mes-MIR172c, mes-MIR172d, mes-MIR172e, mes-MIR172f, mes-MIR319a, mes-MIR319b, mes-MIR319c, mes-MIR319d, mes-MIR319e, mes-MIR319f, mes-MIR319g, mes-MIR319h, mes-MIR393a, mes-MIR393b, mes-MIR393c, mes-MIR393d, mes-MIR395a, mes-MIR395b, mes-MIR395c, mes-MIR395d, mes-MIR395e, mes-MIR396a, mes-MIR396b, mes-MIR396c, mes-MIR396d, mes-MIR396e, mes-MIR396f, mes-MIR399b, mes-MIR399c, mes-MIR399d, mes-MIR399e, mes-MIR399f, mes-MIR399g, mes-MIR477h, mes-MIR477i, mes-MIR477a, mes-MIR477b, mes-MIR477c, mes-MIR477d, mes-MIR477e, mes-MIR477f, mes-MIR477g, mes-MIR482, mes-MIR828a, mes-MIR828b, mes-MIR171l, mes-MIR398, mes-MIR399h, mes-MIR477j, mes-MIR477k, mes-MIR2118, mes-MIR3627, mes-MIR169ad
miR167, miR390 and miR393 were also differentially expressed under chilling stress; miR167 was up-regulated under CA while miR393 was up-regulated under CCA in reference to the normal condition. [score:9]
As expected, the three TAS3 loci and the targeting miRNA (i. e., miR390), 3 auxin response factors, and auxin signaling F-box genes were targeted by miR167 and miR393 and two GRAS family transcription factors were targets of miR171. [score:7]
The regions around the two target sites had almost identical sequences, suggesting a strong conservation on and near the miR390 target sites. [score:5]
CS 11(2), 1(6), 0(1) miR390-TAS3c binding site #2 CA + CCA 5(1) CS 5(1) miR167-ARF8 CA + CCA 9(1), 7(1) 001923 m ARF8 auxin response factor 8 miR393-ABF3 NC 10(1), 17(1) 004520 m AFB3 auxin signaling F-box 3 CA + CCA 11(8) CS 11(7) tasiAFR3-ARF3 CA + CCA 11(1) 002399 m ETT/ARF3 Transcriptional factor B3 family protein/auxin-responsive factor AUX/IAA-related CS 11(6) tasiARF1-ARF3 CS 11(1) 002399 m ETT/ARF3 tasiARF1-ARF4 CA + CCA 10(1) 001979 m ARF4 auxin response factor 4 CS 10(1) tasiARF2-NAC2 CS 11(2) 027253 m NAC2 NAC domain containing protein 2 siReport31-CUL4 CA + CCA 18(1) 001768 m CUL4 cullin4 Each target site was detected by ten clones. [score:3]
Moreover, nearly perfect matches around the 10-nt from the 5′-end of miR390 binding sites suggested that both binding sites were cleaved, which were further supported by the phased sequencing reads starting at the position of the cleavage sites of both 5′- and 3′-end target sites (Figure  2B, right panel). [score:3]
Importantly, a substantial number of sequencing reads, arranged in phasing, appeared in the regions defined by the two miR390 target sites (Figure  2A, Additional file 1: Figures S4A, S5A and S6A). [score:3]
As expected, three TAS3 loci and the targeting miRNA, i. e., miR390, were found to be conserved in Cassava and castor bean. [score:3]
Interestingly, the regions between the two pairs of miR390 target sites on TAS3c in the two Euphorbiaceous species had the same length of 190-nt and shared a high sequence identity (Figure  2C). [score:3]
tasiARFs are derived from well-conserved TAS3 genes targeted by miR390 in plants. [score:3]
The yellow colored are the miR390 targets. [score:3]
Among these small RNAs, 5,884 (66.4% of the total of 8,479) were arranged in phase with reference to the putative cleavage site at either the 5′ or 3′ target site of miR390. [score:3]
These shifted siRNAs followed the phasing register set by siRNA D8-, indicating that siRNAs arising from D8- could target and cleave the original transcripts, setting a secondary phasing register different from the register set by miR390. [score:3]
We identified two novel TAS3 loci in both Cassava and castor bean genomes by searching for a pair of miR-390 target sites (Figures  2, Additional file 1: Figures S4, S5 and S6). [score:3]
