A Review of Auxin Response Factors (ARFs) in Plants

Li, Si-Bei; Xie, Zongzhou; Hu, Chun-Gen; Zhang, Jin‐Zhi

doi:10.3389/fpls.2016.00047

Cited by 258 publications

(265 citation statements)

References 74 publications

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“…In response to V. dahliae infection, the increased microRNAs included miR160, miR164, miR167 and miR390 that are involved in regulating auxin signals, which play critical roles in almost all aspects of plant developments such as organogenesis, vascular tissue differentiation, apical dominance and root initiation, and in responses to the environmental changes (Chandler 2016; Li et al 2016). Many previous results showed that RNAi pathway is involved in auxin signalling.…”

Section: Discussionmentioning

confidence: 99%

“…Previously, we demonstrated that auxin-dependent induction of miR847 is involved in regulating meristematic competence by targeting the mRNA of IAA28 to up-regulate auxin signalling (Wang and Guo 2015). Furthermore, many ARF genes are directly regulated by at least one miRNA in response to biotic or abiotic stress, such as ARF6 and ARF8 are targeted by miR167 while ARF10, ARF16 and ARF17 are targeted by miR160 (Chandler 2016; Li et al 2016). ARF2, ARF3 and ARF4 are also targeted by a ta-siRNA, encoded by the TAS3 locus, which is targeted by miR390 (Chandler 2016; Li et al 2016).…”

Section: Discussionmentioning

confidence: 99%

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Genome-wide profiling of sRNAs in the Verticillium dahliae-infected Arabidopsis roots

et al. 2018

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Small RNAs (sRNAs, including small interfering RNAs [siRNAs] and micro RNAs [miRNAs]) are key mediators of RNA silencing (or RNA interference), which play important roles in plant development and response to biotic and abiotic stimulation. Verticillium wilt is a plant vascular disease caused by the soil-borne fungal pathogens, such as Verticillium dahliae. We previously reported that V. dahliae infection increased two plant endogenous miRNAs that were exported to fungal cell to silence virulence genes. To investigate plant sRNAs in genome-wide response to V. dahliae infection, in this study, we constructed two sRNA libraries from Arabidopsis roots with and without V. dahliae infection, respectively. In total, 31 conserved miRNAs were found to be differentially expressed during the early stage of infection with V. dahliae using sRNA sequencing. Among these, the expression levels of miR160, miR164, miR166, miR167, miR390 and miR156h were confirmed by northern blot. Reverse transcription quantitative real time polymerase chain reaction results showed that the induction of miRNAs (miR160, miR164, miR166 and miR167) upon V. dahliae infection downregulated the expression of their targeted genes (ARF10, NAC1, PHV and ARF6), respectively. In addition, we identified specific phased siRNAs generated from distinct regions of two libraries. Profiling of these miRNAs and sRNAs lay the foundation for further understanding and utilising the host-induced gene silencing strategy to control plant vascular pathogens.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Genome-wide profiling of sRNAs in the Verticillium dahliae-infected Arabidopsis roots

et al. 2018

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“…8; Gray et al, 1999;Dharmasiri et al, 2005;Kepinski and Leyser, 2005; for review, see Enders and Strader, 2015;Salehin et al, 2015;Li et al, 2016). Binding of auxin to TIR1 stabilizes interactions between the SCF TIR1 E3 ubiquitin ligase complex and AUXIN/INDOLE-3-ACETIC ACID (AUX/IAA) repressors, the latter of which are ubiquitinated and subsequently degraded via the 26S proteasome (Gray et al, 1999(Gray et al, , 2001Tiwari et al, 2001;Tian et al, 2003;Dharmasiri et al, 2005;Kepinski and Leyser, 2005;Tan et al, 2007;Maraschin et al, 2009) Korasick et al, 2014; for review, see Guilfoyle and Hagen, 2007;Wright and Nemhauser, 2015).…”

Section: Discussion a Model For The Repression Of Hypocotyl Growth Bymentioning

confidence: 99%

SUPPRESSOR OF PHYTOCHROME B4-#3 Represses Genes Associated with Auxin Signaling to Modulate Hypocotyl Growth

