A5030956252- Plant Molecular Biology Research
- Plant Stress Responses and Tolerance
- Chromosomal and Genetic Variations
- Photosynthetic Processes and Mechanisms
- Plant tissue culture and regeneration
- Genetic Mapping and Diversity in Plants and Animals
- Plant Gene Expression Analysis
- Plant Genetic and Mutation Studies
- Nitrogen and Sulfur Effects on Brassica
- CRISPR and Genetic Engineering
- Plant Virus Research Studies
- Plant responses to water stress
- Plant Reproductive Biology
- Plant nutrient uptake and metabolism
- Lipid metabolism and biosynthesis
- Genetic Syndromes and Imprinting
- Genetic and Environmental Crop Studies
- Plant-Microbe Interactions and Immunity
- Bioinformatics and Genomic Networks
- Gene expression and cancer classification
- Genomics and Phylogenetic Studies
- Enzyme-mediated dye degradation
- Cell death mechanisms and regulation
- Single-cell and spatial transcriptomics
- Legume Nitrogen Fixing Symbiosis
Ghent University
2011-2024
VIB-UGent Center for Plant Systems Biology
2011-2024
A plethora of diverse programmed cell death (PCD) processes has been described in living organisms. In animals and plants, different forms PCD play crucial roles development, immunity, responses to the environment. While molecular control some animal such as apoptosis is known great detail, we still know comparatively little about regulation types plant PCD. part, this deficiency understanding caused by lack reliable reporters detect processes. Here, addressed issue using a combination...
Abstract Maize is the highest yielding cereal crop grown worldwide for grain or silage. Here, we show that modulating expression of maize PLASTOCHRON1 ( ZmPLA1 ) gene, encoding a cytochrome P450 (CYP78A1), results in increased organ growth, seedling vigour, stover biomass and seed yield. The engineered trait robust as it improves yield an inbred well panel hybrids, at several locations over multiple seasons field. Transcriptome studies, hormone measurements auxin responsive DR5rev:mRFPer...
Abstract Ensuring food security for an ever-growing global population while adapting to climate change is the main challenge agriculture in 21st century. Although new technologies are being applied tackle this problem, we approaching a plateau crop improvement using conventional breeding. Recent advances CRISPR/Cas9-mediated gene engineering have paved way accelerate plant breeding meet increasing demand. However, many traits governed by multiple small-effect genes operating complex...
The plant shoot apex houses the apical meristem, a highly organized and active stem-cell tissue where molecular signaling in discrete cells determines when leaves are initiated. We optimized spatial transcriptomics approach, situ sequencing (ISS), to colocalize transcripts of 90 genes simultaneously on same section from maize (Zea mays) apex. RNA ISS technology reported expression profiles that were comparable with those obtained by hybridizations (ISHs) allowed discrimination between...
Article21 December 2020Open Access Transparent process Using single-plant-omics in the field to link maize genes functions and phenotypes Daniel Felipe Cruz Department of Plant Biotechnology Bioinformatics, Ghent University, Ghent, Belgium VIB Center for Systems Biology, BelgiumThese authors contributed equally this work as first Search more papers by author Sam De Meyer Joke Ampe Heike Sprenger Dorota Herman Tom Van Hautegem Jolien Block Dirk Inzé Hilde Nelissen Steven Maere Corresponding...
In the plant sciences, results of laboratory studies often do not translate well to field. To help close this lab-field gap, we developed a strategy for studying wiring traits directly in field, based on molecular profiling and phenotyping individual plants. Here, use single-plant omics winter-type Brassica napus (rapeseed). We investigate what extent early late phenotypes field-grown rapeseed plants can be predicted from their autumnal leaf gene expression, find that expression only has...
Abstract Genomic imprinting promotes differential expression of parental alleles in the endosperm flowering plants and is regulated by epigenetic modification such as DNA methylation histone tail modifications chromatin. After fertilization, develops through a syncytial stage before it cellularizes becomes nutrient source for growing embryo. Regional compartmentalization has been shown both early late development, different transcriptional domains suggest divergent spatial temporal regional...
