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Search results 701 to 800 out of 815 for Genome-wide association study

Category restricted to Generif (x)

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Category: Generif
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Type Details Score
GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study reports the role of a previously uncharacterized GH3 gene family member, GH3.9, in root growth; unlike most other Group II family members, GH3.9 expression was repressed by low concentrations of exogenous indole acetic acid in seedlings.
Organism: A. thaliana
Gene: GH3.9
PubMed Id: 17216483
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study identified a jmjC-domain gene, IBM1 (increase in bonsai methylation 1); ibm1 mutations induced a variety of developmental phenotypes, which depend on methylation of histone H3 at lysine 9 in addition to the ectopic cytosine methylation. [IBM1]
Organism: A. thaliana
Gene: IBM1
PubMed Id: 18218897
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: This study investigated the function of the C-terminal region (CTR) by generating truncated versions of VPS9a and found that it was specifically responsible for ARA6 regulation. The CTR was required for oligomerization and correct localization of VPS9a.
Organism: A. thaliana
Gene: VPS9A
PubMed Id: 26493488
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: This study investigated the function of the C-terminal region (CTR) by generating truncated versions of VPS9a and found that it was specifically responsible for ARA6 regulation. The CTR was required for oligomerization and correct localization of VPS9a.
Organism: A. thaliana
Gene: ARA6
PubMed Id: 26493488
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: used natural variation in Arabidopsis thaliana to study the role of zinc in regulating growth. We identify allelic variation of the systemic immunity gene AZI1 as a key for determining root growth responses to low zinc conditions
Organism: A. thaliana
Gene: AZI1
PubMed Id: 29608565
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study shows that Arabidopsis DRM2 exists in complex with the small interfering RNA (siRNA) effector ARGONAUTE4 (AGO4) and preferentially methylates one DNA strand, likely the strand acting as the template for RNA polymerase V-mediated noncoding RNA transcripts.
Organism: A. thaliana
Gene: DRM2
PubMed Id: 24855943
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: This study showed show that PUCHI expression is initiated after the first round of asymmetric cell division of lateral root (LR) founder cells and that premature induction of PUCHI during the preinitiation phase disrupts LR primordium formation.
Organism: A. thaliana
Gene: PUCHI
PubMed Id: 31310684
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: this study demonstrates that upon damage, both at the tissue and single-cell levels, the cysteine protease METACASPASE4 (MC4) is instantly and spatiotemporally activated by binding high levels of Ca(2+) and is necessary and sufficient for Pep1 maturation.
Organism: A. thaliana
Gene: PROPEP1
PubMed Id: 30898901
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study suggests that the key role in the regulation of expression of the studied plastome genes by cytokinin in etiolated Arabidopsis plants is played by the AHK3 receptor, whereas AHK4 and AHK2 receptors cannot regulate this process
Organism: A. thaliana
Gene: HK3
PubMed Id: 27599515
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: this study demonstrates that upon damage, both at the tissue and single-cell levels, the cysteine protease METACASPASE4 (MC4) is instantly and spatiotemporally activated by binding high levels of Ca(2+) and is necessary and sufficient for Pep1 maturation.
Organism: A. thaliana
Gene: MC4
PubMed Id: 30898901
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Our study indicated that in Arabidopsis, Vps11 is required for vacuole biogenesis in embryo, which is essential for embryogenesis. It also plays a role in pollen tube growth but looks not required for vacuole biogenesis in pollen tube.
Organism: A. thaliana
Gene: VPS11
PubMed Id: 28711500
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: study shows pollen tube (PT) reception and powdery mildew (PM) infection share molecular components; NTA, discovered in context of PM resistance, and FERONIA control PT reception; fer mutants also display PM resistance revealing a new function for FER
Organism: A. thaliana
Gene: MLO7
PubMed Id: 21071669
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: study shows pollen tube (PT) reception and powdery mildew (PM) infection share molecular components; NORTIA, discovered in context of PM resistance, and FER control PT reception; fer mutants also display PM resistance revealing a new function for FER
Organism: A. thaliana
Gene: FER
PubMed Id: 21071669
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: study demonstrates that FKF1 protein stabilizes CONSTANS (CO)protein in the afternoon in long days; together with CO transcriptional regulation, FKF1 protein controls robust FLOWERING LOCUS T (FT) mRNA induction through multiple feedforward mechanisms that accurately control flowering timing
Organism: A. thaliana
Gene: CO
PubMed Id: 22628657
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study has identified an Arabidopsis flavin monooxygenase (At1g62580) and shown that it binds NO, has a higher affinity for NO than for O(2) and that this molecule can generate cGMP from GTP in vitro in an NO-dependent manner.
