A5060150768- CRISPR and Genetic Engineering
- Plant-Microbe Interactions and Immunity
- Chromosomal and Genetic Variations
- Plant Pathogenic Bacteria Studies
- Legume Nitrogen Fixing Symbiosis
- Genomics and Phylogenetic Studies
- Plant Pathogens and Fungal Diseases
- Plant Virus Research Studies
- Weed Control and Herbicide Applications
- Plant tissue culture and regeneration
- Gut microbiota and health
- Advanced biosensing and bioanalysis techniques
- Genetic diversity and population structure
- Microbial Community Ecology and Physiology
- Evolution and Genetic Dynamics
- Plant and animal studies
Max Planck Institute for Developmental Biology
2017-2021
Crop disease outbreaks are often associated with clonal expansions of single pathogenic lineages. To determine whether similar boom-and-bust scenarios hold for wild pathosystems, we carried out a multi-year, multi-site survey Pseudomonas in its natural host Arabidopsis thaliana. The most common lineage corresponded to ubiquitous clade. Sequencing 1,524 genomes revealed this have diversified approximately 300,000 years ago, containing dozens genetically identifiable sublineages. There is...
The selection pressure exerted by herbicides has led to the repeated evolution of herbicide resistance in weeds. on contemporary timescales turn provides an outstanding opportunity investigate key questions about genetics adaptation, particular relative importance adaptation from new mutations, standing genetic variation, or geographic spread adaptive alleles through gene flow. Glyphosate-resistant Amaranthus tuberculatus poses one most significant threats crop yields Midwestern United...
Abstract Microorganisms from all domains of life establish associations with plants. Although some harm the plant, others antagonize pathogens or prime plant immune system, support acquisition nutrients, tune hormone levels, perform additional services. Most culture-independent microbiome research has focused on amplicon sequencing 16S rRNA gene and/or internal transcribed spacer (ITS) genomic loci, which show relative abundance microbes to each other. Here, we describe shotgun 275 wild...
Genome editing with the CRISPR/Cas (clustered regularly interspaced short palindromic repeats/CRISPR associated protein) system allows mutagenesis of a targeted region genome using Cas endonuclease and an artificial guide RNA. Both because variable efficiency which such mutations arise repair process produces spectrum mutations, one needs to ascertain sequence at locus for many individuals that have been subjected mutagenesis. We provide complete protocol generation amplicons up until...
Abstract A central goal in microbiome research is to learn what distinguishes a healthy from dysbiotic microbial community. Shifts diversity and taxonomic composition are important indicators of dysbiosis, but full understanding also requires knowledge absolute population sizes. In addition the number cells, information on can provide insight into function disease state. Here we use shotgun metagenomics simultaneously assess load phyllosphere wild populations plant Arabidopsis thalian a. We...
Abstract Microorganisms from all domains of life establish associations with plants. Although some harm the plant, others antagonize pathogens or prime plant immune system, acquire nutrients, tune hormone levels, perform additional services. Most culture-independent microbiome research has focused on amplicon sequencing 16S rDNA and/or internal transcribed spacer (ITS) loci, but decreasing cost high-throughput made shotgun metagenome increasingly accessible. Here, we describe 275 wild...
The selection pressure exerted by herbicides has led to the repeated evolution of herbicide resistance in weeds. on contemporary timescales turn provides an outstanding opportunity investigate key questions about genetics adaptation, particular, relative importance adaptation from new mutations, standing genetic variation, or geographic spread adaptive alleles through gene flow. Glyphosate-resistant Amaranthus tuberculatus poses one most significant threats crop yields midwestern United...
Abstract Background Genome editing with the CRISPR/Cas9 system allows user to mutate a targeted region of genome using an endonuclease (Cas9) and artificial single-guide RNA (sgRNA). Both because variable efficiency which such mutations arise repair process produces spectrum mutations, one needs ascertain sequence at locus for many individuals that have been subjected mutagenesis. This can be laborious, expensive inefficient conventional methods as T7E1 assay or Sanger sequencing. An...
The gold standard for studying natural selection and adaptation in the wild is to quantify lifetime fitness of individuals from populations that have been grown together a common garden, or reciprocally transplanted. By combining values with species traits genome sequences, one can infer coefficients at genetic level. Here we present rainfall-manipulation experiment 517 whole-genome sequenced accessions plant Arabidopsis thaliana spanning global distribution species. experiments were...
Summary Crop disease outbreaks are often associated with clonal expansions of single pathogenic lineages. To determine whether similar boom-and-bust scenarios hold for wild plant pathogens, we carried out a multi-year multi-site survey Pseudomonas in the natural host Arabidopsis thaliana. The most common lineage corresponded to clade present all sites. Sequencing 1,524 genomes revealed this have diversified approximately 300,000 years ago, containing dozens genetically distinct sublineages....