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2 publications mentioning rco-MIR167a

Open access articles that are associated with the species Ricinus communis and mention the gene name MIR167a. Click the [+] symbols to view sentences that include the gene name, or the word cloud on the right for a summary.

[+] score: 39
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-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-MIR390, 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
Not only did miRNAs target Auxin response factors, e. g., miR167 targeted ARF8, but secondary tasi-ARFs originating from the three TAS3 genes targeted auxin response factors as well, e. g., tasiARF1 and tasiARF3 targeted ARF3 (002399 m) (Figure  4). [score:9]
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]
More importantly, miR167 has been reported to target auxin response factors, important transcription factors that regulate auxin response genes. [score:4]
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]
The miRNAs that we tested could indeed cleave their targets, as shown by the cleavage sites of miR167 on ARF8 and that of miR393 on ABF3 (Table  4). [score:3]
For example, miR167 and miR393 were reported to be dysregulated in Cassava of the current study and A. thaliana and wheat [40, 42, 43]. [score:2]
Another 10 annotated miRNA families – miR159, miR162, miR164, miR167, miR168, miR169, miR172, miR393, miR396, and miR398 – were also conserved in at least eight species (Table  2). [score:1]
For example, two miRNA families (miR159 and miR167), which had more than 7 K reads, can also be detected in qRT-PCR validation (Figure  1B, Additional file 2: Tables S4 and S6). [score:1]
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[+] score: 17
Based on their abundance in the libraries, most members of miR156 family were of higher abundance in vegetable tissues (leaf and root), whereas the rco-miR156e had higher expression in developing seeds than in the leaf and root; the members of miR167 and miR164 had obviously preferential expression among tissues (see Table 2 and Table S2). [score:5]
Compared to the target genes identified in other plants, rco-miR167, rco-miR172 and rco-miR482 exhibited similar targets to their homologs in Arabidopsis [47] and maize [25]. [score:4]
High-throughput sequencing produced a large number of miRNA sequences, allowing us to determine the relative abundance of miRNAs in castor bean; the frequencies of miRNA families varied largely in different libraries, e. g. most members of miRNA156, miRNA167, miRNA168, miRNA535 were abundant in all libraries, whereas members of miRNA160, miRNA169, miRNA319, miRNA393, miRNA395, miRNA398 and miRNA399 were scarce in all libraries (see Table 2), indicating that expression level of miRNAs varies significantly among different miRNA families in castor bean. [score:3]
rco-miR167d, 29883∶144402:144497:+; homologue: Arabidopsis thaliana miR167a; rco-miR394a,b, 30170∶3866594:3866721:+; 30116∶128336:128443:+; homologue: Arabidopsis thaliana miR394a,b; rco-miR482, 29586∶144986:145094:-; homologue: Malus domestica miR482a; rco-miR827, 28266∶68399:68502:+; homologue: Gossypium hirsutum miR827a; rco-miR2111, 29973∶58727:58830:+; homologue: Arabidopsis thaliana miR2111a; rco-miR4414, 29729∶702439:702549:+; homologue: Medicago truncatula miR4414b. [score:1]
For example, abundance of the miR156 family varied from 122 reads (rco-miR156e) to 322,939 reads (rco-miR156e) in the leaf library, similar to the case for miR167 family varied from 941 reads to 59,219 reads in the seed1 library (see Table S2). [score:1]
The variation in length of isoforms identified involved two types: 1) single or several nucleotides addition or deletion in the 3′ strand only (such as miR167 and iso-miR167, miR395 and iso-miR395, miR399 and iso-miR399); and 2) single or several nucleotides addition or deletion both in the 5′ and 3′ strands simultaneously (such as miR156 and iso-miR156, miR171 and iso-miR171, miR398 and iso-miR398). [score:1]
The secondary structures of rco-miR482, rco-miR2111, rcomiR827 and rco-miR167 miRNAs identified from castor bean. [score:1]
For the miR167 family, two isoforms with a 3′ single nucleotide A (iso-miR167b) extension or G (isomiR167c) deletion were detected from two loci (b and c). [score:1]
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