Organism: A. thaliana
Gene: NOGC1
PubMed Id: 21820435
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: study demonstrates that FKF1 protein stabilizes CONSTANS (CO)protein in the afternoon in long days; together with CO transcriptional regulation, FKF1 protein controls robust FLOWERING LOCUS T (FT) mRNA induction through multiple feedforward mechanisms that accurately control flowering timing
Organism: A. thaliana
Gene: FT
PubMed Id: 22628657
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: study demonstrates that FKF1 protein stabilizes CONSTANS (CO)protein in the afternoon in long days; together with CO transcriptional regulation, FKF1 protein controls robust FLOWERING LOCUS T FT) mRNA induction through multiple feedforward mechanisms that accurately control flowering timing
Organism: A. thaliana
Gene: FKF1
PubMed Id: 22628657
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study results indicate that REN4 acts as a spatiotemporal rheostat by interacting with ROP1 to initiate their removal from the plasma membrane by clathrin-mediated endocytosis, thereby coordinating a dynamic demarcation between apical and lateral domains during rapid tip growth.
Organism: A. thaliana
Gene: AT2G26490
PubMed Id: 29968705
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: The results of this study suggest that a metabolic effector, to date unidentified, can modulate CGS activity in vivo through an interaction with the N-terminal domain of the enzyme and that removal of this domain can suppress this regulation.
Organism: A. thaliana
Gene: MTO1
PubMed Id: 17720756
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study results indicate that REN4 acts as a spatiotemporal rheostat by interacting with ROP1 to initiate their removal from the plasma membrane by clathrin-mediated endocytosis, thereby coordinating a dynamic demarcation between apical and lateral domains during rapid tip growth.
Organism: A. thaliana
Gene: ROP1
PubMed Id: 29968705
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: This study defines a new role for ATP synthase beta-subunit as a pro-cell death protein. This protein is a novel target for extracellular ATP in its function as a key negative regulator of plant cell death. [ATP synthase beta-subunit]
Organism: A. thaliana
Gene: AT5G08690
PubMed Id: 21156838
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Together with the expected interaction of SOG1 with the promoter of NAC103, this study suggests that NAC103 is a putative SOG1-dependent transcriptional regulator of plant DNA damage response (DDR) genes, which are responsible for DDR phenotypes under genotoxic stress.
Organism: A. thaliana
Gene: NAC103
PubMed Id: 30554433
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Together with the expected interaction of SOG1 with the promoter of NAC103, this study suggests that NAC103 is a putative SOG1-dependent transcriptional regulator of plant DNA damage response (DDR) genes, which are responsible for DDR phenotypes under genotoxic stress.
Organism: A. thaliana
Gene: SOG1
PubMed Id: 30554433
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study describes the characterization of "Gain-of-function in ABA-modulated Seed germination 2" (GAS2) that shows lowered sensitivity to abscisic acid (ABA) in germination and early seedling development in overexpressing lines than wild type, but enhanced ABA sensitivity in loss-of-function mutants of GAS2.
Organism: A. thaliana
Gene: AT2G36690
PubMed Id: 30992454
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study revealed a clear MAX2-dependent rac-GR24 response: an increase in abundance of enzymes involved in flavonol biosynthesis, which was reduced in the max2-1 mutant. These results identified a large set of proteins shown to be regulated by the MAX2 function.
Organism: A. thaliana
Gene: MAX2
PubMed Id: 27317401
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: This study provides genetic evidence that the functions of the MAX2 orthologs, and perhaps the MAX2 signaling pathways, are conserved in parasitic and non-parasitic plants. OaMAX2 of Orobanche aegyptiaca and Arabidopsis AtMAX2 share conserved functions in both development and drought responses.
Organism: A. thaliana
Gene: MAX2
PubMed Id: 27425246
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study propose that the pathogen-responsive MPK3/MPK6 cascade and ABA are two essential signaling pathways that control, respectively, the organic acid metabolism and ion channels, two main branches of osmotic regulation in guard cells that function interdependently to control stomatal opening/closure.
Organism: A. thaliana
Gene: MPK6
PubMed Id: 28254778
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study shows that both Arabidopsis SHUGOSHINs paralogs, At3g10440 and At5g04320, are required for complete protection of centromeric cohesins during meiosis I, without apparent somatic function, and (2) identified PATRONUS (PANS1, At3g14190), a novel protein required for protection of meiotic centromeric cohesion.
Organism: A. thaliana
Gene: AT3G10440
PubMed Id: 24206843
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study shows that both Arabidopsis SHUGOSHINs paralogs, At3g10440 and At5g04320, are required for complete protection of centromeric cohesins during meiosis I, without apparent somatic function, and (2) identified PATRONUS (PANS1, At3g14190), a novel protein required for protection of meiotic centromeric cohesion.
