A Gain-of-Function Mutant of IAA15 Inhibits Lateral Root Development by Transcriptional Repression of LBD Genes in Arabidopsis

Kim, Sun Ho; Bahk, Sunghwa; An, Jonguk; Hussain, Shah; Nguyen, Nhan; Loc, Huy; Kim, Jae‐Yean; Hong, Jong Chan; Chung, Woo Sik

doi:10.3389/fpls.2020.01239

Cited by 18 publications

(14 citation statements)

References 64 publications

(90 reference statements)

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“…LR initiation is majorly regulated by LATERAL ORGAN BOUNDARIES-DOMAIN 16 (LBD16) and is under the control of the auxin signaling modules that involve auxin/indole-3-acetic acid (Aux/IAA) transcription repressors and AUXIN RESPONSE FACTOR (ARF) transcription activators. 5 , 21 Multiple Aux/IAA-ARF modules such as IAA19/MSG2-ARF7, IAA14/SLR-ARF7 and -ARF19, IAA3/SHY2-ARFs, and IAA28-ARFsTIR1/AFB receptors, act redundantly during LR formation. 4 , 5 , 19 TIR1 acts as an auxin receptor and controls Aux/IAA-ARF modules in the process of LR formation in Arabidopsis .…”

Section: Resultsmentioning

confidence: 99%

“… 5 , 21 Multiple Aux/IAA-ARF modules such as IAA19/MSG2-ARF7, IAA14/SLR-ARF7 and -ARF19, IAA3/SHY2-ARFs, and IAA28-ARFsTIR1/AFB receptors, act redundantly during LR formation. 4 , 5 , 19 TIR1 acts as an auxin receptor and controls Aux/IAA-ARF modules in the process of LR formation in Arabidopsis . 3 , 19 Since we confirmed that GI regulates the TIR1 expression, we further checked the transcripts abundance of LBD16 and genes involved in Aux/IAA-ARF modules in Col-0, 35S::GI, and gi-100 plants.…”

Section: Resultsmentioning

confidence: 99%

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GIGANTEA regulates lateral root formation by modulating auxin signaling in Arabidopsis thaliana

Singh

2022

Plant Signaling & Behavior

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Lateral root (LR) formation is a vital organogenetic process that determines the root architecture in plants. The number of root branches governs the degree of anchorage, efficiency of nutrients acquisition, and water uptake. The molecular pathways involved in LR formation have been extensively studied in Arabidopsis thaliana ( At ). A plant hormone, Auxin, is a key regulator of root development and promotes LR formation in plants. A plethora of Arabidopsis genes have been identified to regulate LR initiation, patterning, and emergence processes. Recently, the involvement of flowering time control pathways and circadian clock pathways in LR development has come to light, but the connecting link between these processes is still missing. We have established that GIGANTEA (GI), a key component of photoperiodic flowering, can regulate the formation of LRs in Arabidopsis . GI is known to be involved in red light signaling and circadian clock signaling pathways. Here, we report that over-expression of GI enhances LR formation in red light in At . Real-time PCR analysis shows that GI positively regulates the transcription of TRANSPORT INHIBITOR RESPONSE 1 ( TIR1 ) which is an upstream component of auxin signaling. Furthermore, gi-100 mutant downregulates the LR initiation signaling gene, AUXIN RESPONSE FACTOR 7 ( ARF7 ), and its downstream target gene, LATERAL ORGAN BOUNDARIES-DOMAIN 16 ( LBD16 ). Hence, GI acts as a positive regulator of IAA14-ARF7-LBD16 modules during LR initiation. We have also checked the effect of GI on the expression of NAC1 and AIR3 genes which are controlled by TIR1 during LR formation. Our results show that GI induces the NAC1 transcription and its downstream gene, AIR3 expression, which leads to the enhancement of LR initiation. Taken together, our results suggest that GI controls the expression of TIR1 to govern auxin signaling during LR formation in presence of red light and GI can act as a link between circadian clock signaling, flowering time control pathways, light signaling, and lateral root development pathways.

