A5089518531- Genetic Mapping and Diversity in Plants and Animals
- Chromosomal and Genetic Variations
- Plant Pathogens and Resistance
- Plant Disease Resistance and Genetics
- Plant pathogens and resistance mechanisms
- Plant Reproductive Biology
- Plant-Microbe Interactions and Immunity
- Plant Pathogenic Bacteria Studies
- Wheat and Barley Genetics and Pathology
- Berry genetics and cultivation research
- Plant Pathogens and Fungal Diseases
- Spectroscopy and Chemometric Analyses
- Potato Plant Research
- Yeasts and Rust Fungi Studies
- Plant Virus Research Studies
- Biblical Studies and Interpretation
- GABA and Rice Research
- Metabolomics and Mass Spectrometry Studies
- Religion, Society, and Development
- Bioenergy crop production and management
- Turfgrass Adaptation and Management
- Genetic diversity and population structure
- Plant Gene Expression Analysis
- Gene expression and cancer classification
- Plant and animal studies
Wageningen University & Research
2015-2024
Electronic Product Services (Czechia)
2022
Graduate School Experimental Plant Sciences
2020
Rose is the world's most important ornamental plant, with economic, cultural and symbolic value. Roses are cultivated worldwide sold as garden roses, cut flowers potted plants. outbred can have various ploidy levels. Our objectives were to develop a high-quality reference genome sequence for genus Rosa by sequencing doubled haploid, combining long short reads, anchoring high-density genetic map, study structure basis of major traits. We produced haploid rose line ('HapOB') from chinensis...
Cultivated potato is a clonally propagated autotetraploid species with highly heterogeneous genome. Phased assemblies of six cultivars including two chromosome-scale phased genome revealed extensive allelic diversity, altered coding and transcript sequences, preferential allele expression, structural variation that collectively result in complex transcriptome predicted proteome, which are distributed across the homologous chromosomes. Wild contribute to diversity tetraploid cultivars,...
Abstract The creation of genetic linkage maps in polyploid species has been a long-standing problem for which various approaches have proposed. In the case autopolyploids, commonly used simplification is that random bivalents form during meiosis. This leads to relatively straightforward estimation recombination frequencies using maximum likelihood, from map can be derived. However, autopolyploids such as tetraploid potato (Solanum tuberosum L.) may exhibit additional features, double...
Polyploid species carry more than two copies of each chromosome, a condition found in many the world's most important crops. Genetic mapping polyploids is complex diploid species, resulting lack available software tools. These are needed if we to realize all opportunities offered by modern genotyping platforms for genetic research and breeding polyploid crops.polymapR an R package linkage analysis integrated map construction from bi-parental populations outcrossing autopolyploids. It can...
It has long been recognised that polyploid species do not always neatly fall into the categories of auto- or allopolyploid, leading to term 'segmental allopolyploid' describe everything in between. The meiotic behaviour such intermediate is fully understood, nor there consensus as how model their inheritance patterns. In this study we used a tetraploid cut rose (Rosa hybrida) population, genotyped using 68K WagRhSNP array, construct an ultra-high-density linkage map all homologous...
The recent completion of the rose genome sequence is not end a process, but rather starting point that opens up whole set new and exciting activities. Next to high-quality other genomic tools have also become available for rose, including transcriptomics data, high-density single-nucleotide polymorphism array software perform linkage quantitative trait locus mapping in polyploids. Rose cultivars are highly heterogeneous diverse. This vast diversity cultivated roses can be explained through...
We constructed the first integrated genetic linkage map in a polysomic hexaploid. This enabled us to estimate inheritance of parental haplotypes offspring and detect multi-allelic QTL. Construction use maps are challenging hexaploids with inheritance. Full integration requires calculations recombination frequency between markers complex segregation types. In addition, detection QTL information on all six alleles at one locus for each individual. describe method that we used construct fully...
Dense genetic maps create a base for QTL analysis of important traits and future implementation marker-assisted breeding. In tetraploid rose, the existing linkage include <300 markers to cover 28 groups (4 homologous sets 7 chromosomes). Here we used 68k WagRhSNP Axiom single-nucleotide polymorphism (SNP) array in combination with SNP dosage calling at level, genotype offspring from garden rose cultivar 'Red New Dawn'. The proved be not single bi-parental cross. breeding, crosses unintended...
Rose morphological traits such as prickles or petal number are influenced by a few key QTL which were detected across different growing environments-necessary for genomics-assisted selection in non-target environments. Rose, one of the world's most-loved and commercially important ornamental plants, is predominantly tetraploid, possessing four rather than two copies each chromosome. This condition complicates genetic analysis, so majority previous studies rose have been performed at diploid...