Organism: A. thaliana
Gene: AT3G14190
PubMed Id: 24206843
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study provides substantial evidence that a unique P-type PPR protein, PPME, may be a novel editing factor that functions by binding to a typical cis-element to modulate both nad1-898 and 937 RNA editing to contribute to mitochondrial complex I activity. [PPME]
Organism: A. thaliana
Gene: AT3G18020
PubMed Id: 27149614
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study propose that the pathogen-responsive MPK3/MPK6 cascade and ABA are two essential signaling pathways that control, respectively, the organic acid metabolism and ion channels, two main branches of osmotic regulation in guard cells that function interdependently to control stomatal opening/closure.
Organism: A. thaliana
Gene: MPK3
PubMed Id: 28254778
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study suggests that ALE2 and ACR4 function in the same process, while ALE1 has a different mode of action, and that these 3 genes play overlapping roles in positively regulating protoderm-specific gene expression and for the formation of leafy organs.
Organism: A. thaliana
Gene: CR4
PubMed Id: 17376810
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study shows that both Arabidopsis SHUGOSHINs paralogs, At3g10440 and At5g04320, are required for complete protection of centromeric cohesins during meiosis I, without apparent somatic function, and (2) identified PATRONUS (PANS1, At3g14190), a novel protein required for protection of meiotic centromeric cohesion.
Organism: A. thaliana
Gene: AT5G04320
PubMed Id: 24206843
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Arabidopsis UBC22 could catalyze ubiquitin dimer formation in vitro in a Lys11-dependent manner, suggesting that it likely catalyzes Lys11-linked ubiquitination in plants. This study has identified one biochemical property of UBC22 and revealed a novel function in female gametophyte development.
Organism: A. thaliana
Gene: UBC22
PubMed Id: 27069118
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: The study adds FBN5 as a structural component involved in the biosynthesis of plastoquinone-9 (PQ-9). FBN5 binding to the hydrophobic solanesyl moiety, which is generated by SPS1 and SPS2, in FBN5-B/SPS homodimeric complexes stimulates the enzyme activity of SPS1 and SPS2.
Organism: A. thaliana
Gene: AT5G09820
PubMed Id: 26432861
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study reports that ALTERED MERISTEM PROGRAM1 (AMP1), a gene that impacts multiple developmental processes in Arabidopsis via an unknown mechanism and its paralog LIKE AMP1 (LAMP1, At5g19740) mediate the translation inhibition, but not the RNA cleavage activity, of plant miRNAs.
Organism: A. thaliana
Gene: AT5G19740
PubMed Id: 23622241
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study identifies XYLEM NAC DOMAIN 1 (XND1) as a key negative regulator of Arabidopsis root hydraulics at the species-wide level and reveals how genetic variation at XND1 may contribute to the trade-off between abiotic stress tolerance and biotic defense in Arabidopsis.
Organism: A. thaliana
Gene: XND1
PubMed Id: 30250259
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: This study provides a link between thermal and developmental perception signals and expands the understanding of the roles of sepal in plant development and heat response. HSP70-16 is required for flower opening under normal or mild heat stress temperatures. [HSP70-16]
Organism: A. thaliana
Gene: AT1G11660
PubMed Id: 30426513
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Beyond demonstrating that XRN4 is a major player in multiple decay pathways, this study identified intriguing molecular impacts of the enzyme, including those that led to new insights about mRNA decay and discovery of functional contributions at the whole-plant level
Organism: A. thaliana
Gene: XRN4
PubMed Id: 31428786
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study has revealed that unlike in yeast/metazoa, Arabidopsis ENY2 is not part of the TREX-2 complex, but it is a component of the deubiquitination module of the SAGA coactivator complex, whose composition is essentially conserved in plants and its histone H2B deubiquitination activity.
Organism: A. thaliana
Gene: AT3G27100
PubMed Id: 29588169
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study reports another mechanism of EIN2-mediated ethylene signaling, whereby EIN2 imposes the translational repression of EBF1 and EBF2 mRNA and find that the EBF1/2 3' UTRs mediate EIN2-directed translational repression and identify multiple poly-uridylates (PolyU) motifs as functional cis elements of 3' UTRs.
Organism: A. thaliana
Gene: EIN2
PubMed Id: 26496607
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study identified two plant-specific proteins, companion of cellulose synthase 1 and 2 CC1 (At1g45688) and CC2 (AT5G42860) that can interact with the CesA proteins and with microtubules. Mutations of the proteins led to salt-sensitive phenotypes and altered microtubule and CSC behavior in vivo.
Organism: A. thaliana
Gene: AT5G42860
PubMed Id: 26343580
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Mutations in PRP39b, the paralog of PRP39a, did not visibly alter GFP expression, indicating the paralogs are not functionally equivalent in this system. Our study provides new information on the contribution of PRP39a to alternative splicing and expands knowledge of plant splicing factors.
