Paul Datson
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View article: Using genomic selection to correct pedigree errors in kiwiberry breeding
Using genomic selection to correct pedigree errors in kiwiberry breeding Open
In breeding programmes, accurate estimation of breeding values is crucial for selecting superior genotypes. Traditional methods rely on phenotypic observations and pedigree information to estimate variance components and heritability. Howe…
View article: Molecular breeding of flower load related traits in dioecious autotetraploid Actinidia arguta
Molecular breeding of flower load related traits in dioecious autotetraploid Actinidia arguta Open
Flowering plants exhibit a wide range of sexual reproduction systems, with the majority being hermaphroditic. However, some plants, such as Actinidia arguta (kiwiberry), have evolved into dioecious species with distinct female and male vin…
View article: Mapping QTL associated with resistance to Pseudomonas syringae pv. actinidiae in kiwifruit (Actinidia chinensis var. chinensis)
Mapping QTL associated with resistance to Pseudomonas syringae pv. actinidiae in kiwifruit (Actinidia chinensis var. chinensis) Open
Pseudomonas syringae pv. actinidiae (Psa) is a bacterial pathogen of kiwifruit. This pathogen causes leaf-spotting, cane dieback, wilting, cankers (lesions), and in severe cases, plant death. Families of diploid A. chinensis seedlings grow…
View article: Implementation of different relationship estimate methodologies in Breeding Value prediction in kiwiberry (Actinidia arguta)
Implementation of different relationship estimate methodologies in Breeding Value prediction in kiwiberry (Actinidia arguta) Open
In dioecious crops such as Actinidia arguta (kiwiberries), some of the main challenges when breeding for fruit characteristics is the selection of potential male parents and the long juvenile period. Currently, breeding values of male pare…
View article: Actinidia seed-borne latent virus (ASbLV, Betaflexiviridae) is transmitted paternally and maternally at high rates
Actinidia seed-borne latent virus (ASbLV, Betaflexiviridae) is transmitted paternally and maternally at high rates Open
Actinidia seed-borne latent virus (ASbLV, Betaflexiviridae , genus Prunevirus) was detected at high frequency in healthy seedlings grown from lines of imported seed in a New Zealand post-entry quarantine facility. To determine the route an…
View article: First Chromosome-Scale Assembly and Deep Floral-Bud Transcriptome of a Male Kiwifruit
First Chromosome-Scale Assembly and Deep Floral-Bud Transcriptome of a Male Kiwifruit Open
DATA REPORT article Front. Genet., 16 May 2022Sec. Plant Genomics https://doi.org/10.3389/fgene.2022.852161
View article: Two Y chromosome-encoded genes determine sex in kiwifruit
Two Y chromosome-encoded genes determine sex in kiwifruit Open
Dioecy, the presence of male and female individuals, has evolved independently in multiple flowering plant lineages. Although theoretical models for the evolution of dioecy, such as the “two-mutation” model, are well established, little is…
View article: Additional file 12: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants
Additional file 12: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants Open
Markers used in this study. List of names of extracted FASTA sequences for SNP markers used to construct the genome (TXT 841Â kb)
View article: Additional file 7: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants
Additional file 7: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants Open
Details of sequenced cDNAâ s generated. Fasta formatted sequences of 812 bidirectionally sequenced expressed sequence tag clones from A. chinensis var. chinensis used in evaluating manually annotated gene models of Red5. (FASTA 1204Â kb)
View article: Additional file 1: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants
Additional file 1: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants Open
Map back rates to the Red5 genome sequence.Summary of the numbers of input reads reads that align to the RED5 genome construction (XLSX 10Â kb)
View article: Additional file 5: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants
Additional file 5: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants Open
‘Hongyang’ Gene models that align to Red5 genome.List of Actinidia chinensis ‘Hongyang’ genes that align to the Red5 whole genome sequence. Additional file 5A: models from original ‘Hongyang’ annotation [14]. Additional file 5B: models fro…
View article: Additional file 6: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants
Additional file 6: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants Open
Revised â Hongyangâ genes omitted from the manually edited gene set. Average RNA-Seq read coverage of the 1069 KIR V2 models perfectly aligned to the Red5 genome without a protein match in the Red5 gene set. (XLSX 114Â kb)
View article: Additional file 2: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants
Additional file 2: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants Open
BAC alignment to chromosome 25.Table summarising alignments of contigs from 22 BAC clones to chromosome 25 of the Red5 assembly (XLSX 15Â kb)
View article: Additional file 13: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants
Additional file 13: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants Open
Comparison of Actinidia ESTâ s to manually annotated gene models.Summary of the raw results for the best BLAT gene set match protein of the sequenced cDNAs and manually annotated predicted peptides. (XLSX 102Â kb)
View article: Additional file 9: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants
Additional file 9: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants Open
Selected gene models used for phylogeny.Table of EXPANSIN genes and ACS genes identified in this study (XLSX 19Â kb)
View article: Additional file 8: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants
Additional file 8: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants Open
Sequenced cDNAâ s used to verify the gene models.Fasta formatted predicted protein sequences of 550 bidirectionally sequenced expressed sequence tag clones from A. chinensis var. chinensis used in evaluating manually annotated gene models …
View article: Additional file 4: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants
Additional file 4: of A manually annotated Actinidia chinensis var. chinensis (kiwifruit) genome highlights the challenges associated with draft genomes and gene prediction in plants Open
BLASTP comparison of manually edited gene models to the revised ‘Hongyang’ gene models. List of best reciprocal BLASTp matches between the revised Actinidia chinensis ‘Hongyang’ genes [18]and the Red5 gene set (XLSX 436 kb)
View article: Rapid radiations of both kiwifruit hybrid lineages and their parents shed light on a two‐layer mode of species diversification
Rapid radiations of both kiwifruit hybrid lineages and their parents shed light on a two‐layer mode of species diversification Open
Summary Reticulate speciation caused by interspecific hybridization is now recognized as an important mechanism in the creation of biological diversity. However, depicting the patterns of phylogenetic networks for lineages that have underg…