The investigation of quantitative trait loci (QTL) is an essential component in our understanding how organisms vary phenotypically. However, many important crop species are polyploid (carrying more than two copies each chromosome), requiring specialized tools for such analyses. Moreover, deciphering meiotic processes at higher ploidy levels not straightforward, but necessary to understand the reproductive dynamics these species, or uncover potential barriers their genetic improvement.Here,...
Linkage mapping can help unravel the complexities of polyploid genomes. Here, we integrate haplotype-specific linkage maps in autotetraploid potato and explore possibilities for other species. High-density autopolyploid species has become possible recent years given increasing number molecular markers now available through modern genotyping platforms. Such along with larger experimental populations are needed before obtain sufficient accuracy to make marker-trait association studies useful...
Polyploidy is a key driver of significant evolutionary changes in plant species. The genus Actinidia (kiwifruit) exhibits multiple ploidy levels, which contribute to novel fruit traits, high yields and resistance the canker-causing dieback disease incited by Pseudomonas syringae pv. actinidiae (Psa) biovar 3. However, genetic mechanism for Psa observed polyploid kiwifruit not yet known. In this study we performed detailed analysis tetraploid chinensis var. population derived from cross...
Abstract Key message Multiple QTLs control unreduced pollen production in potato. Two major-effect co-locate with mutant alleles of genes homology to AtJAS, a known regulator meiotic spindle orientation. In diploid potato the gametes (2 n ) rather than haploid ( number chromosomes has been widely reported. Besides their evolutionary important role sexual polyploidisation, also have practical value for breeding as bridge between and tetraploid germplasm. Although early articles argued...
New genotyping technologies, offering the possibility of high genetic resolution at low cost, have helped fuel a surge in interest analysis polyploid species. Nevertheless, autopolyploid species present extra challenges not encountered diploids and allopolyploids, such as polysomic inheritance or double reduction. Here we investigate power precision quantitative trait locus (QTL) outcrossing autopolyploids, comparing results model that assumes random bivalent chromosomal pairing during...
Rose is one of the most important ornamental and economic plants in world. Modern rose cultivars are primarily tetraploid, during meiosis, they may exhibit double reduction or preferential chromosome pairing. Therefore, construction a high density genetic map tetraploid both challenging instructive. In this study, population was used to conduct analysis using genome sequencing. A total 17 382 single nucleotide polymorphism (SNP) markers were selected from 2 308 042 detected SNPs. Combined...
Protein content is a key quality trait for the potato starch industry. The objective of this study was to identify allele-specific quantitative loci (QTLs) tuber protein in cultivated (Solanum tuberosum L.) at tetraploid level. We analysed 496 full-sib F1 clones 3-year field trial dissect complex genetic architecture soluble content. Genotypic data from 60K single nucleotide polymorphism (SNP) array used SNP dosage scoring, constructing homologue specific linkage maps and assembly dense...
Summary Kiwifruit ( Actinidia spp) is a woody, perennial and deciduous vine. In this genus, there are multiple ploidy levels but the main cultivated cultivars polyploid. Despite availability of many genomic resources in kiwifruit, SNP genotyping still challenge given these different polyploidy. Recent advances array technologies have offered high‐throughput platform for genome‐wide DNA polymorphisms. study, we developed high‐density to facilitate genetic studies breeding applications...
Population genetic studies have long been an essential part in dissecting important traits of crops. The advent genomic resources has significantly enhanced the efficiency mapping studies. Concurrently, integration multi-omics approaches affords a comprehensive perspective plant systems, enabling researchers to investigate correlations between variations and horticultural across multiple dimensions. This review summarized combining forward genetics with analyze basis We discussed strategies...
Abstract Motivation Polyploid species carry more than two copies of each chromosome, a condition found in many the world’s most important crops. Genetic mapping polyploids is complex diploid species, resulting lack available software tools. These are needed if we to realise all opportunities offered by modern genotyping platforms for genetic research and breeding polyploid Results polymapR an R package linkage analysis integrated map construction from bi-parental populations outcrossing...
Linkage mapping is an approach to order markers based on recombination events. Mapping algorithms cannot easily handle genotyping errors, which are common in high-throughput data. To solve this issue, strategies have been developed, aimed mostly at identifying and eliminating these errors. One such strategy SMOOTH, iterative algorithm detect Unlike other approaches, SMOOTH can also be used impute the most probable alternative genotypes, but its application limited diploid species...