Organism: A. thaliana
Gene: PRP39-2
PubMed Id: 28971960
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Overexpression of ATAF1 in Arabidopsis plants results in elevated expression of ALDH7B4 in seeds, seedlings, and mature plants, whereas ATAF1 knock-out mutant plants abolished the expression of ALDH7B4. This study implies that ATAF1 may confer stress tolerance by up-regulating the target gene ALDH7B4.
Organism: A. thaliana
Gene: ATAF1
PubMed Id: 30027414
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study identified two plant-specific proteins, companion of cellulose synthase 1 and 2 CC1 (At1g45688) and CC2 (AT5G42860) that can interact with the CesA proteins and with microtubules. Mutations of the proteins led to salt-sensitive phenotypes and altered microtubule and CSC behavior in vivo.
Organism: A. thaliana
Gene: AT1G45688
PubMed Id: 26343580
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Overexpression of ATAF1 in Arabidopsis plants results in elevated expression of ALDH7B4 in seeds, seedlings, and mature plants, whereas ATAF1 knock-out mutant plants abolished the expression of ALDH7B4. This study implies that ATAF1 may confer stress tolerance by up-regulating the target gene ALDH7B4.
Organism: A. thaliana
Gene: ALDH7B4
PubMed Id: 30027414
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: It reports the purification and enzymatic properties of the intracellular kinase domain (residues 464-799) of ACR4 (ACR4(IKD)), and study may lay the foundation for structure determination of ACR4(IKD) and further functional research, for example, screening significant substrates of ACR4 in Arabidopsis thaliana.
Organism: A. thaliana
Gene: ACR4
PubMed Id: 28571742
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: study reveals the intertwined regulation of pattern recognition receptors (PRR) & receptor-like cytoplasmic kinase (RLCK) complex activation by protein phosphorylation and ubiquitination, and shows that ligand-induced monoubiquitination contributes to the release of BIK1 family RLCKs from the PRR complex and activation of PRR signalling
Organism: A. thaliana
Gene: BIK1
PubMed Id: 32404997
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study show that in Arabidopsis monoterpene-associated responses are propagated in feed-forward loops involving the systemic acquired resistance signaling components pipecolic acid, glycerol-3-phosphate, and LEGUME LECTIN-LIKE PROTEIN1 (LLP1). In this cascade, LLP1 forms a key regulatory unit in both within-plant and between-plant propagation of immunity.
Organism: A. thaliana
Gene: AT5G03350
PubMed Id: 31444353
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: TAT1 and TAT2 function together in tocopherol biosynthesis, with TAT2 having a lesser role, and that TAT1 plays the major role in Tyr degradation in planta. Study also highlights the importance of Tyr degradation under carbon starvation conditions during dark-induced senescence in plants. [TAT2]
Organism: A. thaliana
Gene: AT5G36160
PubMed Id: 30630953
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: TAT1 and TAT2 function together in tocopherol biosynthesis, with TAT2 having a lesser role, and that TAT1 plays the major role in Tyr degradation in planta. Study also highlights the importance of Tyr degradation under carbon starvation conditions during dark-induced senescence in plants. [TAT1]
Organism: A. thaliana
Gene: TAT7
PubMed Id: 30630953
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study demonstrate that abscisic acid controls the activity of BAM1 and AMY3 in leaves under osmotic stress through the AREB/ABF-SnRK2 kinase-signaling pathway. We propose that differential regulation and isoform subfunctionalization define starch-adaptive plasticity, ensuring an optimal carbon supply for continued growth under an ever-changing environment.
Organism: A. thaliana
Gene: BAM1
PubMed Id: 27436713
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: study demonstrates the crosstalk between endomembrane trafficking and ABA signalling at the transcriptional level and highlights the moonlighting properties of the plant ESCRT subunit FREE1, which has evolved unique non-endosomal functions in the nucleus besides its roles in membrane trafficking in the cytoplasm. [FREE1]
Organism: A. thaliana
Gene: AT1G20110
PubMed Id: 30962512
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study demonstrate that abscisic acid controls the activity of BAM1 and AMY3 in leaves under osmotic stress through the AREB/ABF-SnRK2 kinase-signaling pathway. We propose that differential regulation and isoform subfunctionalization define starch-adaptive plasticity, ensuring an optimal carbon supply for continued growth under an ever-changing environment.
Organism: A. thaliana
Gene: AMY3
PubMed Id: 27436713
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study identified a mutant that shows constitutive BiP3 protein accumulation without treatment with endoplasmic reticulum (ER) stress inducers. The causal gene for constitutive BiP3 accumulation was found to be SSI2 gene; finding suggests a genetic link between fatty acid metabolism in the chloroplast and ER functions.
