Journal ArticleDOI
Characterization of the defense transcriptome responsive to Fusarium oxysporum-infection in Arabidopsis using RNA-seq.
Qian-Hao Zhu,Stuart Stephen,Kemal Kazan,Gulei Jin,Longjiang Fan,Jennifer M. Taylor,Elizabeth S. Dennis,Chris A. Helliwell,Ming-Bo Wang +8 more
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TLDR
Disease inoculation experiments with mutants of the AtROBH genes showed that AtRRobHD and AtRobHF have opposite effects on disease development and provided new insights into the functions of the genes encoding NADPH oxidase in fungal disease resistance.About:
This article is published in Gene.The article was published on 2013-01-10. It has received 112 citations till now. The article focuses on the topics: Transcriptome & Gene.read more
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Data quality aware analysis of differential expression in RNA-seq with NOISeq R/Bioc package
Sonia Tarazona,Pedro Furió-Tarí,David Turrà,Antonio Di Pietro,María José Nueda,Alberto Ferrer,Ana Conesa +6 more
TL;DR: It is demonstrated that the non-parametric NOISeqBIO efficiently controls false discoveries in experiments with biological replication and outperforms state-of-the-art methods.
Journal ArticleDOI
Reactive oxygen species and plant resistance to fungal pathogens.
TL;DR: The ways to detect ROS, their modes of action and their importance in relation to resistance to fungal pathogens are described.
Journal ArticleDOI
DNA demethylases target promoter transposable elements to positively regulate stress responsive genes in Arabidopsis
Tuan-Ngoc Le,Ulrike Schumann,Neil A. Smith,Sameer Tiwari,Sameer Tiwari,Phil Chi Khang Au,Qian-Hao Zhu,Jennifer M. Taylor,Kemal Kazan,Danny J. Llewellyn,Ren Zhang,Elizabeth S. Dennis,Ming-Bo Wang +12 more
TL;DR: The results suggest that a primary function of DNA demethylases in plants is to regulate the expression of stress response genes by targeting promoter transposable element sequences.
Journal ArticleDOI
What lies beneath: belowground defense strategies in plants
Barbara De Coninck,Barbara De Coninck,Pieter Timmermans,Christine Vos,Christine Vos,Bruno P. A. Cammue,Bruno P. A. Cammue,Kemal Kazan,Kemal Kazan +8 more
TL;DR: This review summarizes the current knowledge on root infection strategies, root-specific preformed barriers, pathogen recognition, and defense signaling, and suggests that many commonalities as well as differences exist in defense strategies employed by roots and foliar tissues during pathogen attack.
Journal ArticleDOI
Long noncoding RNAs responsive to Fusarium oxysporum infection in Arabidopsis thaliana.
TL;DR: It is demonstrated that strand-specific RNA sequencing is a powerful tool for uncovering hidden levels of transcriptome and that IncRNAs are important components of the antifungal networks in A. thaliana.
References
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Journal ArticleDOI
Analysis of relative gene expression data using real-time quantitative pcr and the 2(-delta delta c(t)) method
TL;DR: The 2-Delta Delta C(T) method as mentioned in this paper was proposed to analyze the relative changes in gene expression from real-time quantitative PCR experiments, and it has been shown to be useful in the analysis of realtime, quantitative PCR data.
Journal ArticleDOI
Mapping and quantifying mammalian transcriptomes by RNA-Seq.
TL;DR: Although >90% of uniquely mapped reads fell within known exons, the remaining data suggest new and revised gene models, including changed or additional promoters, exons and 3′ untranscribed regions, as well as new candidate microRNA precursors.
Journal ArticleDOI
MAP kinase signalling cascade in Arabidopsis innate immunity
Tsuneaki Asai,Guillaume Tena,Joulia Plotnikova,Matthew R. Willmann,Wan-Ling Chiu,Lourdes Gómez-Gómez,Thomas Boller,Frederick M. Ausubel,Jen Sheen +8 more
TL;DR: An Arabidopsis thaliana leaf cell system based on the induction of early-defence gene transcription by flagellin, a highly conserved component of bacterial flagella that functions as a PAMP in plants and mammals is developed, suggesting that signalling events initiated by diverse pathogens converge into a conserved MAPK cascade.
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Arabidopsis gp91phox homologues AtrbohD and AtrbohF are required for accumulation of reactive oxygen intermediates in the plant defense response
TL;DR: In this paper, the authors analyzed lines carrying dSpm insertions in the highly expressed AtrbohD and AtrabohF genes, which are required for full ROI production observed during incompatible interactions with the bacterial pathogen Pseudomonas syringae pv.
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Coordinated plant defense responses in Arabidopsis revealed by microarray analysis
Peer M. Schenk,Kemal Kazan,Kemal Kazan,Iain W. Wilson,Jonathan P. Anderson,Todd Richmond,Shauna Somerville,John M. Manners,John M. Manners +8 more
TL;DR: The results indicated the existence of a substantial network of regulatory interactions and coordination occurring during plant defense among the different defense signaling pathways, notably between the salicylate and jasmonate pathways that were previously thought to act in an antagonistic fashion.