Christopher B. Watkins
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View article: Reduced Sorbitol Genotype Alters Postharvest Microbiomes of ‘Greensleeves’ Apples
Reduced Sorbitol Genotype Alters Postharvest Microbiomes of ‘Greensleeves’ Apples Open
Fruit microbiomes are capable of protecting their hosts from harmful pathogens and aiding in biocontrol; therefore, it is important to understand how differences in host genotype shape fruit microbial communities. The fruit species and eve…
View article: Whole Genome Sequencing Reveals How Plasticity and Genetic Differentiation Underlie Sympatric Morphs of Arctic Charr
Whole Genome Sequencing Reveals How Plasticity and Genetic Differentiation Underlie Sympatric Morphs of Arctic Charr Open
Salmonids have a remarkable ability to form sympatric morphs after postglacial colonisation of freshwater lakes. These morphs often differ in morphology, feeding and spawning behaviour. Here, we explored the genetic basis of morph differen…
View article: Packing Line Processes Reshape Apple Microbiomes: Differential Effects of Chlorine and Waxing on Bacterial and Fungal Communities
Packing Line Processes Reshape Apple Microbiomes: Differential Effects of Chlorine and Waxing on Bacterial and Fungal Communities Open
Modern postharvest apple processing facilities include steps to ensure the safety and storage of fresh-market fruit. Packing lines typically include a chlorine sterilization process before fruit waxing to maximize postharvest fruit quality…
View article: White LED light affects flavor and nutritional quality of harvested apricot fruit
White LED light affects flavor and nutritional quality of harvested apricot fruit Open
View article: Fruit Maturity Based on IAD Values in Relation to Preharvest 1-Methylcyclopropene Treatment and Postharvest Physiological Disorder Development in ‘Honeycrisp’ Apples
Fruit Maturity Based on IAD Values in Relation to Preharvest 1-Methylcyclopropene Treatment and Postharvest Physiological Disorder Development in ‘Honeycrisp’ Apples Open
‘Honeycrisp’ apples are prone to physiological disorder development during storage, fruit susceptibility to disorder incidence being affected by harvest date. The effects of fruit maturity from untreated trees and those sprayed at 1 week b…
View article: Determination of specific gas exchange rates in microperforated modified atmosphere packaging: effect of perforation size and gas concentration
Determination of specific gas exchange rates in microperforated modified atmosphere packaging: effect of perforation size and gas concentration Open
View article: Most human DNA replication initiation is dispersed throughout the genome with only a minority within previously identified initiation zones
Most human DNA replication initiation is dispersed throughout the genome with only a minority within previously identified initiation zones Open
Background The identification of sites of DNA replication initiation in mammalian cells has been challenging. Here, we present unbiased detection of replication initiation events in human cells using BrdU incorporation and single-molecule …
View article: IAD Values in Relation to Physiological Storage Disorders of ‘Honeycrisp’ Apples
IAD Values in Relation to Physiological Storage Disorders of ‘Honeycrisp’ Apples Open
The ‘Honeycrisp’ apple is highly prone to developing physiological disorders such as soft scald, bitter pit, and core browning during storage, but disorder incidences are affected by fruit maturity stage. To investigate relationships betwe…
View article: Reconstruction of the X and Y haplotypes in the genetically improved Abbassa nile tilapia genome assembly
Reconstruction of the X and Y haplotypes in the genetically improved Abbassa nile tilapia genome assembly Open
The success of the Nile tilapia ( Oreochromis niloticus ) as an aquaculture species is partly the result of continuous selective breeding leading to high performing strains. These elite strains have been derived from breeding populations o…