Organism: A. thaliana
Gene: SSI2
PubMed Id: 29688606
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study reports on the structure of Arabidopsis ORC1b BAH-PHD cassette in complex with an unmodified H3(1-15) peptide. The structural and biochemical data showed a unique multivalent readout of unmodified H3 tail at H3R2, H3K4, and H3T3, providing a potential link between plant DNA replication and epigenetic regulation.
Organism: A. thaliana
Gene: ORC1B
PubMed Id: 26876097
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study identified REGULATOR OF CHLOROPLAST BIOGENESIS (RCB)/At4g28590 as a dual-targeted nuclear/plastidial phytochrome signaling component required for plastidial RNA polymerase assembly. RCB controls photosynthesis-associated plastid-encoded genes expression by interacting with phytochromes and promoting their localization to photobodies for the degradation of the transcriptional regulators PIF1 and PIF3.
Organism: A. thaliana
Gene: MRL7
PubMed Id: 31201355
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Structural study reveals that a C-terminal loop of the LRR domain (AtPRK6(LRR)) is responsible for recognition of AtLURE1.2, mediated by a set of residues largely conserved among PRK6 homologs from Arabidopsis lyrata and Capsella rubella, supported by in vitro mutagenesis and semi-in-vivo pollen tube growth assays.
Organism: A. thaliana
Gene: PRK6
PubMed Id: 29109411
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Structural study reveals that a C-terminal loop of the LRR domain (AtPRK6(LRR)) is responsible for recognition of AtLURE1.2, mediated by a set of residues largely conserved among PRK6 homologs from Arabidopsis lyrata and Capsella rubella, supported by in vitro mutagenesis and semi-in-vivo pollen tube growth assays.
Organism: A. thaliana
Gene: LURE1.2
PubMed Id: 29109411
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study shows that the model plant Arabidopsis thaliana has a chloroplast-localized Sec14-like protein (CPSFL1) that is necessary for photoautotrophic growth and vesicle formation at the inner envelope membrane of the chloroplast. The cpsfl1 mutants are seedling lethal, show a defect in thylakoid structure, and lack chloroplast vesicles.
Organism: A. thaliana
Gene: AT5G63060
PubMed Id: 32245810
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study identified a mutant that shows constitutive BiP3 protein accumulation without treatment with endoplasmic reticulum (ER) stress inducers. The causal gene for constitutive BiP3 accumulation was found to be SSI2 gene; finding suggests a genetic link between fatty acid metabolism in the chloroplast and ER functions.
Organism: A. thaliana
Gene: BIP3
PubMed Id: 29688606
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: This study suggests a model where FORMIN4 is a spatial feedback element in a multi-layered, temporally defined sequence of cytoskeletal response. This positional feedback makes a significant contribution to the distribution of actin filaments at the dynamic CWA boundary and to the outcomes of pre-invasion defense.
Organism: A. thaliana
Gene: FH4
PubMed Id: 29937351
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study confirms the involvement of GLR3.3 in amino acid response in A. thaliana root tip cells, supporting its role as a ligand-gated Ca2+ channel and presents the biochemical and structural characterization of its ligand-binding domain, showing that it works as an amino acid receptor with distinct specificity.
Organism: A. thaliana
Gene: GLR3.3
PubMed Id: 31871183
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study revealed the evolutionary trajectory for the heterodimeric TMO5/LHW transcription factor complex, which is rate-limiting for vascular cell proliferation in Arabidopsis thaliana. Both regulators have origins predating vascular tissue emergence, and even terrestrialization. TMO5 evolved its modern function, including dimerization with LHW, at the origin of land plants.
Organism: A. thaliana
Gene: LHW
PubMed Id: 31874927
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: The study reports the development of a fluorescence anisotropy-based in vitro binding assay system to screen for the ligands of the COI1-JAZ1 co-receptors. The assay enabled the first quantitative analysis of the affinity values and JAZ1-subtype selectivity of various endogenous jasmonate derivatives, such as coronatine, jasmonic acid, and 12-hydroxyjasmonoyl-l-isoleucine.
Organism: A. thaliana
Gene: COI1
PubMed Id: 30728246
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study identified new roles for SHP1 and SHP2: they are required for synchronized ovule maturation and subsequent fertilization/seed maturation, seed mucilage production, and have an inhibitory effect which is antagonistic to the ABS function in controlling formative divisions and cell shape of the inner integument and seed coat layers.
Organism: A. thaliana
Gene: SHP2
PubMed Id: 27776173
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Expression of CNGC12 with a nonfunctional N-terminal CaMBD constitutively induced programmed cell death, providing in planta evidence of allosteric CNGC regulation by CaM. Furthermore, study determined that CaM binding to the IQ motif was required for channel function, indicating that CaM can both positively and negatively regulate CNGC12.
