A5027977735- Species Distribution and Climate Change
- Data Visualization and Analytics
- Plant-Microbe Interactions and Immunity
- Plant Disease Resistance and Genetics
- Chromosomal and Genetic Variations
- Plant Pathogens and Resistance
- Genomics and Phylogenetic Studies
- Cell Image Analysis Techniques
- Physiological and biochemical adaptations
- Plant Parasitism and Resistance
- Plant and animal studies
- Plant Molecular Biology Research
- Phytoplasmas and Hemiptera pathogens
- Plant Virus Research Studies
- Algal biology and biofuel production
- Plant tissue culture and regeneration
- Plant Pathogenic Bacteria Studies
- Evolution and Genetic Dynamics
- Molecular Biology Techniques and Applications
- Plant Pathogens and Fungal Diseases
- Biosensors and Analytical Detection
Wageningen University & Research
2022-2024
Eindhoven University of Technology
2022-2023
Abstract Summary The ever-increasing number of sequenced genomes necessitates the development pangenomic approaches for comparative genomics. Introduced in 2016, PanTools is a platform that allows pangenome construction, homology grouping and read mapping. use graph database technology makes versatile, applicable from small viral like SARS-CoV-2 up to large plant or animal tomato human. Here, we present our third major update enables integration functional annotations provides both...
Abstract Background Adaptive laboratory evolution (ALE) is a powerful method for strain optimization towards abiotic stress factors and identifying adaptation mechanisms. In this study, the green microalga Picochlorum sp. BPE23 was cultured under supra-optimal temperature to force genetic adaptation. The robustness adaptive capacity of strains turned them into an emerging model evolutionary studies on stressors such as temperature, salinity, light. Results Mutant showed expanded maximal...
Lactuca saligna L. is a wild relative of cultivated lettuce (Lactuca sativa L.), with which it partially interfertile. Hybrid progeny suffer from hybrid incompatibility (HI), resulting in reduced fertility and distorted transmission ratios. displays broad-spectrum resistance against downy mildew caused by Bremia lactucae Regel considered non-host species. This phenomenon called (NHR). One possible mechanism behind this NHR through the plant-pathogen interaction triggered pathogen recognition...
Lettuce (Lactuca sativa L.) is a leafy vegetable crop with ongoing breeding efforts related to quality, resilience, and innovative production systems. To breed resilient resistant lettuce in the future, valuable genetic variation found close relatives could be further exploited. Lactuca virosa (2x = 2n 18), wild relative assigned tertiary gene pool, has much larger genome (3.7 Gbp) than (2.5 Gbp). It been used interspecific crosses donor modern crisphead cultivars. Here, we present de novo...
Abstract Background Breeding of lettuce ( Lactuca sativa L.), the most important leafy vegetable worldwide, for enhanced disease resistance and resilience relies on multiple wild relatives to provide necessary genetic diversity. In this study, we constructed a super-pangenome based four species (representing primary, secondary tertiary gene pools) comprising 474 accessions. We include 68 newly sequenced accessions improve cultivar coverage add foundational breeding lines. Results With find...
Genomics researchers increasingly use multiple reference genomes to comprehensively explore genetic variants underlying differences in detectable characteristics between organisms. Pangenomes allow for an efficient data representation of related and their associated metadata. However, current visual analysis approaches exploring these complex genotype-phenotype relationships are often based on single or lack adequate support interpreting the genomic context with heterogeneous (meta)data....
<p>Genomics researchers increasingly use multiple reference genomes to comprehensively explore genetic variants underlying differences in detectable characteristics between organisms. Pangenomes allow for an efficient data representation of related and their associated metadata. However, current visual analysis approaches exploring these complex genotype-phenotype relationships are often based on single or lack adequate support interpreting the genomic context with heterogeneous...
Abstract Breeding of lettuce ( Lactuca sativa L.), the most important leafy vegetable worldwide, for enhanced disease resistance and resilience relies on multiple wild relatives to provide necessary genetic diversity. In this study, we constructed a super-pangenome based four species (representing primary, secondary tertiary gene pools) comprising 474 accessions. We include 68 newly sequenced accessions improve cultivar coverage add foundational breeding lines. With find substantial...
Abstract Lettuce ( Lactuca sativa L.) is a leafy vegetable crop with ongoing breeding efforts related to quality, resilience, and innovative production systems. Genetic variation of important traits in close relatives necessary meet lettuce goals. virosa (2x=2n=18), wild relative assigned the tertiary gene pool, has much larger genome (3.7 Gbp) than (2.5 Gbp). It been used interspecific crosses donor modern crisphead cultivars. Here, we present de novo reference assembly L. high continuity...
Summary Lactuca saligna L. is a wild relative of cultivated lettuce ( sativa L.), with which it partially interfertile. Hybrid progeny suffer from hybrid incompatibilities (HI), resulting in reduced fertility and distorted transmission ratios. displays broad spectrum resistance against downy mildew caused by Bremia lactucae Regel considered non-host species. This phenomenon called (NHR). One possible mechanism behind this NHR through the plant–pathogen interaction triggered...
<p>Genomics researchers increasingly use multiple reference genomes to comprehensively explore genetic variants underlying differences in detectable characteristics between organisms. Pangenomes allow for an efficient data representation of related and their associated metadata. However, current visual analysis approaches exploring these complex genotype-phenotype relationships are often based on single or lack adequate support interpreting the genomic context with heterogeneous...
<p>Studying genetic variation underlying phenotypes is an important topic in genomics. In plant genomic research, for example, scientists analyze the between cultivars and wild types to develop crops with improved resistance diseases. This analysis commonly based on comparison a single reference genome. Because number of genomes growing rapidly avoid bias towards genome, field shifting use pangenomes, i.e., abstract representations multiple species or population. While pangenomes allow...