View article: High-quality genome assembly for the genetically improved Abbassa Nile tilapia enables the reconstruction of X and Y haplotypes
High-quality genome assembly for the genetically improved Abbassa Nile tilapia enables the reconstruction of X and Y haplotypes Open
The success of the Nile tilapia (Oreochromis niloticus) as an aquaculture species is partly the result of continuous selective breeding leading to high performing strains. These elite strains have been derived from breeding populations of …
View article: Pulsed light treatment affects postharvest quality and regulatory mechanisms of sweet corn
Pulsed light treatment affects postharvest quality and regulatory mechanisms of sweet corn Open
View article: Mechanism of vacuum packaging regulating postharvest quality of Mopan persimmon
Mechanism of vacuum packaging regulating postharvest quality of Mopan persimmon Open
Vacuum packaging (VAC) is a promising postharvest technology for removal of astringency in persimmons. VAC treatment increased the loss of astringency in ‘Mopan’ persimmon while maintaining firmness and sensory quality over an 8-d storage …
View article: Nuclear and Mitochondrial Genome Assemblies for the Endangered Wood-Decaying Fungus <i>Somion occarium</i>
Nuclear and Mitochondrial Genome Assemblies for the Endangered Wood-Decaying Fungus <i>Somion occarium</i> Open
Somion occarium is a wood-decaying bracket fungus belonging to an order known to be rich in useful chemical compounds. Despite its widespread distribution, S. occarium has been assessed as endangered on at least 1 national Red List, presum…
View article: Chromosome-scale genome assembly and de novo annotation of Alopecurus aequalis
Chromosome-scale genome assembly and de novo annotation of Alopecurus aequalis Open
Alopecurus aequalis is a winter annual or short-lived perennial bunchgrass which has in recent years emerged as the dominant agricultural weed of barley and wheat in certain regions of China and Japan, causing significant yield losses. Its…
View article: Chromosome-scale genome assembly and de novo annotation of Alopecurus aequalis.
Chromosome-scale genome assembly and de novo annotation of Alopecurus aequalis. Open
Alopecurus aequalis is a winter annual or short-lived perennial bunchgrass which has in recent years emerged as the dominant agricultural weed of barley and wheat in certain regions of China and Japan, causing significant yield losses. Its…
View article: The genome sequence of the Violet Carpenter Bee, Xylocopa violacea (Linnaeus, 1785): a hymenopteran species undergoing range expansion
The genome sequence of the Violet Carpenter Bee, Xylocopa violacea (Linnaeus, 1785): a hymenopteran species undergoing range expansion Open
We present a reference genome assembly from an individual male Violet Carpenter Bee ( Xylocopa violacea , Linnaeus 1758). The assembly is 1.02 gigabases in span. 48% of the assembly is scaffolded into 17 pseudo-chromosomal units. The mitoc…
View article: γ-Aminobutyric Acid and Antioxidant Changes in Fresh-cut Cantaloupe, Pineapple, and Cauliflower during Storage
γ-Aminobutyric Acid and Antioxidant Changes in Fresh-cut Cantaloupe, Pineapple, and Cauliflower during Storage Open
γ-Aminobutyric acid (GABA), a nonprotein amino acid, can accumulate in plants in response to abiotic stresses. The effects of postharvest treatments on endogenous GABA concentrations and exogenous GABA on whole horticulture product quality…
View article: Most human DNA replication initiation is dispersed throughout the genome with only a minority within previously identified initiation zones
Most human DNA replication initiation is dispersed throughout the genome with only a minority within previously identified initiation zones Open
Background The identification of sites of DNA replication initiation in mammalian cells has been challenging. Here, we present unbiased detection of replication initiation events in human cells using BrdU incorporation and single-molecule …
View article: The genome sequence of the Violet Carpenter Bee, Xylocopa violacea (Linnaeus, 1785): a hymenopteran species undergoing range expansion.