Organism: A. thaliana
Gene: CNGC12
PubMed Id: 27335451
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Genes controlling SCW formation were activated by the overexpression of LBD30, but not in the LBD30(K226R) mutant. LBD30 enhancement of SCW formation resulted from upregulation of SND1/NST1-mediated transcriptional networks. This study presents a mechanism by which sumoylation of LBD30, mediated by SIZ1, regulates SCW formation in A. thaliana.
Organism: A. thaliana
Gene: NST1
PubMed Id: 30657769
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study revealed the evolutionary trajectory for the heterodimeric TMO5/LHW transcription factor complex, which is rate-limiting for vascular cell proliferation in Arabidopsis thaliana. Both regulators have origins predating vascular tissue emergence, and even terrestrialization. TMO5 evolved its modern function, including dimerization with LHW, at the origin of land plants.
Organism: A. thaliana
Gene: BHLH32
PubMed Id: 31874927
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study identified new roles for SHP1 and SHP2: they are required for synchronized ovule maturation and subsequent fertilization/seed maturation, seed mucilage production, and have an inhibitory effect which is antagonistic to the ABS function in controlling formative divisions and cell shape of the inner integument and seed coat layers.
Organism: A. thaliana
Gene: SHP1
PubMed Id: 27776173
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study demonstrated that Arabidopsis LDL3 specifically demethylates dimethylated lysine 4 of histone H3 during callus formation, thereby poising genes for activation in response to subsequent shoot induction. The primed histone demethylation regulated by LDL3 is an epigenetic mechanism that provides plant cells with shoot regenerative competency during callus formation.
Organism: A. thaliana
Gene: LDL3
PubMed Id: 30992430
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Genes controlling SCW formation were activated by the overexpression of LBD30, but not in the LBD30(K226R) mutant. LBD30 enhancement of SCW formation resulted from upregulation of SND1/NST1-mediated transcriptional networks. This study presents a mechanism by which sumoylation of LBD30, mediated by SIZ1, regulates SCW formation in A. thaliana.
Organism: A. thaliana
Gene: JLO
PubMed Id: 30657769
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: The effects of ethylene on microtubule bundling were partially suppressed in a microtubule-bundling protein WDL5 knockout mutant (wdl5-1). This study suggests that modulation of microtubule bundles that have formed in certain orientations plays a role in reorienting microtubule arrays in response to ethylene-mediated etiolated hypocotyl cell elongation. [WDL5]
Organism: A. thaliana
Gene: AT4G32330
PubMed Id: 27044753
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study reports genetic and cell biological analyses of the zygote-arrest 1 (zyg1) mutant in Arabidopsis, which showed zygote-lethal and over-accumulation of cyclin B1 D-box-GUS in ovules. These results together suggest that APC/C-mediated degradation of cyclin B1 in Arabidopsis is critical for initiating the first division of the zygote.
Organism: A. thaliana
Gene: CYC1BAT
PubMed Id: 26952278
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Genes controlling SCW formation were activated by the overexpression of LBD30, but not in the LBD30(K226R) mutant. LBD30 enhancement of SCW formation resulted from upregulation of SND1/NST1-mediated transcriptional networks. This study presents a mechanism by which sumoylation of LBD30, mediated by SIZ1, regulates SCW formation in A. thaliana.
Organism: A. thaliana
Gene: SIZ1
PubMed Id: 30657769
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: The study reports the development of a fluorescence anisotropy-based in vitro binding assay system to screen for the ligands of the COI1-JAZ1 co-receptors. The assay enabled the first quantitative analysis of the affinity values and JAZ1-subtype selectivity of various endogenous jasmonate derivatives, such as coronatine, jasmonic acid, and 12-hydroxyjasmonoyl-l-isoleucine.
Organism: A. thaliana
Gene: JAZ1
PubMed Id: 30728246
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study shows that ARF DNA-binding domains ahomodimerize to generate cooperative DNA binding, which is critical for in vivo ARF5/MP function. Strikingly, DNA-contacting residues are conserved between ARFs, and found that monomers have the same intrinsic specificity; ARF1 and ARF5 homodimers, however, differ in spacing tolerated between binding sites.
Organism: A. thaliana
Gene: MP
PubMed Id: 24485461
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study shows that ARF DNA-binding domains ahomodimerize to generate cooperative DNA binding, which is critical for in vivo ARF5/MP function. Strikingly, DNA-contacting residues are conserved between ARFs, and found that monomers have the same intrinsic specificity; ARF1 and ARF5 homodimers, however, differ in spacing tolerated between binding sites.
Organism: A. thaliana
Gene: ARF1
PubMed Id: 24485461
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study identified ORG3 as a direct downstream, and positively regulated target of GRF9. Genetic analysis of grf9 org3 and GRF9ox org3 double mutants reveals that both transcription factors act in a regulatory cascade to control the final leaf dimensions by restricting cell number in the developing leaf in Arabidopsis thaliana.
