Search results for: Basten L. Snoek

Items from 1 to 11 out of 11 results

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Architecture and dynamics of the abscisic acid gene regulatory network

Niels Aerts, Richard Hickman, Anja J.H. Van Dijken, Michael Kaufmann, more

The Plant Journal > 119 > 5 > 2538 - 2563

The plant hormone abscisic acid (ABA) regulates essential processes in plant development and responsiveness to abiotic and biotic stresses. ABA perception triggers a post‐translational signaling cascade that elicits the ABA gene regulatory network (GRN), encompassing hundreds of transcription factors (TFs) and thousands of transcribed genes. To further our knowledge of this GRN, we performed an RNA‐seq...

article

The chemical compound ‘Heatin’ stimulates hypocotyl elongation and interferes with the Arabidopsis NIT1‐subfamily of nitrilases

Lennard Woude, Markus Piotrowski, Gruson Klaasse, Judith K. Paulus, more

The Plant Journal > 106 > 6 > 1523 - 1540

Temperature passively affects biological processes involved in plant growth. Therefore, it is challenging to study the dedicated temperature signalling pathways that orchestrate thermomorphogenesis, a suite of elongation growth‐based adaptations that enhance leaf‐cooling capacity. We screened a chemical library for compounds that restored hypocotyl elongation in the pif4‐2–deficient mutant background...

article

Community‐level interactions between plants and soil biota during range expansion

Kadri Koorem, Basten L. Snoek, Janneke Bloem, Stefan Geisen, more

Journal of Ecology > 108 > 5 > 1860 - 1873

Plant species that expand their range in response to current climate change will encounter soil communities that may hinder, allow or even facilitate plant performance. It has been shown repeatedly for plant species originating from other continents that these plants are less hampered by soil communities from the new than from the original range. However, information about the interactions between...

article

Detection of QTLs for genotype × environment interactions in tomato seeds and seedlings

Nafiseh Geshnizjani, Basten L. Snoek, Leo A. J. Willems, Juriaan A. Rienstra, more

Plant, Cell & Environment > 43 > 8 > 1973 - 1988

Seed quality and seedling establishment are the most important factors affecting successful crop development. They depend on the genetic background and are acquired during seed maturation and therefor, affected by the maternal environment under which the seeds develop. There is little knowledge about the genetic and environmental factors that affect seed quality and seedling establishment. The aim...

article

Relationships between fungal community composition in decomposing leaf litter and home‐field advantage effects

G. F. (Ciska) Veen, Basten L. Snoek, Tanja Bakx‐Schotman, David A. Wardle, more

Functional Ecology > 33 > 8 > 1524 - 1535

Increasing evidence suggests that specific interactions between microbial decomposers and plant litter, named home‐field advantage (HFA), influence litter breakdown. However, we still have limited understanding of whether HFA relates to specific microbiota, and whether specialized microbes originate from the soil or from the leaf microbiome. Here, we disentangle the roles of soil origin, litter...

article

Competition and predation as possible causes of bacterial rarity

Viola Kurm, Wim H. van der Putten, Simone Weidner, Stefan Geisen, more

Environmental Microbiology > 21 > 4 > 1356 - 1368

We assembled communities of bacteria and exposed them to different nutrient concentrations with or without predation by protists. Taxa that were rare in the field were less abundant at low nutrient concentrations than common taxa, independent of predation. However, some taxa that were rare in the field became highly abundant in the assembled communities, especially under ample nutrient availability...

article

Genetic background modifies phenotypic and transcriptional responses in a C. elegans model of α-synuclein toxicity

Yiru A. Wang, Basten L. Snoek, Mark G. Sterken, Joost A. G. Riksen, more

BMC Genomics > 2019 > 20 > 1 > 1-12

Background Accumulation of protein aggregates are a major hallmark of progressive neurodegenerative disorders such as Parkinson’s disease and Alzheimer’s disease. Transgenic Caenorhabditis elegans nematodes expressing the human synaptic protein α-synuclein in body wall muscle show inclusions of aggregated protein, which affects similar genetic pathways as in humans. It is not however known how the...

article

A multi-parent recombinant inbred line population of C. elegans allows identification of novel QTLs for complex life history traits

Basten L. Snoek, Rita J. M. Volkers, Harm Nijveen, Carola Petersen, more

BMC Biology > 2019 > 17 > 1 > 1-17

Background The nematode Caenorhabditis elegans has been extensively used to explore the relationships between complex traits, genotypes, and environments. Complex traits can vary across different genotypes of a species, and the genetic regulators of trait variation can be mapped on the genome using quantitative trait locus (QTL) analysis of recombinant inbred lines (RILs) derived from genetically...

article

Network Analyses Can Advance Above-Belowground Ecology

Kelly S. Ramirez, Stefan Geisen, Elly Morriën, Basten L. Snoek, more

Trends in Plant Science > 2018 > 23 > 9 > 759-768

An understanding of above-belowground (AG-BG) ecology is important for evaluating how plant interactions with enemies, symbionts, and decomposers affect species diversity and will respond to global changes. However, research questions and experiments often focus on only a limited number of interactions, creating an incomplete picture of how entire communities may be involved in AG-BG community ecology...

article

Contribution of trans regulatory eQTL to cryptic genetic variation in C. elegans

Basten L. Snoek, Mark G. Sterken, Roel P. J. Bevers, Rita J. M. Volkers, more

BMC Genomics > 2017 > 18 > 1 > 1-15

Background Cryptic genetic variation (CGV) is the hidden genetic variation that can be unlocked by perturbing normal conditions. CGV can drive the emergence of novel complex phenotypes through changes in gene expression. Although our theoretical understanding of CGV has thoroughly increased over the past decade, insight into polymorphic gene expression regulation underlying CGV is scarce. Here we...

article

AraQTL – workbench and archive for systems genetics in Arabidopsis thaliana

Harm Nijveen, Wilco Ligterink, Joost J. B. Keurentjes, Olivier Loudet, more

The Plant Journal > 89 > 6 > 1225 - 1235

Genetical genomics studies uncover genome‐wide genetic interactions between genes and their transcriptional regulators. High‐throughput measurement of gene expression in recombinant inbred line populations has enabled investigation of the genetic architecture of variation in gene expression. This has the potential to enrich our understanding of the molecular mechanisms affected by and underlying natural...

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