The genome sequence of the Violet Carpenter Bee, Xylocopa violacea (Linnaeus, 1785): a hymenopteran species undergoing range expansion. Open
We present a reference genome assembly from an individual male Violet Carpenter Bee (Xylocopa violacea, Linnaeus, 1758). The assembly is 1.02 gigabases in span. 48% of the assembly is scaffolded into 17 pseudo-chromosomal units. The mitoch…
View article: Nitric oxide delays the postharvest nutritional quality decline of “Golden Hook” beans
Nitric oxide delays the postharvest nutritional quality decline of “Golden Hook” beans Open
“Golden Hook” beans turn purple to different degrees due to the different compositions and contents of flavonoids during storage. At the same time, quality losses due to softening or pathogen invasion, and the deteriorations of flavor asso…
View article: Multiomics analyses of the effects of LED white light on the ripening of apricot fruits
Multiomics analyses of the effects of LED white light on the ripening of apricot fruits Open
View article: Determination of the Specific Gas Exchange Rate as a Function of Gas Concentration in Microperforated Modified Atmosphere Packaging
Determination of the Specific Gas Exchange Rate as a Function of Gas Concentration in Microperforated Modified Atmosphere Packaging Open
View article: Editorial: The physiology, molecular biology and biochemistry in ripening and stored fruit
Editorial: The physiology, molecular biology and biochemistry in ripening and stored fruit Open
EDITORIAL article Front. Plant Sci., 29 September 2023Sec. Crop and Product Physiology Volume 14 - 2023 | https://doi.org/10.3389/fpls.2023.1296816
View article: Shades of meaning: Uncovering the geometry of ambiguous word representations through contextualised language models
Shades of meaning: Uncovering the geometry of ambiguous word representations through contextualised language models Open
Lexical ambiguity presents a profound and enduring challenge to the language sciences. Researchers for decades have grappled with the problem of how language users learn, represent and process words with more than one meaning. Our work off…
View article: Evolution with recombination as Gibbs sampling
Evolution with recombination as Gibbs sampling Open
This work presents a population genetic model of evolution, which includes haploid selection, mutation, recombination, and drift. The mutation-selection equilibrium can be expressed exactly in closed form for arbitrary fitness functions wi…
View article: Harvest Maturity and Preharvest Aminoethoxyvinylglycine Treatment Effects on Cold-induced Ethylene Production of ‘Gala’ Apples
Harvest Maturity and Preharvest Aminoethoxyvinylglycine Treatment Effects on Cold-induced Ethylene Production of ‘Gala’ Apples Open
Cold storage is a commonly adopted technology to maintain quality and extend shelf life; however, depending on the cultivar, ethylene production can be enhanced by short-term cold treatments. In this study, index of absorbance difference (…
View article: Transcriptomic, metabolomic, and ATAC-seq analysis reveal the regulatory mechanism of senescence of post-harvest tomato fruit
Transcriptomic, metabolomic, and ATAC-seq analysis reveal the regulatory mechanism of senescence of post-harvest tomato fruit Open
Several physiological changes occur during fruit storage, which include the regulation of genes, metabolisms and transcription factors. In this study, we compared ‘JF308’ (a normal tomato cultivar) and ‘YS006’ (a storable tomato cultivar) …
View article: Improving Expert Specialization in Mixture of Experts
Improving Expert Specialization in Mixture of Experts Open
Mixture of experts (MoE), introduced over 20 years ago, is the simplest gated modular neural network architecture. There is renewed interest in MoE because the conditional computation allows only parts of the network to be used during each…
View article: Additional file 8 of Chromosome-level genome sequence of the Genetically Improved Farmed Tilapia (GIFT, Oreochromis niloticus) highlights regions of introgression with O. mossambicus
Additional file 8 of Chromosome-level genome sequence of the Genetically Improved Farmed Tilapia (GIFT, Oreochromis niloticus) highlights regions of introgression with O. mossambicus Open
Additional file 8: Supplementary Table 4. Ontology terms significantly enriched among genes identified within O. mossambicus introgressed regions.
View article: Additional file 6 of Chromosome-level genome sequence of the Genetically Improved Farmed Tilapia (GIFT, Oreochromis niloticus) highlights regions of introgression with O. mossambicus
Additional file 6 of Chromosome-level genome sequence of the Genetically Improved Farmed Tilapia (GIFT, Oreochromis niloticus) highlights regions of introgression with O. mossambicus Open
Additional file 6: Supplementary Table 3. Genes identified within O. mossambicus introgressed regions including corresponding orthologs in medaka.