Ryan Joynson
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View article: De novo annotation of the wheat pan-genome reveals complexity and diversity of the hexaploid wheat pan-transcriptome
De novo annotation of the wheat pan-genome reveals complexity and diversity of the hexaploid wheat pan-transcriptome Open
Wheat is the most widely cultivated crop in the world with over 215 million hectares grown annually. However, to meet the demands of a growing global population, breeders face the challenge of increasing wheat production by approximately 6…
View article: Exotic alleles contribute to heat tolerance in wheat under field conditions
Exotic alleles contribute to heat tolerance in wheat under field conditions Open
Global warming poses a major threat to food security and necessitates the development of crop varieties that are resilient to future climatic instability. By evaluating 149 spring wheat lines in the field under yield potential and heat str…
View article: Exotic alleles contribute to heat tolerance in wheat under field conditions
Exotic alleles contribute to heat tolerance in wheat under field conditions Open
Code and data to reproduce figures from the publication "Exotic alleles contribute to heat tolerance in wheat under field conditions". This work identifies alleles underlying heat tolerance in a panel of 149 wheat lines. The alleles are de…
View article: Whole‐genome sequencing uncovers the structural and transcriptomic landscape of hexaploid wheat/ <i>Ambylopyrum muticum</i> introgression lines
Whole‐genome sequencing uncovers the structural and transcriptomic landscape of hexaploid wheat/ <i>Ambylopyrum muticum</i> introgression lines Open
Summary Wheat is a globally vital crop, but its limited genetic variation creates a challenge for breeders aiming to maintain or accelerate agricultural improvements over time. Introducing novel genes and alleles from wheat's wild relative…
View article: Phenotypic variation in photosynthetic traits in wheat grown under field versus glasshouse conditions
Phenotypic variation in photosynthetic traits in wheat grown under field versus glasshouse conditions Open
Recognition of the untapped potential of photosynthesis to improve crop yields has spurred research to identify targets for breeding. The CO2-fixing enzyme Rubisco is characterized by a number of inefficiencies, and frequently limits carbo…
View article: Exotic alleles contribute to heat tolerance in wheat under field conditions
Exotic alleles contribute to heat tolerance in wheat under field conditions Open
Global warming is one of the most significant threats to food security. With temperatures predicted to rise and extreme weather events becoming more common we must safeguard food production by developing crop varieties that are more tolera…
View article: Chromosome‐specific KASP markers for detecting <i>Amblyopyrum muticum</i> segments in wheat introgression lines
Chromosome‐specific KASP markers for detecting <i>Amblyopyrum muticum</i> segments in wheat introgression lines Open
Many wild‐relative species are being used in prebreeding programs to increase the genetic diversity of wheat ( Triticum aestivum L.). Genotyping tools such as single nucleotide polymorphism (SNP)‐based arrays and molecular markers have bee…
View article: Whole genome sequencing uncovers the structural and transcriptomic landscape of hexaploid wheat/<i>Ambylopyrum muticum</i> introgression lines
Whole genome sequencing uncovers the structural and transcriptomic landscape of hexaploid wheat/<i>Ambylopyrum muticum</i> introgression lines Open
Wheat is a globally vital crop, but its limited genetic variation creates a challenge for breeders aiming to maintain or accelerate agricultural improvements over time. Introducing novel genes and alleles from wheat’s wild relatives into t…
View article: A novel approach to develop wheat chromosome-specific KASP markers for detecting <i>Amblyopyrum muticum</i> segments in doubled haploid introgression lines
A novel approach to develop wheat chromosome-specific KASP markers for detecting <i>Amblyopyrum muticum</i> segments in doubled haploid introgression lines Open
Many wild relative species are being used in pre-breeding programmes to increase the genetic diversity of wheat. Genotyping tools such as single nucleotide polymorphism (SNP)-based arrays and molecular markers have been widely used to char…
View article: Evaluation and GWAS of radicle gravitropic response in a core rice germplasm population
Evaluation and GWAS of radicle gravitropic response in a core rice germplasm population Open
Aims Since gravitropism is one of the primary determinants of root development, facilitating root penetration into soil and subsequent absorption of water and nutrients, we studied this response in rice. Methods The gravitropism of 226 Chi…
View article: Subtelomeric assembly of a multi-gene pathway for antimicrobial defense compounds in cereals
Subtelomeric assembly of a multi-gene pathway for antimicrobial defense compounds in cereals Open
Non-random gene organization in eukaryotes plays a significant role in genome evolution. Here, we investigate the origin of a biosynthetic gene cluster for production of defence compounds in oat—the avenacin cluster. We elucidate the struc…
View article: Gene‐based mapping of trehalose biosynthetic pathway genes reveals association with source‐ and sink‐related yield traits in a spring wheat panel
Gene‐based mapping of trehalose biosynthetic pathway genes reveals association with source‐ and sink‐related yield traits in a spring wheat panel Open
Trehalose 6‐phosphate (T6P) signalling regulates carbon use and allocation and is a target to improve crop yields. However, the specific contributions of trehalose phosphate synthase (TPS) and trehalose phosphate phosphatase (TPP) genes to…
View article: Evaluation and GWAS of radicle gravitropic response in a core rice germplasms population
Evaluation and GWAS of radicle gravitropic response in a core rice germplasms population Open
Aims: Gravitropism is one of the primary determinants of root development, facilitating root penetration into soil and subsequent absorption of water and nutrients. To study the gravitropism of the radicle roots, we conducted this research…
View article: Uncovering candidate genes involved in photosynthetic capacity using unexplored genetic variation in Spring Wheat
Uncovering candidate genes involved in photosynthetic capacity using unexplored genetic variation in Spring Wheat Open
Summary To feed an ever‐increasing population we must leverage advances in genomics and phenotyping to harness the variation in wheat breeding populations for traits like photosynthetic capacity which remains unoptimized. Here we survey a …
View article: The genome assembly and gene annotation of oat.