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Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

GIGANTEA regulates lateral root formation by modulating auxin signaling in Arabidopsis thaliana

Singh

2022

Plant Signaling & Behavior

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“…After that, the ARF transcription factor can be released to regulate the target genes. ARF3 belongs to the ARF family [ 27 ] while IAA15 is a member of the AUX/IAA family [ 28 ]. In Chang7-2, the expression of ARF3 is very low while IAA15 is high expressed.…”

Section: Discussionmentioning

confidence: 99%

Transcriptomic analysis of the maize inbred line Chang7-2 and a large-grain mutant tc19

et al. 2022

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Backgrounds Grain size is a key factor in crop yield that gradually develops after pollination. However, few studies have reported gene expression patterns in maize grain development using large-grain mutants. To investigate the developmental mechanisms of grain size, we analyzed a large-grain mutant, named tc19, at the morphological and transcriptome level at five stages corresponding to days after pollination (DAP). Results After maturation, the grain length, width, and thickness in tc19 were greater than that in Chang7-2 (control) and increased by 3.57, 8.80, and 3.88%, respectively. Further analysis showed that grain width and 100-kernel weight in tc19 was lower than in Chang7-2 at 14 and 21 DAP, but greater than that in Chang7-2 at 28 DAP, indicating that 21 to 28 DAP was the critical stage for kernel width and weight development. For all five stages, the concentrations of auxin and brassinosteroids were significantly higher in tc19 than in Chang7-2. Gibberellin was higher at 7, 14, and 21 DAP, and cytokinin was higher at 21 and 35 DAP, in tc19 than in Chang7-2. Through transcriptome analysis at 14, 21, and 28 DAP, we identified 2987, 2647 and 3209 differentially expressed genes (DEGs) between tc19 and Chang7-2. By using KEGG analysis, 556, 500 and 633 DEGs at 14, 21 and 28 DAP were pathway annotated, respectively, 77 of them are related to plant hormone signal transduction pathway. ARF3, AO2, DWF4 and XTH are higher expressed in tc19 than that in Chang7-2. Conclusions We found some DEGs in maize grain development by using Chang7-2 and a large-grain mutant tc19. These DEGs have potential application value in improving maize performance.

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“…Among them, ARF3, IAA15, and AO2 are related to the IAA biosynthesis or signal transduction pathway, and DWF4 and XTH are related to the BR biosynthesis or signal transduction pathway [22]. IAA15 is a member of the AUX/IAA gene family [23], and ARF3 is a member of the ARF family [24]. The Aux/IAA protein, as a type of transcription inhibitor, has been proven to play an extremely important role in the auxin signal transduction pathway.…”

Section: Discussionmentioning

confidence: 99%

Transcriptomic Analysis of the Maize Mutant TC19 Identifies Genes Regulating the Development of Grain Size Through the IAA and BR Pathways

Zhang

Jiao

Jun

et al. 2021

Preprint

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Backgrounds: Grain size is a key factor in crop yield that gradually develops after pollination. However, few studies have reported gene expression patterns in maize grain development using mutants. To investigate the developmental mechanisms of grain size, we analyzed a large-grain mutant, named TC19, at the morphological and transcriptome level at five stages corresponding to days after pollination (DAP).Results: After maturation, the grain length, width, and thickness in TC19 were greater than that in Chang 7-2 (control) and increased by 3.57%, 8.80%, and 3.88%, respectively. Further analysis showed that grain width in TC19 was lower than in Chang 7-2 at 7, 14, and 21 DAP, but greater than that in Chang 7-2 at 28 and 35 DAP, indicating that 21 to 28 DAP was the critical stage for kernel width development. For all five stages, the concentrations of indole-3-acetic acid and brassinosteroids were significantly higher in TC19 than in Chang 7-2. Gibberellin was higher at 7, 14, and 21 DAP, and cytokinin was higher at 21 and 35 DAP, in TC19 than in Chang 7-2. Through transcriptome analysis at 14, 21, and 28 DAP, we identified 2987, 2647, and 3209 differentially expressed genes (DEGs) between TC19 and Chang 7-2. Gene Ontology analysis indicated that most of the grain size–related genes corresponded to three aspects, including cell components, molecular functions, and biological processes. The Kyoto Encyclopedia of Genes and Genomes pathway analysis showed that 77 DEGs were enriched in the plant hormone signal transduction pathway. We further analyzed several highly expressed candidate genes, including AO2, ARF3, and IAA15, which are involved in the synthesis of IAA; and DWF4 and XTH, which are involved in the synthesis of BR.Conclusions: Our results elucidated the mechanisms of grain size development at the grain-filling stage and have potential application in maize breeding.

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A Gain-of-Function Mutant of IAA15 Inhibits Lateral Root Development by Transcriptional Repression of LBD Genes in Arabidopsis

Cited by 18 publications

References 64 publications

GIGANTEA regulates lateral root formation by modulating auxin signaling in Arabidopsis thaliana

GIGANTEA regulates lateral root formation by modulating auxin signaling in Arabidopsis thaliana

Transcriptomic analysis of the maize inbred line Chang7-2 and a large-grain mutant tc19

Transcriptomic Analysis of the Maize Mutant TC19 Identifies Genes Regulating the Development of Grain Size Through the IAA and BR Pathways

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