Roy Storey
YOU?
Author Swipe
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: Differential expression analyses reveal extensive transcriptional plasticity induced by temperature in New Zealand silver trevally (<i>Pseudocaranx georgianus</i>)
Differential expression analyses reveal extensive transcriptional plasticity induced by temperature in New Zealand silver trevally (<i>Pseudocaranx georgianus</i>) Open
Ectotherm species, such as marine fishes, depend on environmental temperature to regulate their vital functions. In finfish aquaculture production, being able to predict physiological responses in growth and other economic traits to temper…
View article: Genome‐wide analysis reveals the genetic stock structure of hoki (<i>Macruronus novaezelandiae</i>)
Genome‐wide analysis reveals the genetic stock structure of hoki (<i>Macruronus novaezelandiae</i>) Open
The assessment of the genetic structuring of biodiversity is crucial for management and conservation. This is particularly critical for widely distributed and highly mobile deep‐water teleosts, such as hoki ( Macruronus novaezelandiae ). T…
View article: The genome of New Zealand trevally (Carangidae: Pseudocaranx georgianus) uncovers a XY sex determination locus
The genome of New Zealand trevally (Carangidae: Pseudocaranx georgianus) uncovers a XY sex determination locus Open
Background The genetic control of sex determinism in teleost species is poorly understood. This is partly because of the diversity of sex determining mechanisms in this large group, including constitutive genes linked to sex chromosomes, p…
View article: BACRB - Parallel Sequencing of Barcoded BAC Clones&nbsp;by random tagging PCR v1
BACRB - Parallel Sequencing of Barcoded BAC Clones by random tagging PCR v1 Open
A genome is assembled by connecting large scaffolds via a collection of thousands of mate-paired ends of various sizes (3-20 kbp). Terminal ends of long DNA fragments can be obtained by sequencing large insert clones by Sanger sequencing, …
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: MOESM4 of A novel hairpin library-based approach to identify NBSâ LRR genes required for effector-triggered hypersensitive response in Nicotiana benthamiana
MOESM4 of A novel hairpin library-based approach to identify NBSâ LRR genes required for effector-triggered hypersensitive response in Nicotiana benthamiana Open
Additional file 4: Table S1. List of the sequences of the 345 R gene candidates (tab 1) and the 281 kmers (tab 2) of the RNAi library, and association between R gene candidates and Kmers (tab 3) and composition of the hairpin constructs us…
View article: MOESM2 of A novel hairpin library-based approach to identify NBSâ LRR genes required for effector-triggered hypersensitive response in Nicotiana benthamiana
MOESM2 of A novel hairpin library-based approach to identify NBSâ LRR genes required for effector-triggered hypersensitive response in Nicotiana benthamiana Open
Additional file 2. Outfile of the HMMsearch of the N. benthamiana predicted proteins using PF000931 (NB-ARC).
View article: MOESM6 of A novel hairpin library-based approach to identify NBSâ LRR genes required for effector-triggered hypersensitive response in Nicotiana benthamiana
MOESM6 of A novel hairpin library-based approach to identify NBSâ LRR genes required for effector-triggered hypersensitive response in Nicotiana benthamiana Open
Additional file 6. Sequences of the 281 Kmers (FASTA format).
View article: MOESM3 of A novel hairpin library-based approach to identify NBSâ LRR genes required for effector-triggered hypersensitive response in Nicotiana benthamiana
MOESM3 of A novel hairpin library-based approach to identify NBSâ LRR genes required for effector-triggered hypersensitive response in Nicotiana benthamiana Open
Additional file 3. Algorithm::SetCovering, Algorithms to solve the â set covering problemâ . Copyright 2003 by Mike Schilli [email protected].
View article: MOESM5 of A novel hairpin library-based approach to identify NBSâ LRR genes required for effector-triggered hypersensitive response in Nicotiana benthamiana
MOESM5 of A novel hairpin library-based approach to identify NBSâ LRR genes required for effector-triggered hypersensitive response in Nicotiana benthamiana Open
Additional file 5. Sequences of the 345 R gene candidates (FASTA format).