A5087603423- Genomics and Phylogenetic Studies
- Plant Physiology and Cultivation Studies
- Plant Pathogens and Fungal Diseases
- Plant Reproductive Biology
- Genetic diversity and population structure
- Molecular Biology Techniques and Applications
- Plant and animal studies
- Advanced biosensing and bioanalysis techniques
- Plant Virus Research Studies
- Genetic Mapping and Diversity in Plants and Animals
- Plant biochemistry and biosynthesis
- Genetic and phenotypic traits in livestock
- Plant Pathogenic Bacteria Studies
- Genetic and Clinical Aspects of Sex Determination and Chromosomal Abnormalities
- Plant nutrient uptake and metabolism
- Reproductive biology and impacts on aquatic species
- Insect-Plant Interactions and Control
- Biotin and Related Studies
- Horticultural and Viticultural Research
- RNA and protein synthesis mechanisms
- CRISPR and Genetic Engineering
- Isotope Analysis in Ecology
- Click Chemistry and Applications
- Bacteriophages and microbial interactions
- Environmental DNA in Biodiversity Studies
Plant & Food Research
2015-2025
Lincoln University
2024
University of Otago
2021
Genomics (United Kingdom)
2020
Queensland University of Technology
2018
AgResearch
2001-2007
Manaaki Whenua – Landcare Research
2004
Medical Research Institute of New Zealand
2003
University of Connecticut
1996-2002
Most published genome sequences are drafts, and most dominated by computational gene prediction. Draft genomes typically incorporate considerable sequence data that not assigned to chromosomes, predicted genes without quality confidence measures. The current Actinidia chinensis (kiwifruit) 'Hongyang' draft has 164 Mb of unassigned pseudo-chromosomes, omissions have been identified in the models.A second an A. (genotype Red5) was fully sequenced. This new resulted a 554.0 assembly with all...
Self splicing introns and inteins that rely on a homing endonuclease for propagation are parasitic genetic elements. Their life-cycle evolutionary fate has been described through the cycle. According to this model is selected function only during spreading phase of parasite. This ends when element fixed in population. Upon fixation no longer under selection, its activity lost random processes. Recent analyses these elements with functional endonucleases suggest most simple form not always...
The transient leaf assay in Nicotiana benthamiana is widely used plant sciences, with one application being the rapid assembly of complex multigene pathways that produce new fatty acid profiles. This and facile would be further improved if it were possible to simultaneously overexpress transgenes while accurately silencing endogenes. Here, we report a draft genome resource for N. spanning over 75% 3.1 Gb haploid genome. revealed two-member NbFAD2 family, NbFAD2.1 NbFAD2.2, quantitative...
Red colour in kiwifruit results from the presence of anthocyanin pigments. Their expression, however, is complex, and varies among genotypes, species, tissues environments. An understanding biosynthesis, physiology genetics anthocyanins involved, control their expression different tissues, required. A MBW consisting R2R3-MYB bHLH transcription factors together with a WD-repeat protein, activates 3-O-galactosyltransferase (F3GT1) to produce anthocyanins. We examined genetic flowers Actinidia...
Summary Reticulate speciation caused by interspecific hybridization is now recognized as an important mechanism in the creation of biological diversity. However, depicting patterns phylogenetic networks for lineages that have undergone gene flow challenging. Here we sequenced 25 taxa representing natural diversity genus Actinidia with average mapping depth 26× on reference genome to reconstruct their reticulate history. We found evidence, including significant tree discordance, cytonuclear...
Genomic methods for identifying causative variants trait loci applicable to a wide range of germplasm are required plant biologists and breeders understand the genetic control variation.
Bilberry (Vaccinium myrtillus L.) belongs to the Vaccinium genus, which includes blueberries spp.) and cranberry (V. macrocarpon). Unlike its cultivated relatives, bilberry remains largely undomesticated, with berry harvesting almost entirely from wild. As such, it represents an ideal target for genomic analysis, providing comparisons domesticated species. is prized taste health properties has provided essential nutrition Northern European indigenous populations. It contains high...
