ArticlePlant physiology2010
Regulatory network identification by genetical genomics: signaling downstream of the Arabidopsis receptor-like kinase ERECTA.
Article in Plant physiology, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.
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28 citing papers in PubMed, 58 citations in OpenAlex.
- Plasticity of maternal environment-dependent expression-QTLs of tomato seeds.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2023Article
- Prioritizing candidate eQTL causal genes in Arabidopsis using RANDOM FORESTS.G3 (Bethesda, Md.) · 2022Article
- Network Analysis PrioritizesG3 (Bethesda, Md.) · 2020Article
- Dissecting the eQTL Micro-Architecture inFrontiers in genetics · 2020Article
- WormQTL2: an interactive platform for systems genetics in Caenorhabditis elegans.Database : the journal of biological databases and curation · 2020Article
- Genome-wide cis-regulatory signatures for modulation of agronomic traits as exemplified by drought yield index (DYI) in chickpea.Functional & integrative genomics · 2019Article
- Quantitative trait loci from identification to exploitation for crop improvement.Plant cell reports · 2017Review
- Contribution of trans regulatory eQTL to cryptic genetic variation in C. elegans.BMC genomics · 2017Article
- Construction of a High-Density Genetic Map from RNA-Seq Data for an Arabidopsis Bay-0 × Shahdara RIL Population.Frontiers in genetics · 2017Article
- Natural Genetic Variation Differentially Affects the Proteome and Transcriptome in Caenorhabditis elegans.Molecular & cellular proteomics : MCP · 2016Article
- Learning from Co-expression Networks: Possibilities and Challenges.Frontiers in plant science · 2016Review
- Genome-wide conserved non-coding microsatellite (CNMS) marker-based integrative genetical genomics for quantitative dissection of seed weight in chickpea.Journal of experimental botany · 2015Article
- Molecular phenotyping of plant single cell-types enhances forward genetic analyses.Frontiers in plant science · 2015Article
- On predicting regulatory genes by analysis of functional networks in C. elegans.BioData mining · 2015Article
- Regulatory network rewiring for secondary metabolism in Arabidopsis thaliana under various conditions.BMC plant biology · 2014Article
- Loss-of-function of β-catenin bar-1 slows development and activates the Wnt pathway in Caenorhabditis elegans.Scientific reports · 2014Article
- An expression quantitative trait loci-guided co-expression analysis for constructing regulatory network using a rice recombinant inbred line population.Journal of experimental botany · 2014Article
- WormQTLHD--a web database for linking human disease to natural variation data in C. elegans.Nucleic acids research · 2014Article
- Article
- Integrated genomics and molecular breeding approaches for dissecting the complex quantitative traits in crop plants.Journal of biosciences · 2013Review
Corrections and comments
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Authors and funding
5 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Gene expression differences between individuals within a species can be largely explained by differences in genetic background. The effect of genetic variants (alleles) of genes on expression can be studied in a multifactorial way by the application of genetical genomics or expression quantitative trait locus mapping. In this paper, we present a strategy to construct regulatory networks by the application of genetical genomics in combination with transcript profiling of mutants that are disrupted in single genes. We describe the network identification downstream of the receptor-like kinase ERECTA in Arabidopsis (Arabidopsis thaliana). Extending genetical genomics on the Landsberg erecta/Cape Verde Islands (Ler/Cvi) recombinant inbred population with expression profiling of monogenic mutants enabled the identification of regulatory networks in the so far elusive ERECTA signal transduction cascade. We provide evidence that ERECTA is the causal gene for the major hotspot for transcript regulation in the Arabidopsis Ler/Cvi recombinant inbred population. We further propose additional genetic variation between Ler and Cvi in loci of the signaling pathway downstream of ERECTA and suggest candidate genes underlying these loci. Integration of publicly available microarray expression data of other monogenic mutants allowed us to link ERECTA to a downstream mitogen-activated protein kinase signaling cascade. Our study shows that microarray data of monogenic mutants can be effectively used in combination with genetical genomics data to enhance the identification of genetic regulatory networks.
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