A5046643646- Plant Molecular Biology Research
- Genomics and Phylogenetic Studies
- Plant Reproductive Biology
- Chromosomal and Genetic Variations
- Photosynthetic Processes and Mechanisms
- Plant nutrient uptake and metabolism
- Smart Agriculture and AI
- CRISPR and Genetic Engineering
- Plant Virus Research Studies
- Leaf Properties and Growth Measurement
- Plant Gene Expression Analysis
- Data Mining Algorithms and Applications
- Semantic Web and Ontologies
- Remote Sensing and LiDAR Applications
- Tree Root and Stability Studies
- Plant Disease Resistance and Genetics
- Polysaccharides and Plant Cell Walls
- Plant and Biological Electrophysiology Studies
- Gene expression and cancer classification
- Biomedical Text Mining and Ontologies
Max Planck Institute for Plant Breeding Research
2019-2024
Universitat de Miguel Hernández d'Elx
2014-2021
Quantitative analysis of plant and animal morphogenesis requires accurate segmentation individual cells in volumetric images growing organs. In the last years, deep learning has provided robust automated algorithms that approach human performance, with applications to bio-image now starting emerge. Here, we present PlantSeg, a pipeline for tissues into cells. PlantSeg employs convolutional neural network predict cell boundaries graph partitioning segment based on predictions. was trained...
How do genes modify cellular growth to create morphological diversity? We study this problem in two related plants with differently shaped leaves: Arabidopsis thaliana (simple leaf shape) and Cardamine hirsuta (complex shape leaflets). use live imaging, modeling, genetics deconstruct these organ-level differences into their cell-level constituents: amount, direction, differentiation. show that depends on the interplay of modes: a conserved organ-wide mode reflects differentiation; local,...
The study and eventual manipulation of leaf development in plants requires a thorough understanding the genetic basis organogenesis. Forward screens have identified hundreds Arabidopsis mutants with altered development, but genome has not yet been saturated. To identify genes required for we are screening Salk Unimutant collection. We 608 lines that exhibit phenotype full penetrance almost constant expressivity 98 additional segregating mutant phenotypes. allow indexing integration other...
How tissue-level information encoded by fields of regulatory gene activity is translated into the patterns cell polarity and growth that generate diverse shapes different species remains poorly understood. Here, we investigate this problem in case leaf shape differences between
How genetically regulated growth shapes organ form is a key problem in developmental biology. Here, we investigate this using the leaflet-bearing complex leaves of Cardamine hirsuta as model. Leaflet development requires action two growth-repressing transcription factors: REDUCED COMPLEXITY (RCO), homeodomain protein, and CUP-SHAPED COTYLEDON2 (CUC2), NAC-domain protein. However, how their respective growth-repressive actions are integrated space time to generate leaf forms remains unknown....
Mapping-by-sequencing strategies combine next-generation sequencing (NGS) with classical linkage analysis, allowing rapid identification of the causal mutations phenotypes exhibited by mutants isolated in a genetic screen. Computer programs that analyze NGS data obtained from mapping population individuals derived mutant interest to identify mutation are available; however, installation and usage such requires bioinformatic skills, modifying or combining pieces existing software, purchasing...
Summary Most plant leaves exhibit bilateral symmetry, which has been hypothesized as an inevitable consequence of the existence proximodistal and dorsoventral axes. No gene described that affects leaf symmetry but not dorsoventrality in Arabidopsis thaliana . We screened for viable insertional mutations affect morphology, out more than 700 mutants found only one, desigual1‐1 ( deal1‐1 ), exhibited breaking no obvious defects dorsoventrality. is allele VASCULATURE COMPLEXITY AND CONNECTIVITY...
Abstract Forward genetic screens have successfully identified many genes and continue to be powerful tools for dissecting biological processes in Arabidopsis other model species. Next-generation sequencing technologies revolutionized the time-consuming process of identifying mutations that cause a phenotype interest. However, due cost such mapping-by-sequencing experiments, special attention should paid experimental design technical decisions so read data allows map desired mutation. Here,...
The information that connects genotypes and phenotypes is essentially embedded in research articles written natural language. To facilitate access to this knowledge, we constructed a framework for the curation of scientific literature studying molecular mechanisms control leaf growth development Arabidopsis thaliana (Arabidopsis). Standard structured statements, called relations, were designed capture diverse data types, including gene expression linked genotype description, conditions,...
ABSTRACT Mapping-by-sequencing strategies combine next-generation sequencing (NGS) with classical linkage analysis, allowing rapid identification of the causal mutations phenotypes exhibited by mutants isolated in a genetic screen. Computer programs that analyze NGS data obtained from mapping population individuals derived mutant interest order to identify mutation are available; however, installation and usage such requires bioinformatic skills, modifying or combining pieces existing...