ADAP is a possible negative regulator of glucosinolate biosynthesis in Arabidopsis thaliana based on clustering and gene expression analyses

2021 ◽  
Vol 134 (2) ◽  
pp. 327-339
Author(s):  
S. Harun ◽  
E. R. Rohani ◽  
M. Ohme-Takagi ◽  
H.-H. Goh ◽  
Z.-A. Mohamed-Hussein
Keyword(s):  
Gene Expression ◽  
Arabidopsis Thaliana ◽  
Negative Regulator ◽  
Glucosinolate Biosynthesis ◽  
Gene Expression Analyses

scholarly journals HOS5-a negative regulator of osmotic stress-induced gene expression in Arabidopsis thaliana

1999 ◽  
Vol 19 (5) ◽  
pp. 569-578 ◽  
Author(s):  
Liming Xiong ◽  
Manabu Ishitani ◽  
Hojoung Lee ◽  
Jian-Kang Zhu
Keyword(s):  
Gene Expression ◽  
Arabidopsis Thaliana ◽  
Osmotic Stress ◽  
Negative Regulator

scholarly journals Analysis of Resistance Gene-Mediated Defense Responses in Arabidopsis thaliana Plants Carrying a Mutation in CPR5

1998 ◽  
Vol 11 (12) ◽  
pp. 1196-1206 ◽  
Author(s):  
Jens Boch ◽  
Michelle L. Verbsky ◽  
Tara L. Robertson ◽  
John C. Larkin ◽  
Barbara N. Kunkel
Keyword(s):  
Gene Expression ◽  
Arabidopsis Thaliana ◽  
Resistance Gene ◽  
Pseudomonas Syringae ◽  
Bacterial Pathogen ◽  
Defense Responses ◽  
Negative Regulator ◽  
Suppressor Mutations ◽  
Defense Related Gene ◽  
Rapid Activation

In resistant plants, pathogen attack often leads to rapid activation of defense responses that limit multiplication and spread of the pathogen. To investigate the signaling mechanisms underlying this process, we carried out a screen for mutants in the signaling pathway governing resistance in Arabidopsis thaliana to the bacterial pathogen Pseudomonas syringae. This involved screening for suppressor mutations that restored resistance to a susceptible line carrying a mutation in the RPS2 resistance gene. A mutant that conferred resistance by activating defense responses in the absence of pathogens was isolated. This mutant, which carries a mutation at the CPR5 locus and was thus designated cpr5-2, exhibited resistance to P. syringae, spontaneous development of necrotic lesions, elevated PR gene expression in the absence of pathogens, and abnormal trichomes. Resistance gene-mediated defenses, including the hypersensitive response, restriction of pathogen growth, and induction of defense-related gene expression, were functional in cpr5-2 mutant plants. Additionally, in cpr5-2 plants RPS2-mediated induction of PR-1 expression was enhanced, whereas RPM1-mediated induction of ELI3 was not. These findings suggest that CPR5 encodes a negative regulator of the RPS2 signal transduc-tion pathway.

scholarly journals Tryptophan-derived metabolites and BAK1 separately contribute to Arabidopsis postinvasive immunity against Alternaria brassicicola

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Ayumi Kosaka ◽  
Marta Pastorczyk ◽  
Mariola Piślewska-Bednarek ◽  
Takumi Nishiuchi ◽  
Erika Ono ◽  
...  
Keyword(s):  
Gene Expression ◽  
Arabidopsis Thaliana ◽  
Alternaria Brassicicola ◽  
Nonhost Resistance ◽  
Antimicrobial Proteins ◽  
Basal Resistance ◽  
Pathogen Invasion ◽  
Gene Expression Analyses ◽  
Colletotrichum Tropicale ◽  
Immune Pathway

AbstractNonhost resistance of Arabidopsis thaliana against the hemibiotrophic fungus Colletotrichum tropicale requires PEN2-dependent preinvasive resistance and CYP71A12 and CYP71A13-dependent postinvasive resistance, which both rely on tryptophan (Trp) metabolism. We here revealed that CYP71A12, CYP71A13 and PAD3 are critical for Arabidopsis’ postinvasive basal resistance toward the necrotrophic Alternaria brassicicola. Consistent with this, gene expression and metabolite analyses suggested that the invasion by A. brassicicola triggered the CYP71A12-dependent production of indole-3-carboxylic acid derivatives and the PAD3 and CYP71A13-dependent production of camalexin. We next addressed the activation of the CYP71A12 and PAD3-dependent postinvasive resistance. We found that bak1-5 mutation significantly reduced postinvasive resistance against A. brassicicola, indicating that pattern recognition contributes to activation of this second defense-layer. However, the bak1-5 mutation had no detectable effects on the Trp-metabolism triggered by the fungal penetration. Together with this, further comparative gene expression analyses suggested that pathogen invasion in Arabidopsis activates (1) CYP71A12 and PAD3-related antifungal metabolism that is not hampered by bak1-5, and (2) a bak1-5 sensitive immune pathway that activates the expression of antimicrobial proteins.

Exon-level gene expression analyses of primary neuroblastoma improves risk prediction and identifies JARID1C as a candidate target

2009 ◽  
Vol 221 (03) ◽  
Author(s):  
A Schramm ◽  
B Schowe ◽  
T Thor ◽  
M Baumann ◽  
S Dreesmann ◽  
...  
Keyword(s):  
Gene Expression ◽  
Risk Prediction ◽  
Gene Expression Analyses ◽  
Candidate Target ◽  
Exon Level

scholarly journals Alternative splicing landscapes in Arabidopsis thaliana across tissues and stress conditions highlight major functional differences with animals

2021 ◽  
Vol 22 (1) ◽  
Author(s):  
Guiomar Martín ◽  
Yamile Márquez ◽  
Federica Mantica ◽  
Paula Duque ◽  
Manuel Irimia
Keyword(s):  
Gene Expression ◽  
Arabidopsis Thaliana ◽  
Alternative Splicing ◽  
Stress Responses ◽  
Target Genes ◽  
Intron Retention ◽  
Single Gene ◽  
Exon Skipping ◽  
Environmental Response ◽  
Biotic Stresses

Abstract Background Alternative splicing (AS) is a widespread regulatory mechanism in multicellular organisms. Numerous transcriptomic and single-gene studies in plants have investigated AS in response to specific conditions, especially environmental stress, unveiling substantial amounts of intron retention that modulate gene expression. However, a comprehensive study contrasting stress-response and tissue-specific AS patterns and directly comparing them with those of animal models is still missing. Results We generate a massive resource for Arabidopsis thaliana, PastDB, comprising AS and gene expression quantifications across tissues, development and environmental conditions, including abiotic and biotic stresses. Harmonized analysis of these datasets reveals that A. thaliana shows high levels of AS, similar to fruitflies, and that, compared to animals, disproportionately uses AS for stress responses. We identify core sets of genes regulated specifically by either AS or transcription upon stresses or among tissues, a regulatory specialization that is tightly mirrored by the genomic features of these genes. Unexpectedly, non-intron retention events, including exon skipping, are overrepresented across regulated AS sets in A. thaliana, being also largely involved in modulating gene expression through NMD and uORF inclusion. Conclusions Non-intron retention events have likely been functionally underrated in plants. AS constitutes a distinct regulatory layer controlling gene expression upon internal and external stimuli whose target genes and master regulators are hardwired at the genomic level to specifically undergo post-transcriptional regulation. Given the higher relevance of AS in the response to different stresses when compared to animals, this molecular hardwiring is likely required for a proper environmental response in A. thaliana.

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