Simon Deroles
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View article: Simple and Efficient Transformation and Gene Editing of <i>Marchantia polymorpha</i> Spores
Simple and Efficient Transformation and Gene Editing of <i>Marchantia polymorpha</i> Spores Open
Marchantia polymorpha (Marchantia) has become a model species for liverwort studies, owing to its rapid growth in vitro , ease of propagation, simple genetics, small genome, haploid‐dominant life cycle, and because it is amenable to geneti…
View article: A phosphatase gene is linked to nectar dihydroxyacetone accumulation in mānuka (<i>Leptospermum scoparium</i>)
A phosphatase gene is linked to nectar dihydroxyacetone accumulation in mānuka (<i>Leptospermum scoparium</i>) Open
Summary Floral nectar composition beyond common sugars shows great diversity but contributing genetic factors are generally unknown. Mānuka ( Leptospermum scoparium ) is renowned for the antimicrobial compound methylglyoxal in its derived …
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: Rapid Methodologies for Assessing<i>Pseudomonas syringae</i>pv.<i>actinidiae</i>Colonization and Effector-Mediated Hypersensitive Response in Kiwifruit
Rapid Methodologies for Assessing<i>Pseudomonas syringae</i>pv.<i>actinidiae</i>Colonization and Effector-Mediated Hypersensitive Response in Kiwifruit Open
The infection of Pseudomonas syringae pv. actinidiae in kiwifruit is currently assessed by numerous methodologies, each with their own limitations. Most studies are based on either a laborious method of growth quantification of the pathoge…
View article: Auronidins are a previously unreported class of flavonoid pigments that challenges when anthocyanin biosynthesis evolved in plants
Auronidins are a previously unreported class of flavonoid pigments that challenges when anthocyanin biosynthesis evolved in plants Open
Significance Anthocyanins are flavonoid plant pigments that may be important for coping with environmental stresses, such as high light, drought, and nutrient deprivation. It has been thought that anthocyanin biosynthesis arose when land p…
View article: Molecular Characterisation of a Supergene Conditioning Super-High Vitamin C in Kiwifruit Hybrids
Molecular Characterisation of a Supergene Conditioning Super-High Vitamin C in Kiwifruit Hybrids Open
During analysis of kiwifruit derived from hybrids between the high vitamin C (ascorbic acid; AsA) species Actinidia eriantha and A. chinensis, we observed bimodal segregation of fruit AsA concentration suggesting major gene segregation. To…
View article: Molecular Characterization of a Supergene Conditioning Super-High Vitamin C in Kiwifruit Hybrids
Molecular Characterization of a Supergene Conditioning Super-High Vitamin C in Kiwifruit Hybrids Open
During analysis of kiwifruit derived from hybrids between the high AsA species Actinidia eriantha and A. chinensis var chinensis, we observed bimodal segregation of fruit AsA concentration suggesting major gene segregation. To test this hy…
View article: UVR8‐mediated induction of flavonoid biosynthesis for UVB tolerance is conserved between the liverwort <i>Marchantia polymorpha</i> and flowering plants
UVR8‐mediated induction of flavonoid biosynthesis for UVB tolerance is conserved between the liverwort <i>Marchantia polymorpha</i> and flowering plants Open
Summary Damaging UVB radiation is a major abiotic stress facing land plants. In angiosperms the UV RESISTANCE LOCUS 8 ( UVR 8) photoreceptor coordinates UVB responses, including inducing biosynthesis of protective flavonoids. We characteri…
View article: NRG1-mediated recognition of HopQ1 reveals a link between PAMP- and Effector-triggered Immunity
NRG1-mediated recognition of HopQ1 reveals a link between PAMP- and Effector-triggered Immunity Open
Summary Members of the hopQ1/XopQ family of effectors are conserved amongst pathogenic bacteria suggesting an important function in virulence. Therefore, the identification of R proteins recognising members of this family is potentially of…
View article: Genetic analysis of the liverwort <i>Marchantia polymorpha</i> reveals that R2R3 <scp>MYB</scp> activation of flavonoid production in response to abiotic stress is an ancient character in land plants
Genetic analysis of the liverwort <i>Marchantia polymorpha</i> reveals that R2R3 <span>MYB</span> activation of flavonoid production in response to abiotic stress is an ancient character in land plants Open
Summary The flavonoid pathway is hypothesized to have evolved during land colonization by plants c . 450 Myr ago for protection against abiotic stresses. In angiosperms, R2R3 MYB transcription factors are key for environmental regulation o…
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: Regulation of UV-induced flavonoid production in Marchantia polymorpha: a role in the evolution of plants for land colonisation?
Regulation of UV-induced flavonoid production in Marchantia polymorpha: a role in the evolution of plants for land colonisation? Open
Plants are thought to have colonized the land around 500 million years ago. One of the major challenges the first pioneers faced was protection against UV radiation. UV has severe detrimental effects on plant cells and was at particularly …