et al. 2016

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Developing seedlings are well equipped to alter their growth in response to external factors in order to maximize their chances of survival. SUPPRESSOR OF PHYTOCHROME B4-#3 (SOB3) and other members of the AT-HOOK MOTIF CONTAINING NUCLEAR LOCALIZED (AHL) family of transcription factors modulate the development of Arabidopsis (Arabidopsis thaliana) by repressing hypocotyl elongation in young seedlings growing in light. However, the molecular mechanism behind how AHLs influence seedling development is largely unknown. We have identified genes associated with auxin-mediated hypocotyl elongation as downstream targets of SOB3. We found that YUCCA8 (YUC8) as well as members of the SMALL AUXIN UP-REGULATED RNA19 (SAUR19) subfamily were down-regulated in the short-hypocotyl, gain-of-function SOB3-D mutant and up-regulated in the dominant-negative, tall-hypocotyl sob3-6 mutant. SOB3-D and sob3-6 hypocotyls also exhibited altered sensitivity to the polar auxin transport inhibitor N-1-napthylphthalamic acid, suggesting a critical connection between auxin and the modulation of seedling elongation by SOB3. Finally, we found that overexpression of GREEN FLUORESCENT PROTEIN-SAUR19 in the SOB3-D line partially rescued defects in hypocotyl elongation, and SOB3 bound directly to the promoters of YUC8 and SAUR19 subfamily members. Taken together, these data indicate that SOB3 modulates hypocotyl elongation in young seedlings by directly repressing the transcription of genes associated with auxin signaling.

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“…Auxin signaling is regulated by IAA cofactors acting in combination with AUXIN RESPONSE FACTOR (ARF) transcriptional partners (Li et al, 2016). We reasoned that IAA factors regulating postembryonic (lateral) root formation (Goh et al, 2012) could be involved in de novo organ formation.…”

Section: Specific Auxin Signaling Factors Regulate De Novo Root Regenmentioning

confidence: 99%

Regulation of Hormonal Control, Cell Reprogramming, and Patterning during De Novo Root Organogenesis

et al. 2017

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Body regeneration through formation of new organs is a major question in developmental biology. We investigated de novo root formation using whole leaves of Arabidopsis (Arabidopsis thaliana). Our results show that local cytokinin biosynthesis and auxin biosynthesis in the leaf blade followed by auxin long-distance transport to the petiole leads to proliferation of J0121-marked xylem-associated tissues and others through signaling of INDOLE-3-ACETIC ACID INDUCIBLE28 (IAA28), CRANE (IAA18), WOODEN LEG, and ARABIDOPSIS RESPONSE REGULATORS1 (ARR1), ARR10, and ARR12. Vasculature proliferation also involves the cell cycle regulator KIP-RELATED PROTEIN2 and ABERRANT LATERAL ROOT FORMATION4, resulting in a mass of cells with rooting competence that resembles callus formation. Endogenous callus formation precedes specification of postembryonic root founder cells, from which roots are initiated through the activity of SHORT-ROOT, PLETHORA1 (PLT1), and PLT2. Primordia initiation is blocked in shr plt1 plt2 mutant. Stem cell regulators SCHIZORIZA, JACKDAW, BLUEJAY, and SCARECROW also participate in root initiation and are required to pattern the new organ, as mutants show disorganized and reduced number of layers and tissue initials resulting in reduced rooting. Our work provides an organ regeneration model through de novo root formation, stating key stages and the primary pathways involved.Plants have striking regeneration capacities, and can produce new organs from postembryonic tissues (Hartmann et al., 2010;Chen et al., 2014;Liu et al., 2014) as well as reconstitute damaged organs upon wounding (Xu et al., 2006;Heyman et al., 2013; PerianezRodriguez et al., 2014;Melnyk et al., 2015;Efroni et al., 2016). Intriguingly, root regeneration upon stem cell damage recruits embryonic pathways (Hayashi et al., 2006;Efroni et al., 2016), whereas in contrast, postembryonic formation of whole new organs, such as lateral roots, appears to use specific postembryonic pathways (Lavenus et al., 2013).Cross talk between auxin and cytokinin signaling is required for many aspects of plant development and regeneration (El-Showk et al., 2013), although how their synergistic interaction is implemented at the molecular level has not been clarified (Skoog and Miller, 1957;Chandler and Werr, 2015). Exogenous in vitro supplementation of these two hormones results in continuous cell proliferation, to form a characteristic structure termed "callus". Callus emerges as a common regenerative mechanism for almost all plant organs through in vitro culture (Atta et al., 2009;Sugimoto et al., 2010). There is increasing evidence that callus formation requires hormone-mediated activation of a lateral and meristematic root development program in pericycle-like cells defined by expression of the J0121 marker 1 This work was supported by grants from Ministerio de Economía y Competitividad (MINECO) of Spain, the European Regional Development Fund (ERDF) and FP7 Funds of the European Commission, BFU2013-41160-P, BFU2016-80315-P, and PCIG11-GA-2012-322082 to M.A....

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A Review of Auxin Response Factors (ARFs) in Plants

Cited by 258 publications

References 74 publications

Genome-wide profiling of sRNAs in the Verticillium dahliae-infected Arabidopsis roots

Genome-wide profiling of sRNAs in the Verticillium dahliae-infected Arabidopsis roots

SUPPRESSOR OF PHYTOCHROME B4-#3 Represses Genes Associated with Auxin Signaling to Modulate Hypocotyl Growth

Regulation of Hormonal Control, Cell Reprogramming, and Patterning during De Novo Root Organogenesis

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