The two binding sites of miR390 on TAS3c gene have a highly complementary sequence match (Figure  2B, left panel). [score:1]
The two putative cleavage sites of miR390 on TAS3c were cleaved (Table  4), in agreement with the reads from the RNA-seq data (Figure  2B). [score:1]
miR390-triggered siRNAs from TAS3b in castor bean. [score:1]
The registers to which 5′ and 3′ miR390 cleavage sites are aligned are indicated by miR390 5′ and miR390 3′. [score:1]
Figure 2 miR390-triggered siRNAs from TAS3c in Cassava. [score:1]
In Arabidopsis, for example, a TAS3 gene has a pair of miR390 binding sites, which define and produce a single RNA strand that is subsequently turned into a double stranded RNA by RDR6 polymerase. [score:1]
miR390-triggered siRNAs from TAS3b in Cassava. [score:1]
ta-siRNAs triggered by miR390 and Novel TAS3 genes. [score:1]
miR390-triggered siRNAs from TAS3c in castor bean. [score:1]
Similar cleavage sites of miR390 on the TAS3c gene appeared in castor bean (Additional file 1: Figures S6D and S6E). [score:1]
The two arrows marked with miR390 indicate the cleavage sites of miR390 on TAS3c. [score:1]
Eight known miRNA families – miR156, miR160, miR166, miR171, miR319, miR390, miR395, and miR408 – were evolutionally conserved across the 9 species (Table  2). [score:1]
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2
[+] score: 22
Other miRNAs from this paper: mes-MIR159a, mes-MIR167a, mes-MIR168a, mes-MIR171a, mes-MIR172a, mes-MIR399a, mes-MIR408, mes-MIR156a, mes-MIR156b, mes-MIR156c, mes-MIR156d, mes-MIR156e, mes-MIR156f, mes-MIR156g, mes-MIR156h, mes-MIR156i, mes-MIR156j, mes-MIR156k, mes-MIR159b, mes-MIR159c, mes-MIR159d, mes-MIR160a, mes-MIR160b, mes-MIR160c, mes-MIR160d, mes-MIR160e, mes-MIR160f, mes-MIR160g, mes-MIR160h, mes-MIR162, mes-MIR164a, mes-MIR164b, mes-MIR164c, mes-MIR164d, mes-MIR166a, mes-MIR166b, mes-MIR166c, mes-MIR166d, mes-MIR166e, mes-MIR166f, mes-MIR166g, mes-MIR166h, mes-MIR166i, mes-MIR166j, mes-MIR167b, mes-MIR167c, mes-MIR167d, mes-MIR167e, mes-MIR167f, mes-MIR167g, mes-MIR167h, mes-MIR169a, mes-MIR169b, mes-MIR169c, mes-MIR169d, mes-MIR169e, mes-MIR169f, mes-MIR169g, mes-MIR169h, mes-MIR169i, mes-MIR169j, mes-MIR169k, mes-MIR169l, mes-MIR169m, mes-MIR169n, mes-MIR169o, mes-MIR169p, mes-MIR169q, mes-MIR169r, mes-MIR169s, mes-MIR169t, mes-MIR169u, mes-MIR169v, mes-MIR169w, mes-MIR169x, mes-MIR169y, mes-MIR169z, mes-MIR169aa, mes-MIR169ab, mes-MIR169ac, mes-MIR171b, mes-MIR171c, mes-MIR171d, mes-MIR171e, mes-MIR171f, mes-MIR171g, mes-MIR171h, mes-MIR171i, mes-MIR171j, mes-MIR171k, mes-MIR172b, mes-MIR172c, mes-MIR172d, mes-MIR172e, mes-MIR172f, mes-MIR319a, mes-MIR319b, mes-MIR319c, mes-MIR319d, mes-MIR319e, mes-MIR319f, mes-MIR319g, mes-MIR319h, mes-MIR393a, mes-MIR393b, mes-MIR393c, mes-MIR393d, mes-MIR395a, mes-MIR395b, mes-MIR395c, mes-MIR395d, mes-MIR395e, mes-MIR396a, mes-MIR396b, mes-MIR396c, mes-MIR396d, mes-MIR396e, mes-MIR396f, mes-MIR397, mes-MIR399b, mes-MIR399c, mes-MIR399d, mes-MIR399e, mes-MIR399f, mes-MIR399g, mes-MIR482, mes-MIR535a, mes-MIR535b, mes-MIR827, mes-MIR2275, mes-MIR171l, mes-MIR398, mes-MIR399h, mes-MIR2118, mes-MIR535c, mes-MIR535d, mes-MIR169ad
0147251.g012 Fig 12 Many miRNAs, such as miR390 can direct their targets to generate phased trans-acting siRNAs (tasiRNAs) biogenesis, and the tasiRNAs then regulate other gene expression [46, 94]. [score:7]
0147251.g012 Fig 12Many miRNAs, such as miR390 can direct their targets to generate phased trans-acting siRNAs (tasiRNAs) biogenesis, and the tasiRNAs then regulate other gene expression [46, 94]. [score:7]
