David Edwards
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View article: HaploVar: an R package for defining local haplotype variants for trait association and trait prediction analyses
HaploVar: an R package for defining local haplotype variants for trait association and trait prediction analyses Open
Summary Marker assisted breeding (MAB) supports breeding by identifying individuals or molecular markers associated with important traits. MAB methods include genome-wide association studies (GWAS) and genomic selection (GS). Local haploty…
View article: Phylogeny, chromosomal mapping and expression analyses of wheat <scp>CLAVATA</scp> pathway components suggest differential selection on receptor‐like kinases, CLEs and T3 WOXes
Phylogeny, chromosomal mapping and expression analyses of wheat <span>CLAVATA</span> pathway components suggest differential selection on receptor‐like kinases, CLEs and T3 WOXes Open
SUMMARY Ensuring continuous global food security is a major challenge of the 21st century. Wheat contributes approximately 20% of the total calories consumed by humans, and an estimated 60% increase in production will be required by 2050 t…
View article: Pangenomes as a framework for adaptive radiation, speciation, and adaptation
Pangenomes as a framework for adaptive radiation, speciation, and adaptation Open
Understanding the genomic basis of diversification is a central goal in evolutionary biology. In recent years, the development and use of pangenomes, a genomic representation of multiple individuals within a lineage (a set of related popul…
View article: Pangenomics combined with artificial intelligence and precision breeding can accelerate crop improvement
Pangenomics combined with artificial intelligence and precision breeding can accelerate crop improvement Open
Pangenomics significantly expands our understanding of genetic diversity in plants beyond single reference genomes by capturing extensive genomic variations. In this review, we discuss recent methodological breakthroughs in pangenomics, in…
View article: Omics for Improving Seed Quality and Yield
Omics for Improving Seed Quality and Yield Open
Seed-related traits such as seed size, germination, vigour, dormancy, biochemical composition, and stress resistance are critical to ensuring agricultural productivity and global food security, particularly in current scenarios of climate …
View article: Omics for Improving Seed Quality and Yield
Omics for Improving Seed Quality and Yield Open
Seed-related traits such as seed size, germination, vigour, dormancy, biochemical composition and stress resistance are critical to ensuring agricultural productivity and global food security, particularly in current scenarios of climate c…
View article: First Report of Genomic Regions Associated With White Leaf Spot Resistance in <i>Brassica napus</i>
First Report of Genomic Regions Associated With White Leaf Spot Resistance in <i>Brassica napus</i> Open
White leaf spot, caused by the fungal pathogen Neopseudocercosporella capsellae , is a re‐emerging disease of canola ( Brassica napus ), as its incidence and severity have increased over recent years. The disease primarily affects leaves b…
View article: Applications of CRISPR/Cas tools in improving stress tolerance in Brassica crops
Applications of CRISPR/Cas tools in improving stress tolerance in Brassica crops Open
Brassica species, which include economically important Brassica crops grown around the globe, are important as popular vegetables, forage, and oilseed crops, supplying food for humans and animals. Despite their importance, these crops face…
View article: Genome‐wide identification and evolutionary analysis of disease resistance genes in <i>Brassica carinata</i>
Genome‐wide identification and evolutionary analysis of disease resistance genes in <i>Brassica carinata</i> Open
Brassica carinata is considered an orphan crop, yet it is vital for understanding the evolution of the triangle of U Brassica species. The availability of a genome reference for this species has allowed for the interrogation of the genomic…
View article: Exploring Cloned Disease Resistance Gene Homologues and Resistance Gene Analogues in Brassica nigra, Sinapis arvensis, and Sinapis alba: Identification, Characterisation, Distribution, and Evolution
Exploring Cloned Disease Resistance Gene Homologues and Resistance Gene Analogues in Brassica nigra, Sinapis arvensis, and Sinapis alba: Identification, Characterisation, Distribution, and Evolution Open
This study identifies and classifies resistance gene analogues (RGAs) in the genomes of Brassica nigra, Sinapis arvensis and Sinapis alba using the RGAugury pipeline. RGAs were categorised into four main classes: receptor-like kinases (RLK…
View article: Justification for high-ascent attainment for balloon radiosonde soundings at GRUAN and other sites
Justification for high-ascent attainment for balloon radiosonde soundings at GRUAN and other sites Open
We assess and illustrate the benefits of high-altitude attainment of balloon-borne radiosonde soundings, up to and beyond 10 hPa level compared to, for example, 30 hPa, at operational stations and at sites of the Global Climate Observing S…
View article: Understanding plant phenotypes in crop breeding through explainable AI
Understanding plant phenotypes in crop breeding through explainable AI Open
Summary Machine learning use in plant phenotyping has grown exponentially. These algorithms empowered the use of image data to measure plant traits rapidly and to predict the effect of genetic and environmental conditions on plant phenotyp…