Organism: A. thaliana
Gene: GRF9
PubMed Id: 29985961
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: This study has shown that mMDH is an important respiratory element in Arabidopsis seeds, with a significant impact on early seedling growth. Perturbation of both mMDH genes in Arabidopsis seeds significantly elevated respiration rates at all stages of seed maturation, markedly reduced reserve accumulation, and accelerated the aging process in seeds.
Organism: A. thaliana
Gene: mMDH2
PubMed Id: 27208265
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study shows that the integration of PDX1.2 into a heteromeric dodecamer assembly with PDX1.3 does not cause a major structural deviation from the overall architecture of the homomeric complex. Nonetheless, the structure of the PDX1.2-PDX1.3 complex highlights enhanced flexibility in key catalytic regions for the initial steps of vitamin B6 biosynthesis.
Organism: A. thaliana
Gene: PDX1.2
PubMed Id: 30988257
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study identified ORG3 as a direct downstream, and positively regulated target of GRF9. Genetic analysis of grf9 org3 and GRF9ox org3 double mutants reveals that both transcription factors act in a regulatory cascade to control the final leaf dimensions by restricting cell number in the developing leaf in Arabidopsis thaliana.
Organism: A. thaliana
Gene: bHLH39
PubMed Id: 29985961
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study shows that the integration of PDX1.2 into a heteromeric dodecamer assembly with PDX1.3 does not cause a major structural deviation from the overall architecture of the homomeric complex. Nonetheless, the structure of the PDX1.2-PDX1.3 complex highlights enhanced flexibility in key catalytic regions for the initial steps of vitamin B6 biosynthesis.
Organism: A. thaliana
Gene: RSR4
PubMed Id: 30988257
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study suggests that ABS is not only required for the regulation of PA accumulation in the seed coat but positively regulates coordinated cell divisions in the inner integument layer of the ovule, nuclear endosperm proliferation, endothelium cell morphology, and influences on mucilage release of the seed coat epidermal cell layer.
Organism: A. thaliana
Gene: TT16
PubMed Id: 27776173
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study revealed that in Arabidopsis sucrose transporter SUC2 activity is regulated via its protein turnover rate and phosphorylation state. UBIQUITIN-CONJUGATING ENZYME 34 (UBC34) was found to trigger turnover of SUC2 in a light-dependent manner. Mutants of another SUC2-interaction partner, WALL-ASSOCIATED KINASE LIKE 8 (WAKL8), showed decreased phloem loading and growth.
Organism: A. thaliana
Gene: UBC34
PubMed Id: 32123097
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: This study has shown that mMDH is an important respiratory element in Arabidopsis seeds, with a significant impact on early seedling growth. Perturbation of both mMDH genes in Arabidopsis seeds significantly elevated respiration rates at all stages of seed maturation, markedly reduced reserve accumulation, and accelerated the aging process in seeds.
Organism: A. thaliana
Gene: mMDH1
PubMed Id: 27208265
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
 
Annotation: This study shows that the flexible regions of protein D1 that protrude into the lumen can penetrate through the three side-openings of Deg1 and reach its internal proteolytic sites. This mode of action, facilitating cooperation between proteases on both sides of the thylakoid membranes, should be applicable to the degradation
Organism: A. thaliana
PubMed Id: 29588501
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study analyzed the quaternary and spectroscopic properties of a collection of mutations within Arabidopsis thaliana PhyB; found that several features, both proximal to the bilin and anticipated to be substantially distant within the 3-D structure, have strong effects on Pfr acquisition and stability, and thus critical to proper light and thermal perception.
Organism: A. thaliana
Gene: PHYB
PubMed Id: 29057954
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: After screening mutagenized lon2-2 seedlings for restored indole-3-butyric acid responsiveness, stabilization and processing of peroxisomal proteins, levels of several ATG proteins, and levels of the selective autophagy receptor NBR1/At4g24690, which accumulates when autophagy is impaired, were evaluated. The study recovered 21 alleles disrupting 6 ATG genes: ATG2, ATG3, ATG5, ATG7, ATG16, and ATG18a.
Organism: A. thaliana
Gene: ATG2
PubMed Id: 30734619
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study demonstrates that the nuclear and Golgi-localized protein BLISTER (BLI) negatively controls the activity of IRE1A/IRE1B under normal growth condition in Arabidopsis. Its loss-of-function mutation results in chronic up-regulation of a set of both canonical unfolded protein response (UPR) genes and non-canonical UPR downstream genes, leading to cell death and growth retardation.