Abstract With the need to increase plant productivity, one of challenges scientists are facing is identify genes that play a role in beneficial traits. Moreover, even when such found, it generally not trivial transfer this knowledge about gene function across species functional orthologs. Here, we focused on leaf study growth. First, built growth transcriptional networks Arabidopsis (Arabidopsis thaliana), maize (Zea mays), and aspen (Populus tremula). Next, known regulators, here defined as...
ABSTRACT Drought is one of the most devastating causes yield losses in crops like maize, and anticipated increases severity duration drought spells due to climate change pose an imminent threat agricultural productivity. To understand response, phenotypic molecular studies are typically performed at a given time point after onset, representing steady‐state adaptation response. Because growth dynamic process, we monitored response with high temporal resolution examined cellular transcriptomic...
Legumes, as protein-rich crops, are widely used for human food, animal feed and vegetable oil production. Over the past decade, two legume species, Medicago truncatula Lotus japonicus, have been adopted model legumes genomics physiological studies. The tobacco transposable element, Tnt1, is a powerful tool insertional mutagenesis gene inactivation in plants. A large collection of Tnt1-tagged lines M. cv. Jemalong was generated during course project 'GLIP': Grain Legumes Integrated Project,...
To unravel molecular mechanisms with the ultimate goal to achieve improved stress resilience or increased yield, plants are often studied under highly controlled conditions in which stresses applied and growth- architecture-related traits meticulously recorded. Over past decades, this has led a boost our understanding of key players strategies improve yield stability. However, many single-gene fail translate into applications (Nuccio et al., 2018). One example modification identified growth...
Abstract Ensuring food security for an ever-growing global population while adapting to climate change is the main challenge agriculture in 21 st century. Though new technologies are being applied tackle problem, we approaching a plateau crop improvement using conventional breeding. Recent advances gene engineering via CRISPR/Cas technology pave way accelerate plant breeding and meet this increasing demand. Here, present discovery pipeline named ‘BREEDIT’ that combines multiplex genome...
Abstract In both animals and plants, stem cell niches balance between cell-renewal the generation of progeny cells that differentiate into specialized tissues. The multipotent highly proliferative transit amplifying (TACs) integrate signals from their differentiating cells. Here we used spatial transcriptomics mapped to individual illustrate localization TACs in maize meristems based on transcriptional gradients. Through genetic interactions fluctuations gradients show multiplicative...
ABSTRACT Most of our current knowledge on plant molecular biology is based experiments in controlled lab environments. Over the years, have generated substantial insights wiring developmental processes, stress responses and phenotypes. However, translating these from to field often not straightforward, part because growth conditions are very different conditions. Here, we test a new experimental design unravel plants study gene-phenotype relationships directly field. We molecularly profiled...
Abstract Genomic imprinting promotes differential expression of parental alleles in the endosperm flowering plants, and is regulated by epigenetic modification such as DNA methylation histone tail modifications chromatin. After fertilization, develops through a syncytial stage before it cellularizes becomes nutrient source for growing embryo. Both early late development regional compartmentalization has been shown, different transcriptional domains suggest divergent spatial temporal...
ABSTRACT Background In the plant sciences, results of laboratory studies often do not translate well to field because lab growth conditions are very different from conditions. To help close this lab-field gap, we developed a new strategy for studying wiring traits directly in field, based on molecular profiling and phenotyping individual plants same genetic background grown field. This single-plant omics leverages uncontrolled micro-environmental variation across stochastic among as...
Due to its nutritive value, the endosperm in plant seeds is vital for humankind. Endosperm size modulated by degree of elimination during embryo invasion. In Arabidopsis, cell wall weakening mediated bHLH-type transcription factor ZHOUPI promotes However, whether a programmed death (PCD) process involved has been subject debate. Here we show that PCD promoted multiple NAC factors embryo-adjacent cause gradual elimination. We accelerating zhoupi mutant rescues growth defects, and nac persists...