Twenty-one miRNA families (miR156, miR159, miR160, miR162, miR164, miR166-169, miR171, miR172, miR319, miR390, miR393-399, and miR408) seem to be universally expressed among diverse plant species (Fig 8). [score:3]
They found that the miR390 family was the only tasiRNA initiator to be present in all plant species studied and at high abundances but not expressed as a 22 nt. [score:3]
Eight miRNA families (miR156, miR159/319, miR160, miR166, miR171, miR408, miR390/391, and miR395) have been identified in the common ancestor of all embryophytes. [score:1]
Notably, the miR390 identified in this study was not the typical 22 nt tasiRNA triggering 22 nt but was found to be 21 nt. [score:1]
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3
[+] score: 10
10 conserved miRNA families had highly increased expression (log [2]fold > 2) in response to Xam infection (Figure 2a), including miR160 and miR167 families which are both known to target auxin response factors (ARFs) [13] and miR393 and miR390 families which are also known to regulate auxin signaling [13]. [score:6]
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]
miRNAs induction was found to be involved in regulating auxin signaling: miR160, miR167, miR390 and miR393 [11, 13]. [score:2]
[1 to 20 of 3 sentences]
4
[+] score: 7
Other miRNAs from this paper: mes-MIR159a, mes-MIR167a, mes-MIR171a, mes-MIR156a, mes-MIR156b, mes-MIR156c, mes-MIR156d, mes-MIR156e, mes-MIR156f, mes-MIR156g, mes-MIR156h, mes-MIR156i, mes-MIR156j, mes-MIR156k, mes-MIR160a, mes-MIR160b, mes-MIR160c, mes-MIR160d, mes-MIR160e, mes-MIR160f, mes-MIR160g, mes-MIR160h, mes-MIR166a, mes-MIR166b, mes-MIR166c, mes-MIR166d, mes-MIR166e, mes-MIR166f, mes-MIR166g, mes-MIR166h, mes-MIR166i, mes-MIR166j, mes-MIR167b, mes-MIR167c, mes-MIR167d, mes-MIR167e, mes-MIR167f, mes-MIR167g, mes-MIR167h, mes-MIR169a, mes-MIR169b, mes-MIR169c, mes-MIR169d, mes-MIR169e, mes-MIR169f, mes-MIR169g, mes-MIR169h, mes-MIR169i, mes-MIR169j, mes-MIR169k, mes-MIR169l, mes-MIR169m, mes-MIR169n, mes-MIR169o, mes-MIR169p, mes-MIR169q, mes-MIR169r, mes-MIR169s, mes-MIR169t, mes-MIR169u, mes-MIR169v, mes-MIR169w, mes-MIR169x, mes-MIR169y, mes-MIR169z, mes-MIR169aa, mes-MIR169ab, mes-MIR169ac, mes-MIR171b, mes-MIR171c, mes-MIR171d, mes-MIR171e, mes-MIR171f, mes-MIR171g, mes-MIR171h, mes-MIR171i, mes-MIR171j, mes-MIR171k, mes-MIR319f, mes-MIR393a, mes-MIR393b, mes-MIR393c, mes-MIR393d, mes-MIR395a, mes-MIR395b, mes-MIR395c, mes-MIR395d, mes-MIR395e, mes-MIR477h, mes-MIR477i, mes-MIR477a, mes-MIR477b, mes-MIR477c, mes-MIR477d, mes-MIR477e, mes-MIR477f, mes-MIR477g, mes-MIR482, mes-MIR530b, mes-MIR535a, mes-MIR535b, mes-MIR828a, mes-MIR828b, mes-MIR171l, mes-MIR390b, mes-MIR397b, mes-MIR398, mes-MIR399h, mes-MIR477j, mes-MIR477k, mes-MIR2118, mes-MIR482b, mes-MIR482d, mes-MIR535c, mes-MIR535d, mes-MIR1446b, mes-MIR6445, mes-MIR9386, mes-MIR169ad, mes-MIR11891, mes-MIR11892
miR390 was originally found to trigger Arabidopsis TAS3 tasiRNA biogenesis and to regulate auxin response factor expression [32, 33]. [score:4]
This study further confirms miR390 as a trigger of secondary siRNA production from noncoding transcripts (TAS3) in cassava as has been in many other plant species since its identification in Arabidopsis (reviewed in [1]). [score:1]
Additionally, a member of the miR390 family, mes-miR390b, showed high levels in the reproductive tissues and callus. [score:1]
This confirms the evolutionary conservation of the miR390-TAS3 interaction in this branch of the plant kingdom. [score:1]
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