Organism: A. thaliana
Gene: BLI
PubMed Id: 31869326
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study shows that in Arabidopsis non-CG methylation in CTCTGYTY motifs is one way to prevent REF6 targeting. Structural analysis demonstrates that CHG methylation is unfavorable for REF6 binding and attenuates REF6-binding affinity. Results reveal a mechanism for a transcriptional-activating histone-modifying enzyme in avoiding heterochromatic binding through its intrinsic DNA methylation unfavorable DNA-binding activity.
Organism: A. thaliana
Gene: REF6
PubMed Id: 31048693
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study identified a single Arabidopsis thaliana gene, At3g57630, in clade E of the inverting Glycosyltransferase family GT47 as a candidate for the transfer of Araf to Hyp-arabinofuranotriose (Hyp-beta1,4Araf-beta1,2Araf-beta1,2Araf) side chains in an alpha-linkage, to yield Hyp-Araf4 which is exclusively found in extensins. Knock-out mutants of At3g57630 showed a truncated root hair phenotype.
Organism: A. thaliana
Gene: AT3G57630
PubMed Id: 28358137
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study demonstrated that HWS contributes to the co-ordination of floral organ number and boundary formation by altering MIR164 and CUC1 transcript levels; showed that the regulatory domain of MIR164 is crucial for this event to take place. HWS and CUC1 also regulate cell number and size in petals, and influence cell proliferation.
Organism: A. thaliana
Gene: HWS
PubMed Id: 28934292
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study discovered SOBIR1/EVR as a regulator of secondary growth. SOBIR1/EVR acts through a mechanism that involves BREVIPEDICELLUS (BP) and ERECTA (ER), two proteins previously known to regulate xylem fiber development. BP binds SOBIR1/EVR promoter and that SOBIR1/EVR expression is enhanced in bp mutants, suggesting a direct, negative regulation of BP over SOBIR1/EVR expression.
Organism: A. thaliana
Gene: KNAT1
PubMed Id: 31444299
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: This study characterized the novel Brassicaceae-specific family of BKN pseudokinase genes, and examined the function of BKN1 and BKN2 in the context of pollen-stigma interactions in A. thaliana Col-0. Additionally, premature stop codons were identified in the predicted stigma specific BKN1 gene in a number of the 1001 A. thaliana ecotype genomes. [BKN1]
Organism: A. thaliana
Gene: AT5G11400
PubMed Id: 31829135
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: This study characterized the novel Brassicaceae-specific family of BKN pseudokinase genes, and examined the function of BKN1 and BKN2 in the context of pollen-stigma interactions in A. thaliana Col-0. Additionally, premature stop codons were identified in the predicted stigma specific BKN1 gene in a number of the 1001 A. thaliana ecotype genomes. [BKN2]
Organism: A. thaliana
Gene: AT5G11410
PubMed Id: 31829135
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: After screening mutagenized lon2-2 seedlings for restored indole-3-butyric acid responsiveness, stabilization and processing of peroxisomal proteins, levels of several ATG proteins, and levels of the selective autophagy receptor NBR1/At4g24690, which accumulates when autophagy is impaired, were evaluated. The study recovered 21 alleles disrupting 6 ATG genes: ATG2, ATG3, ATG5, ATG7, ATG16, and ATG18a.
Organism: A. thaliana
Gene: APG5
PubMed Id: 30734619
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: After screening mutagenized lon2-2 seedlings for restored indole-3-butyric acid responsiveness, stabilization and processing of peroxisomal proteins, levels of several ATG proteins, and levels of the selective autophagy receptor NBR1/At4g24690, which accumulates when autophagy is impaired, were evaluated. The study recovered 21 alleles disrupting 6 ATG genes: ATG2, ATG3, ATG5, ATG7, ATG16, and ATG18a.
Organism: A. thaliana
Gene: APG7
PubMed Id: 30734619
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: After screening mutagenized lon2-2 seedlings for restored indole-3-butyric acid responsiveness, stabilization and processing of peroxisomal proteins, levels of several ATG proteins, and levels of the selective autophagy receptor NBR1/At4g24690, which accumulates when autophagy is impaired, were evaluated. The study recovered 21 alleles disrupting 6 ATG genes: ATG2, ATG3, ATG5, ATG7, ATG16, and ATG18a.
Organism: A. thaliana
Gene: ATG3
PubMed Id: 30734619
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GeneRIF (Gene Reference into Function)
GeneRIF (Gene Reference into Function)
Annotation: Study compared the functions of the wild-type TRY and ETC2 proteins and their amino acid-substituted versions. Results showed that the substitution of amino acids in the C-terminal of TRY and ETC2 conferred them the ability to induce root hair formation. Furthermore, results confirmed that these mutations enhanced the stability of the TRY and ETC2 proteins.
Organism: A. thaliana
Gene: ETC2
PubMed Id: 30308079
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