The genome assembly and gene annotation of oat. Open
The data include a summary of the genome assembly and annotation of oat. Chromosome-level genome assembly and scaffold-level genome assembly are both can be found in this dataset. Genome annotation files are provided in .fa file, .gff3 fil…
View article: Naturally occurring circadian rhythm variation associated with clock gene loci in Swedish <i>Arabidopsis</i> accessions
Naturally occurring circadian rhythm variation associated with clock gene loci in Swedish <i>Arabidopsis</i> accessions Open
Circadian clocks have evolved to resonate with external day and night cycles. However, these entrainment signals are not consistent everywhere and vary with latitude, climate and seasonality. This leads to divergent selection for clocks wh…
View article: Association analysis reveals genetic control underlying natural variation in circadian rhythms in Arabidopsis
Association analysis reveals genetic control underlying natural variation in circadian rhythms in Arabidopsis Open
Circadian clocks have evolved to resonate with external day and night cycles. However, these entrainment signals are not consistent everywhere and vary with latitude, climate and seasonality. This leads to divergent selection for clocks wh…
View article: Evaluation and GWAS of radicle gravitropic response in a core rice germplasms population
Evaluation and GWAS of radicle gravitropic response in a core rice germplasms population Open
Gravitropism is one of the primary determinants of root development, facilitating root penetration into soil and subsequent absorption of water and nutrients. In this study, the gravitropism of 226 Chinese rice micro-core accessions and dr…
View article: Gene-based mapping of trehalose biosynthetic pathway genes reveals association with source- and sink-related yield traits in a spring wheat panel
Gene-based mapping of trehalose biosynthetic pathway genes reveals association with source- and sink-related yield traits in a spring wheat panel Open
Summary Trehalose 6-phosphate (T6P) signalling regulates carbon use and allocation and is a target to improve crop yields. However, the specific contributions of trehalose phosphate synthase (TPS) and trehalose phosphate phosphatase (TPP) …
View article: Uncovering candidate genes involved in photosynthetic capacity using unexplored genetic variation in Spring Wheat
Uncovering candidate genes involved in photosynthetic capacity using unexplored genetic variation in Spring Wheat Open
To feed an ever-increasing population we must leverage advances in genomics and phenotyping to harness the variation in wheat breeding populations for traits like photosynthetic capacity which remains unoptimized. Here we survey a diverse …
View article: Circadian diversity in Swedish<i>Arabidopsis</i>accessions is associated with naturally occurring genetic variation in<i>COR28</i>
Circadian diversity in Swedish<i>Arabidopsis</i>accessions is associated with naturally occurring genetic variation in<i>COR28</i> Open
Circadian clocks have evolved to resonate with external day and night cycles. However, these entrainment signals are not consistent everywhere and vary with latitude, climate and seasonality. This leads to divergent selection for clocks wh…
View article: Analysis of the recombination landscape of hexaploid bread wheat reveals genes controlling recombination and gene conversion frequency
Analysis of the recombination landscape of hexaploid bread wheat reveals genes controlling recombination and gene conversion frequency Open
Sequence exchange between homologous chromosomes through crossing over and gene conversion is highly conserved among eukaryotes, contributing to genome stability and genetic diversity. Lack of recombination limits breeding efforts in crops…
View article: Elucidating the genetic basis of biomass accumulation and radiation use efficiency in spring wheat and its role in yield potential
Elucidating the genetic basis of biomass accumulation and radiation use efficiency in spring wheat and its role in yield potential Open
Summary One of the major challenges for plant scientists is increasing wheat ( Triticum aestivum ) yield potential ( YP ). A significant bottleneck for increasing YP is achieving increased biomass through optimization of radiation use effi…
View article: Elucidating the genetic basis of biomass accumulation and radiation use efficiency in spring wheat and its role in yield potential
Elucidating the genetic basis of biomass accumulation and radiation use efficiency in spring wheat and its role in yield potential Open
Summary One of the major challenges for plant scientists is increasing wheat ( Triticum aestivum ) yield potential (YP). A significant bottleneck for increasing YP is achieving increased biomass through optimization of Radiation Use Effici…
View article: Hidden variation in polyploid wheat drives local adaptation
Hidden variation in polyploid wheat drives local adaptation Open
Wheat has been domesticated into a large number of agricultural environments and has the ability to adapt to diverse environments. To understand this process, we survey genotype, repeat content, and DNA methylation across a bread wheat lan…
View article: Hidden variation in polyploid wheat drives local adaptation
Hidden variation in polyploid wheat drives local adaptation Open
Wheat has been domesticated into a large number of agricultural environments and has a remarkable ability to adapt to diverse environments. To understand this process, we survey genotype, repeat content and DNA methylation across a bread w…
View article: Metagenomic Analysis of the Gut Microbiome of the Common Black Slug Arion ater in Search of Novel Lignocellulose Degrading Enzymes
Metagenomic Analysis of the Gut Microbiome of the Common Black Slug Arion ater in Search of Novel Lignocellulose Degrading Enzymes Open
Some eukaryotes are able to gain access to well-protected carbon sources in plant biomass by exploiting microorganisms in the environment or harbored in their digestive system. One is the land pulmonate Arion ater, which takes advantage of…