View article: Exploring Cloned Disease Resistance Gene Homologues and Resistance Gene Analogues in <i>Brassica nigra</i>, <i>Sinapis arvensis</i>, and <i>Sinapis alba</i>: Identification, Characterisation, Distribution, and Evolution
Exploring Cloned Disease Resistance Gene Homologues and Resistance Gene Analogues in <i>Brassica nigra</i>, <i>Sinapis arvensis</i>, and <i>Sinapis alba</i>: Identification, Characterisation, Distribution, and Evolution Open
This study identifies and classifies resistance gene analogues (RGAs) in the genomes of Brassica nigra, Sinapis arvensis and Sinapis alba using RGAugury pipeline. RGAs were categorised into four main classes: receptor-like kinases (RLKs), …
View article: Phylogenomic and super‐pangenome analyses unveil the genetic landscape of tomato evolution and domestication
Phylogenomic and super‐pangenome analyses unveil the genetic landscape of tomato evolution and domestication Open
Summary The tomato ( Solanum lycopersicum L.), a principal fruit crop, exhibits significant genetic diversity shaped by domestication and breeding. Analysis of the gene‐based super‐pangenome, a catalogue of all genes across diverse genome‐…
View article: Justification for high ascent attainment for balloon radiosonde soundings at GRUAN and other sites
Justification for high ascent attainment for balloon radiosonde soundings at GRUAN and other sites Open
We assess and illustrate the benefits of high-altitude attainment of balloon-borne radiosonde soundings, up to and beyond 10 hPa level compared to e.g. 30 hPa, at operational stations and at sites of the Global Climate Observing System (GC…
View article: Correction: Zandberg et al. The Global Assessment of Oilseed Brassica Crop Species Yield, Yield Stability and the Underlying Genetics. Plants 2022, 11, 2740
Correction: Zandberg et al. The Global Assessment of Oilseed Brassica Crop Species Yield, Yield Stability and the Underlying Genetics. Plants 2022, 11, 2740 Open
There was an error in the original publication [...]
View article: Pangenomes provide new insights into polyploidy in plants
Pangenomes provide new insights into polyploidy in plants Open
Polyploidy, also known as whole-genome duplication (WGD), is a significant evolutionary force in green plants, especially angiosperms. The dynamic nature of polyploid genomes generates genetic diversity and drives the evolution of novel tr…
View article: <i>Brassica</i> Panache: A multi‐species graph pangenome representing presence absence variation across forty‐one <i>Brassica</i> genomes
<i>Brassica</i> Panache: A multi‐species graph pangenome representing presence absence variation across forty‐one <i>Brassica</i> genomes Open
Brassicas are an economically important crop species that provide a source of healthy oil and vegetables. With the rising population and the impact of climate change on agriculture, there is an increasing need to improve agronomically impo…
View article: Local haplotyping reveals insights into the genetic control of flowering time variation in wild and domesticated soybean
Local haplotyping reveals insights into the genetic control of flowering time variation in wild and domesticated soybean Open
The timing of flowering in soybean [Glycine max (L.) Merr.], a key legume crop, is influenced by many factors, including daylight length or photoperiodic sensitivity, that affect crop yield, productivity, and geographical adaptation. Despi…
View article: Global genotype by environment prediction competition reveals that diverse modeling strategies can deliver satisfactory maize yield estimates
Global genotype by environment prediction competition reveals that diverse modeling strategies can deliver satisfactory maize yield estimates Open
Predicting phenotypes from a combination of genetic and environmental factors is a grand challenge of modern biology. Slight improvements in this area have the potential to save lives, improve food and fuel security, permit better care of …
View article: Local haplotyping reveals insights into the genetic control of flowering time variation in wild and domesticated soybean
Local haplotyping reveals insights into the genetic control of flowering time variation in wild and domesticated soybean Open
The timing of flowering in soybean [ Glycine max (L.) Merr.], a key legume crop, is influenced by many factors, including daylight length or photoperiodic sensitivity, that affect crop yield, productivity, and geographical adaptation. Desp…
View article: Leaf pigmentation in <scp><i>Cannabis sativa</i></scp>: Characterization of anthocyanin biosynthesis in colorful Cannabis varieties
Leaf pigmentation in <span><i>Cannabis sativa</i></span>: Characterization of anthocyanin biosynthesis in colorful Cannabis varieties Open
Cannabis plants produce a spectrum of secondary metabolites, encompassing cannabinoids and more than 300 non‐cannabinoid compounds. Among these, anthocyanins have important functions in plants and also have well documented health benefits.…
View article: Multimodal Deep Learning Integration of Image, Weather, and Phenotypic Data Under Temporal Effects for Early Prediction of Maize Yield
Multimodal Deep Learning Integration of Image, Weather, and Phenotypic Data Under Temporal Effects for Early Prediction of Maize Yield Open
Maize (Zea mays L.) has been shown to be sensitive to temperature deviations, influencing its yield potential. The development of new maize hybrids resilient to unfavourable weather is a desirable aim for crop breeders. In this paper, we s…