We assembled the genome of Leptospermum scoparium 'Crimson Glory' using a combination Illumina paired-end sequencing, high-throughput chromosome conformation capture (Hi-C) and high density genetic mapping. As is variety mānuka, this first assembly for plant species culturally recognised as treasure (taonga) by indigenous Māori Aotearoa New Zealand. The mānuka spans total 297 Mbp organised in 11 pseudo-chromosomes that are syntenic with Eucalyptus genome. A large proportion corresponds to...
Abstract The more demanding requirements of DNA preservation for genomic research can be difficult to meet when field conditions limit the methodological approaches that used or cause samples stored in suboptimal conditions. Such limitations may increase rates degradation, potentially rendering unusable applications such as genome‐wide sequencing. Nonetheless, little is known about impact sampling We evaluated performance two widely solutions (1. DESS: 20% DMSO, 0.25 M EDTA, NaCl saturated...
Outside Front Cover: The cover image is based on the article Identification and Characterization of Innate Immunity in Actinidia melanandra Response to Pseudomonas syringae pv. actinidiae by Jay Jayaraman et al., https://doi.org/10.1111/pce.15189.
The allelic diversity of primitive germplasm fruit crops provides a useful resource for introgressing novel genes to meet consumer preferences and environmental challenges. Pre-breeding facilitates the identification genetic variation in expedite its utilisation cultivar breeding programmes. Several generations pre-breeding could be required minimise linkage drag from donor parent maximise genomic content recipient parent. In this study we investigated potential selection (GS) as tool rapid...
DATA REPORT article Front. Genet., 16 May 2022Sec. Plant Genomics https://doi.org/10.3389/fgene.2022.852161
Abstract The assessment of the genetic structuring biodiversity is crucial for management and conservation. This particularly critical widely distributed highly mobile deep‐water teleosts, such as hoki ( Macruronus novaezelandiae ). species significant to Māori people supports largest commercial fishery in New Zealand, but uncertainty about its stock structure presents a challenge management. Here, we apply comprehensive genomic analysis shed light on demographic this by (1) assembling...
Angiosperm sex chromosomes, where present, are generally recently evolved. The key step in initiating the development of chromosomes from autosomes is establishment a sex-determining locus within region non-recombination. To better understand early chromosome evolution, it important to determine process by which recombination suppressed around determining genes. We have used dioecious angiosperm kiwifruit Actinidia chinensis var. chinensis, has an active-Y system, study rates locus, events...
Abstract Background The genetic control of sex determination in teleost species is poorly understood. This partly because the diversity mechanisms that determine this large group vertebrates, including constitutive genes linked to chromosomes, polygenic mechanisms, environmental factors, hermaphroditism, and unisexuality. Here we use a de novo genome assembly New Zealand silver trevally ( Pseudocaranx georgianus ) together with sex-specific whole sequencing data detect sexually divergent...
Aquaculture is the fastest-growing food production sector worldwide, yet industry has been slow to implement genomic techniques as routine tools. Applying genomics new breeding programmes can provide important information about pedigree structure and genetic diversity; key parameters for a successful long-term programme. It also insights on potential gains commercially important, complex, quantitative traits such growth rate. Here we investigated population of 1100 captive-bred F
The skin (exocarp) of fleshy fruit is hugely diverse across species. Most types have a live epidermal covered by layer cuticle made up cutin while few create an outermost dead cells (peridermal layer).In this study we undertook crosses between and peridermal skinned kiwifruit, showed that semi-dominant trait. Furthermore, backcrossing these hybrids to created range phenotypes ranging from fruit, through with varying degrees patches periderm (russeting), complete periderm. Quantitative trait...
Genotyping by sequencing (GBS) is a restriction enzyme based targeted approach developed to reduce the genome complexity and discover genetic markers when priori sequence information unavailable. Sufficient coverage at each locus essential distinguish heterozygous from homozygous sites accurately. The number of GBS samples able be pooled in one lane limited present read depth required site per sample for accurate calling single-nucleotide polymorphisms. Loci bias was observed using slight...
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 fruit AsA concentration suggesting major gene segregation. To test this hypothesis, performed whole-genome sequencing on pools hybrid genotypes with either or low fruit. Pool-GWAS (genome-wide association study) revealed a single Quantitative Trait Locus (QTL) spanning more than 5 Mbp chromosome 26, which denote as...